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= 008352
(569 letters)
Database: nr
23,463,169 sequences; 8,064,228,071 total letters
Searching..................................................done
>gi|297741628|emb|CBI32760.3| unnamed protein product [Vitis vinifera]
Length = 561
Score = 718 bits (1853), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 363/575 (63%), Positives = 440/575 (76%), Gaps = 20/575 (3%)
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 LHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLL 414
L DLLQEGSMGLM SVEKFKP AGCRFASYAYWW+RQ +RKAIFQHSRTIRLPEN+Y+LL
Sbjct: 347 LQDLLQEGSMGLMNSVEKFKPNAGCRFASYAYWWIRQAVRKAIFQHSRTIRLPENMYSLL 406
Query: 415 SKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQ 474
KV EAKRL+IQEG+H P KE++A RVGIT+EKL+RL+ TRMPLSMQQPVWADQDTTFQ
Sbjct: 407 GKVKEAKRLFIQEGHHDPTKEEIAERVGITIEKLQRLLLHTRMPLSMQQPVWADQDTTFQ 466
Query: 475 EITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIF 534
E+TADTG+EIPD+SV KQLMRQHVRNLL +L PKER I+RLRFGI DG P++LSE+G +F
Sbjct: 467 EVTADTGIEIPDVSVAKQLMRQHVRNLLHVLTPKERRIIRLRFGIGDGIPRTLSEIGLVF 526
Query: 535 GLSKERVRQLESRALYRLKQSLGGKASYGYADLLI 569
G SKERVRQLE RAL++LKQ L Y DLL+
Sbjct: 527 GFSKERVRQLEQRALHKLKQCLSSHGLESYTDLLV 561
>gi|224068757|ref|XP_002326192.1| predicted protein [Populus trichocarpa]
gi|222833385|gb|EEE71862.1| predicted protein [Populus trichocarpa]
Length = 535
Score = 714 bits (1844), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 356/568 (62%), Positives = 437/568 (76%), Gaps = 34/568 (5%)
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 EGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEA 420
EG++GLMKS+EKFKPQAGCRFA+YAYWW+RQTI KAIFQHSRTIRLPEN+Y LL KV+EA
Sbjct: 327 EGTVGLMKSIEKFKPQAGCRFATYAYWWIRQTITKAIFQHSRTIRLPENVYGLLGKVMEA 386
Query: 421 KRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADT 480
KR YIQEGNH P E++ARRVGI ++KLE+L+ TR PLSMQQ VW+DQ+TTFQEITADT
Sbjct: 387 KRSYIQEGNHQPTAEEIARRVGIAIDKLEKLLCFTRTPLSMQQTVWSDQNTTFQEITADT 446
Query: 481 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 540
+EIPD+SV KQLMR+H+R LL +L+ KER I+RLRFGIEDGK KSLSE+GN+FGLSKER
Sbjct: 447 EIEIPDMSVAKQLMRKHIRGLLNILSLKERRIIRLRFGIEDGKQKSLSEIGNVFGLSKER 506
Query: 541 VRQLESRALYRLKQSLGGKASYGYADLL 568
VRQLESRALY+LKQ +G YADLL
Sbjct: 507 VRQLESRALYKLKQCVGSHGLDAYADLL 534
>gi|359481391|ref|XP_002276710.2| PREDICTED: RNA polymerase sigma factor rpoD [Vitis vinifera]
Length = 572
Score = 712 bits (1839), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 362/577 (62%), Positives = 440/577 (76%), Gaps = 13/577 (2%)
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 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYT 412
++L DLLQEGSMGLM SVEKFKP AGCRFASYAYWW+RQ +RKAIFQHSRTIRLPEN+Y+
Sbjct: 356 LNLQDLLQEGSMGLMNSVEKFKPNAGCRFASYAYWWIRQAVRKAIFQHSRTIRLPENMYS 415
Query: 413 LLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTT 472
LL KV EAKRL+IQEG+H P KE++A RVGIT+EKL+RL+ TRMPLSMQQPVWADQDTT
Sbjct: 416 LLGKVKEAKRLFIQEGHHDPTKEEIAERVGITIEKLQRLLLHTRMPLSMQQPVWADQDTT 475
Query: 473 FQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGN 532
FQE+TADTG+EIPD+SV KQLMRQHVRNLL +L PKER I+RLRFGI DG P++LSE+G
Sbjct: 476 FQEVTADTGIEIPDVSVAKQLMRQHVRNLLHVLTPKERRIIRLRFGIGDGIPRTLSEIGL 535
Query: 533 IFGLSKERVRQLESRALYRLKQSLGGKASYGYADLLI 569
+FG SKERVRQLE RAL++LKQ L Y DLL+
Sbjct: 536 VFGFSKERVRQLEQRALHKLKQCLSSHGLESYTDLLV 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 = 702 bits (1811), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 353/570 (61%), Positives = 431/570 (75%), Gaps = 23/570 (4%)
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 QEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLE 419
QEGSMGLMKS+EKFKPQ GCRFA+YAYWW+RQT+RKAIFQHSRTIRLPEN+Y L KV E
Sbjct: 339 QEGSMGLMKSIEKFKPQVGCRFATYAYWWIRQTVRKAIFQHSRTIRLPENVYHTLGKVSE 398
Query: 420 AKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITAD 479
AKR YI EGNH+P KE+LA+R+GIT +LERL+++ RMPLSMQQ VWADQ+TTFQEITAD
Sbjct: 399 AKRSYIMEGNHNPTKEELAKRIGITTVRLERLLYMARMPLSMQQTVWADQETTFQEITAD 458
Query: 480 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 539
VEIP++ V KQLMR+HV +LL +LNP+ER I+RLR+GIEDGK KSLSE+G++FGLSKE
Sbjct: 459 IEVEIPELCVAKQLMRKHVLSLLNILNPRERKIIRLRYGIEDGKKKSLSEIGSVFGLSKE 518
Query: 540 RVRQLESRALYRLKQSLGGKASYGYADLLI 569
RVRQLESRALY+LKQ L YADLL+
Sbjct: 519 RVRQLESRALYKLKQCLASHGLEAYADLLV 548
>gi|356536959|ref|XP_003536999.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Glycine max]
Length = 571
Score = 632 bits (1631), Expect = e-178, Method: Compositional matrix adjust.
Identities = 337/577 (58%), Positives = 429/577 (74%), Gaps = 14/577 (2%)
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 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYT 412
+SL DLLQEGSMGLMKSVEKF P AG RF +YA+WW+RQ IRKA+F+HSRTIRLPE ++
Sbjct: 355 LSLQDLLQEGSMGLMKSVEKFNPLAGSRFGNYAFWWIRQAIRKAVFRHSRTIRLPEKVFI 414
Query: 413 LLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTT 472
LL KV+EAK+LYIQEGN P KE+LARRVG+TVEK+++L+F R+P+SMQQ VWADQ+TT
Sbjct: 415 LLGKVMEAKKLYIQEGNLHPTKEELARRVGVTVEKIDKLLFSARIPISMQQTVWADQNTT 474
Query: 473 FQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGN 532
FQEITAD VE D++V+KQLMR+HV N+L++L+PKER I+RLR+G EDG+ KSLSE+G+
Sbjct: 475 FQEITADPTVEATDVTVEKQLMRRHVLNVLSVLHPKERRIIRLRYGFEDGEQKSLSEIGD 534
Query: 533 IFGLSKERVRQLESRALYRLKQSLGGKASYGYADLLI 569
IFGLSKERVRQLE RALY+LK+ L + Y DLL+
Sbjct: 535 IFGLSKERVRQLEIRALYKLKKCLVKQGLDAYVDLLL 571
>gi|356548319|ref|XP_003542550.1| PREDICTED: RNA polymerase sigma factor rpoD [Glycine max]
Length = 574
Score = 630 bits (1626), Expect = e-178, Method: Compositional matrix adjust.
Identities = 330/579 (56%), Positives = 422/579 (72%), Gaps = 15/579 (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 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 RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENI 410
RG+SL DLLQEGSMGLMKSVEKF P G RF +YA+WW+RQ IRKA+F+HSRTIRLPE +
Sbjct: 356 RGLSLQDLLQEGSMGLMKSVEKFNPLVGSRFGNYAFWWIRQAIRKAVFRHSRTIRLPEKV 415
Query: 411 YTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQD 470
+ LL KV+EAK+LYIQEGN P KE+LARRVG+TVEK+++L+F R+P+SMQQ VWADQ+
Sbjct: 416 FILLGKVMEAKKLYIQEGNLHPTKEELARRVGVTVEKIDKLLFSARIPISMQQTVWADQN 475
Query: 471 TTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEV 530
TTFQEITAD VE D+SV+KQLMRQHV N+L++L+PKER I+RLR+G EDG+ KSLSE+
Sbjct: 476 TTFQEITADPTVEATDVSVEKQLMRQHVLNVLSILHPKERRIIRLRYGFEDGEQKSLSEI 535
Query: 531 GNIFGLSKERVRQLESRALYRLKQSLGGKASYGYADLLI 569
G+IFGLSKERVRQLE RALY+LK+ L + Y DLL+
Sbjct: 536 GDIFGLSKERVRQLEIRALYKLKKCLVKQGLDAYVDLLL 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 = 610 bits (1572), Expect = e-172, Method: Compositional matrix adjust.
Identities = 322/575 (56%), Positives = 414/575 (72%), Gaps = 21/575 (3%)
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 SLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTL 413
SLHDLLQ GS+GLMKSVEKFKPQAGCRF SYAYWW+R +I KAIFQHSRTIRLPEN+Y L
Sbjct: 347 SLHDLLQVGSLGLMKSVEKFKPQAGCRFGSYAYWWIRHSITKAIFQHSRTIRLPENVYAL 406
Query: 414 LSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
L KV EAK +++ GN+ P KE+LA RVGITVE+ ++L+F++R+P S+QQPVWADQ+TTF
Sbjct: 407 LGKVTEAKNYFVRAGNYKPSKEELAARVGITVERFDKLMFMSRIPRSLQQPVWADQETTF 466
Query: 474 QEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 533
QEITAD+ V+ PD+SV+++LMR+H+RNLL++L+PKER I+RLRFGIEDG+ K+L E+GN+
Sbjct: 467 QEITADSEVDTPDVSVERELMRRHIRNLLSILSPKERRIIRLRFGIEDGREKTLLEIGNM 526
Query: 534 FGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 568
FGLSKERVRQLE+RALY+LK+ + YADLL
Sbjct: 527 FGLSKERVRQLENRALYKLKRCCNSQGLGAYADLL 561
>gi|312282671|dbj|BAJ34201.1| unnamed protein product [Thellungiella halophila]
Length = 547
Score = 600 bits (1548), Expect = e-169, Method: Compositional matrix adjust.
Identities = 321/577 (55%), Positives = 404/577 (70%), Gaps = 38/577 (6%)
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 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYT 412
++ DLLQEGSMGLMKSVEKFKPQ+GCRFA+YAYWW+RQ+IRK+IFQ+SRTIRLPEN+Y
Sbjct: 331 LNFQDLLQEGSMGLMKSVEKFKPQSGCRFATYAYWWIRQSIRKSIFQNSRTIRLPENVYM 390
Query: 413 LLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTT 472
LL KV EA++ IQ+GN+ P KE LA VG++ EKL++L++ TR PLSMQQP+W+DQDTT
Sbjct: 391 LLGKVSEARKTCIQDGNYRPSKEQLASHVGVSTEKLDKLLYNTRTPLSMQQPIWSDQDTT 450
Query: 473 FQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGN 532
FQE+T D+G+E P +SV KQLMR HVRNLL +L+PKE+ I++LRFGI+ GK +SLSE+G
Sbjct: 451 FQEVTPDSGIETPSMSVGKQLMRNHVRNLLNVLSPKEKRIIKLRFGIDGGKQRSLSEIGE 510
Query: 533 IFGLSKERVRQLESRALYRLKQSLGGKASYGYADLLI 569
I+GLSKERVRQLESRALYRLKQ++ YADLL+
Sbjct: 511 IYGLSKERVRQLESRALYRLKQNMSSHGLNAYADLLV 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 = 598 bits (1543), Expect = e-168, Method: Compositional matrix adjust.
Identities = 320/577 (55%), Positives = 408/577 (70%), Gaps = 39/577 (6%)
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 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYT 412
++ DLLQEGSMGLMKSVEKFKPQ+GCRFA+YAYWW+RQ+IRK+IFQ+SRTIRLPEN+Y
Sbjct: 330 LNFQDLLQEGSMGLMKSVEKFKPQSGCRFATYAYWWIRQSIRKSIFQNSRTIRLPENVYM 389
Query: 413 LLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTT 472
LL KV EA++ +QEGN+ P KE LA VG++ EKL++L++ TR PLSMQQP+W+DQDTT
Sbjct: 390 LLGKVSEARKTCVQEGNYRPSKEQLAGHVGVSTEKLDKLLYNTRTPLSMQQPIWSDQDTT 449
Query: 473 FQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGN 532
FQEIT D+G+E P +SV KQ+MR HVRNLL +L+PKER I++LRFGI+ GK +SLSE+G
Sbjct: 450 FQEITPDSGIETPTMSVGKQMMRNHVRNLLNVLSPKERRIIKLRFGIDGGKQRSLSEIGE 509
Query: 533 IFGLSKERVRQLESRALYRLKQSLGGKASYGYADLLI 569
I+GLSKERVRQLESRALYRLKQ + + YADLL+
Sbjct: 510 IYGLSKERVRQLESRALYRLKQHMNSHGLHAYADLLV 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 = 591 bits (1524), Expect = e-166, Method: Compositional matrix adjust.
Identities = 318/577 (55%), Positives = 407/577 (70%), Gaps = 38/577 (6%)
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 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYT 412
++ DLLQEGSMGLMKSVEKFKPQ+GCRFA+YAYWW+RQ+IRK+IFQ+SRTIRLPEN+Y
Sbjct: 331 LNFQDLLQEGSMGLMKSVEKFKPQSGCRFATYAYWWIRQSIRKSIFQNSRTIRLPENVYM 390
Query: 413 LLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTT 472
LL KV EA++ +QEGN+ P KE+LA VG++ EKL++L++ TR PLSMQQP+W+DQDTT
Sbjct: 391 LLGKVSEARKTCVQEGNYRPSKEELAGHVGVSTEKLDKLLYNTRTPLSMQQPIWSDQDTT 450
Query: 473 FQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGN 532
FQEIT D+G+E P +SV KQLMR HVRNLL +L+PKER I++LRFGI+ GK +SLSE+G
Sbjct: 451 FQEITPDSGIETPTMSVGKQLMRNHVRNLLNVLSPKERRIIKLRFGIDGGKQRSLSEIGE 510
Query: 533 IFGLSKERVRQLESRALYRLKQSLGGKASYGYADLLI 569
I+GLSKERVRQLESRALYRLKQ++ + YADLL+
Sbjct: 511 IYGLSKERVRQLESRALYRLKQNMNSHGLHAYADLLV 547
>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 = 565 bits (1456), Expect = e-158, Method: Compositional matrix adjust.
Identities = 305/583 (52%), Positives = 409/583 (70%), Gaps = 30/583 (5%)
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 QYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRL 406
YQGRG+S+ DLLQEGS GL+KS++KFK QAGCRFASYAYWW++Q IRKAI+ HSRTIRL
Sbjct: 345 SYQGRGLSIEDLLQEGSTGLIKSIKKFKTQAGCRFASYAYWWIKQAIRKAIYNHSRTIRL 404
Query: 407 PENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVW 466
PE +Y LSKVLEAK+LY +EGN +P KE+LARRVGI+ +K++RL+F+ R+P+SMQ V
Sbjct: 405 PEKVYNKLSKVLEAKKLYKEEGNLNPTKEELARRVGISPDKVDRLLFVARIPISMQNTVG 464
Query: 467 ADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKS 526
++ DTTFQEITAD +E P++SV KQLMR+HV N+L +L PKER I+RLRFG EDG+ KS
Sbjct: 465 SETDTTFQEITADCAIESPNMSVAKQLMRRHVLNVLNILRPKERRIIRLRFGFEDGEEKS 524
Query: 527 LSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYADLLI 569
LSE+G IFGLS+ERVRQLESRALY+LK+ L G+ YADLLI
Sbjct: 525 LSEIGEIFGLSRERVRQLESRALYKLKKYLVGQGLDAYADLLI 567
>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 = 560 bits (1442), Expect = e-156, Method: Compositional matrix adjust.
Identities = 309/557 (55%), Positives = 396/557 (71%), Gaps = 34/557 (6%)
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 FKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSP 432
FKPQAGCRF++YAYWW+RQTIR+A+F HS+TIRLPEN Y LL K+ EAK+ YI+EGN P
Sbjct: 361 FKPQAGCRFSTYAYWWIRQTIRRALFLHSKTIRLPENFYALLGKIAEAKKSYIKEGNLHP 420
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
KE++A+RVGITV++LE L+F TR PLSM++ VWAD DTTFQEITAD+ +EIP++ V KQ
Sbjct: 421 TKEEIAKRVGITVDRLEMLLFSTRTPLSMERAVWADSDTTFQEITADSSIEIPNVCVAKQ 480
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
LMR HVRNLL +L PKER ++RLRFGIEDG KSL+E+G + G+ KERVRQLES+AL +L
Sbjct: 481 LMRSHVRNLLGILPPKERKVLRLRFGIEDGYEKSLTEIGKVLGVCKERVRQLESQALNKL 540
Query: 553 KQSLGGKASYGYADLLI 569
KQ L + Y DL++
Sbjct: 541 KQCLVSQQLDAYVDLIV 557
>gi|6273430|emb|CAB60192.1| putative sigma-like transcription factor [Arabidopsis thaliana]
Length = 487
Score = 545 bits (1403), Expect = e-152, Method: Compositional matrix adjust.
Identities = 287/512 (56%), Positives = 363/512 (70%), Gaps = 33/512 (6%)
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 LLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKV 417
LLQEGSMGLMKSVEKFKPQ+GCRFA+YAYWW+RQ+IRK+IFQ+SRTIRLPEN+Y LL KV
Sbjct: 276 LLQEGSMGLMKSVEKFKPQSGCRFATYAYWWIRQSIRKSIFQNSRTIRLPENVYMLLGKV 335
Query: 418 LEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEIT 477
EA++ +QEGN+ P KE+LA VG++ EKL++L++ TR PLSMQQP+W+DQDTTFQEIT
Sbjct: 336 SEARKTCVQEGNYRPSKEELAGHVGVSTEKLDKLLYNTRTPLSMQQPIWSDQDTTFQEIT 395
Query: 478 ADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 537
D+G+E P +SV KQLMR HVRNLL +L+PKER I++LRFGI+ GK +SLSE+G I+GLS
Sbjct: 396 PDSGIETPTMSVGKQLMRNHVRNLLNVLSPKERRIIKLRFGIDGGKQRSLSEIGEIYGLS 455
Query: 538 KERVRQLESRALYRLKQSLGGKASYGYADLLI 569
KERVRQLESRALYRLKQ++ + YADLL+
Sbjct: 456 KERVRQLESRALYRLKQNMNSHGLHAYADLLV 487
>gi|388501386|gb|AFK38759.1| unknown [Lotus japonicus]
Length = 311
Score = 466 bits (1200), Expect = e-128, Method: Compositional matrix adjust.
Identities = 218/311 (70%), Positives = 261/311 (83%)
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 CRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLA 438
CRFASYAYWW+RQTIR+A+F HSRTIRLPEN+YTLL K++EAK+ Y +EGN P KE+LA
Sbjct: 121 CRFASYAYWWIRQTIRRALFLHSRTIRLPENVYTLLGKLIEAKKFYNREGNVHPTKEELA 180
Query: 439 RRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHV 498
R++G+TV+KLE L+ R+PLSMQQ VW DQDTT+QEITADT +E PD+ V KQLMR+H
Sbjct: 181 RKIGVTVDKLEILLSAARIPLSMQQTVWTDQDTTYQEITADTAIETPDVYVAKQLMRRHA 240
Query: 499 RNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGG 558
RNLL LNP+ER I+RLRFGIEDG KSLSE+G +FGLSKERVRQLESRAL +LKQ L
Sbjct: 241 RNLLHTLNPRERRIIRLRFGIEDGYEKSLSEIGTVFGLSKERVRQLESRALDKLKQCLAS 300
Query: 559 KASYGYADLLI 569
YA+LL+
Sbjct: 301 HGLDAYANLLV 311
>gi|356514352|ref|XP_003525870.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Glycine max]
Length = 360
Score = 376 bits (965), Expect = e-101, Method: Compositional matrix adjust.
Identities = 184/291 (63%), Positives = 230/291 (79%), Gaps = 9/291 (3%)
Query: 193 DISLTSSLGYPLEEVKQFSQPRFLERRSKKRKVSKPQVTNHETYNSRKASVKKKL----- 247
D++ TS + K R LERRSK+RKV K +V + ETY +RK ++KL
Sbjct: 58 DLASTSLADPSIGRNKTVRSTRLLERRSKQRKVPKSKVIDDETYLARKDDAQEKLRAEKK 117
Query: 248 -SEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
+E D++DPLRLFLWGPET++LLT ++E +LI+QIQDL+RLE+ K+ LQSQFGREPT+
Sbjct: 118 KNEEHDQDDPLRLFLWGPETKQLLTLEQESQLISQIQDLLRLEEVKTNLQSQFGREPTMA 177
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
EWA+ GL+CR L+S+LHSG SREKLI ANLR+VVHVAK YQGRG+SL DLLQEGSMGL
Sbjct: 178 EWAEGAGLNCRLLQSQLHSGIRSREKLIQANLRMVVHVAKSYQGRGLSLQDLLQEGSMGL 237
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLP---ENIYTLLSKVLEAKRL 423
MKSVEKF P AG RF +YA+WW+RQ IRKA+F+HSRTIRLP E ++ LL KV+EAK+L
Sbjct: 238 MKSVEKFNPLAGSRFGNYAFWWIRQAIRKAVFRHSRTIRLPINLEKVFILLGKVIEAKKL 297
Query: 424 YIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQ 474
YIQEGN P KE+LARRVG+TVEK+++L+F R+P+SMQQ VWADQ+TTFQ
Sbjct: 298 YIQEGNLHPTKEELARRVGVTVEKIDKLLFSARIPISMQQTVWADQNTTFQ 348
>gi|357113236|ref|XP_003558410.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Brachypodium
distachyon]
Length = 564
Score = 360 bits (925), Expect = 9e-97, Method: Compositional matrix adjust.
Identities = 217/575 (37%), Positives = 329/575 (57%), Gaps = 47/575 (8%)
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 DISLTS--SLGYPLEEVKQFSQ-----PRFLERRSKKRKVSKPQVTNH------------ 233
D++L L + E++ Q 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 SLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTL 413
+ DL+Q+G GLMK+ EKF P GCRF +YAYWW+RQ I+K+IF+HSR IRLPE++Y L
Sbjct: 347 DIEDLVQDGCCGLMKTFEKFNPSKGCRFPTYAYWWIRQAIKKSIFKHSRLIRLPESVYAL 406
Query: 414 LSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
L KV +A+ I EG P E++ARR GIT+EKL +L TR S+Q VW D TF
Sbjct: 407 LKKVGKARLECILEGEQ-PTNENVARRAGITIEKLAKLKAKTRKSRSLQDRVWPDDGVTF 465
Query: 474 QEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 533
QEIT D +E PD+ V + +MRQ VR+ L +L+ +E+ I+ RFGI DG+PK+L +G++
Sbjct: 466 QEITEDPNIEPPDLVVDRMMMRQQVRDFLGILSTREKEIIEHRFGIYDGEPKTLHVIGDM 525
Query: 534 FGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 568
+GLSKER+RQL++RAL +LK+S+ + Y DLL
Sbjct: 526 YGLSKERIRQLQNRALDKLKRSVSNQGFDVYLDLL 560
>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 = 357 bits (916), Expect = 1e-95, Method: Compositional matrix adjust.
Identities = 172/356 (48%), Positives = 249/356 (69%), Gaps = 2/356 (0%)
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 INANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 393
+N RLV+HVA++Y+G G+ + DL+Q+G GLMK+ EKF P GCRF +YAYWW+RQ+I
Sbjct: 306 ARSNFRLVIHVARKYEGCGLDIQDLVQDGCCGLMKTFEKFNPSKGCRFPTYAYWWIRQSI 365
Query: 394 RKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIF 453
+K+IF++SR IRLPE++Y LL KV +A+ I +G P E +ARR GIT+EKL +L
Sbjct: 366 KKSIFKNSRLIRLPESVYALLRKVGKARMECIMDGEQ-PTNEVVARRAGITIEKLAKLRA 424
Query: 454 ITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLNPKERCI 512
TR SMQ VW+D T+QEIT D +E P++SV + +MRQ VR+ LT +L+P+E+ I
Sbjct: 425 KTRKVRSMQDRVWSDDGVTYQEITEDPNIEGPEVSVDRLMMRQQVRSFLTGILSPREKEI 484
Query: 513 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 568
+ RFGI DG+PK+L +G+++GLSKER+RQ++++AL +L+ S+ + + Y DLL
Sbjct: 485 IEHRFGIHDGQPKTLHVIGDMYGLSKERIRQVQNKALDKLRNSISAQGFHVYFDLL 540
>gi|413932354|gb|AFW66905.1| hypothetical protein ZEAMMB73_346249 [Zea mays]
Length = 542
Score = 357 bits (916), Expect = 1e-95, Method: Compositional matrix adjust.
Identities = 172/356 (48%), Positives = 249/356 (69%), Gaps = 2/356 (0%)
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 INANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 393
+N RLV+HVA++Y+G G+ + DL+Q+G GLMK+ EKF P GCRF +YAYWW+RQ+I
Sbjct: 307 ARSNFRLVIHVARKYEGCGLDIQDLVQDGCCGLMKTFEKFNPSKGCRFPTYAYWWIRQSI 366
Query: 394 RKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIF 453
+K+IF++SR IRLPE++Y LL KV +A+ I +G P E +ARR GIT+EKL +L
Sbjct: 367 KKSIFKNSRLIRLPESVYALLRKVGKARMECIMDGEQ-PTNEVVARRAGITIEKLAKLRA 425
Query: 454 ITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLNPKERCI 512
TR SMQ VW+D T+QEIT D +E P++SV + +MRQ VR+ LT +L+P+E+ I
Sbjct: 426 KTRKVRSMQDRVWSDDGVTYQEITEDPNIEGPEVSVDRLMMRQQVRSFLTGILSPREKEI 485
Query: 513 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 568
+ RFGI DG+PK+L +G+++GLSKER+RQ++++AL +L+ S+ + + Y DLL
Sbjct: 486 IEHRFGIHDGQPKTLHVIGDMYGLSKERIRQVQNKALDKLRNSISAQGFHVYFDLL 541
>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 = 352 bits (903), Expect = 3e-94, Method: Compositional matrix adjust.
Identities = 176/357 (49%), Positives = 249/357 (69%), Gaps = 3/357 (0%)
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 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQ 391
K+ +N RLV+HVA++Y+G G+ + DL+Q+G GLMK+ EKF P GCRF +YAYWW+RQ
Sbjct: 336 KMARSNFRLVIHVARKYEGYGLDIQDLVQDGCSGLMKTFEKFNPSKGCRFPTYAYWWIRQ 395
Query: 392 TIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERL 451
+I+K+IF++SR IRLPE++Y LL KV +A+ I EG P ++ARR GIT+EKL +L
Sbjct: 396 SIKKSIFKNSRLIRLPESVYALLRKVGKARMECIMEGEQ-PTNANVARRAGITIEKLAKL 454
Query: 452 IFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERC 511
TR P SMQ VW+D+ TFQEIT D VE PD+SV + +MRQ VR+ L +L+P+E+
Sbjct: 455 RAKTRKPRSMQDHVWSDEGVTFQEITEDPNVEPPDLSVDRMMMRQQVRDFLGILSPREKE 514
Query: 512 IVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 568
I+ RFGI DG+PK+L +G++FGLSKER+RQL++RAL +LK+S + Y DLL
Sbjct: 515 IIEHRFGIHDGEPKTLHVIGDMFGLSKERIRQLQNRALEKLKRSASLQGFDVYFDLL 571
>gi|162458769|ref|NP_001105507.1| sigma-like factor6 [Zea mays]
gi|4336610|gb|AAD17856.1| sigma factor SIG6 [Zea mays]
Length = 541
Score = 349 bits (896), Expect = 2e-93, Method: Compositional matrix adjust.
Identities = 170/356 (47%), Positives = 246/356 (69%), Gaps = 2/356 (0%)
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 INANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 393
+N RLV+HVA++Y+G G+ + DL+Q+G GLMK+ EKF P GCRF +YAYWW+RQ+I
Sbjct: 306 ARSNFRLVIHVARKYEGCGLDIQDLVQDGCCGLMKTFEKFNPSKGCRFPTYAYWWIRQSI 365
Query: 394 RKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIF 453
+K+IF++SR IRLPE++Y LL KV +A+ I +G P E +ARR GIT+EKL +L
Sbjct: 366 KKSIFKNSRLIRLPESVYALLRKVGKARMECIMDGEQ-PTNEVVARRAGITIEKLAKLRA 424
Query: 454 ITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLNPKERCI 512
TR SMQ VW+D T+QEIT D +E P++SV + +MRQ VR+ LT +L+P+E+ I
Sbjct: 425 KTRKVRSMQDRVWSDDGVTYQEITEDPNIEGPEVSVDRLMMRQQVRSFLTGILSPREKEI 484
Query: 513 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 568
+ RFGI DG+PK+L +G+++GLSKER+RQ++++AL +L+ S+ + + Y DLL
Sbjct: 485 IEHRFGIHDGQPKTLHVIGDMYGLSKERIRQVQNKALDKLRNSISAQGFHVYFDLL 540
>gi|218200736|gb|EEC83163.1| hypothetical protein OsI_28384 [Oryza sativa Indica Group]
Length = 537
Score = 341 bits (875), Expect = 6e-91, Method: Compositional matrix adjust.
Identities = 176/373 (47%), Positives = 249/373 (66%), Gaps = 19/373 (5%)
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 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
GCRF +YAYWW+RQ+I+K+IF++SR IRLPE++Y LL KV +A+ I EG P
Sbjct: 345 SKGCRFPTYAYWWIRQSIKKSIFKNSRLIRLPESVYALLRKVGKARMECIMEGEQ-PTNA 403
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMR 495
++ARR GIT+EKL +L TR P SMQ VW+D+ TFQEIT D VE PD+SV + +MR
Sbjct: 404 NVARRAGITIEKLAKLRAKTRKPRSMQDHVWSDEGVTFQEITEDPNVEPPDLSVDRMMMR 463
Query: 496 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
Q VR+ L +L+P+E+ I+ RFGI DG+PK+L +G++FGLSKER+RQL++RAL +LK+S
Sbjct: 464 QQVRDFLGILSPREKEIIEHRFGIHDGEPKTLHVIGDMFGLSKERIRQLQNRALEKLKRS 523
Query: 556 LGGKASYGYADLL 568
+ Y DLL
Sbjct: 524 ASLQGFDVYFDLL 536
>gi|125602683|gb|EAZ42008.1| hypothetical protein OsJ_26557 [Oryza sativa Japonica Group]
Length = 497
Score = 340 bits (873), Expect = 1e-90, Method: Compositional matrix adjust.
Identities = 176/373 (47%), Positives = 249/373 (66%), Gaps = 19/373 (5%)
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 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
GCRF +YAYWW+RQ+I+K+IF++SR IRLPE++Y LL KV +A+ I EG P
Sbjct: 305 SKGCRFPTYAYWWIRQSIKKSIFKNSRLIRLPESVYALLRKVGKARMECIMEGEQ-PTNA 363
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMR 495
++ARR GIT+EKL +L TR P SMQ VW+D+ TFQEIT D VE PD+SV + +MR
Sbjct: 364 NVARRAGITIEKLAKLRAKTRKPRSMQDHVWSDEGVTFQEITEDPNVEPPDLSVDRMMMR 423
Query: 496 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
Q VR+ L +L+P+E+ I+ RFGI DG+PK+L +G++FGLSKER+RQL++RAL +LK+S
Sbjct: 424 QQVRDFLGILSPREKEIIEHRFGIHDGEPKTLHVIGDMFGLSKERIRQLQNRALEKLKRS 483
Query: 556 LGGKASYGYADLL 568
+ Y DLL
Sbjct: 484 ASLQGFDVYFDLL 496
>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 = 340 bits (871), Expect = 1e-90, Method: Compositional matrix adjust.
Identities = 160/250 (64%), Positives = 202/250 (80%), Gaps = 1/250 (0%)
Query: 320 KSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGC 379
+++ GN S++KLI+ANLRLVVH+AK YQG L+ EGSMGLM+SVEKFKPQAGC
Sbjct: 117 QNDFIGGNRSKDKLIHANLRLVVHIAKYYQGAWSQPXGLI-EGSMGLMRSVEKFKPQAGC 175
Query: 380 RFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLAR 439
RF++YAYWW+RQTIR+A+F HS+TIRLPEN Y LL K+ EAK+ YI+EGN P KE++A+
Sbjct: 176 RFSTYAYWWIRQTIRRALFLHSKTIRLPENFYALLGKIAEAKKSYIKEGNLHPTKEEIAK 235
Query: 440 RVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVR 499
RVGITV++LE L+F TR PLSM++ VWAD DTTFQEITAD+ +EIP++ V KQLMR HVR
Sbjct: 236 RVGITVDRLEMLLFSTRTPLSMERAVWADSDTTFQEITADSSIEIPNVCVAKQLMRSHVR 295
Query: 500 NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGK 559
NLL +L PKER ++RLRFGIEDG KSL+E+G + G+ KERVRQLES+AL +LKQ L +
Sbjct: 296 NLLGILPPKERKVLRLRFGIEDGYEKSLTEIGKVLGVCKERVRQLESQALNKLKQCLVSQ 355
Query: 560 ASYGYADLLI 569
Y DL++
Sbjct: 356 QLDAYVDLIV 365
>gi|413932356|gb|AFW66907.1| hypothetical protein ZEAMMB73_346249 [Zea mays]
Length = 292
Score = 318 bits (814), Expect = 7e-84, Method: Compositional matrix adjust.
Identities = 147/292 (50%), Positives = 217/292 (74%), Gaps = 2/292 (0%)
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 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAI 397
RLV+HVA++Y+G G+ + DL+Q+G GLMK+ EKF P GCRF +YAYWW+RQ+I+K+I
Sbjct: 61 FRLVIHVARKYEGCGLDIQDLVQDGCCGLMKTFEKFNPSKGCRFPTYAYWWIRQSIKKSI 120
Query: 398 FQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRM 457
F++SR IRLPE++Y LL KV +A+ I +G P E +ARR GIT+EKL +L TR
Sbjct: 121 FKNSRLIRLPESVYALLRKVGKARMECIMDGEQ-PTNEVVARRAGITIEKLAKLRAKTRK 179
Query: 458 PLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLNPKERCIVRLR 516
SMQ VW+D T+QEIT D +E P++SV + +MRQ VR+ LT +L+P+E+ I+ R
Sbjct: 180 VRSMQDRVWSDDGVTYQEITEDPNIEGPEVSVDRLMMRQQVRSFLTGILSPREKEIIEHR 239
Query: 517 FGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 568
FGI DG+PK+L +G+++GLSKER+RQ++++AL +L+ S+ + + Y DLL
Sbjct: 240 FGIHDGQPKTLHVIGDMYGLSKERIRQVQNKALDKLRNSISAQGFHVYFDLL 291
>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 = 311 bits (797), Expect = 7e-82, Method: Compositional matrix adjust.
Identities = 140/303 (46%), Positives = 219/303 (72%)
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 KFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHS 431
KF P G +F++YA+WW+RQ + ++I SRTIRLP ++Y ++S++ +AKR+ +QE
Sbjct: 379 KFDPTKGFKFSTYAHWWIRQAVTRSIADQSRTIRLPIHLYEVISRINKAKRMLVQEHGRE 438
Query: 432 PDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQK 491
E++A VG+TVEKL+ ++ + P SM++P+ D DTT E+ ADT V+ P+ ++ K
Sbjct: 439 ARNEEVAELVGLTVEKLKSVVKSAKAPGSMERPIGKDGDTTLGELVADTDVDSPEDAIVK 498
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
QLMRQ + +L LNP+ER ++RLRFG++DG+ K+L E+G IF +++ER+RQ+E++A+ +
Sbjct: 499 QLMRQDIEGVLRTLNPREREVLRLRFGLDDGRSKTLEEIGQIFKVTRERIRQIEAKAMRK 558
Query: 552 LKQ 554
L+Q
Sbjct: 559 LRQ 561
>gi|407327703|dbj|BAM45409.1| sigma factor 2 [Marchantia polymorpha]
Length = 615
Score = 309 bits (791), Expect = 3e-81, Method: Compositional matrix adjust.
Identities = 145/326 (44%), Positives = 226/326 (69%)
Query: 242 SVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGR 301
S KK +D DP+R +L KLLT+ EE EL IQDL+R+E K+ L+ Q GR
Sbjct: 290 SKAKKSQPAYDPQDPVRAYLRDIGKTKLLTSSEEIELAEGIQDLLRVESVKNDLREQMGR 349
Query: 302 EPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQE 361
EPTL+EWAKA+G L+S + SG + +++++N+NLRLVV +AK+YQGRG+++ DL+QE
Sbjct: 350 EPTLMEWAKAVGTERHSLESRIKSGQACKDRMVNSNLRLVVSIAKRYQGRGMTIQDLIQE 409
Query: 362 GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAK 421
GSMGL++ EKF G +F++YA+WW+RQ I +AI SRTIRLP ++Y LLS++ +AK
Sbjct: 410 GSMGLIRGAEKFDHTRGFKFSTYAHWWIRQAITRAIADQSRTIRLPVHVYELLSRITKAK 469
Query: 422 RLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTG 481
+ E +P E++A VG+++EKL+ +I R P SM+ PV + DTT E+ D
Sbjct: 470 SMLAAEHGRAPRDEEVAELVGLSIEKLKMVIKSARSPKSMEFPVGKNNDTTLGEVIPDKD 529
Query: 482 VEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 541
++ P+ ++ K+L++Q + +L L+P+ER ++RLR+G++DG+ ++L E+GN+F +++ER+
Sbjct: 530 IDSPEEAISKRLLKQDLDVVLHTLSPRERDVLRLRYGLDDGRMRTLEEIGNVFKVTRERI 589
Query: 542 RQLESRALYRLKQSLGGKASYGYADL 567
RQ+E++AL +L+Q A Y DL
Sbjct: 590 RQIEAKALRKLRQPSRNTALREYLDL 615
>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 = 283 bits (725), Expect = 1e-73, Method: Compositional matrix adjust.
Identities = 131/303 (43%), Positives = 212/303 (69%), Gaps = 2/303 (0%)
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 KFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHS 431
KF P G +F++YA+WW+RQ + +AI SR IRLP ++Y ++S++ +AK++ IQE
Sbjct: 393 KFDPDKGFKFSTYAHWWIRQAVTRAIADQSRIIRLPIHLYEVISRINKAKKMLIQEHGRQ 452
Query: 432 PDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQK 491
P E++A VG++VEKL+ ++ + P SM + + ++D + E+ AD VE P+ + +
Sbjct: 453 PRDEEVAELVGMSVEKLKFIVKSAKTPSSMDRLIGKEKDQSIGEMIADKDVESPEDDLIR 512
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
Q+++Q V +L LNP+ER ++RLRFG++DG+ ++L E+G +F +++ER+RQ+E++A+ +
Sbjct: 513 QVLKQDVDGVLCTLNPREREVLRLRFGLDDGQSRTLEEIGTLFKVTRERIRQIEAKAMRK 572
Query: 552 LKQ 554
L+Q
Sbjct: 573 LRQ 575
>gi|148907004|gb|ABR16646.1| unknown [Picea sitchensis]
Length = 592
Score = 278 bits (712), Expect = 5e-72, Method: Compositional matrix adjust.
Identities = 148/334 (44%), Positives = 216/334 (64%), Gaps = 5/334 (1%)
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 SLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTL 413
SL DL+Q GSMGLM+S EKF G +F++YAYWW+RQ+I KA+ + SRTIRLP +I
Sbjct: 379 SLQDLIQAGSMGLMRSAEKFDYSRGFKFSTYAYWWIRQSITKALTEQSRTIRLPVHIVES 438
Query: 414 LSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
++++ A RL QE P KE++A GI++ +L + +R+P S+ + V D D F
Sbjct: 439 MTRIRTAWRLLYQEHKRDPTKEEVAEVAGISMTRLRHVTRCSRVPTSLDRCVGKDMDEKF 498
Query: 474 QEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 533
EI ADT E + V K+L ++ + +L L +E+ +VRLR+G++DG+ KSL EVG
Sbjct: 499 SEIVADTNSESTETIVSKELFKKDLDRVLDTLTAREKQVVRLRYGLDDGRMKSLHEVGEN 558
Query: 534 FGLSKERVRQLESRALYRLKQSLGGKASYGYADL 567
F LS+ERVRQ+E +A+ +L+Q+ + Y D+
Sbjct: 559 FSLSRERVRQIEMKAMRKLRQNHRTQHLKHYLDI 592
>gi|148909485|gb|ABR17840.1| unknown [Picea sitchensis]
Length = 495
Score = 278 bits (711), Expect = 6e-72, Method: Compositional matrix adjust.
Identities = 148/334 (44%), Positives = 216/334 (64%), Gaps = 5/334 (1%)
Query: 235 TYNSRKASVKKKLSEGFDRNDPLRLFL-WGPETRKLLTADEEFELIAQIQDLIRLEKEKS 293
T +SRK KK +S +D +RL W + +LLTA EE EL IQDLI+L++ ++
Sbjct: 166 TRSSRKG--KKAISSKGHISDSIRLLRDWS--SSRLLTASEEVELSRGIQDLIKLDRIRA 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 SLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTL 413
SL DL+Q GSMGLM+S EKF G +F++YAYWW+RQ+I KA+ + SRTIRLP +I
Sbjct: 282 SLQDLIQAGSMGLMRSAEKFDYSRGFKFSTYAYWWIRQSITKALTEQSRTIRLPVHIVES 341
Query: 414 LSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
++++ A RL QE P KE++A GI++ +L + +R+P S+ + V D D F
Sbjct: 342 MTRIRTAWRLLYQEHKRDPTKEEVAEVAGISMTRLRHVTRCSRVPTSLDRCVGKDMDEKF 401
Query: 474 QEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 533
EI ADT E + V K+L ++ + +L L +E+ +VRLR+G++DG+ KSL EVG
Sbjct: 402 SEIVADTNSESTETIVSKELFKKDLDRVLDTLTAREKQVVRLRYGLDDGRMKSLHEVGEN 461
Query: 534 FGLSKERVRQLESRALYRLKQSLGGKASYGYADL 567
F LS+ERVRQ+E +A+ +L+Q+ + Y D+
Sbjct: 462 FSLSRERVRQIEMKAMRKLRQNHRTQHLKHYLDI 495
>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 = 273 bits (697), Expect = 2e-70, Method: Compositional matrix adjust.
Identities = 129/301 (42%), Positives = 206/301 (68%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P+ G +F++YA WW+RQ + +AI SR IRLP +IY ++S++ +AK QE P
Sbjct: 388 DPEMGYKFSTYATWWIRQAVTRAIADQSRIIRLPVHIYEVISRINKAKMTISQELGRQPR 447
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++A VG++VEKL ++ R P SM +P+ D + + E+ AD GV P+ + Q+
Sbjct: 448 DEEVAAMVGMSVEKLLFIVKSARPPTSMDRPIGKDGEQSLGEMVADKGVGSPEDDIMTQV 507
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++Q + ++L LNP ER ++RLRFG+ + +L ++G IF +++ER+RQ+E++AL +L+
Sbjct: 508 LKQDIEDVLRSLNPMEREVLRLRFGLSGAQSMTLKDLGIIFKVTRERIRQIEAKALRKLR 567
Query: 554 Q 554
Sbjct: 568 H 568
>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 = 266 bits (681), Expect = 2e-68, Method: Compositional matrix adjust.
Identities = 130/341 (38%), Positives = 219/341 (64%), Gaps = 1/341 (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 LINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392
+I +N+RLV+ +AK YQG G++L DL+QEG GL++ EKF G +F++YA+WW++Q
Sbjct: 346 MIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQA 405
Query: 393 IRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLI 452
+RK + SRTIRLP ++ +V EA++ + E PD +++A G+++++L ++
Sbjct: 406 VRKFLSDQSRTIRLPFHMVEATYRVKEARKQLLHENGRHPDDKEIAEAAGLSMKRLAAVL 465
Query: 453 FITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCI 512
+ P S++Q + +Q+ E+ +D E + + KQ M+Q + +L LNP+E+ +
Sbjct: 466 MTPKAPRSLEQKIGINQNLKPSEVISDPEAETCEDMLIKQFMKQDLEKVLDSLNPREKQV 525
Query: 513 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+R RFG+EDG+ K+L E+G I G+S+ER+RQ+ES A +LK
Sbjct: 526 IRWRFGMEDGRMKTLQEIGEIMGVSRERIRQIESCAFRKLK 566
>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 = 263 bits (672), Expect = 2e-67, Method: Compositional matrix adjust.
Identities = 133/342 (38%), Positives = 215/342 (62%), Gaps = 3/342 (0%)
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 LINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392
+I +N+RLV+ +AK YQG G++L DL+QEG GL++ EKF G +F++YA+WW++Q
Sbjct: 335 MIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQA 394
Query: 393 IRKAIFQHSRTIRLPENIYTLLSKVLEA-KRLYIQEGNHSPDKEDLARRVGITVEKLERL 451
+RK++ SRTIRLP ++ +V EA K+LY + G H PD E++A G+++++L +
Sbjct: 395 VRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRH-PDDEEVAEAAGLSMKRLSAV 453
Query: 452 IFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERC 511
+ + P S+ Q + + D E+ AD E + + KQ M+Q + +L LNP+E
Sbjct: 454 LLTPKAPRSLDQKIGMNMDLKPSEVIADPEAETAEELLMKQFMKQDLEKVLNTLNPRETQ 513
Query: 512 IVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+VR RFG+EDG+ K+L E+G I G+S+ER+RQ+ES A +LK
Sbjct: 514 VVRWRFGLEDGRMKTLQEIGEIMGVSRERIRQIESSAFRKLK 555
>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 = 263 bits (671), Expect = 2e-67, Method: Compositional matrix adjust.
Identities = 129/330 (39%), Positives = 218/330 (66%), Gaps = 6/330 (1%)
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 VAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 403
+AK+Y RG+S DL+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRT
Sbjct: 172 IAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRT 231
Query: 404 IRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQ 463
IRLP ++Y +S++ + +L QE P +E++A R+ +T+EKL + ++P+S++
Sbjct: 232 IRLPVHLYETISRIKKTTKLLSQELGRKPTEEEIAERMEMTIEKLRFIAKSAQLPISLET 291
Query: 464 PVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGK 523
P+ ++D+ + G E P+ V K L+R+ + ++L L+P+ER ++RLR+G+EDG+
Sbjct: 292 PIGKEEDSRLGDFIEADG-ETPEDEVSKSLLREDLEDVLDTLSPRERDVLRLRYGLEDGR 350
Query: 524 PKSLSEVGNIFGLSKERVRQLESRALYRLK 553
K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 351 MKTLEEIGQIFNVTRERIRQIEAKALRKLR 380
>gi|356509511|ref|XP_003523491.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Glycine max]
Length = 558
Score = 261 bits (667), Expect = 7e-67, Method: Compositional matrix adjust.
Identities = 127/341 (37%), Positives = 213/341 (62%), Gaps = 1/341 (0%)
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 LINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392
+I +N+RLV+ +AK YQG G++L DL+QEG GL+K EKF G +F++YA+WW++Q
Sbjct: 324 MIKSNIRLVISIAKNYQGSGMNLQDLVQEGCRGLVKGAEKFDGTKGFKFSTYAHWWIKQA 383
Query: 393 IRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLI 452
+RK++ SRTIRLP ++ +V EA++ E PD E++A G+++++L ++
Sbjct: 384 VRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRQPDDEEVAEATGLSMKRLNAVL 443
Query: 453 FITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCI 512
+ P S++Q + +Q+ E+ +D E + + KQ M++ + L LNP+ER +
Sbjct: 444 MTPKAPRSLEQKIGINQNLKPSEVISDPDAETAEEQLLKQFMKKDLEEALDSLNPRERQV 503
Query: 513 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
VR RFG++DG+ K+L E+G + G+S+ER+RQ+ES A +LK
Sbjct: 504 VRWRFGMDDGRTKTLQEIGEMLGVSRERIRQIESSAFKKLK 544
>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 = 259 bits (663), Expect = 2e-66, Method: Compositional matrix adjust.
Identities = 122/300 (40%), Positives = 201/300 (67%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +
Sbjct: 202 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTE 261
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 262 EEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPEDQVSKNLL 320
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 321 REDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRH 380
>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 = 259 bits (662), Expect = 2e-66, Method: Compositional matrix adjust.
Identities = 122/299 (40%), Positives = 201/299 (67%), Gaps = 1/299 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +
Sbjct: 203 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTE 262
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 263 EEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPEDQVSKNLL 321
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 322 REDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 380
>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 = 259 bits (662), Expect = 3e-66, Method: Compositional matrix adjust.
Identities = 125/316 (39%), Positives = 208/316 (65%), Gaps = 5/316 (1%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 182 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 241
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ +L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 242 KTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 301
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
G E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +++
Sbjct: 302 SDG-ETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 360
Query: 539 ERVRQLESRALYRLKQ 554
ER+RQ+E++AL +L+
Sbjct: 361 ERIRQIEAKALRKLRH 376
>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 = 259 bits (661), Expect = 4e-66, Method: Compositional matrix adjust.
Identities = 133/348 (38%), Positives = 219/348 (62%), Gaps = 14/348 (4%)
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 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F++YA
Sbjct: 151 GRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYA 210
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +E++A R+ +T+
Sbjct: 211 TWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTI 270
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
EKL + ++P+S++ P+ ++D+ + G E P+ V K L+R+ + +L L
Sbjct: 271 EKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPEDQVSKNLLREDLEKVLDSL 329
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 330 SPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 377
>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 = 259 bits (661), Expect = 4e-66, Method: Compositional matrix adjust.
Identities = 121/300 (40%), Positives = 200/300 (66%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +
Sbjct: 192 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTE 251
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 252 EEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPEDQVAKNLL 310
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 311 REDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRH 370
>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 = 259 bits (661), Expect = 4e-66, Method: Compositional matrix adjust.
Identities = 126/315 (40%), Positives = 208/315 (66%), Gaps = 5/315 (1%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 175 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 234
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ +L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 235 KTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 294
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
G E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +++
Sbjct: 295 SDG-ETPEDQVSKNLLREDLESVLGTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 353
Query: 539 ERVRQLESRALYRLK 553
ER+RQ+E++AL +L+
Sbjct: 354 ERIRQIEAKALRKLR 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 = 258 bits (660), Expect = 5e-66, Method: Compositional matrix adjust.
Identities = 125/316 (39%), Positives = 208/316 (65%), Gaps = 5/316 (1%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 182 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 241
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ +L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 242 KTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 301
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
G E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +++
Sbjct: 302 SDG-ETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 360
Query: 539 ERVRQLESRALYRLKQ 554
ER+RQ+E++AL +L+
Sbjct: 361 ERIRQIEAKALRKLRH 376
>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 = 258 bits (660), Expect = 5e-66, Method: Compositional matrix adjust.
Identities = 133/348 (38%), Positives = 220/348 (63%), Gaps = 14/348 (4%)
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 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F++YA
Sbjct: 151 GRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYA 210
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +E++A R+ +T+
Sbjct: 211 TWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTI 270
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
EKL + ++P+S++ P+ ++D+ + G E P+ V K L+R+ + +L L
Sbjct: 271 EKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPEDQVSKNLLREDLEKVLDSL 329
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 330 SPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 377
>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 = 258 bits (658), Expect = 8e-66, Method: Compositional matrix adjust.
Identities = 126/315 (40%), Positives = 207/315 (65%), Gaps = 6/315 (1%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 185 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 244
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ +L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 245 KTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 304
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
G E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++
Sbjct: 305 SDG-ETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 363
Query: 539 ERVRQLESRALYRLK 553
ER+RQ+E++AL +L+
Sbjct: 364 ERIRQIEAKALRKLR 378
>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 = 257 bits (657), Expect = 1e-65, Method: Compositional matrix adjust.
Identities = 126/327 (38%), Positives = 208/327 (63%), Gaps = 6/327 (1%)
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 YQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLP 407
Y RG+S DL+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP
Sbjct: 170 YMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLP 229
Query: 408 ENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWA 467
++Y +S++ + +L QE P +E++A R+ +T+EKL + ++P+S++ P+
Sbjct: 230 VHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGK 289
Query: 468 DQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSL 527
++D+ + G E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L
Sbjct: 290 EEDSRLGDFIESDG-ETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTL 348
Query: 528 SEVGNIFGLSKERVRQLESRALYRLKQ 554
E+G IF +++ER+RQ+E++AL +L+
Sbjct: 349 EEIGQIFNVTRERIRQIEAKALRKLRH 375
>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 = 256 bits (654), Expect = 2e-65, Method: Compositional matrix adjust.
Identities = 132/348 (37%), Positives = 220/348 (63%), Gaps = 14/348 (4%)
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 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F++YA
Sbjct: 152 GRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYA 211
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +E++A R+ +T+
Sbjct: 212 TWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTI 271
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
EKL + ++P+S++ P+ ++D+ + G E P+ V K L+R+ + +L L
Sbjct: 272 EKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPEDQVSKNLLREDLEKVLDSL 330
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 331 SPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 378
>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 = 256 bits (653), Expect = 3e-65, Method: Compositional matrix adjust.
Identities = 125/315 (39%), Positives = 207/315 (65%), Gaps = 5/315 (1%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 184 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 243
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ +L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 244 KTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 303
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
G E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++
Sbjct: 304 SDG-ETPEDQVSKSLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 362
Query: 539 ERVRQLESRALYRLK 553
ER+RQ+E++AL +L+
Sbjct: 363 ERIRQIEAKALRKLR 377
>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 = 255 bits (652), Expect = 4e-65, Method: Compositional matrix adjust.
Identities = 131/349 (37%), Positives = 217/349 (62%), Gaps = 14/349 (4%)
Query: 206 EVKQFSQPRFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPE 265
++ F +P+ E +K K +K + R + KK +E D +RL+L
Sbjct: 44 DIDDFLEPQTDEDDAKSGKAAKSR--------RRTQTKKKPFTE-----DSIRLYLQEIG 90
Query: 266 TRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325
+LL ADEE EL +I DL+ LE+ + L Q REP EWA+A+ L + LH
Sbjct: 91 RIRLLRADEEIELARKIADLLELERVRDDLYEQLEREPEFREWAEAVKLPLPTFRYRLHV 150
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F++YA
Sbjct: 151 GRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYA 210
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +E++A R+ +T+
Sbjct: 211 TWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTI 270
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
EKL + ++P+S++ P+ ++D+ + G E P+ V K L+R+ + +L L
Sbjct: 271 EKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPEDQVSKSLLREDLERVLDSL 329
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 330 GPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRH 378
>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 = 255 bits (651), Expect = 5e-65, Method: Compositional matrix adjust.
Identities = 125/315 (39%), Positives = 206/315 (65%), Gaps = 6/315 (1%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 183 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 242
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ +L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 243 KTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 302
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
G E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++
Sbjct: 303 SDG-ETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 361
Query: 539 ERVRQLESRALYRLK 553
ER+RQ+E++AL +L+
Sbjct: 362 ERIRQIEAKALRKLR 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 = 254 bits (650), Expect = 6e-65, Method: Compositional matrix adjust.
Identities = 125/315 (39%), Positives = 206/315 (65%), Gaps = 5/315 (1%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 186 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 245
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ +L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 246 KTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 305
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
G E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++
Sbjct: 306 SDG-ETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 364
Query: 539 ERVRQLESRALYRLK 553
ER+RQ+E++AL +L+
Sbjct: 365 ERIRQIEAKALRKLR 379
>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 = 254 bits (650), Expect = 7e-65, Method: Compositional matrix adjust.
Identities = 125/315 (39%), Positives = 206/315 (65%), Gaps = 5/315 (1%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 183 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 242
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ +L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 243 KTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 302
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
G E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++
Sbjct: 303 SDG-ETPEDQVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 361
Query: 539 ERVRQLESRALYRLK 553
ER+RQ+E++AL +L+
Sbjct: 362 ERIRQIEAKALRKLR 376
>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 = 254 bits (650), Expect = 7e-65, Method: Compositional matrix adjust.
Identities = 131/349 (37%), Positives = 220/349 (63%), Gaps = 14/349 (4%)
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 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F++YA
Sbjct: 151 GRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYA 210
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +E++A R+ +T+
Sbjct: 211 TWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTI 270
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
EKL + ++P+S++ P+ ++D+ + G E P+ V K L+R+ + +L L
Sbjct: 271 EKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPEDQVSKNLLREDLEKVLDSL 329
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 330 SPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRH 378
>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 = 254 bits (649), Expect = 8e-65, Method: Compositional matrix adjust.
Identities = 124/316 (39%), Positives = 207/316 (65%), Gaps = 5/316 (1%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 185 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 244
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ +L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 245 KTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 304
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
G E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +++
Sbjct: 305 SDG-ETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 363
Query: 539 ERVRQLESRALYRLKQ 554
ER+RQ+E++AL +L+
Sbjct: 364 ERIRQIEAKALRKLRH 379
>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 = 254 bits (649), Expect = 8e-65, Method: Compositional matrix adjust.
Identities = 118/300 (39%), Positives = 202/300 (67%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE P +
Sbjct: 189 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQELGRKPTE 248
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 249 EEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADG-ETPEDQVSKSLL 307
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 308 REDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRH 367
>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 = 254 bits (649), Expect = 9e-65, Method: Compositional matrix adjust.
Identities = 125/317 (39%), Positives = 205/317 (64%), Gaps = 5/317 (1%)
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 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S+
Sbjct: 165 DLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISR 224
Query: 417 VLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEI 476
+ + +L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 225 IKKTTKLLSQEMGRKPTEEEIADRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDF 284
Query: 477 TADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 536
G E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 285 IEADG-ETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 343
Query: 537 SKERVRQLESRALYRLK 553
++ER+RQ+E++AL +L+
Sbjct: 344 TRERIRQIEAKALRKLR 360
>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 = 254 bits (648), Expect = 1e-64, Method: Compositional matrix adjust.
Identities = 130/348 (37%), Positives = 220/348 (63%), Gaps = 14/348 (4%)
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 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F++YA
Sbjct: 151 GRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYA 210
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +E++A R+ +T+
Sbjct: 211 TWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTI 270
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
EKL + ++P+S++ P+ ++D+ + G E P+ V K L+R+ + +L L
Sbjct: 271 EKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPEDQVSKNLLREDLEKVLDSL 329
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 330 SPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 377
>gi|85813983|emb|CAD20831.2| sigma factor [Spinacia oleracea]
Length = 575
Score = 253 bits (646), Expect = 2e-64, Method: Compositional matrix adjust.
Identities = 121/317 (38%), Positives = 202/317 (63%), Gaps = 3/317 (0%)
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 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEG GL++ EKF G +F++YA+WW++Q +RK++ SRTIRLP ++ +
Sbjct: 365 DLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYR 424
Query: 417 VLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEI 476
V EA++ + E P+ E++A G+++++L ++ + P S+ Q + + + E+
Sbjct: 425 VKEARKQLLSENGKQPNNEEVAEATGLSMKRLTAVLMTPKAPRSLDQKIGFNMNLKPSEV 484
Query: 477 TADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 536
AD E + + KQ MRQ + +L L+ +E+ ++R RFG+EDG+ K+L E+G + G+
Sbjct: 485 IADPEAETAEDLLTKQFMRQDLEKVLDTLSSREKQVIRWRFGLEDGRMKTLQEIGELMGV 544
Query: 537 SKERVRQLESRALYRLK 553
S+ER+RQ+ES A +L+
Sbjct: 545 SRERIRQIESSAFRKLQ 561
>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 = 253 bits (646), Expect = 2e-64, Method: Compositional matrix adjust.
Identities = 130/349 (37%), Positives = 217/349 (62%), Gaps = 14/349 (4%)
Query: 206 EVKQFSQPRFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPE 265
++ F +P+ E +K K +K + R + KK +E D +RL+L
Sbjct: 44 DIDDFLEPQTDEDDAKSGKAAKSR--------RRTQTKKKPFTE-----DSIRLYLQEIG 90
Query: 266 TRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325
+LL ADEE EL +I DL+ LE+ + L Q REP EWA+A+ L + LH
Sbjct: 91 RIRLLRADEEIELARKIADLLELERVRDDLYEQLEREPEFREWAEAVKLPLPTFRYRLHV 150
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F++YA
Sbjct: 151 GRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYA 210
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +E++A R+ +T+
Sbjct: 211 TWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTI 270
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
EKL + ++P+S++ P+ ++D+ + G E P+ V K L+R+ + +L L
Sbjct: 271 EKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPEDQVSKSLLREDLERVLDSL 329
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
P+ER ++RLR+G+++G+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 330 GPRERDVLRLRYGLDNGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRH 378
>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 = 253 bits (646), Expect = 2e-64, Method: Compositional matrix adjust.
Identities = 120/299 (40%), Positives = 200/299 (66%), Gaps = 1/299 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +
Sbjct: 199 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTE 258
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 259 EEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPEDQVSKSLL 317
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 318 REDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 376
>gi|26452898|dbj|BAC43527.1| putative plastid RNA polymerase sigma-subunit SIG1 [Arabidopsis
thaliana]
Length = 572
Score = 253 bits (646), Expect = 2e-64, Method: Compositional matrix adjust.
Identities = 129/342 (37%), Positives = 214/342 (62%), Gaps = 3/342 (0%)
Query: 214 RFLERRSKKRKVSKPQVTNHETYNSRKASVKKKL-SEGFDRNDPLRLFLWGPETRKLLTA 272
R ER++++ K + + + + + KK+L ++ D NDPLR + KLLT
Sbjct: 216 RQTERKARRAKGLEKTASGIPSVKTGSSPKKKRLVAQEVDHNDPLRYLRMTTSSSKLLTV 275
Query: 273 DEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREK 332
EE EL A IQDL++LE+ +++L + GR+PT +WA A G+ + L+ +H G ++K
Sbjct: 276 REEHELSAGIQDLLKLERLQTELTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCKDK 335
Query: 333 LINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392
+I +N+RLV+ +AK YQG G++L DL+QEG GL++ EKF G +F++YA+WW++Q
Sbjct: 336 MIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQA 395
Query: 393 IRKAIFQHSRTIRLPENIYTLLSKVLEA-KRLYIQEGNHSPDKEDLARRVGITVEKLERL 451
+RK++ SR IRLP ++ +V EA K+LY + G H P E++A G+++++L +
Sbjct: 396 VRKSLSDQSRMIRLPFHMVEATYRVKEARKQLYSETGKH-PKNEEIAEATGLSMKRLMAV 454
Query: 452 IFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERC 511
+ + P S+ Q + +Q+ E+ AD P+ + K+ MRQ + +L L +E+
Sbjct: 455 LLSPKPPRSLDQKIGMNQNLKPSEVIADPEAVTPEDILIKEFMRQDLDKVLDSLGTREKQ 514
Query: 512 IVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++R RFG+EDG+ K+L E+G + G+S+ERVRQ+ES A +LK
Sbjct: 515 VIRWRFGMEDGRMKTLQEIGEMMGVSRERVRQIESSAFRKLK 556
>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 = 253 bits (645), Expect = 2e-64, Method: Compositional matrix adjust.
Identities = 125/326 (38%), Positives = 207/326 (63%), Gaps = 6/326 (1%)
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 QGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPE 408
RG+S DL+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP
Sbjct: 155 MNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPV 214
Query: 409 NIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWAD 468
++Y +S++ + +L QE P +E++A R+ +T+EKL + ++P+S++ P+ +
Sbjct: 215 HLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKE 274
Query: 469 QDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLS 528
+D+ + G E P+ V K L+R+ + +L L+P+ER +++LR+G++DG+ K+L
Sbjct: 275 EDSRLGDFIESDG-ETPEDQVSKSLLREDLETVLDTLSPRERDVLKLRYGLDDGRMKTLE 333
Query: 529 EVGNIFGLSKERVRQLESRALYRLKQ 554
E+G IF +++ER+RQ+E++AL +L+
Sbjct: 334 EIGQIFNVTRERIRQIEAKALRKLRH 359
>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 = 253 bits (645), Expect = 2e-64, Method: Compositional matrix adjust.
Identities = 116/299 (38%), Positives = 201/299 (67%), Gaps = 1/299 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +
Sbjct: 214 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQELGRKPTE 273
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 274 EEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPEDEVSKSLL 332
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R+ + ++L+ L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 333 REDLESVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 391
>gi|296090195|emb|CBI40014.3| unnamed protein product [Vitis vinifera]
Length = 575
Score = 252 bits (644), Expect = 3e-64, Method: Compositional matrix adjust.
Identities = 125/318 (39%), Positives = 205/318 (64%), Gaps = 3/318 (0%)
Query: 238 SRKASVKKKLS-EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ 296
S S +K++S + D +DPLR T +LLTA EE EL IQDL++LEK + L+
Sbjct: 245 SGSTSRRKRVSLQEVDYSDPLRYLRGTTSTSRLLTATEELELSEGIQDLLKLEKLQEDLE 304
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+FG +PT +WA A G+ + L+ + G ++K+I +N+RLV+ +AK YQG G+++
Sbjct: 305 ERFGVKPTFAQWAAAAGVDQKTLRRRTNYGIRCKDKMIKSNIRLVISIAKNYQGAGMNIQ 364
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEG GL++ EKF G +F++YA+WW++Q +RK++ SRTIRLP ++ +
Sbjct: 365 DLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYR 424
Query: 417 VLEA-KRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE 475
V EA K+LY + G H P+ E++A G+++++L ++ + P S+ Q + +Q+ E
Sbjct: 425 VKEARKQLYSENGRH-PNNEEVAEATGLSMKRLNAVLLTPKAPRSLDQKIGINQNLKPSE 483
Query: 476 ITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFG 535
+ AD E + + KQ MR+ + +L LNP+E+ ++R R+G+EDG+ K+L E+G + G
Sbjct: 484 VIADPDAETAEELLIKQFMREDLEKVLNSLNPREKQVIRWRYGLEDGRTKTLQEIGELMG 543
Query: 536 LSKERVRQLESRALYRLK 553
+S+ER+RQ+ES A +LK
Sbjct: 544 VSRERIRQIESCAFRKLK 561
>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 = 252 bits (644), Expect = 4e-64, Method: Compositional matrix adjust.
Identities = 122/315 (38%), Positives = 208/315 (66%), Gaps = 6/315 (1%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 171 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 230
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ ++ QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 231 KTTKILSQEMRRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 290
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
G E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +++
Sbjct: 291 ADG-ETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 349
Query: 539 ERVRQLESRALYRLK 553
ER+RQ+E++AL +L+
Sbjct: 350 ERIRQIEAKALRKLR 364
>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 = 252 bits (643), Expect = 4e-64, Method: Compositional matrix adjust.
Identities = 122/315 (38%), Positives = 206/315 (65%), Gaps = 5/315 (1%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 167 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 226
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ ++ QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 227 KTTKILSQEMGRKPTEEEIADRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 286
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
G E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +++
Sbjct: 287 ADG-ETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 345
Query: 539 ERVRQLESRALYRLK 553
ER+RQ+E++AL +L+
Sbjct: 346 ERIRQIEAKALRKLR 360
>gi|225436223|ref|XP_002273602.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Vitis vinifera]
Length = 578
Score = 252 bits (643), Expect = 4e-64, Method: Compositional matrix adjust.
Identities = 125/318 (39%), Positives = 205/318 (64%), Gaps = 3/318 (0%)
Query: 238 SRKASVKKKLS-EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ 296
S S +K++S + D +DPLR T +LLTA EE EL IQDL++LEK + L+
Sbjct: 248 SGSTSRRKRVSLQEVDYSDPLRYLRGTTSTSRLLTATEELELSEGIQDLLKLEKLQEDLE 307
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
+FG +PT +WA A G+ + L+ + G ++K+I +N+RLV+ +AK YQG G+++
Sbjct: 308 ERFGVKPTFAQWAAAAGVDQKTLRRRTNYGIRCKDKMIKSNIRLVISIAKNYQGAGMNIQ 367
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEG GL++ EKF G +F++YA+WW++Q +RK++ SRTIRLP ++ +
Sbjct: 368 DLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYR 427
Query: 417 VLEA-KRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE 475
V EA K+LY + G H P+ E++A G+++++L ++ + P S+ Q + +Q+ E
Sbjct: 428 VKEARKQLYSENGRH-PNNEEVAEATGLSMKRLNAVLLTPKAPRSLDQKIGINQNLKPSE 486
Query: 476 ITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFG 535
+ AD E + + KQ MR+ + +L LNP+E+ ++R R+G+EDG+ K+L E+G + G
Sbjct: 487 VIADPDAETAEELLIKQFMREDLEKVLNSLNPREKQVIRWRYGLEDGRTKTLQEIGELMG 546
Query: 536 LSKERVRQLESRALYRLK 553
+S+ER+RQ+ES A +LK
Sbjct: 547 VSRERIRQIESCAFRKLK 564
>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 = 252 bits (643), Expect = 4e-64, Method: Compositional matrix adjust.
Identities = 117/300 (39%), Positives = 203/300 (67%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE P +
Sbjct: 189 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPTE 248
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 249 EEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADG-ENPEDEVSKNLL 307
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 308 REDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRH 367
>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 = 252 bits (643), Expect = 4e-64, Method: Compositional matrix adjust.
Identities = 130/348 (37%), Positives = 218/348 (62%), Gaps = 14/348 (4%)
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 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F++YA
Sbjct: 151 GRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYA 210
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +E++A R+ +T+
Sbjct: 211 TWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATRMEMTI 270
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
EKL + ++P+S++ P+ ++D+ + G E P+ V K L+R+ + +L L
Sbjct: 271 EKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPEDQVSKNLLREDLEKVLDSL 329
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 330 SPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 377
>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 = 252 bits (643), Expect = 4e-64, Method: Compositional matrix adjust.
Identities = 122/315 (38%), Positives = 208/315 (66%), Gaps = 6/315 (1%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 170 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 229
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ ++ QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 230 KTTKILSQEMRRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 289
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
G E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +++
Sbjct: 290 ADG-ETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 348
Query: 539 ERVRQLESRALYRLK 553
ER+RQ+E++AL +L+
Sbjct: 349 ERIRQIEAKALRKLR 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 = 251 bits (642), Expect = 6e-64, Method: Compositional matrix adjust.
Identities = 123/316 (38%), Positives = 208/316 (65%), Gaps = 5/316 (1%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 177 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 236
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ +L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 237 KTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 296
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
G E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +++
Sbjct: 297 ADG-ETPEDEVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 355
Query: 539 ERVRQLESRALYRLKQ 554
ER+RQ+E++AL +L+
Sbjct: 356 ERIRQIEAKALRKLRH 371
>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 = 251 bits (640), Expect = 9e-64, Method: Compositional matrix adjust.
Identities = 122/315 (38%), Positives = 207/315 (65%), Gaps = 5/315 (1%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 180 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 239
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ +L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 240 KTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 299
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
G E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++
Sbjct: 300 SDG-ETPEDQVSKNLLREDLEKVLDGLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 358
Query: 539 ERVRQLESRALYRLK 553
ER+RQ+E++AL +L+
Sbjct: 359 ERIRQIEAKALRKLR 373
>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 = 251 bits (640), Expect = 9e-64, Method: Compositional matrix adjust.
Identities = 122/324 (37%), Positives = 208/324 (64%), Gaps = 5/324 (1%)
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 RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENI 410
RG+S DL+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++
Sbjct: 161 RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHL 220
Query: 411 YTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQD 470
Y +S++ + ++ QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D
Sbjct: 221 YETISRIKKTTKILSQELGRKPTEEEIAERMEMTIEKLRFIAKSAQLPISLETPIGKEED 280
Query: 471 TTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEV 530
+ + G E P+ V K L+R+ + N+L L+ +ER ++RLR+G++DG+ K+L E+
Sbjct: 281 SRLGDFIEADG-ETPEDQVSKSLLREDLENVLDTLSARERDVLRLRYGLDDGRMKTLEEI 339
Query: 531 GNIFGLSKERVRQLESRALYRLKQ 554
G IF +++ER+RQ+E++AL +L+
Sbjct: 340 GQIFNVTRERIRQIEAKALRKLRH 363
>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 = 251 bits (640), Expect = 9e-64, Method: Compositional matrix adjust.
Identities = 125/320 (39%), Positives = 211/320 (65%), Gaps = 6/320 (1%)
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 SLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTL 413
S DL+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y
Sbjct: 176 SFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYET 235
Query: 414 LSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
+S++ + ++ QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+
Sbjct: 236 ISRIKKTTKILSQELARKPTEEEIAERMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRL 295
Query: 474 QEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 533
+ G E P+ V K L+R+ + ++L L+P+ER ++RLR+G+EDG+ K+L E+G I
Sbjct: 296 GDFIEADG-ETPEDEVSKSLLREDLEDVLDTLSPRERDVLRLRYGLEDGRMKTLEEIGQI 354
Query: 534 FGLSKERVRQLESRALYRLK 553
F +++ER+RQ+E++AL +L+
Sbjct: 355 FNVTRERIRQIEAKALRKLR 374
>gi|1588486|prf||2208419B RNA polymerase sigma factor
Length = 391
Score = 251 bits (640), Expect = 1e-63, Method: Compositional matrix adjust.
Identities = 122/324 (37%), Positives = 208/324 (64%), Gaps = 5/324 (1%)
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 RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENI 410
RG+S DL+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++
Sbjct: 177 RGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHL 236
Query: 411 YTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQD 470
Y +S++ + ++ QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D
Sbjct: 237 YETISRIKKTTKILSQELGRKPTEEEIAERMEMTIEKLRFIAKSAQLPISLETPIGKEED 296
Query: 471 TTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEV 530
+ + G E P+ V K L+R+ + N+L L+ +ER ++RLR+G++DG+ K+L E+
Sbjct: 297 SRLGDFIEADG-ETPEDQVSKSLLREDLENVLDTLSARERDVLRLRYGLDDGRMKTLEEI 355
Query: 531 GNIFGLSKERVRQLESRALYRLKQ 554
G IF +++ER+RQ+E++AL +L+
Sbjct: 356 GQIFNVTRERIRQIEAKALRKLRH 379
>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 = 250 bits (639), Expect = 1e-63, Method: Compositional matrix adjust.
Identities = 119/299 (39%), Positives = 199/299 (66%), Gaps = 1/299 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE P +
Sbjct: 190 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQELGRKPTE 249
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 250 EEIADRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADG-ETPEDQVSKNLL 308
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 309 REDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 367
>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 = 250 bits (639), Expect = 1e-63, Method: Compositional matrix adjust.
Identities = 124/316 (39%), Positives = 205/316 (64%), Gaps = 6/316 (1%)
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 LLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKV 417
L+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 179 LIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRI 238
Query: 418 LEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEIT 477
+ +L QE P +E++A + +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 239 KKTTKLLSQEMGRKPTEEEIATSMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFI 298
Query: 478 ADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 537
G E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF ++
Sbjct: 299 ESDG-ETPEDEVSKNLLREDLESVLNSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVT 357
Query: 538 KERVRQLESRALYRLK 553
+ER+RQ+E++AL +L+
Sbjct: 358 RERIRQIEAKALRKLR 373
>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 = 249 bits (637), Expect = 2e-63, Method: Compositional matrix adjust.
Identities = 131/343 (38%), Positives = 215/343 (62%), Gaps = 5/343 (1%)
Query: 214 RFLERRSKKRKVSKPQVTNHETYNSRKASVKKKL-SEGFDRNDPLRLFLWGPETRKLLTA 272
R ER++++ K + + + + + KK+L ++ D NDPLR + KLLT
Sbjct: 216 RQTERKARRAKGLEKTASGIPSVKTGSSPKKKRLVAQEVDHNDPLRYLRMTTSSSKLLTV 275
Query: 273 DEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREK 332
EE EL A IQDL++LE+ +++L + GR+PT +WA A G+ + L+ +H G ++K
Sbjct: 276 REEHELSAGIQDLLKLERLQTELTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCKDK 335
Query: 333 LINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392
+I +N+RLV+ +AK YQG G++L DL+QEG GL++ EKF G +F++YA+WW++Q
Sbjct: 336 MIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQA 395
Query: 393 IRKAIFQHSRTIRLPENIYTLLSKVLEA-KRLYIQEGNHSPDKEDLARRVGITVEKLERL 451
+RK++ SR IRLP ++ +V EA K+LY + G H P E++A G+++++L +
Sbjct: 396 VRKSLSDQSRMIRLPFHMVEATYRVKEARKQLYSETGKH-PKNEEIAEATGLSMKRLMAV 454
Query: 452 IFITRMPLSMQQPVWADQDTTFQEITAD-TGVEIPDISVQKQLMRQHVRNLLTLLNPKER 510
+ + P S+ Q + +Q+ E+ AD V DI + K+ MRQ + +L L +E+
Sbjct: 455 LLSPKPPRSLDQKIGMNQNLKPSEVIADPEAVTSEDILI-KEFMRQDLDKVLDSLGTREK 513
Query: 511 CIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++R RFG+EDG+ K+L E+G + G+S+ERVRQ+ES A +LK
Sbjct: 514 QVIRWRFGMEDGRMKTLQEIGEMMGVSRERVRQIESSAFRKLK 556
>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 = 249 bits (637), Expect = 2e-63, Method: Compositional matrix adjust.
Identities = 128/319 (40%), Positives = 204/319 (63%), Gaps = 7/319 (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 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEG GL++ EKF G +F++YA+WW++Q +RK++ SR IRLP ++ +
Sbjct: 360 DLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVEATYR 419
Query: 417 VLEA-KRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE 475
V EA K+LY + G H P E++A G+++++L ++ + P S+ Q + +Q+ E
Sbjct: 420 VKEARKQLYSETGKH-PKNEEIAEATGLSMKRLMAVLLSPKPPRSLDQKIGMNQNLKPSE 478
Query: 476 ITAD-TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIF 534
+ AD V DI + K+ MRQ + +L L +E+ ++R RFG+EDG+ K+L E+G +
Sbjct: 479 VIADPEAVTSEDILI-KEFMRQDLDKVLDSLGTREKQVIRWRFGMEDGRMKTLQEIGEMM 537
Query: 535 GLSKERVRQLESRALYRLK 553
G+S+ERVRQ+ES A +LK
Sbjct: 538 GVSRERVRQIESSAFRKLK 556
>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 = 249 bits (636), Expect = 3e-63, Method: Compositional matrix adjust.
Identities = 116/299 (38%), Positives = 199/299 (66%), Gaps = 1/299 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +
Sbjct: 188 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTE 247
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 248 EEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPEDQVSKNLL 306
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R+ + +L L+P+ER +++LR+G++DG+ K+L E+G +F +++ER+RQ+E++AL +L+
Sbjct: 307 REDLETVLCTLSPRERDVLKLRYGLDDGRMKTLEEIGQLFNVTRERIRQIEAKALRKLR 365
>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 = 249 bits (635), Expect = 3e-63, Method: Compositional matrix adjust.
Identities = 122/316 (38%), Positives = 204/316 (64%), Gaps = 6/316 (1%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 174 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 233
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ +L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 234 KTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 293
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
G E+P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++
Sbjct: 294 ADG-EMPEDQVSKSLLREDLEGVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 352
Query: 539 ERVRQLESRALYRLKQ 554
ER+RQ+E++AL +L+
Sbjct: 353 ERIRQIEAKALRKLRH 368
>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 = 248 bits (634), Expect = 5e-63, Method: Compositional matrix adjust.
Identities = 124/316 (39%), Positives = 206/316 (65%), Gaps = 5/316 (1%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 181 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 240
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ +L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 241 KTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 300
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
G E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +++
Sbjct: 301 SDG-ETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 359
Query: 539 ERVRQLESRALYRLKQ 554
ER+RQ+E++AL +L+
Sbjct: 360 ERIRQIEAKALRKLRH 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 = 248 bits (634), Expect = 5e-63, Method: Compositional matrix adjust.
Identities = 124/316 (39%), Positives = 206/316 (65%), Gaps = 5/316 (1%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 166 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 225
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ +L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 226 KTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 285
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
G E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +++
Sbjct: 286 SDG-ETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 344
Query: 539 ERVRQLESRALYRLKQ 554
ER+RQ+E++AL +L+
Sbjct: 345 ERIRQIEAKALRKLRH 360
>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 = 248 bits (633), Expect = 6e-63, Method: Compositional matrix adjust.
Identities = 124/316 (39%), Positives = 206/316 (65%), Gaps = 5/316 (1%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 181 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 240
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ +L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 241 KTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 300
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
G E P+ V K L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +++
Sbjct: 301 SDG-ETPEDQVSKNLLREDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 359
Query: 539 ERVRQLESRALYRLKQ 554
ER+RQ+E++AL +L+
Sbjct: 360 ERIRQIEAKALRKLRH 375
>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 = 248 bits (632), Expect = 9e-63, Method: Compositional matrix adjust.
Identities = 121/315 (38%), Positives = 208/315 (66%), Gaps = 6/315 (1%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 168 IQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIK 227
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ ++ QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 228 KTTKILSQEMRRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIE 287
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
G E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +++
Sbjct: 288 ADG-ETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTR 346
Query: 539 ERVRQLESRALYRLK 553
ER+RQ+E++AL +L+
Sbjct: 347 ERIRQIEAKALRKLR 361
>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 = 247 bits (631), Expect = 9e-63, Method: Compositional matrix adjust.
Identities = 117/300 (39%), Positives = 198/300 (66%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +
Sbjct: 201 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTE 260
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 261 EEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPEDQVSKNLL 319
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 320 REDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRH 379
>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 = 247 bits (631), Expect = 1e-62, Method: Compositional matrix adjust.
Identities = 118/300 (39%), Positives = 200/300 (66%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +
Sbjct: 201 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTE 260
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 261 EEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPEDQVSKNLL 319
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 320 REDLESVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRH 379
>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 = 247 bits (631), Expect = 1e-62, Method: Compositional matrix adjust.
Identities = 119/303 (39%), Positives = 201/303 (66%), Gaps = 4/303 (1%)
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 KFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHS 431
KF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE
Sbjct: 200 KFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRK 259
Query: 432 PDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQK 491
P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E PD V K
Sbjct: 260 PSEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPDDQVAK 318
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +
Sbjct: 319 NLLREDLESVLGTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRK 378
Query: 552 LKQ 554
L+
Sbjct: 379 LRH 381
>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 = 246 bits (628), Expect = 2e-62, Method: Compositional matrix adjust.
Identities = 114/299 (38%), Positives = 200/299 (66%), Gaps = 1/299 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +
Sbjct: 182 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTE 241
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 242 EEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADG-ETPEDQVSKSLL 300
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 301 REDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 359
>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 = 246 bits (628), Expect = 2e-62, Method: Compositional matrix adjust.
Identities = 116/304 (38%), Positives = 201/304 (66%), Gaps = 5/304 (1%)
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 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE
Sbjct: 218 EKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGR 277
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E PD V
Sbjct: 278 KPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPDDQVA 336
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
K L+R+ + N+L L+P+ER +++LR+G++DG+ K+L E+G IF +++ER+RQ+E++AL
Sbjct: 337 KNLLREDLENVLGTLSPRERDVLKLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALR 396
Query: 551 RLKQ 554
+L+
Sbjct: 397 KLRH 400
>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 = 245 bits (626), Expect = 4e-62, Method: Compositional matrix adjust.
Identities = 124/317 (39%), Positives = 204/317 (64%), Gaps = 7/317 (2%)
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 LLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKV 417
L+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++
Sbjct: 179 LIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRI 238
Query: 418 LEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEIT 477
+ ++ Q+ P +E++A + +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 239 KKTTKMLSQKMGRKPTEEEIAEDMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFI 298
Query: 478 ADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 537
G E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF ++
Sbjct: 299 EADG-ETPEDEVSKNLLREDLENVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVT 357
Query: 538 KERVRQLESRALYRLKQ 554
+ER+RQ+E++AL +L+
Sbjct: 358 RERIRQIEAKALRKLRH 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 = 245 bits (625), Expect = 6e-62, Method: Compositional matrix adjust.
Identities = 116/299 (38%), Positives = 198/299 (66%), Gaps = 1/299 (0%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +RL+L +LL A+EE EL +I DL+ LE+ +L R+P EWA+A+ +
Sbjct: 62 DSIRLYLQEIGRIRLLRAEEEIELARKIADLLELERVYDQLAETLQRDPQDAEWAEAVDM 121
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ LH G +++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 122 PLPKFQRRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 181
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +
Sbjct: 182 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTE 241
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 242 EEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPEDEVSKSLL 300
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R+ + ++L L+ +ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 301 REDLESVLGTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 359
>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 = 244 bits (624), Expect = 7e-62, Method: Compositional matrix adjust.
Identities = 118/299 (39%), Positives = 199/299 (66%), Gaps = 1/299 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +
Sbjct: 209 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTE 268
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 269 EEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADG-ETPEDEVAKNLL 327
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R+ + +L+ L+P+ER ++RLR+G++DG+ K+L E+G +F +++ER+RQ+E++AL +L+
Sbjct: 328 REDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERIRQIEAKALRKLR 386
>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 = 244 bits (623), Expect = 8e-62, Method: Compositional matrix adjust.
Identities = 137/375 (36%), Positives = 232/375 (61%), Gaps = 14/375 (3%)
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 QEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLE 419
QEGS+GL+++ EKF + G +F++YA WW++Q++ +AI HSRTIRLP ++Y LS + +
Sbjct: 190 QEGSLGLIRATEKFDSEKGFKFSTYATWWIKQSVSRAIADHSRTIRLPVHLYDTLSAIKK 249
Query: 420 AKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITAD 479
R+ E SP +E++A ++ +TV+KL ++ + LS+++P+ D DT +
Sbjct: 250 TTRILTIELGRSPTEEEIACKMDVTVDKLRSVLQSAQPTLSLEKPIKNDGDTAQLSDFIE 309
Query: 480 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 539
E PD V+K ++R +R+++ L+ +ER ++R+R+G++DGK ++L E+G IF +++E
Sbjct: 310 ADQESPDEHVEKSMLRDDLRDVINSLSLRERDVIRMRYGLDDGKIRTLEEIGQIFSVTRE 369
Query: 540 RVRQLESRALYRLKQ 554
RVRQ+E++A+ +L+Q
Sbjct: 370 RVRQIEAKAIRKLRQ 384
>gi|217140|dbj|BAA01749.1| principal sigma factor [Synechococcus elongatus PCC 7942]
Length = 384
Score = 244 bits (623), Expect = 9e-62, Method: Compositional matrix adjust.
Identities = 118/299 (39%), Positives = 199/299 (66%), Gaps = 1/299 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +
Sbjct: 194 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTE 253
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 254 EEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADG-ETPEDEVAKNLL 312
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R+ + +L+ L+P+ER ++RLR+G++DG+ K+L E+G +F +++ER+RQ+E++AL +L+
Sbjct: 313 REDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERIRQIEAKALRKLR 371
>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 = 244 bits (623), Expect = 9e-62, Method: Compositional matrix adjust.
Identities = 118/299 (39%), Positives = 199/299 (66%), Gaps = 1/299 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +
Sbjct: 209 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTE 268
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 269 EEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADG-ETPEDEVAKNLL 327
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R+ + +L+ L+P+ER ++RLR+G++DG+ K+L E+G +F +++ER+RQ+E++AL +L+
Sbjct: 328 REDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERIRQIEAKALRKLR 386
>gi|224144900|ref|XP_002325455.1| predicted protein [Populus trichocarpa]
gi|222862330|gb|EEE99836.1| predicted protein [Populus trichocarpa]
Length = 564
Score = 243 bits (620), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 114/302 (37%), Positives = 194/302 (64%)
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 KFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHS 431
KF G +F++YA+WW+RQ +R+++ SRTIRLP ++ +V EA++ + E
Sbjct: 369 KFDASKGFKFSTYAHWWIRQAVRRSLSDQSRTIRLPFHMVDATYRVKEARKQFYSENGRH 428
Query: 432 PDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQK 491
PD +++A G+++++L ++ + P S+ Q + + D E+TAD E + + K
Sbjct: 429 PDDKEVAEATGLSMKRLSAVLLTPKAPRSLDQKMGFNMDLKLSEVTADPEAETAEDLLMK 488
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
+ M++ + +L L+P+E ++R RFG+EDG+ K+L E+G + G+S+ER+RQ+E A +
Sbjct: 489 EFMKKDLERVLESLSPRENQVIRWRFGMEDGRMKTLQEIGELMGVSRERIRQIELSAFRK 548
Query: 552 LK 553
LK
Sbjct: 549 LK 550
>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 = 243 bits (620), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 120/321 (37%), Positives = 205/321 (63%), Gaps = 10/321 (3%)
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 SLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTL 413
S DL+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y
Sbjct: 171 SFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYET 230
Query: 414 LSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
+S++ + +L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+
Sbjct: 231 ISRIKKTTKLLSQEMGRKPTEEEIAERMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRL 290
Query: 474 QEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 533
+ G E P+ V K L+R+ + +L L+P+ER +++LR+G++DG+ K+L E+G I
Sbjct: 291 GDFIESDG-ETPEDQVSKHLLREDLETVLCTLSPRERDVLKLRYGLDDGRMKTLEEIGQI 349
Query: 534 FGLSKERVRQLESRALYRLKQ 554
F +++ER+RQ+E++AL +L+
Sbjct: 350 FNVTRERIRQIEAKALRKLRH 370
>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 = 243 bits (620), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 118/307 (38%), Positives = 201/307 (65%), Gaps = 3/307 (0%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 255 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEF 314
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDI 487
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 315 GRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQ 372
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++
Sbjct: 373 DVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAK 432
Query: 548 ALYRLKQ 554
AL +L+
Sbjct: 433 ALRKLRH 439
>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 = 243 bits (620), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 120/321 (37%), Positives = 205/321 (63%), Gaps = 10/321 (3%)
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 SLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTL 413
S DL+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y
Sbjct: 207 SFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYET 266
Query: 414 LSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
+S++ + +L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+
Sbjct: 267 ISRIKKTTKLLSQEMGRKPTEEEIADRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRL 326
Query: 474 QEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 533
+ G E P+ V K L+R+ + +L L+P+ER +++LR+G++DG+ K+L E+G +
Sbjct: 327 GDFIESDG-ETPEDQVSKHLLREDLETVLCTLSPRERDVLKLRYGLDDGRMKTLEEIGQL 385
Query: 534 FGLSKERVRQLESRALYRLKQ 554
F +++ER+RQ+E++AL +L+
Sbjct: 386 FNVTRERIRQIEAKALRKLRH 406
>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 = 243 bits (620), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 118/306 (38%), Positives = 200/306 (65%), Gaps = 3/306 (0%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 276 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFG 335
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDIS 488
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 336 RKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQD 393
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++A
Sbjct: 394 VAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKA 453
Query: 549 LYRLKQ 554
L +L+
Sbjct: 454 LRKLRH 459
>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 = 243 bits (620), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 118/307 (38%), Positives = 201/307 (65%), Gaps = 3/307 (0%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 255 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEF 314
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDI 487
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 315 GRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQ 372
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++
Sbjct: 373 DVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAK 432
Query: 548 ALYRLKQ 554
AL +L+
Sbjct: 433 ALRKLRH 439
>gi|2353173|gb|AAB69385.1| sigma factor 2 [Arabidopsis thaliana]
Length = 574
Score = 243 bits (619), Expect = 3e-61, Method: Compositional matrix adjust.
Identities = 130/345 (37%), Positives = 215/345 (62%), Gaps = 7/345 (2%)
Query: 214 RFLERRSKKRKVSKPQVTNHETYNSRKASVKKKL-SEGFDRNDPLRLFLWGPETRKL--L 270
R ER++++ K + + + + + KK+L ++ D NDPLR + KL L
Sbjct: 216 RQTERKARRAKGLEKTASGIPSVKTGSSPKKKRLVAQEVDHNDPLRYLRMTTSSSKLKLL 275
Query: 271 TADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSR 330
T EE EL A IQDL++LE+ +++L + GR+PT +WA A G+ + L+ +H G +
Sbjct: 276 TVREEHELSAGIQDLLKLERLQTELTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCK 335
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVR 390
+K+I +N+RLV+ +AK YQG G++L DL+QEG GL++ EKF G +F++YA+WW++
Sbjct: 336 DKMIKSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIK 395
Query: 391 QTIRKAIFQHSRTIRLPENIYTLLSKVLEA-KRLYIQEGNHSPDKEDLARRVGITVEKLE 449
Q +RK++ SR IRLP ++ +V EA K+LY + G H P E++A G+++++L
Sbjct: 396 QAVRKSLSDQSRMIRLPFHMVEATYRVKEARKQLYSETGKH-PKNEEIAEATGLSMKRLM 454
Query: 450 RLIFITRMPLSMQQPVWADQDTTFQEITAD-TGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
++ + P S+ + + +Q+ E+ AD V DI + K+ MRQ + +L L +
Sbjct: 455 AVLLSPKPPRSLDRKIGMNQNLKPSEVIADPEAVTSEDILI-KEFMRQDLDKVLDSLGTR 513
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
E+ ++R RFG+EDG+ K+L E+G + G+S+ERVRQ+ES A +LK
Sbjct: 514 EKQVIRWRFGMEDGRMKTLQEIGEMMGVSRERVRQIESSAFRKLK 558
>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 = 242 bits (618), Expect = 3e-61, Method: Compositional matrix adjust.
Identities = 117/305 (38%), Positives = 202/305 (66%), Gaps = 3/305 (0%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 223 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFG 282
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDIS 488
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 283 RKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQD 340
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++A
Sbjct: 341 VAKTLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKA 400
Query: 549 LYRLK 553
L +L+
Sbjct: 401 LRKLR 405
>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 = 242 bits (618), Expect = 3e-61, Method: Compositional matrix adjust.
Identities = 114/299 (38%), Positives = 200/299 (66%), Gaps = 1/299 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE P +
Sbjct: 190 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMGRKPTE 249
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 250 EEIAERMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADG-ETPEDQVSKSLL 308
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 309 REDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 367
>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 = 242 bits (618), Expect = 3e-61, Method: Compositional matrix adjust.
Identities = 122/324 (37%), Positives = 204/324 (62%), Gaps = 15/324 (4%)
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 RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENI 410
RG++L DL+Q GS+GL++ EKF P+ G +F++YA WW+RQ + ++I SR IRLP +I
Sbjct: 363 RGMTLPDLIQRGSLGLIRGAEKFDPEMGFKFSTYATWWIRQAVTRSITDQSRIIRLPVHI 422
Query: 411 YTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQD 470
Y ++S++ +++ + ++ E++A VGI+VEKL+ ++ R+P SM Q + D+D
Sbjct: 423 YEVISRINKSRMMIAEDQGRQARDEEVATAVGISVEKLDFILKSARLPASMDQLIGRDKD 482
Query: 471 TTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEV 530
E+ AD G D + ++++Q + +L L+P ER ++RLRFG++D + +L ++
Sbjct: 483 LPLWEMVADKGFNSADDFLTNEVLKQDIDGVLQTLSPTEREVLRLRFGLDDAQSMTLKDI 542
Query: 531 GNIFGLSKERVRQLESRALYRLKQ 554
G F +++ER+RQ+E RAL +L+
Sbjct: 543 GIFFKVTRERIRQIEVRALRKLRH 566
>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 = 242 bits (618), Expect = 3e-61, Method: Compositional matrix adjust.
Identities = 117/305 (38%), Positives = 202/305 (66%), Gaps = 3/305 (0%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 223 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFG 282
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDIS 488
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 283 RKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQD 340
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++A
Sbjct: 341 VAKTLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKA 400
Query: 549 LYRLK 553
L +L+
Sbjct: 401 LRKLR 405
>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 = 242 bits (617), Expect = 4e-61, Method: Compositional matrix adjust.
Identities = 118/307 (38%), Positives = 201/307 (65%), Gaps = 3/307 (0%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 262 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEF 321
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDI 487
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 322 GRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQ 379
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++
Sbjct: 380 DVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAK 439
Query: 548 ALYRLKQ 554
AL +L+
Sbjct: 440 ALRKLRH 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 = 241 bits (616), Expect = 6e-61, Method: Compositional matrix adjust.
Identities = 117/301 (38%), Positives = 197/301 (65%), Gaps = 2/301 (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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ Q+ P
Sbjct: 200 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKMLSQKMGRKPT 259
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+E++A + +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L
Sbjct: 260 EEEIAEDMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADG-ETPEDEVSKNL 318
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 319 LREDLENVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 378
Query: 554 Q 554
Sbjct: 379 H 379
>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 = 241 bits (616), Expect = 6e-61, Method: Compositional matrix adjust.
Identities = 114/299 (38%), Positives = 199/299 (66%), Gaps = 1/299 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE P +
Sbjct: 186 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMGRKPTE 245
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A + +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 246 EEIATHMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADG-ETPEDDVSKNLL 304
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 305 REDLEHVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKALRKLR 363
>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 = 241 bits (615), Expect = 8e-61, Method: Compositional matrix adjust.
Identities = 116/307 (37%), Positives = 200/307 (65%), Gaps = 3/307 (0%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 251 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEF 310
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDI 487
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 311 GRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQ 368
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++
Sbjct: 369 DVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAK 428
Query: 548 ALYRLKQ 554
AL +L+
Sbjct: 429 ALRKLRH 435
>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 = 241 bits (614), Expect = 1e-60, Method: Compositional matrix adjust.
Identities = 118/307 (38%), Positives = 201/307 (65%), Gaps = 3/307 (0%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
+G D +R++L +LL DEE EL +I DL+ LE+ ++ +S GREP EW
Sbjct: 119 KGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLYLEELAAQFESDNGREPDNKEW 178
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A + + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL++
Sbjct: 179 AALVEMPLIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 238
Query: 369 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 239 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEF 298
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDI 487
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 299 GRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQ 356
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++
Sbjct: 357 DVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAK 416
Query: 548 ALYRLKQ 554
AL +L+
Sbjct: 417 ALRKLRH 423
>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 = 240 bits (613), Expect = 1e-60, Method: Compositional matrix adjust.
Identities = 116/307 (37%), Positives = 200/307 (65%), Gaps = 3/307 (0%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 247 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEF 306
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDI 487
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 307 GRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQ 364
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++
Sbjct: 365 DVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAK 424
Query: 548 ALYRLKQ 554
AL +L+
Sbjct: 425 ALRKLRH 431
>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 = 240 bits (613), Expect = 1e-60, Method: Compositional matrix adjust.
Identities = 120/302 (39%), Positives = 199/302 (65%), Gaps = 1/302 (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 FKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSP 432
F + G +F++YA WWV+Q + +AI HSRTIRLP ++Y +S + + R E SP
Sbjct: 232 FDSEKGFKFSTYATWWVKQAVTRAIADHSRTIRLPVHLYDTISAIRKTTRNLNIEIGRSP 291
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
+E++A+R+ ++VEKL ++ + LS+++P+ D DT+ + E P+ V+K
Sbjct: 292 TEEEIAKRMDMSVEKLRNVLQSAQPTLSLERPLKNDDDTSQLSDFIEADQESPEEHVEKS 351
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
++R + N++ L+P+ER +VR+R+G++DG+ K+L E+G IF +++ERVRQ+E++A+ +L
Sbjct: 352 MLRDDLENVINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSVTRERVRQIEAKAIRKL 411
Query: 553 KQ 554
+Q
Sbjct: 412 RQ 413
>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 = 240 bits (613), Expect = 1e-60, Method: Compositional matrix adjust.
Identities = 127/341 (37%), Positives = 210/341 (61%), Gaps = 1/341 (0%)
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 LINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQT 392
+I +N+RLV+ VAK YQG G+SL DL+QEG GL++ EK+ G +F++YA+WW++Q
Sbjct: 338 MIKSNIRLVISVAKNYQGSGMSLQDLVQEGCRGLVRGAEKYDASKGFKFSTYAHWWIKQA 397
Query: 393 IRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLI 452
+RK++ SRTIRLP ++ KV EA++ E PD E++A G+++++L ++
Sbjct: 398 VRKSLSVQSRTIRLPFHMVGATYKVKEARKQLYSENGRQPDDEEVAEATGLSMKRLSAVL 457
Query: 453 FITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCI 512
+ P S++Q V +Q E+ AD E + + KQ M++ + +L LNP+E+ +
Sbjct: 458 LTPKAPRSLEQKVGINQSLKLSEVLADPEAETAEEQLIKQFMKKDLEKVLDSLNPREKQV 517
Query: 513 VRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++ RFG++DG+ K+L E+G + G+S+ER+RQ+ES A +LK
Sbjct: 518 IKWRFGMDDGRMKTLQEIGEMMGVSRERIRQIESCAFRKLK 558
>gi|224126061|ref|XP_002319746.1| predicted protein [Populus trichocarpa]
gi|222858122|gb|EEE95669.1| predicted protein [Populus trichocarpa]
Length = 567
Score = 239 bits (611), Expect = 2e-60, Method: Compositional matrix adjust.
Identities = 121/303 (39%), Positives = 198/303 (65%), Gaps = 2/303 (0%)
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 KFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEA-KRLYIQEGNH 430
KF G +F++YA+WW++Q +RK++ SRTIRLP ++ +V EA K+LY + G H
Sbjct: 372 KFDASKGFKFSTYAHWWIKQAVRKSLSDRSRTIRLPFHMVDATYRVKEARKQLYSENGRH 431
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
PD +++A G+++++L ++ + P S+ Q + + D E+TAD E + +
Sbjct: 432 -PDDKEVAEAAGLSMKRLSAVLLTPKAPRSLDQKMGFNMDLKLSEVTADPEAETAEDLLM 490
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
K+ M++ + +L L+P+E +VR RFG+EDG+ K+L E+G + G+S+ERVRQ+E A
Sbjct: 491 KEFMKKDLAKVLGSLSPRENQVVRWRFGMEDGRMKTLQEIGELMGVSRERVRQIELSAFR 550
Query: 551 RLK 553
+LK
Sbjct: 551 KLK 553
>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 = 239 bits (610), Expect = 3e-60, Method: Compositional matrix adjust.
Identities = 116/307 (37%), Positives = 200/307 (65%), Gaps = 3/307 (0%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 254 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEF 313
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDI 487
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 314 GRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQ 371
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++
Sbjct: 372 DVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAK 431
Query: 548 ALYRLKQ 554
AL +L+
Sbjct: 432 ALRKLRH 438
>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 = 239 bits (609), Expect = 3e-60, Method: Compositional matrix adjust.
Identities = 129/312 (41%), Positives = 198/312 (63%), Gaps = 5/312 (1%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G +F++YAYWW+RQ I +AI Q SRTIRLP +I L+K+ +R+ Q+ SP
Sbjct: 137 DPMKGYKFSTYAYWWIRQAITRAIAQQSRTIRLPIHITEKLNKIKREQRVLAQKLGRSPS 196
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
++ + + +T E++ + ++R P+S+ + +QDT QE+ D V D +VQ Q
Sbjct: 197 VGEIGQELDLTPEQVREYLTMSRQPISLDVRIGDNQDTELQELLEDDTVSPEDYTVQ-QS 255
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+RQ +RN+LT L P+++ ++ LRFG+ DG SL++VG G+S+ERVRQLE +AL L+
Sbjct: 256 LRQDIRNMLTELTPQQKEVINLRFGLIDGTQLSLAKVGQRMGISRERVRQLEQQALKHLR 315
Query: 554 QSLGGKASY-GY 564
+ KA++ GY
Sbjct: 316 RR---KATFQGY 324
>gi|318041167|ref|ZP_07973123.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CB0101]
Length = 464
Score = 239 bits (609), Expect = 4e-60, Method: Compositional matrix adjust.
Identities = 115/307 (37%), Positives = 199/307 (64%), Gaps = 3/307 (0%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
+G D +R++L +LL DEE EL +I DL++LE+ ++ ++ G P EW
Sbjct: 148 KGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLQLEELAAQFETDHGHYPDTKEW 207
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A + + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL++
Sbjct: 208 AALVDMPLIKFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 267
Query: 369 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + + QE
Sbjct: 268 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKTLSQEF 327
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDI 487
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 328 GRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQ 385
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++
Sbjct: 386 DVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAK 445
Query: 548 ALYRLKQ 554
AL +L+
Sbjct: 446 ALRKLRH 452
>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 = 239 bits (609), Expect = 4e-60, Method: Compositional matrix adjust.
Identities = 118/306 (38%), Positives = 203/306 (66%), Gaps = 3/306 (0%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 198 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFG 257
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDIS 488
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 258 RKPSEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQD 315
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
V K L+R+ + +L L+P+ER ++RLR+GI+DG+ K+L E+G IF +++ER+RQ+E++A
Sbjct: 316 VSKTLLREDLEGVLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKA 375
Query: 549 LYRLKQ 554
L +L+
Sbjct: 376 LRKLRH 381
>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 = 239 bits (609), Expect = 4e-60, Method: Compositional matrix adjust.
Identities = 115/307 (37%), Positives = 199/307 (64%), Gaps = 3/307 (0%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + + QE
Sbjct: 307 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKTLSQEF 366
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDI 487
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 367 GRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQ 424
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++
Sbjct: 425 DVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAK 484
Query: 548 ALYRLKQ 554
AL +L+
Sbjct: 485 ALRKLRH 491
>gi|303279757|ref|XP_003059171.1| predicted protein [Micromonas pusilla CCMP1545]
gi|226459007|gb|EEH56303.1| predicted protein [Micromonas pusilla CCMP1545]
Length = 587
Score = 238 bits (608), Expect = 4e-60, Method: Compositional matrix adjust.
Identities = 115/323 (35%), Positives = 207/323 (64%), Gaps = 5/323 (1%)
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 GISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIY 411
+S DL+QEG +GL++ EKF + G +F++YA+WW+RQ + ++I SRTIRLP +++
Sbjct: 356 SMSFQDLIQEGCVGLIRGAEKFDFKRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHLF 415
Query: 412 TLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDT 471
++S++ + +R + + P E++A + +TVEK+ ++ + +P+S+ Q V D
Sbjct: 416 EIISRMSKVERQLVMKYGRDPTTEEIAEVMDMTVEKINQIQKASLVPISLSQSVNDDDSR 475
Query: 472 TFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVG 531
T +E D E PD + K L+++ + N+L L+P+ER ++RLR+G++DG+ K+L E+G
Sbjct: 476 TVEETLVDDHAEHPDDATGKVLLKEDLENVLNTLSPRERDVLRLRYGMDDGRVKTLEEIG 535
Query: 532 NIFGLSKERVRQLESRALYRLKQ 554
N+F +++ER+RQ+E++AL +L+Q
Sbjct: 536 NVFSVTRERIRQIEAKALRKLRQ 558
>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 = 238 bits (608), Expect = 5e-60, Method: Compositional matrix adjust.
Identities = 118/305 (38%), Positives = 203/305 (66%), Gaps = 3/305 (0%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 202 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFG 261
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDIS 488
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 262 RKPSEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQD 319
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
V K L+R+ + +L L+P+ER ++RLR+GI+DG+ K+L E+G IF +++ER+RQ+E++A
Sbjct: 320 VSKTLLREDLEGVLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKA 379
Query: 549 LYRLK 553
L +L+
Sbjct: 380 LRKLR 384
>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 = 238 bits (607), Expect = 6e-60, Method: Compositional matrix adjust.
Identities = 118/306 (38%), Positives = 203/306 (66%), Gaps = 3/306 (0%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 198 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFG 257
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDIS 488
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 258 RKPSEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQD 315
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
V K L+R+ + +L L+P+ER ++RLR+GI+DG+ K+L E+G IF +++ER+RQ+E++A
Sbjct: 316 VSKTLLREDLEGVLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKA 375
Query: 549 LYRLKQ 554
L +L+
Sbjct: 376 LRKLRH 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 = 238 bits (607), Expect = 6e-60, Method: Compositional matrix adjust.
Identities = 116/307 (37%), Positives = 197/307 (64%), Gaps = 3/307 (0%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 265 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEF 324
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDI 487
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I +DT E P+
Sbjct: 325 GRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDT--ENPEQ 382
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++
Sbjct: 383 DVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFEVTRERIRQIEAK 442
Query: 548 ALYRLKQ 554
AL +L+
Sbjct: 443 ALRKLRH 449
>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 = 238 bits (607), Expect = 7e-60, Method: Compositional matrix adjust.
Identities = 115/306 (37%), Positives = 200/306 (65%), Gaps = 3/306 (0%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 230 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFG 289
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDIS 488
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I +D+ E P++
Sbjct: 290 RKPSEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDS--ENPELD 347
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++A
Sbjct: 348 VAKTLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKA 407
Query: 549 LYRLKQ 554
L +L+
Sbjct: 408 LRKLRH 413
>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 = 238 bits (606), Expect = 8e-60, Method: Compositional matrix adjust.
Identities = 126/322 (39%), Positives = 197/322 (61%), Gaps = 1/322 (0%)
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 EGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEA 420
EGS+GL + VEKF P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +
Sbjct: 124 EGSLGLERGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKT 183
Query: 421 KRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADT 480
+R Q S ++A+ + I ++ + I R P+S+ V +QDT E+ D
Sbjct: 184 QRELSQSLGRSATPAEIAQELEIEPSQIREFLSIARQPISLDVRVGDNQDTELSELLEDQ 243
Query: 481 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 540
GV PDI + ++L+RQ + NL+ L P++R ++ LRFG+EDGK SL+++G +S+ER
Sbjct: 244 GVS-PDIYITQELLRQDLSNLMAELTPQQRTVLTLRFGLEDGKELSLAKIGKRLNISRER 302
Query: 541 VRQLESRALYRLKQSLGGKASY 562
VRQLE +AL +L++ G Y
Sbjct: 303 VRQLEHQALAQLRRRRGNVKEY 324
>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 = 238 bits (606), Expect = 8e-60, Method: Compositional matrix adjust.
Identities = 118/306 (38%), Positives = 203/306 (66%), Gaps = 3/306 (0%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 198 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFG 257
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDIS 488
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 258 RKPSEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQD 315
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
V K L+R+ + +L L+P+ER ++RLR+GI+DG+ K+L E+G IF +++ER+RQ+E++A
Sbjct: 316 VSKTLLREDLEGVLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKA 375
Query: 549 LYRLKQ 554
L +L+
Sbjct: 376 LRKLRH 381
>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 = 238 bits (606), Expect = 9e-60, Method: Compositional matrix adjust.
Identities = 119/303 (39%), Positives = 202/303 (66%), Gaps = 4/303 (1%)
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 KFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHS 431
KF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE
Sbjct: 201 KFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRK 260
Query: 432 PDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQK 491
P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E PD V K
Sbjct: 261 PTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESEG-ETPDDQVAK 319
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
L+R+ + ++L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +
Sbjct: 320 SLLREDLESVLGTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRK 379
Query: 552 LKQ 554
L+
Sbjct: 380 LRH 382
>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 = 237 bits (605), Expect = 1e-59, Method: Compositional matrix adjust.
Identities = 116/306 (37%), Positives = 197/306 (64%), Gaps = 3/306 (0%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 206 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFG 265
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDIS 488
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E PD
Sbjct: 266 RKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPDQD 323
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++A
Sbjct: 324 VAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKA 383
Query: 549 LYRLKQ 554
L +L+
Sbjct: 384 LLKLRH 389
>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 = 237 bits (605), Expect = 1e-59, Method: Compositional matrix adjust.
Identities = 118/306 (38%), Positives = 203/306 (66%), Gaps = 3/306 (0%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 199 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFG 258
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDIS 488
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 259 RKPSEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQD 316
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
V K L+R+ + +L L+P+ER ++RLR+GI+DG+ K+L E+G IF +++ER+RQ+E++A
Sbjct: 317 VSKTLLREDLEGVLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKA 376
Query: 549 LYRLKQ 554
L +L+
Sbjct: 377 LRKLRH 382
>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 = 237 bits (605), Expect = 1e-59, Method: Compositional matrix adjust.
Identities = 116/307 (37%), Positives = 200/307 (65%), Gaps = 3/307 (0%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
+G D +R++L +LL DEE EL +I DL+ LE+ ++ +S G+ P EW
Sbjct: 124 KGVYTEDSIRVYLQEIGRIRLLRPDEEIELARKIADLLHLEELAAQFESDNGKLPETKEW 183
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A + + + L G ++EK++ +NLRLVV +AK+Y RG+S DL+QEGS+GL++
Sbjct: 184 AALVEMPVIRFRRRLMLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIR 243
Query: 369 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 244 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEF 303
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDI 487
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 304 GRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQ 361
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++
Sbjct: 362 DVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAK 421
Query: 548 ALYRLKQ 554
AL +L+
Sbjct: 422 ALRKLRH 428
>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 = 237 bits (604), Expect = 1e-59, Method: Compositional matrix adjust.
Identities = 118/306 (38%), Positives = 203/306 (66%), Gaps = 3/306 (0%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 199 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFG 258
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDIS 488
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 259 RKPSEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQD 316
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
V K L+R+ + +L L+P+ER ++RLR+GI+DG+ K+L E+G IF +++ER+RQ+E++A
Sbjct: 317 VSKTLLREDLEGVLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKA 376
Query: 549 LYRLKQ 554
L +L+
Sbjct: 377 LRKLRH 382
>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 = 237 bits (604), Expect = 1e-59, Method: Compositional matrix adjust.
Identities = 118/306 (38%), Positives = 201/306 (65%), Gaps = 3/306 (0%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 260 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEF 319
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDI 487
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 320 GRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQ 377
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++
Sbjct: 378 DVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAK 437
Query: 548 ALYRLK 553
AL +L+
Sbjct: 438 ALRKLR 443
>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 = 237 bits (604), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 128/322 (39%), Positives = 194/322 (60%), Gaps = 1/322 (0%)
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 EGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEA 420
EGS+GL + VEKF P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +
Sbjct: 124 EGSLGLERGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKT 183
Query: 421 KRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADT 480
+R Q S ++A+ + I ++ + I R P+S+ V +QDT E+ D
Sbjct: 184 QRELSQTLGRSATPAEIAQELEIEPSQIREFLSIARQPISLDVRVGDNQDTELSELLEDQ 243
Query: 481 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 540
GV PDI + ++L+RQ + NL+ L P++R ++ LRFG+EDGK SL+++G +S+ER
Sbjct: 244 GVS-PDIYITQELLRQDLSNLMAELTPQQRTVLTLRFGLEDGKELSLAKIGKRLNISRER 302
Query: 541 VRQLESRALYRLKQSLGGKASY 562
VRQLE +AL +L++ G Y
Sbjct: 303 VRQLEHQALAQLRRRRGNVKEY 324
>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 = 236 bits (603), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 115/306 (37%), Positives = 199/306 (65%), Gaps = 3/306 (0%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 243 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFG 302
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDIS 488
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I +D+ E P++
Sbjct: 303 RKPSEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDS--ENPELD 360
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++A
Sbjct: 361 VAKTLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKA 420
Query: 549 LYRLKQ 554
L +L+
Sbjct: 421 LRKLRH 426
>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 = 236 bits (603), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 116/307 (37%), Positives = 197/307 (64%), Gaps = 3/307 (0%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 248 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEF 307
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDI 487
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I +DT E P+
Sbjct: 308 GRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDT--ENPEQ 365
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++
Sbjct: 366 DVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFEVTRERIRQIEAK 425
Query: 548 ALYRLKQ 554
AL +L+
Sbjct: 426 ALRKLRH 432
>gi|317969651|ref|ZP_07971041.1| RNA polymerase sigma factor RpoD [Synechococcus sp. CB0205]
Length = 470
Score = 236 bits (603), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 115/306 (37%), Positives = 198/306 (64%), Gaps = 3/306 (0%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + + QE
Sbjct: 275 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKTLSQEFG 334
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDIS 488
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 335 RKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQD 392
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++A
Sbjct: 393 VAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAKA 452
Query: 549 LYRLKQ 554
L +L+
Sbjct: 453 LRKLRH 458
>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 = 236 bits (603), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 116/300 (38%), Positives = 197/300 (65%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +
Sbjct: 186 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQELGRKPTE 245
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 246 EEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPEDEVSKSLL 304
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R+ + +L+ L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 305 REDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRH 364
>gi|7363218|emb|CAB83106.1| sigma factor 2 [Sinapis alba]
Length = 575
Score = 236 bits (602), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 119/342 (34%), Positives = 205/342 (59%), Gaps = 2/342 (0%)
Query: 214 RFLERRSKKRKVSKPQVTNHETYNSRKASVKKK--LSEGFDRNDPLRLFLWGPETRKLLT 271
R ER++++ K + + ++ +S +KK S+ D NDPLR + KLLT
Sbjct: 215 RQTERKARRVKGLEKTASGMQSSVKTGSSSRKKRVASQEIDHNDPLRYLRMTTSSSKLLT 274
Query: 272 ADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSRE 331
A EE +L IQDL++LE+ +++L + G +PT +WA A G+ + L+ + G ++
Sbjct: 275 AREEQQLSEGIQDLLKLERLQAELTERCGHQPTFSQWASAAGVDKKTLRKRITHGTQCKD 334
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQ 391
++I +N+RLV+ +AK YQG G+ DL+QEG GL++ EKF G +F++YA+WW++Q
Sbjct: 335 RMIKSNIRLVISIAKNYQGAGMDFQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQ 394
Query: 392 TIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERL 451
+RK++ SR IRLP ++ +V EA++ E P E++A G+++++L +
Sbjct: 395 AVRKSLSDQSRMIRLPFHMVEATYRVKEARKQLYSETGKQPKNEEVAEATGLSMKRLMAV 454
Query: 452 IFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERC 511
+ + P S+ Q + + + E+ AD E + + KQ MRQ + +L L+ +E+
Sbjct: 455 LLSPKPPRSLDQKIGINLNLKPSEVIADPEAETSEDILMKQFMRQDLDKVLDSLSTREKQ 514
Query: 512 IVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++R RFG+EDG+ K+L E+G G+S+ERVRQ+++ A +LK
Sbjct: 515 VIRWRFGMEDGRMKTLQEIGETMGVSRERVRQIDTSAFRKLK 556
>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 = 236 bits (602), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 115/307 (37%), Positives = 198/307 (64%), Gaps = 3/307 (0%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 264 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEF 323
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDI 487
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 324 GRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQ 381
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++
Sbjct: 382 DVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAK 441
Query: 548 ALYRLKQ 554
AL +L+
Sbjct: 442 ALRKLRH 448
>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 = 236 bits (602), Expect = 2e-59, Method: Compositional matrix adjust.
Identities = 117/306 (38%), Positives = 202/306 (66%), Gaps = 3/306 (0%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 201 AEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFG 260
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDIS 488
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 261 RKPSEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQD 318
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
V K L+R+ + +L L+P+ER ++RLR+GI+DG+ K+L E+G IF +++ER+RQ+E++A
Sbjct: 319 VSKTLLREDLEGVLATLSPRERDVLRLRYGIDDGRMKTLEEIGQIFDVTRERIRQIEAKA 378
Query: 549 LYRLKQ 554
L +L+
Sbjct: 379 LRKLRH 384
>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 = 235 bits (600), Expect = 4e-59, Method: Compositional matrix adjust.
Identities = 125/322 (38%), Positives = 195/322 (60%), Gaps = 1/322 (0%)
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 EGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEA 420
EGS+GL + VEKF P G +F++YAYWW+RQ I +AI Q SRTIRLP +I L+K+ +
Sbjct: 124 EGSLGLERGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQSRTIRLPIHITEKLNKIKKT 183
Query: 421 KRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADT 480
+R Q S ++A+ + I ++ + I R P+S+ V +QDT E+ D
Sbjct: 184 QRELSQTLGRSATPSEIAQELEIEPSQIREFLSIARQPISLDVRVGDNQDTELSELLEDQ 243
Query: 481 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 540
GV PD+ + ++L+RQ +RNL+ L P++R ++ LRFG+EDGK SL+++G +S+ER
Sbjct: 244 GVS-PDLYITQELLRQDLRNLMAELTPQQRTVLTLRFGLEDGKELSLAKIGKRMNISRER 302
Query: 541 VRQLESRALYRLKQSLGGKASY 562
VRQLE +AL +L++ Y
Sbjct: 303 VRQLEHQALAQLRRRRANVKEY 324
>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 = 235 bits (599), Expect = 6e-59, Method: Compositional matrix adjust.
Identities = 118/307 (38%), Positives = 201/307 (65%), Gaps = 3/307 (0%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 283 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEF 342
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDI 487
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 343 GRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQ 400
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++
Sbjct: 401 DVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAK 460
Query: 548 ALYRLKQ 554
AL +L+
Sbjct: 461 ALRKLRH 467
>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 = 234 bits (598), Expect = 7e-59, Method: Compositional matrix adjust.
Identities = 115/307 (37%), Positives = 198/307 (64%), Gaps = 3/307 (0%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + + QE
Sbjct: 236 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKTLSQEF 295
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDI 487
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 296 GRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQ 353
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++
Sbjct: 354 DVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAK 413
Query: 548 ALYRLKQ 554
AL +L+
Sbjct: 414 ALRKLRH 420
>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 = 234 bits (597), Expect = 8e-59, Method: Compositional matrix adjust.
Identities = 124/322 (38%), Positives = 195/322 (60%), Gaps = 1/322 (0%)
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 EGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEA 420
EGS+GL + VEKF P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +
Sbjct: 124 EGSLGLERGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKT 183
Query: 421 KRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADT 480
+R Q S ++A+ + I ++ + I R P+S+ V +QDT E+ D
Sbjct: 184 QRELSQTLGRSATPSEIAQELEIEPSQIREFLSIARQPISLDVRVGDNQDTELSELLEDQ 243
Query: 481 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 540
GV PD+ + ++L+RQ +RNL+ L P++R ++ LRFG+EDGK SL+++G +S+ER
Sbjct: 244 GVS-PDLYITQELLRQDLRNLMAELTPQQRTVLTLRFGLEDGKELSLAKIGKRMNISRER 302
Query: 541 VRQLESRALYRLKQSLGGKASY 562
VRQLE +AL +L++ Y
Sbjct: 303 VRQLEHQALAQLRRRRANVKEY 324
>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 = 234 bits (596), Expect = 1e-58, Method: Compositional matrix adjust.
Identities = 124/308 (40%), Positives = 191/308 (62%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ + +R Q+ SP++
Sbjct: 138 PTKGFKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQKLGRSPNQ 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + + ++ I R P+S+ V +QDT E+ D G+ PD + ++LM
Sbjct: 198 SEIANALDLEPSQIREYFSIARQPISLDVKVGDNQDTELSELLEDEGLS-PDKYITQELM 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + LL L +++ +VRLRFG++DGK SL+++G G+S+ERVRQLE +AL L++
Sbjct: 257 RQDLHKLLDELTTQQQEVVRLRFGLDDGKELSLAKIGQRMGISRERVRQLEQQALAHLRK 316
Query: 555 SLGGKASY 562
G Y
Sbjct: 317 KRGSVKEY 324
>gi|19910022|dbj|BAB87262.1| RNA polymerase sigma factor [Guillardia theta]
Length = 490
Score = 233 bits (594), Expect = 2e-58, Method: Compositional matrix adjust.
Identities = 116/302 (38%), Positives = 197/302 (65%), Gaps = 1/302 (0%)
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 FKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSP 432
F + G +F++YA WWV+Q + +AI HSRTIRLP ++Y +S + + R E SP
Sbjct: 249 FDSEKGFKFSTYATWWVKQAVTRAIADHSRTIRLPVHLYDTISAIRKTTRTLNIEIGRSP 308
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
+E++A ++ ++VEKL ++ + LS+++P+ D D + + E P+ V+K
Sbjct: 309 TEEEIAEKMDMSVEKLRSVLQSAQPTLSLERPLKNDDDASQLSDFIEADQESPEEHVEKS 368
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
++R + N++ L+P+ER +VR+R+G++DG+ K+L E+G IF +++ERVRQ+E++A+ +L
Sbjct: 369 MLRDDLENVINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSVTRERVRQIEAKAIRKL 428
Query: 553 KQ 554
+Q
Sbjct: 429 RQ 430
>gi|160331013|ref|XP_001712214.1| rpoD [Hemiselmis andersenii]
gi|159765661|gb|ABW97889.1| rpoD [Hemiselmis andersenii]
Length = 485
Score = 233 bits (593), Expect = 2e-58, Method: Compositional matrix adjust.
Identities = 119/327 (36%), Positives = 206/327 (62%), Gaps = 4/327 (1%)
Query: 229 QVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRL 288
++ N E K+ + L + +D +R +L +LL +EE +L +I L+
Sbjct: 107 EIINDEDERDSKSQTVRGLQKA---DDSVRWYLQLIGRVRLLRPEEEIQLAREISQLLHW 163
Query: 289 EKEKSKLQSQFGREPTLIEWAKAIGLS-CRDLKSELHSGNSSREKLINANLRLVVHVAKQ 347
E K L+ + REPT EW A +S + ++ LH+ ++E+++ ANLRLVV +AK+
Sbjct: 164 EHVKISLREKLQREPTSSEWTAACKVSDVKKFRAILHNARRAKERMVAANLRLVVSIAKR 223
Query: 348 YQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLP 407
Y RG+SL DL+QEGS+GL+++ EKF + G +F++YA WWV+Q + +AI HSRTIRLP
Sbjct: 224 YVNRGMSLQDLIQEGSLGLIRAAEKFDSEKGFKFSTYATWWVKQAVTRAIADHSRTIRLP 283
Query: 408 ENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWA 467
++Y +S + + R E SP +E++A ++ ++VEKL ++ + LS+++P+
Sbjct: 284 VHLYDTISAIRKTTRTLNIEIGRSPTEEEIAEKMDMSVEKLRSVLQSAQPTLSLERPLKN 343
Query: 468 DQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSL 527
D D + + E P+ V+K ++R + N++ L+P+ER +VR+R+G++DG+ K+L
Sbjct: 344 DDDASQLSDFIEADQESPEEHVEKSMLRDDLENVINSLSPRERDVVRMRYGLDDGRIKTL 403
Query: 528 SEVGNIFGLSKERVRQLESRALYRLKQ 554
E+G IF +++ERVRQ+E++A+ +L+Q
Sbjct: 404 EEIGQIFSVTRERVRQIEAKAIRKLRQ 430
>gi|399950016|gb|AFP65672.1| RNA-polymerase sigma factor [Chroomonas mesostigmatica CCMP1168]
Length = 485
Score = 231 bits (590), Expect = 6e-58, Method: Compositional matrix adjust.
Identities = 115/302 (38%), Positives = 197/302 (65%), Gaps = 1/302 (0%)
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 FKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSP 432
F + G +F++YA WWV+Q + +AI HSRTIRLP ++Y +S + + R E SP
Sbjct: 252 FDSEKGFKFSTYATWWVKQAVTRAIADHSRTIRLPVHLYDTISAIRKTTRTLNIEIGRSP 311
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
+E++A ++ ++VEKL ++ + LS+++P+ D D + + E P+ V+K
Sbjct: 312 TEEEIAEKMDMSVEKLRSVLQSAQPTLSLERPLKNDDDASQLSDFIEADQESPEEHVEKS 371
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
++R + N++ L+P+ER +VR+R+G++DG+ K+L E+G IF +++ERVRQ+E++A+ +L
Sbjct: 372 MLRDDLENVINSLSPRERDVVRMRYGLDDGRIKTLEEIGQIFSVTRERVRQIEAKAIRKL 431
Query: 553 KQ 554
+Q
Sbjct: 432 RQ 433
>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 = 230 bits (587), Expect = 1e-57, Method: Compositional matrix adjust.
Identities = 121/301 (40%), Positives = 187/301 (62%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G +F++YAYWW+RQ I +AI QH+RTIRLP +I L+K+ + +R Q+ SP
Sbjct: 144 DPMRGYKFSTYAYWWIRQAITRAIAQHARTIRLPIHITEKLNKIKKVQRELAQQLGRSPT 203
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
++ + + ++ + + R P+S+ V +QDT QE+ D PD + +L
Sbjct: 204 PAEIGSALELHPSQIREYLLMARHPVSLDLRVGDNQDTELQELLEDESAS-PDDYITGEL 262
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+RQ + NL+ L P++R ++ LRFG+EDG SL++VG LS+ERVRQLE +AL L+
Sbjct: 263 LRQDLNNLMAELTPQQRDVLSLRFGLEDGHEMSLAKVGERLKLSRERVRQLEHQALAHLR 322
Query: 554 Q 554
+
Sbjct: 323 R 323
>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 = 229 bits (585), Expect = 2e-57, Method: Compositional matrix adjust.
Identities = 115/307 (37%), Positives = 197/307 (64%), Gaps = 3/307 (0%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + ++ QE
Sbjct: 273 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEF 332
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDI 487
P +E++A + +T+EKL + ++P+S++ P+ ++D+ + I AD +E P+
Sbjct: 333 GRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD--IENPEQ 390
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
V K L+R+ + +L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++
Sbjct: 391 DVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFDVTRERIRQIEAK 450
Query: 548 ALYRLKQ 554
AL +L+
Sbjct: 451 ALRKLRH 457
>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 = 229 bits (585), Expect = 3e-57, Method: Compositional matrix adjust.
Identities = 123/311 (39%), Positives = 188/311 (60%), Gaps = 1/311 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +R Q+ S
Sbjct: 138 PTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRTQRELAQKLGRSATP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + + ++ + + R P+S+ V +QDT E+ D+GV PD + ++L+
Sbjct: 198 AEIALELDLEPAQIREYLSMARQPISLDVRVGDNQDTELSELLEDSGVS-PDTFITQELL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + NLL L P++R ++ LRFG+ DGK SL+++G +S+ERVRQLE +AL L++
Sbjct: 257 RQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASYGYA 565
Y A
Sbjct: 317 RRANVKEYIVA 327
>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 = 229 bits (584), Expect = 3e-57, Method: Compositional matrix adjust.
Identities = 123/311 (39%), Positives = 188/311 (60%), Gaps = 1/311 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +R Q+ S
Sbjct: 138 PTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRTQRELAQKLGRSATP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + + ++ + + R P+S+ V +QDT E+ D+GV PD + ++L+
Sbjct: 198 AEIALELELEPAQIREYLSMARQPISLDVRVGDNQDTELSELLEDSGVS-PDTFITQELL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + NLL L P++R ++ LRFG+ DGK SL+++G +S+ERVRQLE +AL L++
Sbjct: 257 RQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASYGYA 565
Y A
Sbjct: 317 RRANVKEYIVA 327
>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 = 229 bits (584), Expect = 3e-57, Method: Compositional matrix adjust.
Identities = 123/311 (39%), Positives = 188/311 (60%), Gaps = 1/311 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +R Q+ S
Sbjct: 138 PTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRTQRELAQKLGRSATP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + + ++ + + R P+S+ V +QDT E+ D+GV PD + ++L+
Sbjct: 198 AEIALELELEPAQIREYLSMARQPISLDVRVGDNQDTELSELLEDSGVS-PDTFITQELL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + NLL L P++R ++ LRFG+ DGK SL+++G +S+ERVRQLE +AL L++
Sbjct: 257 RQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASYGYA 565
Y A
Sbjct: 317 RRANVKEYIVA 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 = 229 bits (584), Expect = 3e-57, Method: Compositional matrix adjust.
Identities = 123/311 (39%), Positives = 188/311 (60%), Gaps = 1/311 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +R Q+ S
Sbjct: 138 PTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRTQRELAQKLGRSATP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + + ++ + + R P+S+ V +QDT E+ D+GV PD + ++L+
Sbjct: 198 AEIALELELEPAQIREYLSMARQPISLDVRVGDNQDTELSELLEDSGVS-PDTFITQELL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + NLL L P++R ++ LRFG+ DGK SL+++G +S+ERVRQLE +AL L++
Sbjct: 257 RQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASYGYA 565
Y A
Sbjct: 317 RRANVKEYIVA 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 = 229 bits (584), Expect = 3e-57, Method: Compositional matrix adjust.
Identities = 123/311 (39%), Positives = 188/311 (60%), Gaps = 1/311 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +R Q+ S
Sbjct: 138 PTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRTQRELAQKLGRSATP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + + ++ + + R P+S+ V +QDT E+ D+GV PD + ++L+
Sbjct: 198 AEIALELELEPAQIREYLSMARQPISLDVRVGDNQDTELSELLEDSGVS-PDTFITQELL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + NLL L P++R ++ LRFG+ DGK SL+++G +S+ERVRQLE +AL L++
Sbjct: 257 RQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASYGYA 565
Y A
Sbjct: 317 RRANVKEYIVA 327
>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 = 229 bits (584), Expect = 3e-57, Method: Compositional matrix adjust.
Identities = 123/311 (39%), Positives = 188/311 (60%), Gaps = 1/311 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +R Q+ S
Sbjct: 138 PTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRTQRELAQKLGRSATP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + + ++ + + R P+S+ V +QDT E+ D+GV PD + ++L+
Sbjct: 198 AEIALELELEPAQIREYLSMARQPISLDVRVGDNQDTELSELLEDSGVS-PDTFITQELL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + NLL L P++R ++ LRFG+ DGK SL+++G +S+ERVRQLE +AL L++
Sbjct: 257 RQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASYGYA 565
Y A
Sbjct: 317 RRANVKEYIVA 327
>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 = 229 bits (583), Expect = 3e-57, Method: Compositional matrix adjust.
Identities = 123/311 (39%), Positives = 188/311 (60%), Gaps = 1/311 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +R Q+ S
Sbjct: 138 PTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRTQRELAQKLGRSATP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + + ++ + + R P+S+ V +QDT E+ D+GV PD + ++L+
Sbjct: 198 AEIALELELEPAQIREYLSMARQPISLDVRVGDNQDTELSELLEDSGVS-PDTFITQELL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + NLL L P++R ++ LRFG+ DGK SL+++G +S+ERVRQLE +AL L++
Sbjct: 257 RQDLANLLAELTPQQREVISLRFGLSDGKELSLAKIGQRMNISRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASYGYA 565
Y A
Sbjct: 317 RRANVKEYIVA 327
>gi|407961401|dbj|BAM54641.1| RNA polymerase sigma factor [Synechocystis sp. PCC 6803]
Length = 328
Score = 229 bits (583), Expect = 4e-57, Method: Compositional matrix adjust.
Identities = 121/297 (40%), Positives = 185/297 (62%), Gaps = 1/297 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF P G +F++YAYWW
Sbjct: 92 AKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKGYKFSTYAYWW 151
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI Q RTIRLP +I L+K+ + +R Q+ S ++A+ + I ++
Sbjct: 152 IRQAITRAIAQQGRTIRLPIHITEKLNKIKKTQRELSQQLGRSATPAEVAKALEIDPSQI 211
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ ++R P+S+ V +QDT E+ D GV PD + ++ MRQ ++NLL L P+
Sbjct: 212 REYLSLSRQPISLDVRVGDNQDTELSELLEDEGVS-PDAYITQESMRQDLQNLLAELTPQ 270
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYA 565
++ ++ +RFG+ DG+ SL+++G +S+ERVRQLE++AL +LK+ A Y A
Sbjct: 271 QQAVLTMRFGLNDGQELSLAKIGQHLNISRERVRQLENQALAQLKRRRANMAEYIIA 327
>gi|86606677|ref|YP_475440.1| RNA polymerase sigma factor SigC [Synechococcus sp. JA-3-3Ab]
gi|86555219|gb|ABD00177.1| RNA polymerase sigma-70 factor family [Synechococcus sp. JA-3-3Ab]
Length = 364
Score = 228 bits (582), Expect = 5e-57, Method: Compositional matrix adjust.
Identities = 128/312 (41%), Positives = 194/312 (62%), Gaps = 16/312 (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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
++VEKF P+ G RF++YAYWW+RQ I +AI SRTIRLP +I L+K+ +A+R Q
Sbjct: 163 ERAVEKFDPKKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQ 222
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E +P ED+A + +TV ++ L+ +S++ V D+DT ++ +E D
Sbjct: 223 EKGRTPTIEDIASELEMTVPQVRELLVRVPRSVSLETKVGKDKDTELGDL-----LETDD 277
Query: 487 ISVQKQLMRQ----HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 542
IS ++ +MR+ ++ LL L +ER ++R+RFG+ DG+ SL+E+G LS+ERVR
Sbjct: 278 ISPEETMMREALHRDLQQLLADLTSRERDVIRMRFGLGDGRTYSLAEIGRALDLSRERVR 337
Query: 543 QLESRALYRLKQ 554
Q+E++AL +L+Q
Sbjct: 338 QIEAKALQKLRQ 349
>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 = 228 bits (582), Expect = 5e-57, Method: Compositional matrix adjust.
Identities = 124/373 (33%), Positives = 213/373 (57%), Gaps = 50/373 (13%)
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 EGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEA 420
EGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ +
Sbjct: 212 EGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKT 271
Query: 421 KRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADT 480
+L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 272 TKLLSQEMRRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEAD 331
Query: 481 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 540
G E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER
Sbjct: 332 G-ETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRER 390
Query: 541 VRQLESRALYRLK 553
+RQ+E++AL +L+
Sbjct: 391 IRQIEAKALRKLR 403
>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 = 228 bits (582), Expect = 5e-57, Method: Compositional matrix adjust.
Identities = 123/311 (39%), Positives = 188/311 (60%), Gaps = 1/311 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +R Q+ S
Sbjct: 138 PTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRTQRELAQKLGRSATP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + + ++ + + R P+S+ V +QDT E+ D+GV PD + ++L+
Sbjct: 198 AEIALELELEPAQIREYLSMARQPISLDVRVGDNQDTELSELLEDSGVS-PDTFITQELL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + NLL L P++R ++ LRFG+ DGK SL+++G +S+ERVRQLE +AL L++
Sbjct: 257 RQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASYGYA 565
Y A
Sbjct: 317 RRANVKEYIVA 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 = 228 bits (582), Expect = 5e-57, Method: Compositional matrix adjust.
Identities = 121/297 (40%), Positives = 185/297 (62%), Gaps = 1/297 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF P G +F++YAYWW
Sbjct: 109 AKRKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPTKGYKFSTYAYWW 168
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI Q RTIRLP +I L+K+ + +R Q+ S ++A+ + I ++
Sbjct: 169 IRQAITRAIAQQGRTIRLPIHITEKLNKIKKTQRELSQQLGRSATPAEVAKALEIDPSQI 228
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ ++R P+S+ V +QDT E+ D GV PD + ++ MRQ ++NLL L P+
Sbjct: 229 REYLSLSRQPISLDVRVGDNQDTELSELLEDEGVS-PDAYITQESMRQDLQNLLAELTPQ 287
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYA 565
++ ++ +RFG+ DG+ SL+++G +S+ERVRQLE++AL +LK+ A Y A
Sbjct: 288 QQAVLTMRFGLNDGQELSLAKIGQHLNISRERVRQLENQALAQLKRRRANMAEYIIA 344
>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 = 228 bits (582), Expect = 6e-57, Method: Compositional matrix adjust.
Identities = 120/311 (38%), Positives = 193/311 (62%), Gaps = 1/311 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ + +R Q+ S
Sbjct: 138 PTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQQLGRSATP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + +++ + ++R P+S+ V +QDT E+ D G+ PD + ++LM
Sbjct: 198 SEIAKALDLEPDQIREFLSMSRQPISLDVRVGDNQDTELSELLEDEGIS-PDNYITQELM 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ +++LL L P++R ++ LRFG++DGK SL+++G +S+ERVRQLE +AL +L++
Sbjct: 257 RQDLQDLLAELTPQQREVLSLRFGLQDGKELSLAKIGQRMNISRERVRQLEHQALSQLRR 316
Query: 555 SLGGKASYGYA 565
Y A
Sbjct: 317 RRSNVKEYIVA 327
>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 = 228 bits (581), Expect = 6e-57, Method: Compositional matrix adjust.
Identities = 114/329 (34%), Positives = 199/329 (60%), Gaps = 30/329 (9%)
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 KQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIR 405
K+Y RG+S DL+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIR
Sbjct: 181 KKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIR 240
Query: 406 LPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPV 465
LP ++Y +S++ + +L QE P +E++A R+ +T+EKL + ++P+S++ P+
Sbjct: 241 LPVHLYETISRIKKTTKLLSQELGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPI 300
Query: 466 WADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPK 525
++D+ + G E P+ V K L+R+ + +L L+P+ER ++RLR+G++DG+ K
Sbjct: 301 GKEEDSRLGDFIEADG-ETPEDKVAKNLLREDLEAVLNTLSPRERDVLRLRYGLDDGRMK 359
Query: 526 SLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+L E+G +F +++ER+RQ+E++AL +L+
Sbjct: 360 TLEEIGQLFNVTRERIRQIEAKALRKLRH 388
>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 = 228 bits (581), Expect = 7e-57, Method: Compositional matrix adjust.
Identities = 114/312 (36%), Positives = 192/312 (61%), Gaps = 2/312 (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 GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAK 421
G GL++ EKF G RF++Y++WW++Q +RK++ + ++ RLP ++ +V E
Sbjct: 344 GMQGLIRGAEKFDASKGFRFSTYSHWWIKQAMRKSVSEQTQIFRLPAHMVEASYRVKECT 403
Query: 422 RLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTG 481
+ ++ P E++A +G+ V+++E + + + +S+ + D T+QE+TAD
Sbjct: 404 KRLRRKLKRRPSNEEIAVDIGMPVKRVEAAVSLPKYSVSLDSKI-GSTDMTYQEVTADPS 462
Query: 482 VEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 541
E + + + M++ V L L+P+ER +V+LRFGI DG+ ++L E+GNI G+S+ER+
Sbjct: 463 AETAEEMLNRMSMKKDVHQALDTLSPRERQVVKLRFGINDGRIRTLQEIGNIMGVSRERI 522
Query: 542 RQLESRALYRLK 553
RQ+ES A +L+
Sbjct: 523 RQIESGAFRKLR 534
>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 = 228 bits (580), Expect = 8e-57, Method: Compositional matrix adjust.
Identities = 122/311 (39%), Positives = 188/311 (60%), Gaps = 1/311 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +R Q+ S
Sbjct: 138 PTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRTQRELAQKLGRSATP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + + ++ + + R P+S+ V +QDT E+ D+GV PD + ++L+
Sbjct: 198 AEIALELELEPAQIREYLSMARQPISLDVRVGDNQDTELSELLEDSGVS-PDTFITQELL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + NLL L P++R ++ LRFG+ DGK SL+++G +S+ERVRQLE +AL L++
Sbjct: 257 RQDLANLLAELTPQQREVITLRFGLTDGKELSLAKIGQRMNISRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASYGYA 565
Y A
Sbjct: 317 RRANVKEYIVA 327
>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 = 228 bits (580), Expect = 8e-57, Method: Compositional matrix adjust.
Identities = 123/311 (39%), Positives = 188/311 (60%), Gaps = 1/311 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ + +R Q+ SP
Sbjct: 142 PTKGFKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQKLGRSPSP 201
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + + ++ I R P+S+ V +QDT E+ D GV PD + ++LM
Sbjct: 202 NEIAEALQLEPAQIREYFSIARQPISLDVKVGDNQDTELSELLEDEGVS-PDNYITQELM 260
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ ++ LL L P+++ +VRLRFG+EDGK SL+++G +S+ERVRQLE +AL L++
Sbjct: 261 RQDLQKLLGELTPQQQQVVRLRFGLEDGKELSLAKIGQRMNISRERVRQLEQQALAHLRK 320
Query: 555 SLGGKASYGYA 565
Y A
Sbjct: 321 KRSSVKEYIVA 331
>gi|145347899|ref|XP_001418397.1| predicted protein [Ostreococcus lucimarinus CCE9901]
gi|144578626|gb|ABO96690.1| predicted protein [Ostreococcus lucimarinus CCE9901]
Length = 344
Score = 228 bits (580), Expect = 9e-57, Method: Compositional matrix adjust.
Identities = 111/303 (36%), Positives = 193/303 (63%), Gaps = 3/303 (0%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKL--QSQFGREPTLIEWAKAI 312
D +R +L + LL A +E EL +IQDL+ LE + L ++ G E T +WA A
Sbjct: 15 DSMRSYLKDIGSVTLLNAGQEVELAKRIQDLMHLESIRENLVEETGPGAEVTDYQWASAA 74
Query: 313 GLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK 372
GL+ + L L G S++ ++I ANLRLVV +AK+Y +S DL+QEG +GL++ EK
Sbjct: 75 GLNVQALHQRLRDGKSAKNEMIQANLRLVVSIAKKYANSNMSFQDLIQEGCVGLIRGAEK 134
Query: 373 FKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSP 432
F Q G +F++YA+WW+RQ + ++I SRTIRLP +++ ++S++ + ++ + +P
Sbjct: 135 FDFQRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHLFEIISRISKMEQKFALHNGRNP 194
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWAD-QDTTFQEITADTGVEIPDISVQK 491
E++A + ++ EK+ ++ + P+S+ Q + D + T ++ D E P+ K
Sbjct: 195 TTEEIAAEMDMSAEKITQIKKAAQAPVSLAQTMGGDNKGRTVEDTLVDVTAEGPEKVSGK 254
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
L+++ + N+L LNP+ER ++RLR+G++DG+ K+L E+G +F +++ER+RQ+E++AL +
Sbjct: 255 SLLKEDLENVLNTLNPRERDVLRLRYGLDDGRVKTLEEIGTVFSVTRERIRQIEAKALRK 314
Query: 552 LKQ 554
LKQ
Sbjct: 315 LKQ 317
>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 = 227 bits (579), Expect = 1e-56, Method: Compositional matrix adjust.
Identities = 118/297 (39%), Positives = 189/297 (63%), Gaps = 1/297 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F++YAYWW
Sbjct: 127 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 186
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I + I +RTIRLP +I L+K+ +A+R ++ P + +LA + IT E+L
Sbjct: 187 IRQGITRTIANDARTIRLPIHIVEKLNKLKKAQRELRRDLKRPPTEAELATVLEITEEQL 246
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLNP 507
++L+ + R LS+ V ++DT ++ D P+ + +++MRQ + +L+ +L
Sbjct: 247 QQLLQVRRQSLSLNVRVGREEDTELVDLLEDNNSRSPEAQMSERMMRQEIAEVLSEVLTE 306
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
+E+ IV LR+GIE G+ +L EVGNIF LS+ERVRQ+++RA+ +L++ + G+
Sbjct: 307 REKEIVCLRYGIETGETHTLEEVGNIFNLSRERVRQIQTRAMRKLRRPQVARRLQGW 363
>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 = 227 bits (579), Expect = 1e-56, Method: Compositional matrix adjust.
Identities = 115/306 (37%), Positives = 200/306 (65%), Gaps = 6/306 (1%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE
Sbjct: 207 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKVTKLLSQEL 266
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDIS 488
P +E++A R+ IT+EKL + ++P+S++ P+ ++D+ + G E P+
Sbjct: 267 GRKPTEEEIATRMEITIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDG-ETPEDR 325
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
V K L+R+ + ++L L +ER +++LR+G++DG+ K+L E+G IF +++ER+RQ+E++A
Sbjct: 326 VAKVLLREDLESVLETLTARERDVLKLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKA 385
Query: 549 LYRLKQ 554
L +L+
Sbjct: 386 LRKLRH 391
>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 = 227 bits (579), Expect = 1e-56, Method: Compositional matrix adjust.
Identities = 119/311 (38%), Positives = 191/311 (61%), Gaps = 1/311 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ + +R Q+ S
Sbjct: 138 PTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQQLGRSATP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + ++R P+S+ V +QDT E+ D G+ PD + ++LM
Sbjct: 198 AEIAKALDLEPAQIREFLSMSRQPISLDVRVGDNQDTELSELLEDEGIS-PDNYITQELM 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + +LL L P++R ++ LRFG++DGK SL+++G +S+ERVRQLE +AL +L++
Sbjct: 257 RQDLHDLLAELTPQQREVLSLRFGLQDGKELSLAKIGQRMNISRERVRQLEHQALSQLRR 316
Query: 555 SLGGKASYGYA 565
Y A
Sbjct: 317 RRSNVKEYIVA 327
>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 = 227 bits (578), Expect = 1e-56, Method: Compositional matrix adjust.
Identities = 115/306 (37%), Positives = 200/306 (65%), Gaps = 6/306 (1%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + + QE
Sbjct: 208 AAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKVTKQLSQEL 267
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDIS 488
P +E++A R+ IT+EKL + ++P+S++ P+ ++D+ + G E P+
Sbjct: 268 GRRPTEEEIATRMEITIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESEG-ETPEER 326
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
V K L+R+ + ++L L P+ER +++LR+G++DG+ K+L E+G IF +++ER+RQ+E++A
Sbjct: 327 VAKVLLREDLESVLETLTPRERDVLKLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKA 386
Query: 549 LYRLKQ 554
L +L+
Sbjct: 387 LRKLRH 392
>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 = 226 bits (577), Expect = 2e-56, Method: Compositional matrix adjust.
Identities = 118/300 (39%), Positives = 189/300 (63%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ + +R Q+ S
Sbjct: 138 PTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELAQQLGRSATP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + + R P+S+ V +QDT ++ D G+ PD + ++L+
Sbjct: 198 GEIAQALDLEPAQIREYLSMARQPVSLDVRVGDNQDTELSDLLEDEGIS-PDNYITQELL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + NL+ L P++R ++ LRFG+EDGK SL+++G +S+ERVRQLE +AL +L++
Sbjct: 257 RQDLNNLMAELTPQQREVLSLRFGLEDGKELSLAKIGQRLNISRERVRQLEHQALAQLRR 316
>gi|308804840|ref|XP_003079732.1| SigA (ISS) [Ostreococcus tauri]
gi|116058189|emb|CAL53378.1| SigA (ISS) [Ostreococcus tauri]
Length = 525
Score = 226 bits (577), Expect = 2e-56, Method: Compositional matrix adjust.
Identities = 111/303 (36%), Positives = 192/303 (63%), Gaps = 3/303 (0%)
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 FKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSP 432
F Q G +F++YA+WW+RQ + ++I SRTIRLP +++ ++S++ + ++ + P
Sbjct: 321 FDFQRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHLFEIISRISKMEQKFALYNGRPP 380
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWA-DQDTTFQEITADTGVEIPDISVQK 491
E++A + ++VEK+ ++ + P+S+ Q + ++ T ++ D E P+ K
Sbjct: 381 TLEEIASEMEMSVEKITQIKKAAQAPVSLAQTMGGENKGRTIEDTLIDANAEGPEKVSGK 440
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
L+++ + N+L LNP+ER ++RLR+G++DG+ K+L E+G +F +++ER+RQ+E++AL +
Sbjct: 441 SLLKEDLENVLNTLNPRERDVLRLRYGLDDGRVKTLEEIGTVFSVTRERIRQIEAKALRK 500
Query: 552 LKQ 554
LKQ
Sbjct: 501 LKQ 503
>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 = 226 bits (576), Expect = 2e-56, Method: Compositional matrix adjust.
Identities = 116/308 (37%), Positives = 187/308 (60%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++Y YWW+RQ I +AI + RTIRLP +I L+K+ +R Q+ +P
Sbjct: 143 PTKGYKFSTYGYWWIRQAITRAIAEQGRTIRLPIHITEKLNKIKRIQRELTQKLGRTPTA 202
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
D+A + + +++ + + R P+S++ V +D+D Q++ D G+ P++ + +
Sbjct: 203 VDIAEELSLDPKQIRDYLLLARQPVSLELRVGSDKDIELQDMLEDNGLS-PELYADHKFL 261
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+Q+++NLL+ LNP++R I+ RFG+ DG SL+E+G G+S+ERVRQ+E +AL L++
Sbjct: 262 QQNIQNLLSKLNPQQRQILTFRFGLTDGNELSLAEIGQRMGISRERVRQIEQQALGSLRR 321
Query: 555 SLGGKASY 562
SY
Sbjct: 322 HKDKIHSY 329
>gi|449499005|ref|XP_004160694.1| PREDICTED: LOW QUALITY PROTEIN: RNA polymerase sigma factor
sigB-like [Cucumis sativus]
Length = 286
Score = 226 bits (575), Expect = 3e-56, Method: Compositional matrix adjust.
Identities = 103/270 (38%), Positives = 177/270 (65%)
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 VAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 403
+ K YQG G++L DL+QEG GL++ EKF G +F++YA+WW++Q +RK + SRT
Sbjct: 63 IXKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKFLSDQSRT 122
Query: 404 IRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQ 463
IRLP ++ +V EA++ + E PD +++A G+++++L ++ + P S++Q
Sbjct: 123 IRLPFHMVEATYRVKEARKQLLHENGRHPDDKEIAEAAGLSMKRLAAVLMTPKAPRSLEQ 182
Query: 464 PVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGK 523
+ +Q+ E+ +D E + + KQ M+Q + +L LNP+E+ ++R RFG+EDG+
Sbjct: 183 KIGINQNLKPSEVISDPEAETCEDMLIKQFMKQDLEKVLDSLNPREKQVIRWRFGMEDGR 242
Query: 524 PKSLSEVGNIFGLSKERVRQLESRALYRLK 553
K+L E+G I G+S+ER+RQ+ES A +LK
Sbjct: 243 MKTLQEIGEIMGVSRERIRQIESCAFRKLK 272
>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 = 225 bits (574), Expect = 4e-56, Method: Compositional matrix adjust.
Identities = 123/316 (38%), Positives = 193/316 (61%), Gaps = 3/316 (0%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEG++GL + VEKF P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+
Sbjct: 122 IQEGTLGLERGVEKFDPTMGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIK 181
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ +R Q+ SP ++A+ + + ++ + I R P+S+ V +QDT QE+
Sbjct: 182 KVQRELAQKLGRSPSPTEIAKELELEPAQIREYLNIARQPISLDVRVGDNQDTELQEMLE 241
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
D G+ P+ ++ +R + NLL L P++R +V LRFG+EDG SL++VG+ +S+
Sbjct: 242 DDGLS-PEHYTTQEFLRHDLNNLLAELTPQQREVVTLRFGLEDGNEMSLAKVGDRLNISR 300
Query: 539 ERVRQLESRALYRLKQ 554
ERVRQLE +AL L++
Sbjct: 301 ERVRQLEHQALTHLRR 316
>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 = 225 bits (574), Expect = 4e-56, Method: Compositional matrix adjust.
Identities = 123/359 (34%), Positives = 209/359 (58%), Gaps = 49/359 (13%)
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 FGREPTLIEWAKAI----------------GLSCRDLKSELHSGNS-------------- 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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +
Sbjct: 235 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMRRKPTE 294
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E++A ++ +T+EKL + ++P+S++ P+ ++D+ + G E P+ V K L+
Sbjct: 295 EEIAEKMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADG-ETPEDEVSKNLL 353
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 354 REDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 412
>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 = 225 bits (573), Expect = 5e-56, Method: Compositional matrix adjust.
Identities = 118/345 (34%), Positives = 203/345 (58%), Gaps = 47/345 (13%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
+++K++++NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F++YA WW
Sbjct: 180 AKDKMVHSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 239
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI SRTIRLP ++Y +S++ + +L QE P +E++A R+ +T+EKL
Sbjct: 240 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMRRKPTEEEIATRMEMTIEKL 299
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ ++P+S++ P+ ++D+ + G E P+ V K L+R+ + N+L L+P+
Sbjct: 300 RFIAKSAQLPISLETPIGKEEDSRLGDFIEADG-ETPEDEVSKNLLREDLENVLDTLSPR 358
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
ER ++RLR+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 359 ERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 403
>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 = 224 bits (572), Expect = 7e-56, Method: Compositional matrix adjust.
Identities = 117/300 (39%), Positives = 188/300 (62%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R QE +
Sbjct: 129 PTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQEKGRAATI 188
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
+LA + +T ++ + R PLS+ V +QDT ++ DTG D + L
Sbjct: 189 AELAEELELTPRQVREYLERARQPLSLDLRVGDNQDTELGDLLEDTGQSPEDYATHSSL- 247
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ + L+ L P+++ ++ LRFG+ DGKP +L+++G+I +S+ERVRQ+E AL +L++
Sbjct: 248 QLDLDRLMEELTPQQKEVLALRFGLSDGKPLTLAKIGSILNISRERVRQIEREALAKLRK 307
>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 = 224 bits (570), Expect = 1e-55, Method: Compositional matrix adjust.
Identities = 128/312 (41%), Positives = 195/312 (62%), Gaps = 16/312 (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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
++VEKF P+ G RF++YAYWW+RQ I +AI SRTIRLP +I L+K+ +A+R Q
Sbjct: 165 ERAVEKFDPKKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQ 224
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E +P ED+A + +T ++ L+ +S++ V D+DT ++ +E D
Sbjct: 225 EKGRTPTIEDIASELEMTPPQVRELLVRVPRSVSLETKVGKDKDTELGDL-----LETDD 279
Query: 487 ISVQKQLMRQ----HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 542
IS ++ +MR+ ++ LL+ L +ER ++R+RFG+ DG+ SL+E+G LS+ERVR
Sbjct: 280 ISPEETMMREALHRDLQQLLSDLTSRERDVIRMRFGLGDGRTYSLAEIGRALDLSRERVR 339
Query: 543 QLESRALYRLKQ 554
Q+E++AL +L+Q
Sbjct: 340 QIEAKALQKLRQ 351
>gi|406920079|gb|EKD58207.1| hypothetical protein ACD_57C00003G0002 [uncultured bacterium]
Length = 448
Score = 223 bits (569), Expect = 1e-55, Method: Compositional matrix adjust.
Identities = 115/308 (37%), Positives = 195/308 (63%), Gaps = 9/308 (2%)
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 LMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYI 425
LM++VEKF + G +F++YA WW+RQ I +A+ SRTIR+P ++ ++K +R
Sbjct: 249 LMRAVEKFDWRRGFKFSTYATWWIRQAITRALADQSRTIRIPVHMVETINKYKRIERELE 308
Query: 426 QEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIP 485
Q+ P E++++ +GI +EK + ++ I++ S++ PV ++DT +E D P
Sbjct: 309 QKYERPPTAEEVSKEMGIEIEKAQEILKISQDTTSLETPVGKEEDTRLKEFIPDEVGLSP 368
Query: 486 DISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 545
S ++L++ H+ +L LNP+ER ++ LRFG++DG+ ++L EVG FG+++ER+RQ+E
Sbjct: 369 FESASQELLKGHINEVLDTLNPRERKVLELRFGLKDGRSRTLEEVGRDFGVTRERIRQIE 428
Query: 546 SRALYRLK 553
++AL +L+
Sbjct: 429 AKALRKLR 436
>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 = 223 bits (569), Expect = 1e-55, Method: Compositional matrix adjust.
Identities = 119/300 (39%), Positives = 181/300 (60%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+ +R Q +P
Sbjct: 138 PTKGFKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKRTQRELSQRLGRNPSP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++AR + + ++ + + R P+S+ V +QDT E+ D V PD + ++L+
Sbjct: 198 SEIARELELQPAQIREYLSVARQPISLDVRVGDNQDTELSELLEDDSVS-PDKYITQELL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ +R LL L P+++ ++ LRFG+EDGK SL+++G LS+ERVRQLE +AL L++
Sbjct: 257 RQDLRMLLDELTPQQQQVISLRFGLEDGKEMSLAKIGKQLNLSRERVRQLEHQALAHLRK 316
>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 = 223 bits (569), Expect = 2e-55, Method: Compositional matrix adjust.
Identities = 123/316 (38%), Positives = 193/316 (61%), Gaps = 3/316 (0%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEG++GL + VEKF P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+
Sbjct: 122 IQEGTLGLERGVEKFDPTMGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIK 181
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+ +R Q+ SP ++A+ + + ++ + I R P+S+ V +QDT QE+
Sbjct: 182 KVQRELAQKLGRSPSPTEIAKELELEPAQIREYLNIARQPISLDVRVGDNQDTELQEMLE 241
Query: 479 DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSK 538
D G+ P+ ++ +R + NLL L P++R +V LRFG+EDG SL++VG+ +S+
Sbjct: 242 DHGLS-PEHYTTQEFLRHDLNNLLAELTPQQREVVILRFGLEDGNEMSLAKVGDRLNISR 300
Query: 539 ERVRQLESRALYRLKQ 554
ERVRQLE +AL L++
Sbjct: 301 ERVRQLEHQALTHLRR 316
>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 = 223 bits (569), Expect = 2e-55, Method: Compositional matrix adjust.
Identities = 124/322 (38%), Positives = 192/322 (59%), Gaps = 1/322 (0%)
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 EGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEA 420
EGS+GL + VEKF P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +
Sbjct: 124 EGSLGLERGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKT 183
Query: 421 KRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADT 480
+R Q+ S ++A + I ++ + + R P+S+ V +QDT E+ D
Sbjct: 184 QRELSQKLGRSATPAEIAAVLEIEPSQIRECLSMARQPISLDVRVGDNQDTELSELLEDH 243
Query: 481 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 540
PD + ++L+RQ ++NL+ L P++R ++ LRFG+EDGK SL+++G +S+ER
Sbjct: 244 EAS-PDQYITQELLRQDLKNLMEELTPQQRSVLILRFGLEDGKELSLAKIGKKLNISRER 302
Query: 541 VRQLESRALYRLKQSLGGKASY 562
VRQLE +AL +L++ Y
Sbjct: 303 VRQLEHQALAQLRRRRANVKEY 324
>gi|255076341|ref|XP_002501845.1| predicted protein [Micromonas sp. RCC299]
gi|226517109|gb|ACO63103.1| predicted protein [Micromonas sp. RCC299]
Length = 595
Score = 223 bits (567), Expect = 2e-55, Method: Compositional matrix adjust.
Identities = 113/320 (35%), Positives = 202/320 (63%), Gaps = 4/320 (1%)
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 LLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKV 417
L+QEG +GL++ EKF + G +F++YA+WW+RQ + ++I SRTIRLP +++ ++S++
Sbjct: 374 LIQEGCVGLIRGAEKFDFKRGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHLFEIISRM 433
Query: 418 LEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPV---WADQDTTFQ 474
+ +R + + P E+LA + +TVEK++++ + +P+S+ Q V + T +
Sbjct: 434 SKVERQMVLKLGRDPTHEELADAMEMTVEKIKQIKKASLVPISLSQTVNNSNGEDKRTVE 493
Query: 475 EITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIF 534
+ D E P+ K L+++ + N+L LNP+ER ++RLR+G++DG+ K+L E+GN+F
Sbjct: 494 DTLIDDYTEHPEGETGKVLLKEDLENVLNTLNPRERDVLRLRYGLDDGRVKTLEEIGNVF 553
Query: 535 GLSKERVRQLESRALYRLKQ 554
+++ER+RQ+E++AL +L+Q
Sbjct: 554 SVTRERIRQIEAKALRKLRQ 573
>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 = 223 bits (567), Expect = 3e-55, Method: Compositional matrix adjust.
Identities = 119/308 (38%), Positives = 186/308 (60%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+ + +R Q+ SP
Sbjct: 138 PTRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKLGRSPIP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + + R P+S+ V +QDT QE+ D G P+ ++ +
Sbjct: 198 SEIAKELDLEPAQIREYLNMARQPVSLDVRVGDNQDTELQEMLEDDGPS-PEYYTTQEFL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + NLL L P++R ++ LRFG+ DG SL++VG LS+ERVRQLE +AL L++
Sbjct: 257 RQDLNNLLAELTPQQRQVLALRFGLSDGNEMSLAKVGERLSLSRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASY 562
Y
Sbjct: 317 RRANVKEY 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 = 223 bits (567), Expect = 3e-55, Method: Compositional matrix adjust.
Identities = 112/286 (39%), Positives = 182/286 (63%), Gaps = 1/286 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ +++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF++YAYWW
Sbjct: 63 AKHRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPSKGYRFSTYAYWW 122
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + SRTIRLP +I L+K+ +A+R + Q+ +P ++A+ G T++++
Sbjct: 123 IRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQFTQQHGRTPTASEIAQATGFTIKQV 182
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ +R PLS+ V +QDT ++ D G + PD ++ ++ ++ L P+
Sbjct: 183 REYLDRSRQPLSLDLKVGDNQDTQLGDLLEDDG-QTPDDYATASSLKSDLKRIMADLTPQ 241
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ ++ LRFG+EDGK +L+++G + +S+ERVRQ+E AL +L++
Sbjct: 242 QQQVIALRFGLEDGKNMTLAKIGAMLDISRERVRQIEREALTKLRK 287
>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 = 222 bits (566), Expect = 3e-55, Method: Compositional matrix adjust.
Identities = 117/339 (34%), Positives = 201/339 (59%), Gaps = 40/339 (11%)
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 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRK 395
+NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F++YA WW+RQ I +
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITR 246
Query: 396 AIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFIT 455
AI SRTIRLP ++Y +S++ + ++ QE P +E++A ++ +T+EKL +
Sbjct: 247 AIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKLRFIAKSA 306
Query: 456 RMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRL 515
++P+S++ P+ ++D+ + G E P+ V K L+R+ + N+L L+P+ER ++RL
Sbjct: 307 QLPISLETPIGKEEDSRLGDFIEADG-ETPEDEVSKNLLREDLENVLDTLSPRERDVLRL 365
Query: 516 RFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 366 RYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRH 404
>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 = 222 bits (566), Expect = 4e-55, Method: Compositional matrix adjust.
Identities = 115/301 (38%), Positives = 188/301 (62%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q+ +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQKGRTAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + +R P+S+ V + DT ++ DTG D + L
Sbjct: 188 ISELAEELELTPKQVREYLEKSRQPISLDVRVGDNNDTELGDMLEDTGASPEDYATYSSL 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R+ + L+T L P++R ++ LRFG+ DGKP +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 248 -RKDLDKLMTDLTPQQREVISLRFGLSDGKPLTLAKIGDCLNISRERVRQIEREALAKLR 306
Query: 554 Q 554
+
Sbjct: 307 K 307
>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 = 222 bits (565), Expect = 5e-55, Method: Compositional matrix adjust.
Identities = 123/322 (38%), Positives = 192/322 (59%), Gaps = 1/322 (0%)
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 EGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEA 420
EGS+GL + VEKF P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +
Sbjct: 124 EGSLGLERGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKT 183
Query: 421 KRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADT 480
+R Q+ S ++A + I ++ + + R P+S+ V +QDT E+ D
Sbjct: 184 QRELSQKLGRSATPAEIAAVLEIEPSQIRECLSMARQPISLDVRVGDNQDTELSELLEDH 243
Query: 481 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 540
PD + ++L+RQ ++NL+ L P++R ++ LRFG+EDGK SL+++G +S+ER
Sbjct: 244 EAS-PDQYITQELLRQDLKNLMEELTPQQRSVLILRFGLEDGKELSLAKIGKKLNISRER 302
Query: 541 VRQLESRALYRLKQSLGGKASY 562
VRQLE +AL +L++ Y
Sbjct: 303 VRQLEHQALAQLRRRRANVKEY 324
>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 = 222 bits (565), Expect = 5e-55, Method: Compositional matrix adjust.
Identities = 121/308 (39%), Positives = 188/308 (61%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q S
Sbjct: 129 PTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQANGRSASI 188
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
+LA +G+T +++ + +R PLS+ V + DT E+ D G+ D + L
Sbjct: 189 PELADELGLTTKQVRDYLEKSRQPLSLDLRVGDNNDTELIELLEDDGLTPDDYATHAALK 248
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R R +L L +++ ++ LRFG+ DG P +L+++G +S+ERVRQ+E AL +L++
Sbjct: 249 RDLAR-MLNDLTAQQQEVLTLRFGLRDGTPHTLAKIGEHLSISRERVRQIEREALAKLRK 307
Query: 555 SLGGKASY 562
Y
Sbjct: 308 RKAEMGEY 315
>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 = 222 bits (565), Expect = 5e-55, Method: Compositional matrix adjust.
Identities = 123/330 (37%), Positives = 195/330 (59%), Gaps = 3/330 (0%)
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 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYT 412
+ DL+QEG++GL + VEKF P G +F++YAYWW+RQ I +AI Q +RTIRLP +I
Sbjct: 123 LEFLDLIQEGTLGLERGVEKFDPMRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITE 182
Query: 413 LLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTT 472
L+K+ + +R Q SP ++ + + ++ + + R P+S+ V +QDT
Sbjct: 183 KLNKIKKVQRELTQNLGRSPSPSEIGEALELEPAQIREYLLMARQPVSLDLRVGDNQDTE 242
Query: 473 FQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGN 532
Q++ D P+ + ++L+R+ + +LL L ++R ++ LRFG++DG+ SL++VG
Sbjct: 243 LQDLLEDADAS-PENYITQELLREDLESLLAELTTQQRDVIILRFGLKDGRELSLAKVGE 301
Query: 533 IFGLSKERVRQLESRALYRLKQSLGGKASY 562
LS+ERVRQLE +AL L++ Y
Sbjct: 302 KLSLSRERVRQLEHQALAHLRRRRANVQEY 331
>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 = 221 bits (564), Expect = 6e-55, Method: Compositional matrix adjust.
Identities = 112/288 (38%), Positives = 187/288 (64%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 126 VAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 185
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R Q +P + +LA+ + IT ++
Sbjct: 186 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRTLKQTLQRNPTEAELAQELDITADQ 245
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLN 506
L +L+ + R LS+ V +DT ++ D G+++P+ + + +MRQ + ++L +L
Sbjct: 246 LHQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDGLQLPEERMSEAMMRQELWDVLGDVLT 305
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++S+A+ +L++
Sbjct: 306 DREKEVIALRYGLSSEQPHTLEEVGGMFNLSRERVRQIQSKAMRKLRR 353
>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 = 221 bits (564), Expect = 6e-55, Method: Compositional matrix adjust.
Identities = 117/339 (34%), Positives = 201/339 (59%), Gaps = 40/339 (11%)
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 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRK 395
+NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F++YA WW+RQ I +
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITR 246
Query: 396 AIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFIT 455
AI SRTIRLP ++Y +S++ + ++ QE P +E++A ++ +T+EKL +
Sbjct: 247 AIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKLRFIAKSA 306
Query: 456 RMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRL 515
++P+S++ P+ ++D+ + G E P+ V K L+R+ + N+L L+P+ER ++RL
Sbjct: 307 QLPISLETPIGKEEDSRLGDFIEADG-ETPEDEVSKNLLREDLENVLDTLSPRERDVLRL 365
Query: 516 RFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 366 RYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRH 404
>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 = 221 bits (564), Expect = 6e-55, Method: Compositional matrix adjust.
Identities = 117/286 (40%), Positives = 183/286 (63%), Gaps = 1/286 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I ANLRLVV +AK+YQ R + DL+QEGS+GL + VEKF P G +F++YAYWW
Sbjct: 93 AKSKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGSLGLERGVEKFDPMKGYKFSTYAYWW 152
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI Q +RTIRLP +I L+K+ + +R Q+ +P+ ++A + + ++
Sbjct: 153 IRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQKLGRNPNPREIAAELELETSQI 212
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ I R P+S+ V +QDT E+ D G+ PD ++L+RQ + NL+ L P
Sbjct: 213 REYLSIARQPISLDVRVGDNQDTELSELLEDDGIS-PDKYATQELLRQDLYNLMADLTPP 271
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+R ++ LRFG+EDGK SL+++G LS+ERVRQLE +AL +L++
Sbjct: 272 QREVISLRFGLEDGKELSLAKIGQRMSLSRERVRQLEHQALAQLRR 317
>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 = 221 bits (564), Expect = 6e-55, Method: Compositional matrix adjust.
Identities = 125/377 (33%), Positives = 215/377 (57%), Gaps = 54/377 (14%)
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 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEGS+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S+
Sbjct: 212 DLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISR 271
Query: 417 VLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEI 476
+ + +L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ +
Sbjct: 272 IKKTTKLLSQEMRRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDF 331
Query: 477 TADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 536
G E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +
Sbjct: 332 IEADG-ETPEDEVAKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNV 390
Query: 537 SKERVRQLESRALYRLK 553
++ER+RQ+E++AL +L+
Sbjct: 391 TRERIRQIEAKALRKLR 407
>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 = 221 bits (564), Expect = 6e-55, Method: Compositional matrix adjust.
Identities = 119/308 (38%), Positives = 182/308 (59%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+ + +R Q+ SP
Sbjct: 138 PMRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKLGRSPTP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + + R P+S+ V +QDT QE+ D G P+ ++ +
Sbjct: 198 TEIAKELELEPAQIREYLNMARQPVSLDVRVGDNQDTELQEMLEDDGPS-PEYYTTQEFL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + NLL L P++R +V LRFG+EDG SL++VG LS+ERVRQLE +AL L++
Sbjct: 257 RQDLNNLLAELTPQQREVVALRFGLEDGNELSLAKVGERLNLSRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASY 562
Y
Sbjct: 317 RRANVKEY 324
>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 = 221 bits (564), Expect = 7e-55, Method: Compositional matrix adjust.
Identities = 117/301 (38%), Positives = 185/301 (61%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q+
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRKLAQQKGRMAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + +R P+S+ V + DT ++ D G D + L
Sbjct: 188 IAELAEELELTPKQVRDYLEKSRQPISLDVKVGDNNDTELGDMLVDMGQSPEDYATSSSL 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R+ + L++ L P+++ ++ LRFG+ DGKP +L+++G +S+ERVRQ+E AL +L+
Sbjct: 248 -RKDLSRLMSELTPQQQEVISLRFGLRDGKPLTLAKIGTFLSISRERVRQIEREALTKLR 306
Query: 554 Q 554
Q
Sbjct: 307 Q 307
>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 = 221 bits (564), Expect = 7e-55, Method: Compositional matrix adjust.
Identities = 115/285 (40%), Positives = 182/285 (63%), Gaps = 1/285 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
+++K+I ANLRLVV VAK+YQ R + DL+QEG++GL + VEKF P G RF++YAYWW
Sbjct: 99 AKQKMIEANLRLVVAVAKKYQKRNLDFLDLIQEGTLGLERGVEKFDPTRGFRFSTYAYWW 158
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ + +AI Q SRTIRLP ++ L+K+ +R Q+ +P ++A + + E++
Sbjct: 159 IRQGVTRAIAQQSRTIRLPIHMTEKLNKIKRTQRELSQKLGRTPTSIEIAEAIDLQPEQV 218
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ + R P+S++ + +QDT Q I D G+ +P+ ++ +R+ V+N+L+ L +
Sbjct: 219 RECLLLARHPISLEARIGDEQDTELQNILQDDGL-LPESYAVRESIRESVQNILSKLPTQ 277
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+R I+ LRFG+ DG SL+++G G+S+ERVRQLE +A L+
Sbjct: 278 QREILTLRFGLADGNELSLAQIGQRMGISRERVRQLEQQAFSFLR 322
>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 = 221 bits (563), Expect = 7e-55, Method: Compositional matrix adjust.
Identities = 123/371 (33%), Positives = 212/371 (57%), Gaps = 48/371 (12%)
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 SMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR 422
S+GL+++ EKF + G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +
Sbjct: 212 SLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTK 271
Query: 423 LYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGV 482
L QE P +E++A R+ +T+EKL + ++P+S++ P+ ++D+ + G
Sbjct: 272 LLSQEMRRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADG- 330
Query: 483 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 542
E P+ V K L+R+ + N+L L+P+ER ++RLR+G++DG+ K+L E+G IF +++ER+R
Sbjct: 331 ETPEDEVSKNLLREDLENVLDTLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIR 390
Query: 543 QLESRALYRLK 553
Q+E++AL +L+
Sbjct: 391 QIEAKALRKLR 401
>gi|357156833|ref|XP_003577591.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Brachypodium
distachyon]
Length = 552
Score = 221 bits (563), Expect = 8e-55, Method: Compositional matrix adjust.
Identities = 105/293 (35%), Positives = 184/293 (62%), Gaps = 1/293 (0%)
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 FASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARR 440
F++Y++WW++Q +RK++ + ++ RLP ++ +V E R + P E++A
Sbjct: 363 FSTYSHWWIKQAMRKSVSEQTQIFRLPAHMVEASYRVKECTRRLRRTLQRRPSNEEIAVD 422
Query: 441 VGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRN 500
+G+ V+++E + + + +S+ + D ++QE+TAD E + + + M++ V
Sbjct: 423 IGMPVKRVEAAVNLPKYSVSLDSKI-GTTDMSYQEVTADPSAETAEEMLNRMSMKKDVHQ 481
Query: 501 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
L L P+ER +V+LRFG++DG+ ++L E+GNI G+S+ER+RQ+E+ A +L+
Sbjct: 482 ALDALGPRERQVVKLRFGLDDGRIRTLQEIGNIMGVSRERIRQIEAGAFRKLR 534
>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 = 221 bits (563), Expect = 8e-55, Method: Compositional matrix adjust.
Identities = 117/339 (34%), Positives = 201/339 (59%), Gaps = 40/339 (11%)
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 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRK 395
+NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F++YA WW+RQ I +
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITR 246
Query: 396 AIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFIT 455
AI SRTIRLP ++Y +S++ + ++ QE P +E++A ++ +T+EKL +
Sbjct: 247 AIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKLRFIAKSA 306
Query: 456 RMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRL 515
++P+S++ P+ ++D+ + G E P+ V K L+R+ + N+L L+P+ER ++RL
Sbjct: 307 QLPISLETPIGKEEDSRLGDFIEADG-ETPEDEVSKNLLREDLENVLDTLSPRERDVLRL 365
Query: 516 RFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 366 RYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRH 404
>gi|169883526|gb|ACA97858.1| RNA polymerase sigma factor [Microcystis aeruginosa PCC 7820]
Length = 416
Score = 221 bits (563), Expect = 8e-55, Method: Compositional matrix adjust.
Identities = 117/339 (34%), Positives = 201/339 (59%), Gaps = 40/339 (11%)
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 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRK 395
+NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F++YA WW+RQ I +
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITR 246
Query: 396 AIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFIT 455
AI SRTIRLP ++Y +S++ + ++ QE P +E++A ++ +T+EKL +
Sbjct: 247 AIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKLRFIAKSA 306
Query: 456 RMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRL 515
++P+S++ P+ ++D+ + G E P+ V K L+R+ + N+L L+P+ER ++RL
Sbjct: 307 QLPISLETPIGKEEDSRLGDFIEADG-ETPEDEVSKNLLREDLENVLDTLSPRERDVLRL 365
Query: 516 RFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 366 RYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRH 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 = 221 bits (563), Expect = 8e-55, Method: Compositional matrix adjust.
Identities = 117/339 (34%), Positives = 201/339 (59%), Gaps = 40/339 (11%)
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 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRK 395
+NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F++YA WW+RQ I +
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITR 246
Query: 396 AIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFIT 455
AI SRTIRLP ++Y +S++ + ++ QE P +E++A ++ +T+EKL +
Sbjct: 247 AIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKLRFIAKSA 306
Query: 456 RMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRL 515
++P+S++ P+ ++D+ + G E P+ V K L+R+ + N+L L+P+ER ++RL
Sbjct: 307 QLPISLETPIGKEEDSRLGDFIEADG-ETPEDEVSKNLLREDLENVLDTLSPRERDVLRL 365
Query: 516 RFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 366 RYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRH 404
>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 = 221 bits (563), Expect = 9e-55, Method: Compositional matrix adjust.
Identities = 120/308 (38%), Positives = 182/308 (59%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+ + +R Q SP
Sbjct: 138 PMRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQTLGRSPTP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + + R P+S+ V +QDT QE+ D G P+ ++ +
Sbjct: 198 AEIAKELELEPAQIREYLNMARQPVSLDVRVGDNQDTELQEMLEDDGPS-PEYYTTQEFL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + LL L P++R +V LRFG+EDG SL++VG LS+ERVRQLE +AL L++
Sbjct: 257 RQDLNTLLAELTPQQREVVALRFGLEDGNELSLAKVGERLNLSRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASY 562
Y
Sbjct: 317 RRANVKEY 324
>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 = 221 bits (562), Expect = 9e-55, Method: Compositional matrix adjust.
Identities = 119/308 (38%), Positives = 186/308 (60%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+ + +R Q+ SP
Sbjct: 138 PTRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKLGRSPSP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + + R P+S+ V +QDT QE+ D G + P+ + ++ +
Sbjct: 198 AEIAQELELEPAQIREYLNMARQPVSLDVKVGDNQDTELQEMLEDEG-QSPEYYMTQEFL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + NLL+ L P++R ++ LRFG+EDG SL++VG LS+ERVRQLE +AL L++
Sbjct: 257 RQDLNNLLSELTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASY 562
Y
Sbjct: 317 RRANVKEY 324
>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 = 221 bits (562), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 119/309 (38%), Positives = 193/309 (62%), Gaps = 1/309 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q+ +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + +R PLS+ V +QDT E+ DTG+ D + L
Sbjct: 188 IAELAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGELLEDTGLSPEDYTAYSSL 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + L+ L P+++ ++ LRFG+++G+P +L+++G +S+ERVRQ+E A+ +L+
Sbjct: 248 -QVDLEKLMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLR 306
Query: 554 QSLGGKASY 562
+ G Y
Sbjct: 307 KRKGNIREY 315
>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 = 221 bits (562), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 119/300 (39%), Positives = 183/300 (61%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ + +R Q+ SP+
Sbjct: 138 PMRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKVQRELAQKLGRSPNA 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + + ++ + + R P+S+ V +QDT Q++ D G PD + ++ +
Sbjct: 198 NEIAIALELEPAQIREYLNLARQPVSLDIRVGDNQDTELQDLLEDDGPS-PDHFMTQEAL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + NLL L P++R +V LRFG+ DG SL++VG LS+ERVRQLE +AL L++
Sbjct: 257 RQDIDNLLAELTPQQRSVVSLRFGLVDGNELSLAKVGERLNLSRERVRQLEHQALAHLRR 316
>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 = 221 bits (562), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 116/339 (34%), Positives = 201/339 (59%), Gaps = 40/339 (11%)
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 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRK 395
+NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F++YA WW+RQ I +
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITR 246
Query: 396 AIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFIT 455
AI SRTIRLP ++Y +S++ + ++ QE P +E++A ++ +T+EKL +
Sbjct: 247 AIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKLRFIAKSA 306
Query: 456 RMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRL 515
++P+S++ P+ ++D+ + G E P+ V K L+R+ + N+L L+P+ER ++RL
Sbjct: 307 QLPISLETPIGKEEDSRLGDFIEADG-ETPEDEVSKNLLREDLENVLDTLSPRERDVLRL 365
Query: 516 RFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 366 RYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRH 404
>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 = 221 bits (562), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 119/301 (39%), Positives = 191/301 (63%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q+ +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + +R PLS+ V +QDT E+ DTG+ D + L
Sbjct: 188 IAELAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGELLEDTGLSPEDYTAYSSL 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + L+ L P+++ ++ LRFG+++G+P +L+++G +S+ERVRQ+E A+ +L+
Sbjct: 248 -QVDLEKLMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLR 306
Query: 554 Q 554
+
Sbjct: 307 K 307
>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 = 221 bits (562), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 120/307 (39%), Positives = 187/307 (60%), Gaps = 1/307 (0%)
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 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
+ VEKF P G +F++YAYWW+RQ I +AI QH+RTIRLP +I L+K+ + +R Q+
Sbjct: 138 RGVEKFDPMRGYKFSTYAYWWIRQAITRAIAQHARTIRLPIHITEKLNKIKKVQRELTQQ 197
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDI 487
SP ++A + + ++ + + R P+S+ V +QDT QE+ D PD
Sbjct: 198 LGRSPSPGEIAAALELHPSQIREYLLMARHPVSLDLRVGDNQDTELQELLEDETAS-PDN 256
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
+ +L+RQ + L++ L P++R ++ LRFG+EDG SL++VG LS+ERVRQLE +
Sbjct: 257 YITSELLRQDLDTLISELTPQQRDVIILRFGLEDGTEMSLAKVGERLNLSRERVRQLEHQ 316
Query: 548 ALYRLKQ 554
AL L++
Sbjct: 317 ALAHLRR 323
>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 = 221 bits (562), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 120/307 (39%), Positives = 187/307 (60%), Gaps = 1/307 (0%)
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 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
+ VEKF P G +F++YAYWW+RQ I +AI QH+RTIRLP +I L+K+ + +R Q+
Sbjct: 138 RGVEKFDPMRGYKFSTYAYWWIRQAITRAIAQHARTIRLPIHITEKLNKIKKVQRELTQQ 197
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDI 487
SP ++A + + ++ + + R P+S+ V +QDT QE+ D PD
Sbjct: 198 LGRSPSPGEIATALELHPSQIREYLLMARHPVSLDLRVGDNQDTELQELLEDETAS-PDN 256
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
+ +L+RQ + L++ L P++R ++ LRFG+EDG SL++VG LS+ERVRQLE +
Sbjct: 257 YITSELLRQDLDTLISELTPQQRDVIILRFGLEDGTEMSLAKVGERLNLSRERVRQLEHQ 316
Query: 548 ALYRLKQ 554
AL L++
Sbjct: 317 ALAHLRR 323
>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 = 220 bits (561), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 116/339 (34%), Positives = 201/339 (59%), Gaps = 40/339 (11%)
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 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRK 395
+NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F++YA WW+RQ I +
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITR 246
Query: 396 AIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFIT 455
AI SRTIRLP ++Y +S++ + ++ QE P +E++A ++ +T+EKL +
Sbjct: 247 AIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKLRFIAKSA 306
Query: 456 RMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRL 515
++P+S++ P+ ++D+ + G E P+ V K L+R+ + N+L L+P+ER ++RL
Sbjct: 307 QLPISLETPIGKEEDSRLGDFIEADG-ETPEDEVSKNLLREDLENVLDTLSPRERDVLRL 365
Query: 516 RFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 366 RYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRH 404
>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 = 220 bits (561), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 116/300 (38%), Positives = 185/300 (61%), Gaps = 1/300 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G +F++YAYWW+RQ I +AI Q RTIRLP +++ L+K+ +R Q+ P
Sbjct: 149 DPALGYKFSTYAYWWIRQGITRAIAQQGRTIRLPIHVFEKLNKIKRVQRELSQQLGRVPT 208
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
++A + +T ++ +++ R P S++ V QDT Q+I D G D +V++ L
Sbjct: 209 TAEIANALSLTPSQVRECLYLARQPFSLEARVGEQQDTELQDILEDDGPSPEDYAVEESL 268
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
Q +++LL L+P++R I+ LRFG+ DG SL+++G+ G+S+ERVRQ+E +AL L+
Sbjct: 269 -HQDLQDLLAKLSPQQREILTLRFGLTDGYELSLAQIGDRMGISRERVRQIEQKALSLLR 327
>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 = 220 bits (561), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 117/300 (39%), Positives = 186/300 (62%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ + +R Q+ S
Sbjct: 138 PTKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQKLGRSATP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + + R P+S+ V +QDT E+ D G PD ++L+
Sbjct: 198 AEIAQELELDTAQIREYLNVARQPISLDVRVGDNQDTELSELLEDEGTS-PDNYATQELL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + +L+ L P++R ++ LRFG+EDGK SL+++G LS+ERVRQLE +AL +L++
Sbjct: 257 RQDLLHLMADLTPQQREVIALRFGLEDGKELSLAKIGQRMNLSRERVRQLEHQALAQLRR 316
>gi|2385506|dbj|BAA22190.1| RpoD2 protein [Synechococcus elongatus PCC 7942]
Length = 320
Score = 220 bits (561), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 117/300 (39%), Positives = 188/300 (62%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q SRTIRLP +I L+K+ + +R Q+ S
Sbjct: 131 PSKGYKFSTYAYWWIRQAITRAIAQQSRTIRLPIHITEKLNKLKKTQRELSQQLGRSATA 190
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
+LA + + +E++ I + R P+S+ V QDT QE+ D P V+++ +
Sbjct: 191 SELAEVLELPLEQVREYIQMNRQPVSLDVKVGDSQDTELQELLEDEQSS-PSDYVEQESL 249
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R+ +RNL+ L P+++ ++ LR+G+++G SL++VG +S+ERVR+LE +A+ L++
Sbjct: 250 RRDLRNLMAELTPQQQAVIALRYGLDEGDSLSLAKVGERLNISRERVRKLERQAMDHLRR 309
>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 = 220 bits (561), Expect = 1e-54, Method: Compositional matrix adjust.
Identities = 119/308 (38%), Positives = 184/308 (59%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+ + +R Q+ SP
Sbjct: 138 PTRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKLGRSPTP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + + R P+S+ V +QDT Q++ D G P+ ++ +
Sbjct: 198 VEIAKELELEPAQIREYLNMARQPVSLDVRVGDNQDTELQDMLEDDGPS-PEYYTNQEFL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + NLL L P++R ++ LRFG+EDG SL++VG LS+ERVRQLE +AL L++
Sbjct: 257 RQDLNNLLAELTPQQREVLALRFGLEDGNELSLAKVGERLNLSRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASY 562
Y
Sbjct: 317 RRANVKEY 324
>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 = 220 bits (560), Expect = 2e-54, Method: Compositional matrix adjust.
Identities = 115/287 (40%), Positives = 185/287 (64%), Gaps = 1/287 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYWW
Sbjct: 169 AKRKMIRSNLRLVVSIAKRYINRGVPFLDLIQEGALGLNRATEKFDPDKGYKFSTYAYWW 228
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I + I SRTIRLP +I L+K+ A+R ++ N +P + +LA + +T E+L
Sbjct: 229 IRQGITRTIANDSRTIRLPVHIVEKLNKLKGAQRDLKRKLNRNPTEAELAEALEVTPEQL 288
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNP 507
+ L + R LS+ V D+DT ++ D P+ + + ++RQ + ++L +L
Sbjct: 289 QNLQQVHRRSLSLNYRVGKDEDTELVDLLEDAETRSPESQMSETMLRQEIWDVLGNVLTE 348
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ I+ LR+G+ KP +L EVG +F LS+ERVRQ++S+A+ +L++
Sbjct: 349 REKDIISLRYGLSSNKPCTLEEVGGLFNLSRERVRQIQSKAMRKLRR 395
>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 = 220 bits (560), Expect = 2e-54, Method: Compositional matrix adjust.
Identities = 116/339 (34%), Positives = 201/339 (59%), Gaps = 40/339 (11%)
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 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRK 395
+NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF + G +F++YA WW+RQ I +
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITR 246
Query: 396 AIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFIT 455
AI SRTIRLP ++Y +S++ + ++ QE P +E++A ++ +T+EKL +
Sbjct: 247 AIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKLRFIAKSA 306
Query: 456 RMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRL 515
++P+S++ P+ ++D+ + G E P+ V K L+R+ + N+L L+P+ER ++RL
Sbjct: 307 QLPISLETPIGKEEDSRLGDFIEADG-ETPEDEVSKNLLREDLENVLDTLSPRERDVLRL 365
Query: 516 RFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R+G++DG+ K+L E+G IF +++ER+RQ+E++AL +L+
Sbjct: 366 RYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRH 404
>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 = 220 bits (560), Expect = 2e-54, Method: Compositional matrix adjust.
Identities = 113/288 (39%), Positives = 190/288 (65%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 124 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 183
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I SRTIRLP +I L+K+ +A+R+ Q+ P +++LA +GIT +
Sbjct: 184 WIRQAITRTIANDSRTIRLPIHIVEKLNKLKKAQRILKQDLQRQPTEKELAEEMGITRQA 243
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT E+ DT + +P+ + + +M Q + ++L+ +L+
Sbjct: 244 LHQLLQLKRQSLSLNHRVGKGEDTELMELLEDTNLLLPEDKMNEAMMHQEIVSVLSDVLS 303
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ K +L EVG IF LS+ERVRQ++++A+ +L++
Sbjct: 304 EREKEVIVLRYGLASSKAHTLEEVGKIFDLSRERVRQIQTKAMRKLRR 351
>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 = 219 bits (559), Expect = 2e-54, Method: Compositional matrix adjust.
Identities = 118/300 (39%), Positives = 185/300 (61%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWWVRQ I +AI Q+ RTIRLP +I L+K+ +R +Q+ +P
Sbjct: 144 PMRGYKFSTYAYWWVRQAITRAIAQNGRTIRLPIHITEKLNKIKRVQRDLVQKYGRNPTP 203
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + + ++ + +R P+S+ V +QDT QE+ D D V +L+
Sbjct: 204 TEIAEALELEPSQIREYLLASRHPISLDLRVGDNQDTELQELLEDETAS-ADNYVTHELL 262
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ +++L+ L P++R ++ LR+G+EDGK SLS+VG +S+ERVRQLE++AL L++
Sbjct: 263 RQDLKSLIDELTPQQREVILLRYGLEDGKELSLSKVGARMSISRERVRQLENQALNHLRR 322
>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 = 219 bits (558), Expect = 3e-54, Method: Compositional matrix adjust.
Identities = 118/308 (38%), Positives = 181/308 (58%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+ + +R Q+ SP
Sbjct: 138 PTRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKFGRSPTP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + + ++ + + R P+S+ V +QDT QE+ D G P+ ++ +
Sbjct: 198 TEIAHELELEPMQIREYLNMARQPVSLDVKVGDNQDTELQEMLEDEGPS-PEYYTTQEFL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + NLL L P++R ++ LRFG+EDG SL++VG LS+ERVRQLE +AL L++
Sbjct: 257 RQDLNNLLAELTPQQRQVLALRFGLEDGNEMSLAKVGERLNLSRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASY 562
Y
Sbjct: 317 RRANVKEY 324
>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 = 219 bits (558), Expect = 3e-54, Method: Compositional matrix adjust.
Identities = 120/308 (38%), Positives = 183/308 (59%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+ + +R Q+ SP
Sbjct: 138 PTRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKLGRSPTP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + + R P+S+ V +QDT QE+ D G P+ ++ +
Sbjct: 198 AEIAKELELEPLQIREYLNMARQPVSLDVRVGDNQDTELQEMLEDDGPS-PEYYTTQEFL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + NLL L P++R ++ LRFG+EDG SL++VG LS+ERVRQLE +AL L++
Sbjct: 257 RQDLNNLLAELTPQQREVLALRFGLEDGNELSLAKVGERLSLSRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASY 562
Y
Sbjct: 317 RRANVKEY 324
>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 = 219 bits (558), Expect = 3e-54, Method: Compositional matrix adjust.
Identities = 116/300 (38%), Positives = 188/300 (62%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q SRTIRLP +I L+K+ + +R Q+ S
Sbjct: 131 PSKGYKFSTYAYWWIRQAITRAIAQQSRTIRLPIHITEKLNKLKKTQRELSQQLGRSATA 190
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
+LA + + +E++ I + R P+S+ V QDT QE+ D P V+++ +
Sbjct: 191 SELAEVLELPLEQVREYIQMNRQPVSLDVKVGDSQDTELQELLEDEQSS-PSDYVEQESL 249
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R+ +RNL+ L P+++ ++ LR+G+++G SL++VG +S+ERVR+LE +A+ L++
Sbjct: 250 RRDLRNLMAELTPQQQAVIALRYGLDEGDSLSLAKVGERLNISRERVRKLERQAMDHLRR 309
>gi|359145132|ref|ZP_09178962.1| RNA polymerase, sigma 70 subunit, RpoD subfamily protein
[Streptomyces sp. S4]
Length = 357
Score = 219 bits (557), Expect = 4e-54, Method: Compositional matrix adjust.
Identities = 98/249 (39%), Positives = 164/249 (65%)
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
RDL+ + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 107 ARDLRRLVVLGERAKGRLIEANLRLVVSVAKRYTGRGLTMLDLVQEGNLGLIRAVEKFDY 166
Query: 376 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE P E
Sbjct: 167 TRGFKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRTQRALLQEAGREPGAE 226
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMR 495
++ R+G++ EK+E ++ + R P+S+ PV + D ++ D P S L+R
Sbjct: 227 EVGERLGLSAEKVEEVLRLAREPISLHAPVGGEDDVFLGDLIEDADAASPAESAALLLLR 286
Query: 496 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
QH+ +L L +ER +V+LR+G +DG+P++L E+G +FG+++ERVRQ+ES+ L RL++
Sbjct: 287 QHLDAVLATLGDRERQVVQLRYGFDDGRPRTLEEIGRLFGVTRERVRQIESKTLRRLREH 346
Query: 556 LGGKASYGY 564
GY
Sbjct: 347 TAAGQLRGY 355
>gi|32351878|dbj|BAC78528.1| plastid sigma factor 2A [Oryza sativa Japonica Group]
Length = 564
Score = 219 bits (557), Expect = 5e-54, Method: Compositional matrix adjust.
Identities = 114/340 (33%), Positives = 197/340 (57%), Gaps = 1/340 (0%)
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 INANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 393
+ +N+RLV+ +A++++G G+ L+DL+QEG GL++ EKF G RF++Y++WW++Q +
Sbjct: 328 VTSNVRLVISIAREFEGPGMELYDLIQEGMQGLIRGAEKFDASKGFRFSTYSHWWIKQAM 387
Query: 394 RKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIF 453
RK++ + S+ RLP ++ +V E + ++ P E++A G+ ++++E +
Sbjct: 388 RKSVSEQSQIFRLPAHMVEASYRVKECIKRLRRKLKRRPTNEEIAADTGMPIKRVEAAVN 447
Query: 454 ITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIV 513
+ + +S+ + D T+QE+TAD E + + + M++ V L L +ER +V
Sbjct: 448 LPKYSVSLDSKI-GSTDMTYQEVTADPTAETAEEMLNRLSMKRDVHKALDTLTTRERQVV 506
Query: 514 RLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
LRFG+EDG+ ++L E+GN G+S+ER+RQ+ES A +L+
Sbjct: 507 TLRFGLEDGRIRTLQEIGNTMGVSRERIRQIESAAFRKLR 546
>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 = 218 bits (556), Expect = 5e-54, Method: Compositional matrix adjust.
Identities = 107/288 (37%), Positives = 192/288 (66%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 129 VAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRATEKFDPNKGYKFSTYAYW 188
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R Q+ +P++++LA + +++ +
Sbjct: 189 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRNLKQQLQRNPNEQELANELNVSLSQ 248
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D+ +++P+ + + +MRQ + +L+ +L
Sbjct: 249 LHQLLELRRQSLSLNHRVGKAEDTELVDLLEDSELQLPEERMSEAMMRQEIFTVLSDVLT 308
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++S+A+ +L++
Sbjct: 309 EREKDVISLRYGLATNQPYTLEEVGGMFNLSRERVRQIQSKAMRKLRR 356
>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 = 218 bits (556), Expect = 5e-54, Method: Compositional matrix adjust.
Identities = 98/249 (39%), Positives = 164/249 (65%)
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
RDL+ + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 107 ARDLRRLVVLGERAKGRLIEANLRLVVSVAKRYTGRGLTMLDLVQEGNLGLIRAVEKFDY 166
Query: 376 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE P E
Sbjct: 167 TRGFKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRTQRALLQEAGREPAAE 226
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMR 495
++ R+G++ EK+E ++ + R P+S+ PV + D ++ D P S L+R
Sbjct: 227 EVGERLGLSAEKVEEVLRLAREPISLHAPVGGEDDVFLGDLIEDADAASPAESAALLLLR 286
Query: 496 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
QH+ +L L +ER +V+LR+G +DG+P++L E+G +FG+++ERVRQ+ES+ L RL++
Sbjct: 287 QHLDAVLATLGDRERQVVQLRYGFDDGRPRTLEEIGRLFGVTRERVRQIESKTLRRLREH 346
Query: 556 LGGKASYGY 564
GY
Sbjct: 347 TAAGQLRGY 355
>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 = 218 bits (556), Expect = 6e-54, Method: Compositional matrix adjust.
Identities = 112/297 (37%), Positives = 192/297 (64%), Gaps = 1/297 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F++YAYWW
Sbjct: 146 AKRKMIRSNLRLVVSIAKRYLNRGLPFLDLIQEGAMGLNRAAEKFDPDKGYKFSTYAYWW 205
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIRLP +I L+K+ +A+R Q+ +P + +LA+ + I+ E L
Sbjct: 206 IRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQQLQRNPSEVELAQFLEISAEHL 265
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNP 507
+L+ + R LS+ V ++DT ++ D + P+ + + +MRQ + ++L +L P
Sbjct: 266 RQLLQLRRKSLSLNHRVGKEEDTELVDLLEDEDSQSPEQQMSETMMRQEIWDVLGDVLTP 325
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
+E+ ++ LR+G+ +P +L EVG+IF LS+ERVRQ++S+A+ +L++ K G+
Sbjct: 326 REKDVISLRYGLITSEPCTLEEVGSIFNLSRERVRQIQSKAMRKLRRPQIAKRLKGW 382
>gi|412993395|emb|CCO16928.1| RNA polymerase sigma factor RpoD [Bathycoccus prasinos]
Length = 733
Score = 218 bits (555), Expect = 6e-54, Method: Compositional matrix adjust.
Identities = 110/312 (35%), Positives = 197/312 (63%), Gaps = 12/312 (3%)
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 MGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRL 423
+GL++ EKF + G +F++YA+WW+RQ + ++I SRTIRLP +++ ++S++ + ++
Sbjct: 498 VGLIRGAEKFDFERGYKFSTYAHWWIRQAVTRSISDQSRTIRLPVHLFEIISRMNKLEQK 557
Query: 424 YIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDT-TFQEITADTGV 482
+I + E+++ + + K+ ++ P+S+ Q V AD D T ++ D
Sbjct: 558 FIVQNGREATLEEISAMMEMPQVKITQIKKAAMAPVSLAQAVGADDDKRTVEDTLVDNIT 617
Query: 483 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 542
E P+ S K L+++ + N+L LNP+ER ++RLR+G++DG+ K+L E+GN+F +++ER+R
Sbjct: 618 EHPEESSGKVLLKEDLENVLNTLNPRERDVLRLRYGLDDGRVKTLEEIGNVFSVTRERIR 677
Query: 543 QLESRALYRLKQ 554
Q+E++AL +L+Q
Sbjct: 678 QIEAKALRKLRQ 689
>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 = 218 bits (555), Expect = 8e-54, Method: Compositional matrix adjust.
Identities = 118/308 (38%), Positives = 182/308 (59%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+ + +R Q+ SP
Sbjct: 138 PMRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKLGRSPSP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + + R P+S+ V +QDT QE+ D G P+ ++ +
Sbjct: 198 TEIAKELELEPAQIREYLNMARQPVSLDVRVGDNQDTELQEMLEDEGPS-PEYYTTQEFL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + NLL L P++R ++ LRFG+EDG SL++VG LS+ERVRQLE +AL L++
Sbjct: 257 RQDLNNLLAELTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASY 562
Y
Sbjct: 317 RRANVKEY 324
>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 = 218 bits (554), Expect = 9e-54, Method: Compositional matrix adjust.
Identities = 117/308 (37%), Positives = 182/308 (59%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+ + +R Q SP
Sbjct: 138 PMRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQTLGRSPTP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + + R P+S+ V +QDT QE+ D+G P+ ++ +
Sbjct: 198 AEIAKELELEPAQIREYLNMARQPVSLDVKVGDNQDTELQEMLEDSGPS-PEYYTNQEFL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + NLL L P++R ++ LRFG+EDG SL++VG LS+ERVRQLE +AL L++
Sbjct: 257 RQDLNNLLAELTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASY 562
Y
Sbjct: 317 RRANVQEY 324
>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 = 218 bits (554), Expect = 9e-54, Method: Compositional matrix adjust.
Identities = 113/301 (37%), Positives = 191/301 (63%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q+ +
Sbjct: 128 DPLKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQKLGRAAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA V +T +++ + +R PLS+ + +QDT ++ D G D + Q L
Sbjct: 188 VAELAEEVKLTPKQVRDYLEKSRSPLSLDLRIGDNQDTNLGDLLEDPGQSPEDYATQS-L 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+R+ + L+ L P+++ ++ LRFG++DGK +L+++G + +S+ERVRQ+E AL RL+
Sbjct: 247 LRKDLDRLMAELTPQQQRVLHLRFGLDDGKNMTLAKIGEMLSISRERVRQIEREALTRLR 306
Query: 554 Q 554
+
Sbjct: 307 K 307
>gi|220907004|ref|YP_002482315.1| RNA polymerase sigma factor [Cyanothece sp. PCC 7425]
gi|219863615|gb|ACL43954.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cyanothece sp.
PCC 7425]
Length = 327
Score = 218 bits (554), Expect = 9e-54, Method: Compositional matrix adjust.
Identities = 119/301 (39%), Positives = 184/301 (61%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G +F++YAYWW+RQ I +AI Q +RT+RLP +I L+K+ +A+R+ Q S
Sbjct: 137 DPTRGYKFSTYAYWWIRQAITRAIAQQARTVRLPIHITEKLNKIKKAQRVLSQRLGRSAT 196
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
++A+ + + ++ + + R P+S+ V +QDT +++ D P+ +
Sbjct: 197 PAEIAQELELEPSQIREYLTLARQPVSLDLRVGDNQDTELRDLLEDDSPS-PEQYTTGEA 255
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+R V +LL L P++R ++ LRFG+EDGK SL++VG LS+ERVRQLE +AL L+
Sbjct: 256 LRDDVNHLLAELTPQQREVLTLRFGLEDGKELSLAKVGEQLSLSRERVRQLERQALDHLR 315
Query: 554 Q 554
+
Sbjct: 316 R 316
>gi|218194307|gb|EEC76734.1| hypothetical protein OsI_14770 [Oryza sativa Indica Group]
Length = 563
Score = 217 bits (553), Expect = 1e-53, Method: Compositional matrix adjust.
Identities = 109/312 (34%), Positives = 187/312 (59%), Gaps = 1/312 (0%)
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 GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAK 421
G GL++ EKF G RF++Y++WW++Q +RK++ + S+ RLP ++ +V E
Sbjct: 355 GMQGLIRGAEKFDASKGFRFSTYSHWWIKQAMRKSVSEQSQIFRLPAHMVEASYRVKECI 414
Query: 422 RLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTG 481
+ ++ P E++A G+ ++++E + + + +S+ + D T+QE+TAD
Sbjct: 415 KRLRRKLKRRPTNEEIAADTGMPIKRVEAAVNLPKYSVSLDSKI-GSTDMTYQEVTADPT 473
Query: 482 VEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 541
E + + + M++ V L L +ER +V LRFG+EDG+ ++L E+GN G+S+ER+
Sbjct: 474 AETAEEMLNRLSMKRDVHKALDTLTTRERQVVTLRFGLEDGRIRTLQEIGNTMGVSRERI 533
Query: 542 RQLESRALYRLK 553
RQ+ES A +L+
Sbjct: 534 RQIESAAFRKLR 545
>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 = 217 bits (553), Expect = 1e-53, Method: Compositional matrix adjust.
Identities = 116/301 (38%), Positives = 185/301 (61%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q+ +
Sbjct: 129 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRYLAQKLGRAAT 188
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + R+PLS+ V +QDT ++ DTG D ++Q L
Sbjct: 189 ANELAAELELTPKQIREYLERARLPLSLDLRVGDNQDTELGDLLEDTGASPEDFALQASL 248
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R + L+ L ++R ++ LRFG+EDG+ +LS++G+ +S+ERVRQ+E AL +L+
Sbjct: 249 -RADLEMLMADLTQQQREVLALRFGLEDGQTLTLSKIGDRLNISRERVRQIEREALTKLR 307
Query: 554 Q 554
+
Sbjct: 308 K 308
>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 = 217 bits (553), Expect = 1e-53, Method: Compositional matrix adjust.
Identities = 109/312 (34%), Positives = 187/312 (59%), Gaps = 1/312 (0%)
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 GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAK 421
G GL++ EKF G RF++Y++WW++Q +RK++ + S+ RLP ++ +V E
Sbjct: 356 GMQGLIRGAEKFDASKGFRFSTYSHWWIKQAMRKSVSEQSQIFRLPAHMVEASYRVKECI 415
Query: 422 RLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTG 481
+ ++ P E++A G+ ++++E + + + +S+ + D T+QE+TAD
Sbjct: 416 KRLRRKLKRRPTNEEIAADTGMPIKRVEAAVNLPKYSVSLDSKI-GSTDMTYQEVTADPT 474
Query: 482 VEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 541
E + + + M++ V L L +ER +V LRFG+EDG+ ++L E+GN G+S+ER+
Sbjct: 475 AETAEEMLNRLSMKRDVHKALDTLTTRERQVVTLRFGLEDGRIRTLQEIGNTMGVSRERI 534
Query: 542 RQLESRALYRLK 553
RQ+ES A +L+
Sbjct: 535 RQIESAAFRKLR 546
>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 = 217 bits (553), Expect = 1e-53, Method: Compositional matrix adjust.
Identities = 109/312 (34%), Positives = 187/312 (59%), Gaps = 1/312 (0%)
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 GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAK 421
G GL++ EKF G RF++Y++WW++Q +RK++ + S+ RLP ++ +V E
Sbjct: 356 GMQGLIRGAEKFDASKGFRFSTYSHWWIKQAMRKSVSEQSQIFRLPAHMVEASYRVKECI 415
Query: 422 RLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTG 481
+ ++ P E++A G+ ++++E + + + +S+ + D T+QE+TAD
Sbjct: 416 KRLRRKLKRRPTNEEIAADTGMPIKRVEAAVNLPKYSVSLDSKI-GSTDMTYQEVTADPT 474
Query: 482 VEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 541
E + + + M++ V L L +ER +V LRFG+EDG+ ++L E+GN G+S+ER+
Sbjct: 475 AETAEEMLNRLSMKRDVHKALDTLTTRERQVVTLRFGLEDGRIRTLQEIGNTMGVSRERI 534
Query: 542 RQLESRALYRLK 553
RQ+ES A +L+
Sbjct: 535 RQIESAAFRKLR 546
>gi|1769596|gb|AAB39997.1| sigma factor [Synechococcus sp. PCC 7002]
Length = 317
Score = 217 bits (553), Expect = 1e-53, Method: Compositional matrix adjust.
Identities = 117/300 (39%), Positives = 187/300 (62%), Gaps = 2/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q S
Sbjct: 129 PTKGYRFSTYAYWWIRQAITRAIAEQSRTIRLPIHITEKLNKIKKAQRQLAQANGRSASI 188
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
+LA +G+T +++ + +R PLS+ V + DT E+ D E+PD +
Sbjct: 189 PELADELGLTTKQVRDYLEKSRQPLSLDLRVGDNNDTELIELEDDG--ELPDDYATHAAL 246
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ + +L L +++ ++ LRFG+ DG P +L+++G +S+ERVRQ+E +L +L++
Sbjct: 247 KRDLARMLNDLTAQQQEVLTLRFGLRDGTPHTLAKIGEHLNISRERVRQIEHGSLAKLRK 306
>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 = 217 bits (552), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 115/300 (38%), Positives = 187/300 (62%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q SRTIRLP +I L+K+ + +R Q+ S
Sbjct: 131 PSKGYKFSTYAYWWIRQAITRAIAQQSRTIRLPIHITEKLNKLKKTQRELSQQLGRSATA 190
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
+LA + + +E++ I + R P+S+ V QDT QE+ D P V+++ +
Sbjct: 191 SELAEVLELPLEQVREYIQMNRQPVSLDVKVGDSQDTELQELLEDEQSS-PSDYVEQESL 249
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R+ +RNL+ L P+++ ++ LR+G+++G SL++VG +S+ERVR+LE +A+ L++
Sbjct: 250 RRDLRNLMAELTPQQQAVIALRYGLDEGDSLSLAKVGERLNISRERVRKLERQAMDHLRR 309
>gi|223998999|ref|XP_002289172.1| RNA polymerase [Thalassiosira pseudonana CCMP1335]
gi|220974380|gb|EED92709.1| RNA polymerase [Thalassiosira pseudonana CCMP1335]
Length = 318
Score = 217 bits (552), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 117/319 (36%), Positives = 198/319 (62%), Gaps = 6/319 (1%)
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 FKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSP 432
F P+ G RF++YA WW++Q I +AI +RTIRLP +I+ LS V +A+R E
Sbjct: 121 FDPERGFRFSTYATWWIKQGIMRAIADQARTIRLPVHIHDQLSIVRKAERDLQNELGRDA 180
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPV---WADQDTTFQEITADTGVEIPDISV 489
KE++A +VG+ +K+E L + +SM+Q + +++ T Q+ D + D++
Sbjct: 181 TKEEVAAKVGMKPDKIEFLKRASVGSISMEQELGTSGSERSFTIQDTLGDPDQKPVDMA- 239
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
Q ++++ V L+ LN +E+ ++R+RFG++DGK K+L E+G F +++ER+RQ+E+RAL
Sbjct: 240 QYRMLQDDVGRLICTLNAREQAVIRMRFGLDDGKAKTLEEIGKKFSVTRERIRQIEARAL 299
Query: 550 YRLKQSLGGKASYGYADLL 568
++L+Q YA+ L
Sbjct: 300 HKLRQPYRNHTVKCYANEL 318
>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 = 217 bits (552), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 112/287 (39%), Positives = 179/287 (62%), Gaps = 1/287 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYWW
Sbjct: 153 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPDKGYKFSTYAYWW 212
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I + I +RTIRLP +I L+K+ + +R ++ N +P + +LA + +T E+L
Sbjct: 213 IRQGITRTIANDARTIRLPIHIVEKLNKLKKTQRELRKQLNRTPTEAELAAELDLTPEQL 272
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLNP 507
L + R LS+ V +DT E+ D P+ + + +MRQ + ++LT +L
Sbjct: 273 RSLQQVRRKSLSLNHRVGKGEDTELMELLEDGSTLSPESRMNESMMRQEISDVLTEVLTE 332
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ I+ LR+G+ G+P +L EVG IF LS+ERVRQ++++A+ +L++
Sbjct: 333 REKDIISLRYGLTTGEPHTLEEVGGIFNLSRERVRQIQTKAMRKLRR 379
>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 = 216 bits (551), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 122/309 (39%), Positives = 185/309 (59%), Gaps = 1/309 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +A+R Q+ S
Sbjct: 137 DPTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKAQRELSQKLGRSAT 196
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
++A + + ++ + I R P+S+ V +QDT +++ D G + P+ +
Sbjct: 197 PAEIAEALELEPSQIRDYLTIARQPISLDLRVGDNQDTELRDLLEDDG-QSPEQFTTTEA 255
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+R V LL L P++R ++ LRFG+ +GK SL++VG LS+ERVRQLE +AL L+
Sbjct: 256 LRDDVNQLLKELTPQQRDVLMLRFGLNNGKELSLAKVGQQLSLSRERVRQLERQALDYLR 315
Query: 554 QSLGGKASY 562
+ G Y
Sbjct: 316 RRKGEVREY 324
>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 = 216 bits (551), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 113/286 (39%), Positives = 180/286 (62%), Gaps = 1/286 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL+ +EE Q+Q L L++ L GREPTL+EWA+A LS +L+ + G
Sbjct: 24 LLSHEEEILYGKQVQRLTALQEFNQTLAEALGREPTLLEWAEAKELSKSELQRIIREGER 83
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF++YAYWW
Sbjct: 84 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWW 143
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + RTIRLP +I L+K+ + +R Q+ S ++A +G+T +++
Sbjct: 144 IRQAITRAIAEKGRTIRLPIHITEKLNKIKKVQRQLTQQLGRSATTGEIAEELGLTPKQI 203
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ R+PLS+ V +QDT ++ DTG D ++Q MR + +++ L P+
Sbjct: 204 RECLERARLPLSLDLRVGDNQDTELGDLLEDTGASPEDYALQSS-MRTDLESIMVDLTPQ 262
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ ++ LRFG+EDG+ +LS++G +S+ERVRQ+E AL +L++
Sbjct: 263 QKQVLALRFGLEDGQTMTLSKIGAHLNISRERVRQIEREALSKLRK 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 = 216 bits (551), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 118/308 (38%), Positives = 181/308 (58%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+ + +R Q+ SP
Sbjct: 138 PMRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQKLGRSPTP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + + R P+S+ V +QDT QE+ D G P+ ++ +
Sbjct: 198 AEIAKELELEPAQIREYLNMARQPVSLDVRVGDNQDTELQEMLEDDGPS-PEYYTTQEFL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + LL L P++R +V LRFG+EDG SL++VG LS+ERVRQLE +AL L++
Sbjct: 257 RQDLNTLLAELTPQQREVVALRFGLEDGNEMSLAKVGERLNLSRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASY 562
Y
Sbjct: 317 RRANVKEY 324
>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 = 216 bits (551), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 115/332 (34%), Positives = 199/332 (59%), Gaps = 13/332 (3%)
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 VAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 403
+AK+Y RG+ DL+QEG++GL ++ EKF P+ G +F++YAYWW+RQ I + I RT
Sbjct: 134 IAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPEKGYKFSTYAYWWIRQGITRTIANQGRT 193
Query: 404 IRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQ 463
IRLP +I L+K+ + R + +P + +LAR + +T E+L L + R LS+
Sbjct: 194 IRLPVHIVEQLNKLKKVYRDLRRSLQRNPTETELAREMQVTCEQLRYLQQVRRQSLSLNH 253
Query: 464 PVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDG 522
+ +++ + ++ D + P+ + + +MRQ + +L ++L +E+ IV +R+G+ G
Sbjct: 254 RIGSEESSELLDVLEDNATQSPEAQMNEMMMRQDILEVLDSILTEREKEIVAMRYGLLTG 313
Query: 523 KPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+P +L EV ++F LS+ERVRQ++++A+ +L++
Sbjct: 314 EPYTLEEVSSLFNLSRERVRQIQNKAMRKLRR 345
>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 = 216 bits (551), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 118/308 (38%), Positives = 181/308 (58%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+ + +R Q SP
Sbjct: 163 PTRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQTLGRSPSP 222
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + + R P+S+ V +QDT QE+ D G P+ ++ +
Sbjct: 223 AEIAKELELEPAQIREYLNMARQPVSLDVRVGDNQDTELQEMLEDEGPS-PEYYTTQEFL 281
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + LL L P++R ++ LRFG+EDG SL++VG LS+ERVRQLE +AL L++
Sbjct: 282 RQDLNTLLAELTPQQREVLALRFGLEDGNEMSLAKVGERLNLSRERVRQLEHQALAHLRR 341
Query: 555 SLGGKASY 562
Y
Sbjct: 342 RRANVKEY 349
>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 = 216 bits (551), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 117/301 (38%), Positives = 183/301 (60%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A R Q+ +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKASRELSQQLGRTAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + ++ +++ + R PLS+ V + DT E+ DTG D +
Sbjct: 188 IGELAVELELSPKQIREYMERARHPLSLDLRVGDNHDTELSELLEDTGPSPEDFATHSA- 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
MR + L++ L ++R ++ LRFG+EDG+ +LS++G+ +S+ERVRQ+E AL +L+
Sbjct: 247 MRADLEKLMSELTTQQREVIALRFGLEDGQAMTLSKIGDRLNISRERVRQIEREALTKLR 306
Query: 554 Q 554
+
Sbjct: 307 K 307
>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 = 216 bits (551), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 125/322 (38%), Positives = 194/322 (60%), Gaps = 2/322 (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 GISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIY 411
+ DL+QEG++GL + VEKF P G +F++YAYWW+RQ I +AI Q +RTIRLP +I
Sbjct: 124 NMEFLDLIQEGTLGLERGVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHIT 183
Query: 412 TLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDT 471
L+K+ +R IQ SP ++A+ + + ++ + + R P+S+ V +QDT
Sbjct: 184 EKLNKIKRVQRELIQSLGRSPTPSEIAQALELEPSQIREYLLMARHPISLDLRVGDNQDT 243
Query: 472 TFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVG 531
QE+ D PD + +L+RQ + LL L+ ++R ++ LRFG+EDGK SL++VG
Sbjct: 244 ELQELLEDE-TSSPDDYITGELLRQDINTLLAELSEQQRRVLVLRFGLEDGKEMSLAKVG 302
Query: 532 NIFGLSKERVRQLESRALYRLK 553
+ LS+ERVRQLE +AL L+
Sbjct: 303 DKLQLSRERVRQLEHQALAFLR 324
>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 = 216 bits (550), Expect = 2e-53, Method: Compositional matrix adjust.
Identities = 113/300 (37%), Positives = 187/300 (62%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G RF++YAYWW+RQ I +AI + SR IRLP +I L+K+ + +R +E
Sbjct: 129 PTKGYRFSTYAYWWIRQAITRAIAEKSRAIRLPLHITEKLNKIRQTQRKLSEEKGRPATI 188
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
+LA + ++ E++ + R PLS+ V + DT E+ D G + P+ +
Sbjct: 189 AELAEALELSTEQVREYLGKARQPLSLDLKVGDNNDTELGELLEDKG-QSPEDFTDYSCL 247
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ ++ +++ L +++ ++RLR+G+EDGKP +LS++G+I +S+ERVRQ+E AL +L++
Sbjct: 248 QFDLKKMMSELTQQQQDVIRLRYGLEDGKPLTLSKIGDILSISRERVRQIEREALTKLRK 307
>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 = 216 bits (550), Expect = 3e-53, Method: Compositional matrix adjust.
Identities = 120/310 (38%), Positives = 188/310 (60%), Gaps = 4/310 (1%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQRLGRAAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA+ + +T +++ + R PLS+ V +QDT E+ DTG + ++Q L
Sbjct: 188 AAELAQELDLTPKQVRDYLEQARQPLSLDLRVGDNQDTELGELLEDTGTSPEEFALQSSL 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R + +L+ L P++R ++ LRFG+EDG+ +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 248 -RTDLESLMADLTPQQRQVLTLRFGLEDGQALTLAKIGDQLNISRERVRQIEREALSKLR 306
Query: 554 QSLGGKASYG 563
+ KAS G
Sbjct: 307 KR---KASIG 313
>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 = 216 bits (550), Expect = 3e-53, Method: Compositional matrix adjust.
Identities = 115/301 (38%), Positives = 185/301 (61%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q+ +
Sbjct: 129 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAAT 188
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + R+PLS+ V +QDT ++ DTG D ++Q L
Sbjct: 189 AAELASELELTPKQIREYLDRARLPLSLDLRVGDNQDTELGDLLEDTGTTPEDFALQSSL 248
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R + L+ L ++R ++ LRFG+EDG+ +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 249 -RTDLDQLMAELTQQQREVLALRFGLEDGQTLTLAKIGDRLNISRERVRQIEREALTKLR 307
Query: 554 Q 554
+
Sbjct: 308 K 308
>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 = 216 bits (550), Expect = 3e-53, Method: Compositional matrix adjust.
Identities = 117/309 (37%), Positives = 191/309 (61%), Gaps = 1/309 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q+ +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + +R PLS+ V +QDT E+ DTG+ D + L
Sbjct: 188 IAELAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGELLEDTGLSPEDYTAYSSL 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + L+ L P+++ ++ LRFG+++G+P +L+++G +S+ERVRQ+E A+ +L+
Sbjct: 248 -QVDLEKLMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLR 306
Query: 554 QSLGGKASY 562
+ G Y
Sbjct: 307 KRKGNIREY 315
>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 = 216 bits (550), Expect = 3e-53, Method: Compositional matrix adjust.
Identities = 115/301 (38%), Positives = 185/301 (61%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q+ +
Sbjct: 129 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAAT 188
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + R+PLS+ V +QDT ++ DTG D ++Q L
Sbjct: 189 AAELASELELTPKQIREYLDRARLPLSLDLRVGDNQDTELGDLLEDTGTTPEDFALQSSL 248
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R + +L+ L ++R ++ LRFG+EDG+ +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 249 -RTDLDHLMAELTQQQREVLALRFGLEDGQTLTLAKIGDRLNISRERVRQIEREALTKLR 307
Query: 554 Q 554
+
Sbjct: 308 K 308
>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 = 216 bits (549), Expect = 3e-53, Method: Compositional matrix adjust.
Identities = 117/343 (34%), Positives = 201/343 (58%), Gaps = 9/343 (2%)
Query: 214 RFLERRSKKRKVSKPQVTNHETYNSRKAS-VKKKLSEGFDRNDPLRLF--LWGPETRKLL 270
R ER++++ + + + N+ AS +KK +G PL F + GP +LL
Sbjct: 174 RRTERKARRVRAAMKAAKCFSSRNAVGASSTRKKRLKGC--QTPLGCFYKMTGP---RLL 228
Query: 271 TADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSR 330
TA++E E IQDL++LE + ++ G EPT +WA A G L+ L+ G +
Sbjct: 229 TAEQEVEFSEGIQDLLKLEAIQKEVAQYNGGEPTFSQWAAAAGTDENTLRRRLNHGVYCK 288
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVR 390
+++ +N+RLV+ +AK+++G G+ DL+QEG GL++ EKF G RF++Y++WW++
Sbjct: 289 NRMVKSNVRLVISIAKEHEGPGMEFSDLIQEGMQGLIRGAEKFDASKGFRFSTYSHWWIK 348
Query: 391 QTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLER 450
Q IRK++ + ++ IRLP ++ S+V E R +E P E++A G+T+ ++E
Sbjct: 349 QAIRKSVLEQTQIIRLPAHMAEASSRVKECCRRLRRELKRLPSNEEIAVDTGMTIRRVEA 408
Query: 451 LIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKER 510
+ + + +S V D T+QEI DT E + + + LM++ V L L+P+E+
Sbjct: 409 AMSLPKYSVSFTSKVGCT-DVTYQEIMPDTSAETAEEVLHRWLMKKDVNTALESLSPREK 467
Query: 511 CIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++R RFGIE G+P++L ++G I G+S+ER+RQ+E A +L+
Sbjct: 468 LVMRYRFGIEGGRPRTLHDIGQIMGVSRERIRQIELGAFRKLR 510
>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 = 216 bits (549), Expect = 3e-53, Method: Compositional matrix adjust.
Identities = 108/288 (37%), Positives = 187/288 (64%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 134 VAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 193
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R Q+ +P + +LA+ + I+ ++
Sbjct: 194 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRTLKQKLQRNPSETELAQELDISADQ 253
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLN 506
L L+ + R LS+ V +DT ++ D G+++P+ + + +MRQ + ++L +L
Sbjct: 254 LHHLLQLRRQSLSLNHRVGKGEDTELVDLLEDDGLQLPEERMSEAMMRQELWDVLGDVLT 313
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG IF LS+ERVRQ++S+A+ +L++
Sbjct: 314 DREKEVIALRYGLSSEQPHTLEEVGGIFNLSRERVRQIQSKAMRKLRR 361
>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 = 216 bits (549), Expect = 3e-53, Method: Compositional matrix adjust.
Identities = 97/249 (38%), Positives = 163/249 (65%)
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
RDL+ + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 147 ARDLRRLVVLGERAKGRLIEANLRLVVSVAKRYTGRGLTMLDLVQEGNLGLIRAVEKFDY 206
Query: 376 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE P E
Sbjct: 207 TRGFKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRTQRALLQEAGREPAAE 266
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMR 495
++ R+G++ EK+E ++ + P+S+ PV + D ++ D P S L+R
Sbjct: 267 EVGERLGLSAEKVEEVLRLAHEPISLHAPVGGEDDVFLGDLIEDADAASPAESAALLLLR 326
Query: 496 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
QH+ +L L +ER +V+LR+G +DG+P++L E+G +FG+++ERVRQ+ES+ L RL++
Sbjct: 327 QHLDAVLATLGDRERQVVQLRYGFDDGRPRTLEEIGRLFGVTRERVRQIESKTLRRLREH 386
Query: 556 LGGKASYGY 564
GY
Sbjct: 387 TAAGQLRGY 395
>gi|162458688|ref|NP_001104923.1| sigma factor SIG2A [Zea mays]
gi|4336606|gb|AAD17854.1| sigma factor SIG2A [Zea mays]
Length = 539
Score = 215 bits (548), Expect = 4e-53, Method: Compositional matrix adjust.
Identities = 105/304 (34%), Positives = 184/304 (60%), Gaps = 1/304 (0%)
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 FASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARR 440
F++Y++WW++Q +RK++ + S+ RLP ++ +V E + ++ P E++A
Sbjct: 350 FSTYSHWWIKQAMRKSVSEQSQIFRLPAHMVEASYRVKECTKRLRRKLRRRPTNEEIAVD 409
Query: 441 VGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRN 500
GI ++++E + + + +S+ + D T+QE+TAD E + + + M++ V
Sbjct: 410 TGIPIKRVEAAVNLPKYSVSLDSKI-GSTDMTYQEVTADPSAETAEEMLNRMSMKKDVHM 468
Query: 501 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 560
L L +E+ +V LRFG+EDG+ ++L E+GNI G+S+ER+RQ+ES A +L+ KA
Sbjct: 469 ALDTLTTREKQVVVLRFGLEDGRIRTLQEIGNIMGVSRERIRQIESGAFRKLRSKKKVKA 528
Query: 561 SYGY 564
Y
Sbjct: 529 LKDY 532
>gi|413920797|gb|AFW60729.1| sigma factor SIG2A [Zea mays]
Length = 539
Score = 215 bits (548), Expect = 5e-53, Method: Compositional matrix adjust.
Identities = 105/304 (34%), Positives = 184/304 (60%), Gaps = 1/304 (0%)
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 FASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARR 440
F++Y++WW++Q +RK++ + S+ RLP ++ +V E + ++ P E++A
Sbjct: 350 FSTYSHWWIKQAMRKSVSEQSQIFRLPAHMVEASYRVKECTKRLRRKLRRRPTNEEIAVD 409
Query: 441 VGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRN 500
GI ++++E + + + +S+ + D T+QE+TAD E + + + M++ V
Sbjct: 410 TGIPIKRVEAAVNLPKYSVSLDSKI-GSTDMTYQEVTADPSAETAEEMLNRMSMKKDVHM 468
Query: 501 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 560
L L +E+ +V LRFG+EDG+ ++L E+GNI G+S+ER+RQ+ES A +L+ KA
Sbjct: 469 ALDTLTTREKQVVVLRFGLEDGRIRTLQEIGNIMGVSRERIRQIESGAFRKLRSKKKVKA 528
Query: 561 SYGY 564
Y
Sbjct: 529 LKDY 532
>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 = 215 bits (548), Expect = 5e-53, Method: Compositional matrix adjust.
Identities = 115/301 (38%), Positives = 190/301 (63%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q+ +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + +R PLS+ V +QDT E+ DTG+ D + L
Sbjct: 188 IAELAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGELLEDTGLSPEDYTAYSSL 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + L+ L P+++ ++ LRFG+++G+P +L+++G +S+ERVRQ+E A+ +L+
Sbjct: 248 -QVDLEKLMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLR 306
Query: 554 Q 554
+
Sbjct: 307 K 307
>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 = 215 bits (547), Expect = 5e-53, Method: Compositional matrix adjust.
Identities = 120/309 (38%), Positives = 185/309 (59%), Gaps = 1/309 (0%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT ++E Q+Q L L+ K L + G EPTL EWA A
Sbjct: 8 TDLVRTYLREIGRVPLLTHEQEILYGKQVQRLTALQDMKESLWQELGHEPTLEEWATAAE 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS +L S +++G ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 LSPSELNSHINAGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRYLAQNLGRAAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA+ + +T +++ + R PLS+ V +QDT E+ DTG P+ V
Sbjct: 188 VGELAQELDLTPKQVREYLERARQPLSLDLRVGDNQDTELVELLEDTGPS-PEDFVTHSA 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
M+ + L+ L ++R ++ LRFG+EDG+P +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 247 MQVDLEKLMADLTAQQREVLALRFGLEDGQPMTLAKIGDRLNISRERVRQIEREALSKLR 306
Query: 554 QSLGGKASY 562
+ G Y
Sbjct: 307 KRKGDIREY 315
>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 = 215 bits (547), Expect = 6e-53, Method: Compositional matrix adjust.
Identities = 112/300 (37%), Positives = 188/300 (62%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P+ G RF++YAYWW+RQ I +AI + SR IRLP +I L+K+ + +R +E
Sbjct: 129 PKKGYRFSTYAYWWIRQAITRAIAEKSRAIRLPLHITEKLNKIRQTQRKLSEEKGRPATI 188
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
+L+ + +T E++ + R PLS+ V + DT E+ D G + P+ +
Sbjct: 189 AELSEALELTTEQVRDYLGKARQPLSLDLKVGDNNDTELGELLEDKG-QSPEDFTDYSCL 247
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ +R +++ L +++ ++RLR+G++DGKP +LS++G I +S+ERVRQ+E AL +L++
Sbjct: 248 QFDLRRMMSDLTQQQQDVIRLRYGLDDGKPLTLSKIGTILNISRERVRQIEREALTKLRK 307
>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 = 215 bits (547), Expect = 6e-53, Method: Compositional matrix adjust.
Identities = 118/308 (38%), Positives = 180/308 (58%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+ + +R Q SP
Sbjct: 138 PMRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQTLGRSPSP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + + R P+S+ V +QDT QE+ D G P+ ++ +
Sbjct: 198 AEIAKELELEPAQIREYLNMARQPVSLDVKVGDNQDTELQEMLEDDGPS-PEYYTTQEFL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + LL L P++R +V LRFG+ DG SL++VG LS+ERVRQLE +AL L++
Sbjct: 257 RQDLNTLLAELTPQQREVVALRFGLLDGNELSLAKVGERLNLSRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASY 562
Y
Sbjct: 317 RRANVKEY 324
>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 = 215 bits (547), Expect = 6e-53, Method: Compositional matrix adjust.
Identities = 117/295 (39%), Positives = 177/295 (60%), Gaps = 31/295 (10%)
Query: 286 IRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSEL---------------------- 323
+ L +++L +Q G P+L WAKA G+ DLK L
Sbjct: 127 VHLLNTRARLTAQLGHRPSLERWAKASGVDMPDLKPTLAQGKRLWAEIAGMSVEEIVEIQ 186
Query: 324 HSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAS 383
+ G ++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++
Sbjct: 187 NEGTRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFST 246
Query: 384 YAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGI 443
YAYWW+RQ I +AI SRTIRLP +I L+K+ +A+R Q + ED+A+ + +
Sbjct: 247 YAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQTQGRTAKAEDIAKELDM 306
Query: 444 TVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVR---- 499
TV ++ ++ +S+ V D+DT ++ +E DIS + +LMR+ ++
Sbjct: 307 TVAQIREVLLKVPRSVSLDTKVGKDRDTELGDL-----LETEDISPEDRLMRESLKRELH 361
Query: 500 NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
LLT L +E+ ++ LRFG++DG P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 362 QLLTDLTTREQEVITLRFGLDDGVPYSLAEIGRTLELSRERVRQIESKALQKLRQ 416
>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 = 215 bits (547), Expect = 6e-53, Method: Compositional matrix adjust.
Identities = 113/300 (37%), Positives = 187/300 (62%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q+SRTIRLP +I L+K+ + +R Q+ +
Sbjct: 143 PMRGYKFSTYAYWWIRQAITRAIAQNSRTIRLPIHITEKLNKIKKVQRELFQQYGRNATP 202
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + +R P+S+ V +QDT Q++ D D V +QL+
Sbjct: 203 TEIAKALDLEPSQIRDYLLASRHPVSLDLRVGDNQDTELQDLLEDESAS-ADNYVTQQLL 261
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ +++L+ L P++R ++ LR+G+ DGK SLS+VG +S+ERVRQLE++AL L++
Sbjct: 262 RQDLKDLMADLTPQQREVLTLRYGLNDGKEMSLSKVGVHMNISRERVRQLENQALNHLRR 321
>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 = 215 bits (547), Expect = 6e-53, Method: Compositional matrix adjust.
Identities = 118/308 (38%), Positives = 180/308 (58%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+ + +R Q SP
Sbjct: 138 PMRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQTLGRSPSP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + + R P+S+ V +QDT QE+ D G P+ ++ +
Sbjct: 198 AEIAKELELEPAQIREYLNMARQPVSLDVKVGDNQDTELQEMLEDEGPS-PEYYTTQEFL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + LL L P++R +V LRFG+ DG SL++VG LS+ERVRQLE +AL L++
Sbjct: 257 RQDLNTLLAELTPQQREVVALRFGLLDGNELSLAKVGERLNLSRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASY 562
Y
Sbjct: 317 RRANVKEY 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 = 214 bits (546), Expect = 7e-53, Method: Compositional matrix adjust.
Identities = 114/297 (38%), Positives = 193/297 (64%), Gaps = 1/297 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL ADEE EL +++ L + + ++ LQ Q G++PT ++ A + L+ + L+S L+ G
Sbjct: 79 LLKADEEVELARRVRFLEEVREIQAALQEQLGQQPTKVQVAAQLDLTEKQLESRLYQGRV 138
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F++YAYWW
Sbjct: 139 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 198
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIRLP +I L+K+ +A+R Q+ H+P + ++A + +TV++L
Sbjct: 199 IRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLGHNPSEAEMAAFLEMTVQQL 258
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNP 507
+L + R LS+ V ++DT ++ D P+ + + +MRQ + +L +L P
Sbjct: 259 RQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNLSPEAKMNENMMRQEIWEVLGDVLTP 318
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ++S+A+ +L++ K G+
Sbjct: 319 REKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKGW 375
>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 = 214 bits (546), Expect = 8e-53, Method: Compositional matrix adjust.
Identities = 114/303 (37%), Positives = 191/303 (63%), Gaps = 1/303 (0%)
Query: 252 DRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKA 311
+ DP+R +L LL+ +EE Q+Q LI LEK K L+++ G +P+ +W++A
Sbjct: 6 NHTDPVRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEA 65
Query: 312 IGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
+S L+ EL +G+ ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VE
Sbjct: 66 AEISEEQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVE 125
Query: 372 KFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHS 431
KF P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q+ +
Sbjct: 126 KFDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRA 185
Query: 432 PDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQK 491
+LA + +T +++ + +R PLS+ V +QDT E+ DTG+ D +
Sbjct: 186 ATIAELAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGELLEDTGLSPEDYTAHS 245
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
L + + L+ L P+++ ++ LRFG+++G+P +L+++G +S+ERVRQ+E A+ +
Sbjct: 246 SL-QVDLEKLMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAK 304
Query: 552 LKQ 554
L++
Sbjct: 305 LRK 307
>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 = 214 bits (546), Expect = 8e-53, Method: Compositional matrix adjust.
Identities = 114/301 (37%), Positives = 190/301 (63%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q+ +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + +R PLS+ V +QDT E+ DTG+ D + L
Sbjct: 188 IAELAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGELLEDTGLSPEDYTAHSSL 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + L+ L P+++ ++ LRFG+++G+P +L+++G +S+ERVRQ+E A+ +L+
Sbjct: 248 -QVDLEKLMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLR 306
Query: 554 Q 554
+
Sbjct: 307 K 307
>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 = 214 bits (546), Expect = 8e-53, Method: Compositional matrix adjust.
Identities = 117/308 (37%), Positives = 183/308 (59%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ + +R Q SP
Sbjct: 139 PTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKIQRELAQRLGRSPSP 198
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + + ++ + + R P+S+ V +QDT Q++ D G P+ + ++ +
Sbjct: 199 AEIATELELEPSQIREYLNLARQPVSLDVRVGDNQDTELQDLLEDEGPS-PEHYMTQESL 257
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + +L+ L P++R ++ LRFG+EDG SL++VG LS+ERVRQLE +AL L++
Sbjct: 258 RQDLDHLMAELTPQQREVLNLRFGLEDGNELSLAKVGERLNLSRERVRQLEHQALAHLRR 317
Query: 555 SLGGKASY 562
Y
Sbjct: 318 RRANVQEY 325
>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 = 214 bits (545), Expect = 9e-53, Method: Compositional matrix adjust.
Identities = 115/309 (37%), Positives = 183/309 (59%), Gaps = 1/309 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + +RTIRLP +I L+K+ +A+R Q +P
Sbjct: 142 DPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQRLGRAPT 201
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + R+PLS+ + + DT E+ D G D +Q L
Sbjct: 202 AGELANELELTPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDPGASPEDFVMQSSL 261
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ L+ L P+++ ++ LRFG+ DG+ +L+ +G I +S+ERVRQ+E AL +L+
Sbjct: 262 -SNDLEVLMEQLTPQQKEVITLRFGLIDGQALTLARIGEILNISRERVRQIEREALTKLR 320
Query: 554 QSLGGKASY 562
+S Y
Sbjct: 321 KSKANMGEY 329
>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 = 214 bits (545), Expect = 9e-53, Method: Compositional matrix adjust.
Identities = 117/308 (37%), Positives = 181/308 (58%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+ + +R Q SP
Sbjct: 138 PMRGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKVQRELAQTLGRSPTP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + + R P+S+ V +QDT QE+ D G P+ ++ +
Sbjct: 198 TEIAKELELEPAQIREYLNMARQPVSLDVRVGENQDTELQEMLEDDGPS-PEYYTTQEFL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R + NLL L P++R +V LRFG+EDG SL++VG LS+ERVRQLE +AL L++
Sbjct: 257 RHDLNNLLAELTPQQRQVVALRFGLEDGNELSLAKVGERLNLSRERVRQLEHQALAHLRR 316
Query: 555 SLGGKASY 562
Y
Sbjct: 317 RRANVKEY 324
>gi|449017038|dbj|BAM80440.1| sigma subunit for chloroplast RNA polymerase [Cyanidioschyzon
merolae strain 10D]
Length = 721
Score = 214 bits (545), Expect = 1e-52, Method: Compositional matrix adjust.
Identities = 110/307 (35%), Positives = 189/307 (61%), Gaps = 4/307 (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 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLE-AKRLYIQ 426
+ VEKF G RF++YA WW+RQ+I +AI SR+IRLP +++ +S + + K L+ Q
Sbjct: 521 RGVEKFDAGRGFRFSTYATWWIRQSITRAISDSSRSIRLPVHVHDTISMIRKHTKALHTQ 580
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
G P ++++ VGI + K ++ ++ +S++ P+ D + + E +
Sbjct: 581 LG-RPPREDEICESVGIDIAKYRLIMECSQNIVSLETPMHGTDDIHNLGESLISPEERSE 639
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V + +R + +L L +ER ++R+RFG+ DG+P++L EVG F +++ER+RQ+ES
Sbjct: 640 DTVSRDTLRDSIEKVLRCLTAREREVIRMRFGLADGRPRTLEEVGVKFNVTRERIRQIES 699
Query: 547 RALYRLK 553
+AL +L+
Sbjct: 700 KALKKLR 706
>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 = 214 bits (545), Expect = 1e-52, Method: Compositional matrix adjust.
Identities = 114/294 (38%), Positives = 179/294 (60%), Gaps = 1/294 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT +EE Q+Q L + + L +Q GR+PTL EWAKA L +L + G
Sbjct: 37 LLTHEEEIFYGKQVQRSCTLHESRESLATQLGRQPTLEEWAKATKLEPVELNEAIADGEI 96
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K++ ANLRLVV VAK+Y R + L DL+QEGS+G+ + VEKF P G RF++YAYWW
Sbjct: 97 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPTKGYRFSTYAYWW 156
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + +RTIRLP +I L+K+ +A+R Q+ +P +LA+ + +T +++
Sbjct: 157 IRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQKLGRAPTAGELAQELELTPKQV 216
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ R+PLS+ + + DT E+ D G P+ V + + + L+ L P+
Sbjct: 217 REYLEKARLPLSLDLRLGDNYDTELGEMLEDPGAS-PEEFVMQSSLSYDLDRLMGDLTPQ 275
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASY 562
+R ++ LRFG+ DG+ +L+++G I +S+ERVRQ+E AL +L++S Y
Sbjct: 276 QREVITLRFGLTDGQALTLAKIGEILNISRERVRQIEREALTKLRKSKANMGEY 329
>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 = 214 bits (544), Expect = 1e-52, Method: Compositional matrix adjust.
Identities = 114/301 (37%), Positives = 190/301 (63%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q+ +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + +R PLS+ V +QDT E+ DTG+ D + L
Sbjct: 188 IAELAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGELLEDTGLSPEDYTAYSSL 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + L+ L P+++ ++ LRFG+++G+P +L+++G +S+ERVRQ+E A+ +L+
Sbjct: 248 -QVDLEKLMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLR 306
Query: 554 Q 554
+
Sbjct: 307 K 307
>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 = 214 bits (544), Expect = 1e-52, Method: Compositional matrix adjust.
Identities = 114/303 (37%), Positives = 191/303 (63%), Gaps = 1/303 (0%)
Query: 252 DRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKA 311
+ DP+R +L LL+ +EE Q+Q LI LEK K L+++ G +P+ +W++A
Sbjct: 6 NHTDPVRAYLREIGRVPLLSHEEEILYAKQVQRLIFLEKIKESLRAKLGSDPSDRQWSEA 65
Query: 312 IGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
+S L+ EL +G+ ++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VE
Sbjct: 66 AEISEEQLRRELGAGDFAKRKMVEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVE 125
Query: 372 KFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHS 431
KF P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q+ +
Sbjct: 126 KFDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRA 185
Query: 432 PDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQK 491
+LA + +T +++ + +R PLS+ V +QDT E+ DTG+ D +
Sbjct: 186 ATIAELAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGELLEDTGLSPEDYTAYS 245
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
L + + L+ L P+++ ++ LRFG+++G+P +L+++G +S+ERVRQ+E A+ +
Sbjct: 246 SL-QVDLEKLMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAK 304
Query: 552 LKQ 554
L++
Sbjct: 305 LRK 307
>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 = 214 bits (544), Expect = 1e-52, Method: Compositional matrix adjust.
Identities = 117/309 (37%), Positives = 182/309 (58%), Gaps = 1/309 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + +RTIRLP +I L+K+ +A+R Q+ +P
Sbjct: 142 DPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQKLGRAPS 201
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + R+PLS+ + + DT E+ D G P+ V +
Sbjct: 202 VGELATELDLTPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDPGAS-PEEFVMQTS 260
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + ++ L P++R ++ LRFG+ DG+ +L+ +G I +S+ERVRQ+E AL +L+
Sbjct: 261 LSSDLERVMEELTPQQREVITLRFGLIDGQALTLARIGEILNISRERVRQIEREALNKLR 320
Query: 554 QSLGGKASY 562
+S Y
Sbjct: 321 KSKAAMNEY 329
>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 = 214 bits (544), Expect = 1e-52, Method: Compositional matrix adjust.
Identities = 113/301 (37%), Positives = 187/301 (62%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q+ +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQKNGRAAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + +R PLS+ V + DT E+ D G PD
Sbjct: 188 IPELAEELDLTTKQVRDYLEKSRQPLSLDLRVGDNNDTELIELLEDHGT-TPDDFATSAA 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + +++ L +++ ++ LRFG+ DG+P +L+++G +S+ERVRQ+E AL +L+
Sbjct: 247 LKRDLHRMISDLTAQQQEVLTLRFGLNDGQPHTLAKIGEHLSISRERVRQIEREALSKLR 306
Query: 554 Q 554
+
Sbjct: 307 K 307
>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 = 214 bits (544), Expect = 1e-52, Method: Compositional matrix adjust.
Identities = 114/301 (37%), Positives = 189/301 (62%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q+ +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + R PLS+ V +QDT E+ D G+ D + L
Sbjct: 188 IAELAEELDLTPKQVRDYLERARQPLSLDLKVGDNQDTELGELLEDKGLSPEDYTAYSSL 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + L+ L P+++ ++ LRFG+++G+P +L+++G +S+ERVRQ+E A+ +L+
Sbjct: 248 -QVDLEKLMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLR 306
Query: 554 Q 554
+
Sbjct: 307 K 307
>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 = 214 bits (544), Expect = 1e-52, Method: Compositional matrix adjust.
Identities = 114/308 (37%), Positives = 183/308 (59%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +R Q S
Sbjct: 138 PMKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRVQRELSQTLGRSATV 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + + V ++ + + R P+S+ + +QDT QE+ D D +V++ L
Sbjct: 198 GEIAEALELEVTQVREYLTMARQPISLDVRIGDNQDTELQELLEDDTASPEDFTVRESL- 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+Q ++ LL L P+++ ++ LR+G+ DG SL++VGN +S+ERVRQLE +AL L++
Sbjct: 257 KQDIQTLLAELTPQQQEVITLRYGLNDGNELSLAKVGNRLNISRERVRQLEQQALKHLRR 316
Query: 555 SLGGKASY 562
+Y
Sbjct: 317 RKANVRAY 324
>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 = 214 bits (544), Expect = 1e-52, Method: Compositional matrix adjust.
Identities = 118/309 (38%), Positives = 183/309 (59%), Gaps = 1/309 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + +RTIRLP +I L+K+ +A+R Q SP
Sbjct: 142 DPSKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRYLSQTLGRSPS 201
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA+ + IT +++ + R+PLS+ + + DT E+ D G D +Q L
Sbjct: 202 IAELAQELEITPKQVRDCLEKARLPLSLDLRLGDNYDTELGEMLEDPGASPEDYVIQSSL 261
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ R ++T L P++R +++LRFG+ DG+ +L+ +G + +S+ERVRQ+E AL RL+
Sbjct: 262 SSELDR-MMTHLTPQQREVIKLRFGLVDGQSMTLARIGEVLNISRERVRQIEREALTRLR 320
Query: 554 QSLGGKASY 562
+ + Y
Sbjct: 321 RCKTSMSEY 329
>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 = 213 bits (543), Expect = 1e-52, Method: Compositional matrix adjust.
Identities = 117/309 (37%), Positives = 186/309 (60%), Gaps = 1/309 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q+ +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQKQGRAAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA+ + +T ++ + R PLS+ V +QDT E+ DTG D + L
Sbjct: 188 ISELAQELELTPRQVREYLERARQPLSLDLRVGDNQDTELGELLEDTGTSPEDYATHSSL 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + L++ L P++R ++ LRFG+ DG+P +L+++G +S+ERVRQ+E AL +L+
Sbjct: 248 -QLDLEKLMSDLTPQQREVLALRFGLVDGQPLTLAKIGVRLNISRERVRQIEREALSKLR 306
Query: 554 QSLGGKASY 562
+ Y
Sbjct: 307 KRKANIKEY 315
>gi|119489578|ref|ZP_01622338.1| RNA polymerase sigma factor [Lyngbya sp. PCC 8106]
gi|119454490|gb|EAW35638.1| RNA polymerase sigma factor [Lyngbya sp. PCC 8106]
Length = 319
Score = 213 bits (543), Expect = 2e-52, Method: Compositional matrix adjust.
Identities = 116/307 (37%), Positives = 186/307 (60%), Gaps = 4/307 (1%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q+ +
Sbjct: 129 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRSLAQDLGRAAT 188
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + + +++ + R+PLS+ V +QDT ++ D G D ++Q
Sbjct: 189 IAELADELDLNPKQIREYLERARLPLSLDLRVGDNQDTELGDLLEDDGASPEDYALQSS- 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL- 552
MR + L+ L ++R ++ LRFG+E+G+ +L+++G+ +S+ERVRQ+E AL +L
Sbjct: 248 MRSDLEVLMADLTDQQRQVLALRFGLENGQTMTLAKIGDRLNISRERVRQIEREALTKLR 307
Query: 553 --KQSLG 557
KQ +G
Sbjct: 308 KRKQDMG 314
>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 = 213 bits (543), Expect = 2e-52, Method: Compositional matrix adjust.
Identities = 115/309 (37%), Positives = 187/309 (60%), Gaps = 1/309 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + +RTIRLP +I L+K+ +A+R Q+ +P
Sbjct: 142 DPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQQLGRAPS 201
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA+ + +T +++ + R+PLS+ + + DT E+ D G P+ V +
Sbjct: 202 AAELAQELDLTPKQVREYLERARLPLSLDLRLGDNYDTELGEMLEDPGAS-PEEFVMQSS 260
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + L+ L P+++ +++LRFG+ DG+ +L+++G+I +S+ERVRQ+E AL +L+
Sbjct: 261 LSYDLERLMEELTPQQKEVIKLRFGLLDGQALTLAKIGDILNISRERVRQIEREALTKLR 320
Query: 554 QSLGGKASY 562
+S Y
Sbjct: 321 KSKASMNEY 329
>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 = 213 bits (543), Expect = 2e-52, Method: Compositional matrix adjust.
Identities = 115/294 (39%), Positives = 182/294 (61%), Gaps = 1/294 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ +++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF++YAYWW
Sbjct: 82 AKRRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWW 141
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + SRTIRLP +I L+K+ +A+R Q+ + +LA + +T +++
Sbjct: 142 IRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQQYGRAATVMELAAELELTPKQV 201
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ R PLS+ V +QDT E+ D G + + Q L R+ + L+ L P+
Sbjct: 202 RDYLEKARQPLSLDLRVGDNQDTELSELLEDEGPSPEEFATQAAL-RRDLDRLMGDLTPQ 260
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASY 562
++ ++RLRFG+ DG+ +L+++G + +S+ERVRQ+E AL +L++ G Y
Sbjct: 261 QQQVLRLRFGLTDGQTLTLAKIGEMLSISRERVRQIEREALTKLRKRRGDMQEY 314
>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 = 213 bits (542), Expect = 2e-52, Method: Compositional matrix adjust.
Identities = 119/311 (38%), Positives = 186/311 (59%), Gaps = 1/311 (0%)
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 KFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHS 431
KF P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q+ +
Sbjct: 126 KFDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQKLGRT 185
Query: 432 PDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQK 491
+LA + +T ++L R PLS++ V ++DT E+ DTG P+ V +
Sbjct: 186 ATISELAIELNLTPDQLREYFEQARQPLSLELRVGDNKDTELVELLEDTGPG-PEDFVNQ 244
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
LM+ + + L P++R ++RLR+G+ + +P +L+++G +S+ERVRQ+E A+ +
Sbjct: 245 SLMQLDLEKFMDDLTPQQRQVLRLRYGLAEVEPMTLAKIGQHLNISRERVRQIEREAIAK 304
Query: 552 LKQSLGGKASY 562
L++ G Y
Sbjct: 305 LRKRQGDMREY 315
>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 = 213 bits (542), Expect = 2e-52, Method: Compositional matrix adjust.
Identities = 114/329 (34%), Positives = 196/329 (59%), Gaps = 13/329 (3%)
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 QYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRL 406
+Y RG+ DL+QEG++GL ++ EKF P+ G +F++YAYWW+RQ I + I RTIRL
Sbjct: 137 RYLNRGVPFLDLIQEGALGLNRAAEKFDPEKGYKFSTYAYWWIRQGITRTIANQGRTIRL 196
Query: 407 PENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVW 466
P +I L+K+ + R + +P + +LAR + ++ E L L + R LS+ +
Sbjct: 197 PVHIVEQLNKLKKVYRDLKRSLQRNPTETELAREMEVSCEHLRYLQQVRRQSLSLNHRIG 256
Query: 467 ADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPK 525
+++ + ++ D + P+ + + +MRQ + +L ++L +E+ IV +R+G+ G+P
Sbjct: 257 SEESSELLDVLEDNATQSPEAQMNEMMMRQDILEVLDSILTEREKEIVAMRYGLLTGEPY 316
Query: 526 SLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+L EV ++F LS+ERVRQ++++A+ +L++
Sbjct: 317 TLEEVSSLFNLSRERVRQIQNKAMRKLRR 345
>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 = 213 bits (542), Expect = 2e-52, Method: Compositional matrix adjust.
Identities = 119/315 (37%), Positives = 194/315 (61%), Gaps = 1/315 (0%)
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 QEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLE 419
QEGS+GL + VEKF P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+ +
Sbjct: 123 QEGSLGLERGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKK 182
Query: 420 AKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITAD 479
+R Q+ + ++A + + ++ ++R P+S+ V +QDT ++ D
Sbjct: 183 TQRQLAQDLGRAATIAEIAEALELEPAQIREYFRVSRHPISLDVRVGDNQDTELMDLLED 242
Query: 480 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 539
+G E PD +V +L++Q +R+L+ L P+++ ++ LRFG+ DGK SL+++G LS+E
Sbjct: 243 SG-ESPDNNVTYELLKQDLRDLIADLTPQQQEVIILRFGLNDGKELSLAKIGKRMNLSRE 301
Query: 540 RVRQLESRALYRLKQ 554
RVRQLE +AL L++
Sbjct: 302 RVRQLERQALNHLRR 316
>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 = 213 bits (542), Expect = 2e-52, Method: Compositional matrix adjust.
Identities = 113/286 (39%), Positives = 181/286 (63%), Gaps = 1/286 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E Q+Q L +++ + +L + G EP L EWA A LS +L+ ++ G
Sbjct: 23 LLTHEQEILYGKQVQQLAIVQQVREELSDRLGHEPDLTEWATAAKLSEAELQGVVNRGEL 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF++YAYWW
Sbjct: 83 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWW 142
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + RTIRLP +I L+K+ +A+R Q+ + +LA+ + +T +++
Sbjct: 143 IRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQQLGRAATIGELAQELELTPKQV 202
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ +R PLS+ V +QDT E+ DT D + Q L R + L+ L P+
Sbjct: 203 REYLERSRQPLSLDVRVGDNQDTELGELLEDTAASPEDFTSQASL-RADLDRLMADLTPQ 261
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+R ++ LRFG+EDG+P +L++VG++ +S+ERVRQ+E AL +L++
Sbjct: 262 QRQVLSLRFGLEDGQPLTLAKVGDMLNISRERVRQIEREALSKLRK 307
>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 = 213 bits (541), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 112/300 (37%), Positives = 185/300 (61%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q+SRTIRLP +I L+K+ +R Q+ +
Sbjct: 143 PMRGYKFSTYAYWWIRQAITRAIAQNSRTIRLPIHITEKLNKIKRVQRELFQQYGRNATP 202
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + +R P+S+ V +QDT Q++ D D V +QL+
Sbjct: 203 TEIAKALDLEPSQIRDYLLASRHPVSLDLRVGDNQDTELQDLLEDESAS-ADNYVTQQLL 261
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ +++L+ L P++R ++ LR+G+ DGK SLS+VG +S+ERVRQLE++AL L++
Sbjct: 262 RQDLKDLMADLTPQQREVLTLRYGLNDGKEMSLSKVGVHMNISRERVRQLENQALNHLRR 321
>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 = 213 bits (541), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 113/294 (38%), Positives = 178/294 (60%), Gaps = 1/294 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL+ +EE Q+Q L++ + +L +Q GREP++ EWAKA L+ DL + G
Sbjct: 37 LLSHEEEIRYGKQVQRSTTLQEMREELATQSGREPSVEEWAKAANLNPADLLEAIADGEI 96
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K++ ANLRLVV VAK+Y R + L DL+QEGS+G+ + VEKF P G RF++YAYWW
Sbjct: 97 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPTKGYRFSTYAYWW 156
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + +RTIRLP +I L+K+ +A+R Q +P +LA + +T +++
Sbjct: 157 IRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQRLGRAPTAGELANELELTPKQV 216
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ R+PLS+ + + DT E+ D G D +Q L + L+ L P+
Sbjct: 217 REYLEKARLPLSLDLRLGDNYDTELGEMLEDPGASPEDFVMQSSL-SNDLEVLMEQLTPQ 275
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASY 562
++ ++ LRFG+ DG+ +L+ +G I +S+ERVRQ+E AL +L++S Y
Sbjct: 276 QKEVITLRFGLIDGQALTLARIGEILNISRERVRQIEREALTKLRKSKANMGEY 329
>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 = 213 bits (541), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 116/308 (37%), Positives = 183/308 (59%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ + +R Q SP+
Sbjct: 141 PIRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKVQRELAQTLGRSPNA 200
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + + ++ + + R P+S+ V +QDT Q++ D G+ P+ + ++ +
Sbjct: 201 VEIAEALELEPAQIREYLNLARQPVSLDVRVGDNQDTELQDLLEDDGIS-PENYMTQESL 259
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + LL+ L P++R ++ LRFG++DG SL++VG LS+ERVRQLE +AL L++
Sbjct: 260 RQDLDTLLSELTPQQREVLNLRFGLQDGNELSLAKVGERLNLSRERVRQLEHQALAHLRR 319
Query: 555 SLGGKASY 562
Y
Sbjct: 320 RRANVQEY 327
>gi|291566702|dbj|BAI88974.1| group 2 RNA polymerase sigma factor SigB [Arthrospira platensis
NIES-39]
Length = 334
Score = 213 bits (541), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 112/300 (37%), Positives = 186/300 (62%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q+SRTIRLP +I L+K+ +R Q+ +
Sbjct: 145 PMRGYKFSTYAYWWIRQAITRAIAQNSRTIRLPIHITEKLNKIKRVQRELFQQYGRNATP 204
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + +R P+S+ V +QDT Q++ D D V +QL+
Sbjct: 205 TEIAKALDLEPSQIRDYLLASRHPVSLDLRVGDNQDTELQDLLEDESAS-ADSYVTQQLL 263
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ +++++ L P++R ++ LR+G+ DGK SLS+VG +S+ERVRQLE++AL L++
Sbjct: 264 RQDLKDMMADLTPQQREVLTLRYGLNDGKEMSLSKVGVQMNISRERVRQLENQALNHLRR 323
>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 = 213 bits (541), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 115/308 (37%), Positives = 186/308 (60%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q +
Sbjct: 126 PTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQRLGRAATI 185
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
+LA + +T ++ + R PLS+ V +QDT E+ D+ + + + Q L+
Sbjct: 186 NELAAELELTPAQVREYLERARQPLSLDVRVGDNQDTELGELLEDSSISPEEFATQS-LL 244
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R + L+ L P++R ++ LRFG+E+G+P +L++VG + +S+ERVRQ+E AL +L++
Sbjct: 245 RSDLERLMAELTPQQRHVLSLRFGLENGQPLTLAKVGELLNISRERVRQIEREALSKLRK 304
Query: 555 SLGGKASY 562
G Y
Sbjct: 305 RRGDIHEY 312
>gi|254424042|ref|ZP_05037760.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 7335]
gi|196191531|gb|EDX86495.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Synechococcus sp. PCC 7335]
Length = 319
Score = 213 bits (541), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 114/306 (37%), Positives = 186/306 (60%), Gaps = 1/306 (0%)
Query: 260 FLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDL 319
+L G LLT ++E L +Q L++LE + L REPTL EWA+A LS L
Sbjct: 14 YLKGIGRFPLLTHEQEITLGKTVQQLMKLEAIRDDLTETMDREPTLAEWAEATNLSPEAL 73
Query: 320 KSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGC 379
K + G +++K++ +NLRLVV +AK+Y+G + + DL+QEGS+GL + VEKF P G
Sbjct: 74 KKTVEIGQQAKDKMMRSNLRLVVSIAKKYRGSKLDMMDLIQEGSLGLCRGVEKFDPLKGY 133
Query: 380 RFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLAR 439
RF++YAYWW+RQ I +AI RTIRLP +I LSK+ +A+R E ++A
Sbjct: 134 RFSTYAYWWIRQAITRAIADTGRTIRLPIHINEKLSKIRKAQREVSLELGRPATVSEVAE 193
Query: 440 RVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVR 499
+V + EK+ L +R+PLS+ + ++Q+T + ++ + P+ + L+++ +
Sbjct: 194 KVSLPAEKVRELQRQSRLPLSLNMRIGSEQNTELGALL-ESDSQSPEEYATQNLLKRDIG 252
Query: 500 NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGK 559
LL L +++ ++ +RFG++DGK K+L+++G+ +S+ERVRQ+E +AL L+ + G
Sbjct: 253 QLLARLTERQKDVISMRFGLDDGKKKTLAQIGHDLDISRERVRQIERKALRTLRHTGRGL 312
Query: 560 ASYGYA 565
Y A
Sbjct: 313 KEYTMA 318
>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 = 212 bits (540), Expect = 4e-52, Method: Compositional matrix adjust.
Identities = 112/300 (37%), Positives = 186/300 (62%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q+SRTIRLP +I L+K+ +R Q+ +
Sbjct: 143 PMRGYKFSTYAYWWIRQAITRAIAQNSRTIRLPIHITEKLNKIKRVQRELFQQYGRNATP 202
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + +R P+S+ V +QDT Q++ D D V +QL+
Sbjct: 203 TEIAKALDLEPSQIRDYLLASRHPVSLDLRVGDNQDTELQDLLEDESAS-ADSYVTQQLL 261
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ +++++ L P++R ++ LR+G+ DGK SLS+VG +S+ERVRQLE++AL L++
Sbjct: 262 RQDLKDMMADLTPQQREVLTLRYGLNDGKEMSLSKVGVQMNISRERVRQLENQALNHLRR 321
>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 = 212 bits (540), Expect = 4e-52, Method: Compositional matrix adjust.
Identities = 115/300 (38%), Positives = 187/300 (62%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q+ +
Sbjct: 129 PTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQQKGRAATV 188
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
+LA + +T +++ + R PLS+ V +QDT ++ D G D + L
Sbjct: 189 TELAEELDLTPKQVREYLERARQPLSLDLRVGDNQDTELGDLLEDDGQSPEDFATHSSL- 247
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ + L+ L +++ ++ LRFG+ DG+P +L+++G+ +S+ERVRQ+E AL +L++
Sbjct: 248 QFDLERLMEDLTSQQKEVIALRFGLLDGQPLTLAKIGSRLNISRERVRQIEREALSKLRK 307
>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 = 212 bits (540), Expect = 4e-52, Method: Compositional matrix adjust.
Identities = 118/300 (39%), Positives = 181/300 (60%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +R IRLP +I L+K+ + +R Q +
Sbjct: 144 PTRGYKFSTYAYWWIRQAITRAIAQQARAIRLPIHITEKLNKIKKVQRELSQTLGRNATP 203
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + I R P+S+ V +QDT E+ D G+ + + Q+ L
Sbjct: 204 TEIAKELDLEPAQIREYLSIARQPISLDVRVGDNQDTELSELLEDDGLTPVNYTTQESL- 262
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + LL L P++R ++ LRFG+EDGK SL++VG LS+ERVRQLE +AL +L++
Sbjct: 263 RQDLNLLLAELTPQQREVLALRFGLEDGKELSLAKVGKRLNLSRERVRQLEHQALAQLRR 322
>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 = 212 bits (539), Expect = 5e-52, Method: Compositional matrix adjust.
Identities = 115/300 (38%), Positives = 180/300 (60%), Gaps = 1/300 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +R Q+ S
Sbjct: 137 DPSRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRTQRELAQKFGRSAT 196
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
++A + + E++ + I+R P+S+ V +QDT QE+ D G P+ ++
Sbjct: 197 PAEIAEALELETEQIREYLTISRQPISLDVRVGDNQDTELQELLEDEGAS-PEQYTAQES 255
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+R + L++ L ++R ++ LRFG+ DG SL++VG LS+ERVRQLE +AL L+
Sbjct: 256 LRHDLDGLMSELTQQQRDVLNLRFGLVDGHGLSLAKVGERLNLSRERVRQLERQALDHLR 315
>gi|359457298|ref|ZP_09245861.1| RNA polymerase sigma factor [Acaryochloris sp. CCMEE 5410]
Length = 327
Score = 212 bits (539), Expect = 5e-52, Method: Compositional matrix adjust.
Identities = 121/309 (39%), Positives = 182/309 (58%), Gaps = 1/309 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +A+R Q+ S
Sbjct: 137 DPTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKAQRELSQKLGRSAT 196
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
++A + + ++ + I R P+S+ V +QDT +++ D G + P+ +
Sbjct: 197 PAEIAEALELEPSQIRDYLTIARQPISLDLRVGDNQDTELRDLLEDDG-QSPEQFTTTEA 255
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+R V LL L P++R ++ LRFG+ +GK SL++VG LS+ERVRQLE +AL L+
Sbjct: 256 LRDDVNQLLKELTPQQRDVLMLRFGLNNGKELSLAKVGQQLSLSRERVRQLERQALDYLR 315
Query: 554 QSLGGKASY 562
+ G Y
Sbjct: 316 RRKGEVREY 324
>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 = 212 bits (539), Expect = 5e-52, Method: Compositional matrix adjust.
Identities = 132/380 (34%), Positives = 207/380 (54%), Gaps = 39/380 (10%)
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 LQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVL 418
+QEG++GL ++VEKF P G RF++YAYWW+RQ I +AI SRTIRLP +I L+K+
Sbjct: 205 IQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIK 264
Query: 419 EAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITA 478
+A+R QE +P ED+AR + +T ++ ++ +S++ V ++DT E+
Sbjct: 265 KAQRKISQEKGRTPTIEDIARELEMTSPQVREVLLRVPRSVSLETKVGKEKDTELGEL-- 322
Query: 479 DTGVEIPDISVQKQLMRQHVR----NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIF 534
+E D++ ++ LMR+ +R LL L +ER ++++RFG+ DG P SL+E+G
Sbjct: 323 ---LETDDVTPEETLMRESLRRDLQQLLADLTSRERDVIQMRFGLGDGHPYSLAEIGRAL 379
Query: 535 GLSKERVRQLESRALYRLKQ 554
LS+ERVRQ+E++AL +L+Q
Sbjct: 380 DLSRERVRQIEAKALQKLRQ 399
>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 = 212 bits (539), Expect = 5e-52, Method: Compositional matrix adjust.
Identities = 118/301 (39%), Positives = 183/301 (60%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q +
Sbjct: 140 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQTLGRAAT 199
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + R PLS+ V +QDT E+ D+G D +
Sbjct: 200 ISELATELDLTPKQVREYLEKARQPLSLDLRVGDNQDTELGELLEDSGPSPEDFATYSA- 258
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
M+ + L+ L ++R ++ LRFG+ DG+P +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 259 MQVDLEKLMADLTEQQREVLMLRFGLVDGQPMTLAKIGDQLKISRERVRQIEREALSKLR 318
Query: 554 Q 554
+
Sbjct: 319 K 319
>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 = 211 bits (538), Expect = 7e-52, Method: Compositional matrix adjust.
Identities = 122/303 (40%), Positives = 191/303 (63%), Gaps = 5/303 (1%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI SRTIRLP +I L+++ + +R Q +P
Sbjct: 168 DPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNRIKKTQRKLSQNLGRTPT 227
Query: 434 KEDLARRVGITVEKLERLIFITRMP--LSMQQPVWADQDTTFQEITADTGVEIPDISVQK 491
++A + + + L ++R+P +S++ V D+DT E+ V + +VQ+
Sbjct: 228 ISEIAEELEMEPAHVREL--MSRVPRSVSLETRVGKDKDTELGELLEAEEVSPEESAVQE 285
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
L R+ V+ LL L +ER ++ +R+G+ DG+ SLSE+G LS+ERVRQ+ES+AL +
Sbjct: 286 SL-RRDVKELLDDLTLRERDVITMRYGLLDGRTYSLSEIGRALDLSRERVRQIESKALQK 344
Query: 552 LKQ 554
L+Q
Sbjct: 345 LRQ 347
>gi|1405331|dbj|BAA11832.1| chloroplast RNA polymerase sigma subunit [Cyanidium caldarium]
Length = 591
Score = 211 bits (538), Expect = 7e-52, Method: Compositional matrix adjust.
Identities = 106/303 (34%), Positives = 185/303 (61%), Gaps = 2/303 (0%)
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 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G RF++YA WW+RQ+I +AI SR+IRLP +++ +S + + + E
Sbjct: 394 EKFDAERGFRFSTYATWWIRQSITRAISDSSRSIRLPVHVHDTISLIRKQTKALQVELGR 453
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P +E++ VGI K ++ +R +S++ P+ + D F + E + +
Sbjct: 454 PPSEEEICESVGIDRAKYRLVMECSRNIVSLETPLRSGDDVHFLGESLIAPEERAEENCS 513
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
+ +R+ + +L L+ +ER ++R+RFG+ DG+P++L EVG+ F +++ER+RQ+ES+AL
Sbjct: 514 RDTLRESIEKVLHCLSTREREVIRMRFGLTDGRPRTLEEVGSRFNVTRERIRQIESKALK 573
Query: 551 RLK 553
+L+
Sbjct: 574 KLR 576
>gi|359462714|ref|ZP_09251277.1| RNA polymerase sigma factor [Acaryochloris sp. CCMEE 5410]
Length = 331
Score = 211 bits (537), Expect = 8e-52, Method: Compositional matrix adjust.
Identities = 112/305 (36%), Positives = 189/305 (61%), Gaps = 9/305 (2%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
PQ G RF++YAYWW+RQ I +AI + RTIRLP ++ L+K+ +R Q SP
Sbjct: 141 DPQRGFRFSTYAYWWIRQGITRAIAEQGRTIRLPIHLTEALNKIKRTQRELSQSLGRSPT 200
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDIS----V 489
++A+ + +T EK+++ + LS+ + DQD++ + +E PD S V
Sbjct: 201 TAEVAQALSLTPEKVQQYLHCAHHTLSIDLKIGDDQDSSIVDF-----IEAPDSSPEKFV 255
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+ + + ++ LL L P++R ++ LR+G+ DG+ +L+ VG +S+ERVRQL++ AL
Sbjct: 256 SDKTLSESLQMLLATLTPQQREVLTLRYGLIDGRELTLAAVGRRMDISRERVRQLQNAAL 315
Query: 550 YRLKQ 554
+L++
Sbjct: 316 SQLQK 320
>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 = 211 bits (537), Expect = 8e-52, Method: Compositional matrix adjust.
Identities = 112/288 (38%), Positives = 192/288 (66%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
S++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 133 SAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 192
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R+ Q+ + +P +++LA+ + + E
Sbjct: 193 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRVLKQQLHRNPTEKELAQALEVDAEN 252
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + +MRQ + +LT +L
Sbjct: 253 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDEDLQLPEEKMNEAMMRQDISAVLTDVLT 312
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG IF LS+ERVRQ++S+A+ +L++
Sbjct: 313 EREKDVIALRYGLSTSQPYTLEEVGGIFNLSRERVRQIQSKAMRKLRR 360
>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 = 211 bits (537), Expect = 8e-52, Method: Compositional matrix adjust.
Identities = 116/309 (37%), Positives = 182/309 (58%), Gaps = 1/309 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQAKGRAAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T ++ + R PLS+ V +QDT E+ DTG D + L
Sbjct: 188 ISELAEELELTPRQVRDYLERARQPLSLDLKVGDNQDTELGELLEDTGTSPEDYATHSSL 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + L++ L P+++ ++ LRFG+ DG+P +L+++G +S+ERVRQ+E AL +L+
Sbjct: 248 -QVDLEKLMSDLTPQQKEVLALRFGLVDGQPLTLAKIGVRLNISRERVRQIEREALSKLR 306
Query: 554 QSLGGKASY 562
+ G Y
Sbjct: 307 KRKGNIKEY 315
>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 = 211 bits (537), Expect = 9e-52, Method: Compositional matrix adjust.
Identities = 122/319 (38%), Positives = 197/319 (61%), Gaps = 3/319 (0%)
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 HDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLS 415
DL+QEG++GL++ VEKF P G +F++YAYWW+RQ I +AI + SRTIRLP +I L+
Sbjct: 138 LDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITETLN 197
Query: 416 KVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE 475
K+ + +R QE +P +LA V + E+++ L+ R P+S++ V +DT +
Sbjct: 198 KLKKGQRELSQELGRTPTLSELAVCVELPEEEVKDLLCRARQPVSLETKVGDGEDTELLD 257
Query: 476 ITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFG 535
+ G +P SV + +R +R LL L +R ++ +R+GI+ +P SL+ +G I G
Sbjct: 258 LLQGDGT-LPAESVDSECLRGDMRALLEQLPELQRSVLSMRYGIDVEEPMSLTGIGRILG 316
Query: 536 LSKERVRQLESRALYRLKQ 554
+S++R+R LE L L++
Sbjct: 317 MSRDRIRNLERDGLASLRR 335
>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 = 211 bits (537), Expect = 9e-52, Method: Compositional matrix adjust.
Identities = 113/301 (37%), Positives = 189/301 (62%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q+ +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQDKGRAAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + +R PLS+ V +QDT E+ D G+ D + L
Sbjct: 188 IAELAEELDLTPKQVRDYLERSRQPLSLDLKVGDNQDTELGELLEDPGLSPEDYTAYSSL 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + L+ L P+++ ++ LRFG+++G+P +L+++G +S+ERVRQ+E A+ +L+
Sbjct: 248 -QVDLEKLMADLTPQQKEVICLRFGLDNGQPLTLAKIGVRLNISRERVRQIEREAIAKLR 306
Query: 554 Q 554
+
Sbjct: 307 K 307
>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 = 211 bits (537), Expect = 9e-52, Method: Compositional matrix adjust.
Identities = 96/251 (38%), Positives = 166/251 (66%)
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
+DL + G + +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 105 AQDLGRLVVQGRMAERRLIEANLRLVVSVAKRYAGRGLTMLDLVQEGNLGLIRAVEKFDY 164
Query: 376 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE H P E
Sbjct: 165 TRGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGHEPSAE 224
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMR 495
++A ++ +T E++E ++ + + P+S+ PV + D F ++ D P S L+R
Sbjct: 225 EVAAQLDLTPERVETILRLAQEPVSLHAPVGEEDDVAFGDLIEDGDAPSPVESAAFLLLR 284
Query: 496 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
+H+ +L+ L +ER +V+LR+G++DG+P++L E+G +FG+++ER+RQ+ES+ L RL+
Sbjct: 285 EHLEAVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRLFGVTRERIRQIESKTLARLRDH 344
Query: 556 LGGKASYGYAD 566
GY D
Sbjct: 345 AFADQLRGYLD 355
>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 = 211 bits (536), Expect = 1e-51, Method: Compositional matrix adjust.
Identities = 113/300 (37%), Positives = 189/300 (63%), Gaps = 6/300 (2%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I +AI +RTIRLP +I ++++ +A R Q+ SP
Sbjct: 154 DYTRGFKFSTYATWWIRQGITRAIAMQARTIRLPVHIVEKVNRIKKATRQLSQQLGRSPS 213
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
++++A+ V + ++L + ++P+S++ PV ++DT ++ G E P+ V + L
Sbjct: 214 EDEIAQAVEMDADQLRFVRKAIQLPVSLETPVGREEDTALGDLIQAKGNE-PEHGVVRDL 272
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
M Q + +LL L P+ER ++RLR+G+ DG+ ++L EVG FGL++ER+RQ+E+RAL +L+
Sbjct: 273 MNQDLESLLQTLTPRERDVLRLRYGLIDGRSRTLDEVGQQFGLTRERIRQIEARALRKLR 332
>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 = 211 bits (536), Expect = 1e-51, Method: Compositional matrix adjust.
Identities = 116/295 (39%), Positives = 175/295 (59%), Gaps = 31/295 (10%)
Query: 286 IRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS----------------- 328
+ L + +L S G P+L WA+ G+S DLK L SG
Sbjct: 139 VHLMDTRDRLTSHLGHRPSLERWAETAGISVVDLKPTLSSGKRHWAELASLTVAELEEAI 198
Query: 329 -----SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAS 383
++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++
Sbjct: 199 REGLRAKEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFST 258
Query: 384 YAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGI 443
YAYWW+RQ I +AI SRTIRLP +I L+K+ +A+R Q+ +P +D+AR + +
Sbjct: 259 YAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQDQGRTPTLDDVARELDM 318
Query: 444 TVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVR---- 499
T ++ ++ +S++ V ++DT ++ +E IS ++ LMR+ +R
Sbjct: 319 TAAQVREVLLRVPRSVSLETKVGKERDTELGDL-----LETDSISPEELLMREALRRDLQ 373
Query: 500 NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
L+ L +ER ++RLRFG+ DG P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 374 QLMADLTDREREVIRLRFGLGDGNPFSLAEIGRALDLSRERVRQIESKALQKLRQ 428
>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 = 211 bits (536), Expect = 1e-51, Method: Compositional matrix adjust.
Identities = 112/302 (37%), Positives = 183/302 (60%), Gaps = 1/302 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + +RTIRLP +I L+K+ +A+R Q+ +P
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQKLGRAPT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA+ + +T ++++ + R+PLS+ + + DT E+ DTG D +Q L
Sbjct: 188 ATELAQELELTPKQVQECLEKARLPLSLDLRLGDNYDTELGELLEDTGASPEDFVMQSSL 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ ++ L P+++ +++LRFG+ DG+ +L+++G I +S+ERVRQ+E AL +L+
Sbjct: 248 -SYDLERMMAELTPQQKEVIKLRFGLLDGQSLTLAKIGEILNISRERVRQIEREALTKLR 306
Query: 554 QS 555
+S
Sbjct: 307 KS 308
>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 = 211 bits (536), Expect = 1e-51, Method: Compositional matrix adjust.
Identities = 111/300 (37%), Positives = 185/300 (61%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q+SRTIRLP +I L+K+ +R Q+ +
Sbjct: 205 PMRGYKFSTYAYWWIRQAITRAIAQNSRTIRLPIHITEKLNKIKRVQRELFQQYGRNATP 264
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + +R P+S+ V +QDT Q++ D D V ++L+
Sbjct: 265 TEIAKALDLEPSQIRDYLLASRHPVSLDLRVGDNQDTELQDLLEDESAS-ADSYVTQELL 323
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ +++L+ L P++R ++ LR+G+ DGK SLS+VG +S+ERVRQLE++AL L++
Sbjct: 324 RQDLKDLMADLTPQQREVLTLRYGLNDGKEMSLSKVGVHMNISRERVRQLENQALNHLRR 383
>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 = 211 bits (536), Expect = 1e-51, Method: Compositional matrix adjust.
Identities = 109/313 (34%), Positives = 190/313 (60%), Gaps = 4/313 (1%)
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 EGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEA 420
EG GL++ EKF G RF++Y++WW++Q IRK++ + ++ IRLP ++ S+V E
Sbjct: 331 EGIQGLVRGAEKFDASKGFRFSTYSHWWIKQAIRKSVLEQTQIIRLPAHMAEASSRVKEC 390
Query: 421 KRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADT 480
+R ++ P E++A G+ + ++E + + + +S+ V D T+QEIT DT
Sbjct: 391 RRRLRRQLKRLPTNEEIASDTGMPLRRVEAAMSLPKYTVSLTSKVGC-TDMTYQEITPDT 449
Query: 481 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 540
E + + + LM++ V L L+P+ER ++R RFG++DG+ ++L ++G + G+S+ER
Sbjct: 450 STETAEEMLHRWLMKEDVDRALDGLSPRERQVIRYRFGMDDGRLRTLHDIGRLMGVSRER 509
Query: 541 VRQLESRALYRLK 553
+RQ+E A +L+
Sbjct: 510 IRQIELVAFRKLR 522
>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 = 210 bits (535), Expect = 1e-51, Method: Compositional matrix adjust.
Identities = 114/294 (38%), Positives = 178/294 (60%), Gaps = 1/294 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E Q+Q L L + ++ L++ GREP+L EWA LS +L + G
Sbjct: 23 LLTHEQEILYGKQVQMLASLNETRTGLETALGREPSLEEWASQANLSPGELNEIIQGGER 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF++YAYWW
Sbjct: 83 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWW 142
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + RTIRLP +I L+K+ +A+R Q + +LA + +T ++
Sbjct: 143 IRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQSLGRAATINELAVELELTPAQV 202
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ R PLS+ V +QDT E+ D + + + Q L R + L+ L P+
Sbjct: 203 REYLERARQPLSLDVRVGDNQDTELGELLEDPSLSPEEFTSQSAL-RADLDRLMADLTPQ 261
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASY 562
+R ++ LRFG+EDG+P +L++VG++ +S+ERVRQ+E AL +L++ G Y
Sbjct: 262 QRQVIALRFGLEDGQPLTLAKVGDLLNISRERVRQIEREALGKLRKRRGDIHEY 315
>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 = 210 bits (535), Expect = 1e-51, Method: Compositional matrix adjust.
Identities = 117/314 (37%), Positives = 194/314 (61%), Gaps = 1/314 (0%)
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 KFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHS 431
KF P G +F++YAYWW+RQ I +AI +RTIRLP +I L+K+ +A+R Q+ + +
Sbjct: 188 KFDPDKGYKFSTYAYWWIRQAITRAIANDARTIRLPIHIVEKLNKLKKAQREIKQKLHRN 247
Query: 432 PDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQK 491
+ +LA+ + T E+L +L + R LS+ V ++DT ++ D + P+ + +
Sbjct: 248 ATENELAQALDTTPEQLRQLQQLRRKSLSLNHRVGKEEDTELVDLLEDEDGQSPEQQMNE 307
Query: 492 QLMRQHVRNLLT-LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
+MRQ + ++L +L P+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++S+A+
Sbjct: 308 TMMRQEIWDVLADVLTPREKDVISLRYGLTTSEPCTLEEVGCLFNLSRERVRQIQSKAMR 367
Query: 551 RLKQSLGGKASYGY 564
+L++ K G+
Sbjct: 368 KLRRPQIAKRLKGW 381
>gi|125585746|gb|EAZ26410.1| hypothetical protein OsJ_10293 [Oryza sativa Japonica Group]
Length = 497
Score = 210 bits (535), Expect = 1e-51, Method: Compositional matrix adjust.
Identities = 109/313 (34%), Positives = 190/313 (60%), Gaps = 4/313 (1%)
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 EGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEA 420
EG GL++ EKF G RF++Y++WW++Q IRK++ + ++ IRLP ++ S+V E
Sbjct: 288 EGIQGLVRGAEKFDASKGFRFSTYSHWWIKQAIRKSVLEQTQIIRLPAHMAEASSRVKEC 347
Query: 421 KRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADT 480
+R ++ P E++A G+ + ++E + + + +S+ V D T+QEIT DT
Sbjct: 348 RRRLRRQLKRLPTNEEIASDTGMPLRRVEAAMSLPKYTVSLTSKVGC-TDMTYQEITPDT 406
Query: 481 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 540
E + + + LM++ V L L+P+ER ++R RFG++DG+ ++L ++G + G+S+ER
Sbjct: 407 STETAEEMLHRWLMKEDVDRALDGLSPRERQVIRYRFGMDDGRLRTLHDIGRLMGVSRER 466
Query: 541 VRQLESRALYRLK 553
+RQ+E A +L+
Sbjct: 467 IRQIELVAFRKLR 479
>gi|411007263|ref|ZP_11383592.1| RNA polymerase principal sigma factor [Streptomyces globisporus
C-1027]
Length = 363
Score = 210 bits (535), Expect = 1e-51, Method: Compositional matrix adjust.
Identities = 97/249 (38%), Positives = 165/249 (66%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G +++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 115 DLDRLVVMGRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 174
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE P ED+
Sbjct: 175 GYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGVEPTAEDI 234
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A + +T E++ ++ + + P+S+ PV + D +F ++ D P S L+RQH
Sbjct: 235 AVELDLTPERVTEVLRLAQEPVSLHAPVGEEDDVSFGDLIEDGDAASPVESAAFLLLRQH 294
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 557
+ +L+ L +ER +V+LR+G++DG+P++L E+G IFG+++ER+RQ+ES+ L RL+
Sbjct: 295 LEAVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLSRLRDHAF 354
Query: 558 GKASYGYAD 566
GY D
Sbjct: 355 ADQLRGYLD 363
>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 = 210 bits (535), Expect = 2e-51, Method: Compositional matrix adjust.
Identities = 97/249 (38%), Positives = 165/249 (66%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G +++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 147 DLDRLVVMGRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 206
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE P ED+
Sbjct: 207 GYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGVEPTAEDI 266
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A + +T E++ ++ + + P+S+ PV + D +F ++ D P S L+RQH
Sbjct: 267 AVELDLTPERVTEVLRLAQEPVSLHAPVGEEDDVSFGDLIEDGDAASPVESAAFLLLRQH 326
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 557
+ +L+ L +ER +V+LR+G++DG+P++L E+G IFG+++ER+RQ+ES+ L RL+
Sbjct: 327 LEAVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLSRLRDHAF 386
Query: 558 GKASYGYAD 566
GY D
Sbjct: 387 ADQLRGYLD 395
>gi|239987439|ref|ZP_04708103.1| putative RNA polymerase principal sigma factor [Streptomyces
roseosporus NRRL 11379]
Length = 363
Score = 210 bits (535), Expect = 2e-51, Method: Compositional matrix adjust.
Identities = 97/249 (38%), Positives = 165/249 (66%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G +++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 115 DLDRLVVMGRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 174
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE P ED+
Sbjct: 175 GYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGVEPTAEDI 234
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A + +T E++ ++ + + P+S+ PV + D +F ++ D P S L+RQH
Sbjct: 235 AVELDLTPERVTEVLRLAQEPVSLHAPVGEEDDVSFGDLIEDGDAASPVESAAFLLLRQH 294
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 557
+ +L+ L +ER +V+LR+G++DG+P++L E+G IFG+++ER+RQ+ES+ L RL+
Sbjct: 295 LEAVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLSRLRDHAF 354
Query: 558 GKASYGYAD 566
GY D
Sbjct: 355 ADQLRGYLD 363
>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 = 210 bits (534), Expect = 2e-51, Method: Compositional matrix adjust.
Identities = 116/297 (39%), Positives = 175/297 (58%), Gaps = 23/297 (7%)
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 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G RF++YAYWW+RQ I +AI SRTIRLP +I L+K+ +A+R QE +P EDL
Sbjct: 226 GYRFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDL 285
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A + +T ++ ++ +S++ V D+DT E+ V P+ + ++ +++
Sbjct: 286 AIELEMTPSQVREVLLRVPRSVSLETKVGKDKDTELGELLETDSV-TPEEMLMRESLQRD 344
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++NLL L +ER ++ +RFG+ DG P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 345 LQNLLADLTTRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 401
>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 = 210 bits (534), Expect = 2e-51, Method: Compositional matrix adjust.
Identities = 113/294 (38%), Positives = 178/294 (60%), Gaps = 1/294 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT +EE Q+Q L++ + L S+ R+PTL EWAKA L +L + G
Sbjct: 23 LLTHEEEIFYGKQVQRSSSLQEVREDLASKLDRQPTLEEWAKAAELDIAELNEAIADGEF 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K++ ANLRLVV VAK+Y R + L DL+QEGS+G+ + VEKF P G RF++YAYWW
Sbjct: 83 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPTKGYRFSTYAYWW 142
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + +RTIRLP +I L+K+ +A+R Q +P +LA + +T +++
Sbjct: 143 IRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQRLGRAPSASELASELELTPKQV 202
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ R+PLS+ + + DT E+ D G P+ V + + + L+ L P+
Sbjct: 203 REYLEKARLPLSLDLRLGDNYDTELGEMLEDPGAS-PEEFVMQSSLSYDLERLMEQLTPQ 261
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASY 562
+R +++LRFG+ DG+ +L+++G I +S+ERVRQ+E AL +L++S Y
Sbjct: 262 QREVIKLRFGLMDGQALTLAKIGEILNISRERVRQIEREALTKLRKSKASMDEY 315
>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 = 210 bits (534), Expect = 2e-51, Method: Compositional matrix adjust.
Identities = 115/309 (37%), Positives = 182/309 (58%), Gaps = 1/309 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + +RTIRLP +I L+K+ +A+R Q+ +P
Sbjct: 142 DPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQKLGRAPT 201
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T ++ + R+PLS+ + + DT E+ DTG D +Q L
Sbjct: 202 AIELADELELTPRQVRECLEKARLPLSLDLRLGDNYDTELGEMLEDTGATPEDFVIQSSL 261
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ L+ L P+++ +++LRFG+ DG+ +LS++G I +S+ERVRQ+E AL +L+
Sbjct: 262 -SSDIERLMKELTPQQKEVIKLRFGLIDGQALTLSKIGEILNISRERVRQIEREALTKLR 320
Query: 554 QSLGGKASY 562
+S Y
Sbjct: 321 KSKANINEY 329
>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 = 210 bits (534), Expect = 2e-51, Method: Compositional matrix adjust.
Identities = 119/314 (37%), Positives = 190/314 (60%), Gaps = 1/314 (0%)
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 EGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEA 420
EG+MGL + VEKF P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +
Sbjct: 124 EGTMGLERGVEKFDPMRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKV 183
Query: 421 KRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADT 480
+R Q+ + ++A + + ++ + + R P+S+ V +QDT Q++ D
Sbjct: 184 QRELSQKLGRAASAAEIAEALELEPAQIREFLIMARQPVSLDLRVGDNQDTELQDLLEDD 243
Query: 481 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 540
G P+I + ++ +RQ + LL L P++R ++ LRFG+EDG SL++VG +S+ER
Sbjct: 244 GPS-PEIFMAQESLRQDLETLLADLTPQQREVISLRFGLEDGHELSLAKVGERMNISRER 302
Query: 541 VRQLESRALYRLKQ 554
VRQLE +AL L++
Sbjct: 303 VRQLERQALDHLRR 316
>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 = 210 bits (534), Expect = 2e-51, Method: Compositional matrix adjust.
Identities = 115/318 (36%), Positives = 187/318 (58%), Gaps = 14/318 (4%)
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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+++VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ +++++ R Q
Sbjct: 201 IRAVEKFNYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRMMRTARRLTQ 260
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E P E+LA+ + +TVEK+ + + P+S++ PV ++D+ + D +E P
Sbjct: 261 ENGREPSDEELAQALDLTVEKVRSIRKTSMEPVSLETPVGQEEDSQLGDFLPDEKLEAPS 320
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+ Q++R+ V +L L +E+ +++LRFG+EDG ++L EVG FG+++ER+RQ+E
Sbjct: 321 DAASHQMLREQVAQVLDQLTEREKRVLKLRFGLEDGTQRTLEEVGKEFGVTRERIRQIEV 380
Query: 547 RALYRLKQSLGGKASYGY 564
+AL +L+ GK Y
Sbjct: 381 KALRKLRHPRFGKKLRDY 398
>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 = 209 bits (533), Expect = 2e-51, Method: Compositional matrix adjust.
Identities = 118/309 (38%), Positives = 183/309 (59%), Gaps = 1/309 (0%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT +EE ++Q L+ LEK K +L+ + E + EWAKA
Sbjct: 8 TDSVRSYLKEIGRVPLLTHEEEIIYAKRVQKLVELEKCKHQLEEKTKTELSEAEWAKAAN 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
++ L+ ++ +G ++ K+I ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 VTVAKLRKDVDAGEVAKRKMIEANLRLVVSVAKKYLKRNLDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q+ S
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQIAQQKGRSAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T ++ + R PLS+ V + DT E+ D+G D + L
Sbjct: 188 IAELAEELELTPRQVREYLERARQPLSLDLRVGDNNDTELGELLEDSGQSPEDYATYSSL 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R L+ L P++R ++ LRFG+ DGKP +LS++G + +S+ERVRQ+E AL +L+
Sbjct: 248 QFDLDR-LMDDLTPQQREVISLRFGLTDGKPLTLSKIGVLLNISRERVRQIEREALAKLR 306
Query: 554 QSLGGKASY 562
+ + Y
Sbjct: 307 KRKSDMSEY 315
>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 = 209 bits (533), Expect = 2e-51, Method: Compositional matrix adjust.
Identities = 114/301 (37%), Positives = 181/301 (60%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q+ +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQQLGRAAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + ++ +++ + R+PLS+ V + DT E+ DTGV PD V +
Sbjct: 188 VSELAAELELSPKQVREYLERARLPLSLDLRVGDNHDTELGELLEDTGVS-PDDFVLQSC 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
M + ++ L P++R ++ LRFG+ DG+ +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 247 MSTDIERMMADLTPQQREVLSLRFGLVDGQSMTLAKIGDRLNISRERVRQIEREALTKLR 306
Query: 554 Q 554
+
Sbjct: 307 K 307
>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 = 209 bits (533), Expect = 2e-51, Method: Compositional matrix adjust.
Identities = 107/309 (34%), Positives = 186/309 (60%), Gaps = 13/309 (4%)
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 GLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLY 424
GL+K+VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++KV+ R
Sbjct: 245 GLIKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVIRVSRQL 304
Query: 425 IQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEI 484
+QE H P E++A + + VE++ ++ I + P+S++ P+ ++D+ + D
Sbjct: 305 LQELGHDPSPEEIAEEMSMPVERVREILKIAQEPVSLETPIGEEEDSHLGDFIPDEDASE 364
Query: 485 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 544
P + L+++ + +L+ L P+E +++LRFGIEDG+ ++L EVG F +++ER+RQ+
Sbjct: 365 PAEAASFTLLKEQLVEVLSTLTPREEKVLKLRFGIEDGRTRTLEEVGKEFNVTRERIRQI 424
Query: 545 ESRALYRLK 553
E++AL +L+
Sbjct: 425 EAKALRKLR 433
>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 = 209 bits (533), Expect = 2e-51, Method: Compositional matrix adjust.
Identities = 97/249 (38%), Positives = 165/249 (66%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G +++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 115 DLDRLVVMGRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 174
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE P ED+
Sbjct: 175 GYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGVEPTAEDI 234
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A + +T E++ ++ + + P+S+ PV + D +F ++ D P S L+R+H
Sbjct: 235 AVDLDLTPERVTDILRLAQEPVSLHAPVGEEDDVSFGDLIEDGDAASPVESAAFLLLREH 294
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 557
+ +L+ L +ER +V+LR+G+EDG+P++L E+G IFG+++ER+RQ+ES+ L RL+
Sbjct: 295 LEAVLSTLGERERKVVQLRYGLEDGRPRTLEEIGRIFGVTRERIRQIESKTLSRLRDHAF 354
Query: 558 GKASYGYAD 566
GY D
Sbjct: 355 ADQLRGYLD 363
>gi|406980685|gb|EKE02255.1| hypothetical protein ACD_20C00407G0008 [uncultured bacterium]
Length = 364
Score = 209 bits (533), Expect = 3e-51, Method: Compositional matrix adjust.
Identities = 104/301 (34%), Positives = 181/301 (60%), Gaps = 37/301 (12%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
+ G +F++YA WW+RQ I +AI +RTIR+P ++ ++K+ + R Q+ + P
Sbjct: 171 DHERGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLKKITRKLAQDLSRKPT 230
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+E++A + IT+ KL +I + + PLS++ P+ ++D+ + D + P ++V +L
Sbjct: 231 EEEIAEAMAITINKLREIIKVAQEPLSLETPIGKEEDSRLGDFIEDKEADAPVMTVAHEL 290
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+R+ + +L+ L+P+ER ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL +L+
Sbjct: 291 LREDLAEVLSSLSPRERDVLRLRFGMDDGRQRTLEEVGQLFGVTRERIRQIEAKALRKLR 350
Query: 554 Q 554
Sbjct: 351 H 351
>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 = 209 bits (533), Expect = 3e-51, Method: Compositional matrix adjust.
Identities = 118/309 (38%), Positives = 184/309 (59%), Gaps = 1/309 (0%)
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 LMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYI 425
L ++V+KF P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +A+R
Sbjct: 135 LERAVDKFDPTKGFKFSTYAYWWIRQAITRAIAQQARTIRLPVHITEKLNKIKKAQRQLA 194
Query: 426 QEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIP 485
Q+ ++A + I E++ + + R P+S+ + +QDT ++ D G P
Sbjct: 195 QDLGRVATAAEVAETLEIKPEQVRECLSLARQPISLDLRIGDNQDTELADLLEDQG-HSP 253
Query: 486 DISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 545
+ + +R V++LL+ L+PK+R ++ LR+G+EDG+ SL+ + LS+E+VRQLE
Sbjct: 254 ETYALNESLRDGVQSLLSELSPKQRQVMILRYGLEDGQELSLASISKRMDLSREQVRQLE 313
Query: 546 SRALYRLKQ 554
+A+ L++
Sbjct: 314 RQAMDALRK 322
>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 = 209 bits (533), Expect = 3e-51, Method: Compositional matrix adjust.
Identities = 112/313 (35%), Positives = 185/313 (59%), Gaps = 40/313 (12%)
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
+AK ++LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 147 -YAK--------------------QRLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 185
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF P+ G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 186 IKGVEKFDPEKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 245
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P ++LA + +T EK++ ++ I R P S++ P+ + D+ + ADT V P+
Sbjct: 246 ELGYEPSVKELAEHLDMTEEKVQEIMQIAREPASLETPIGEEDDSNLGDFVADTNVLSPE 305
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 306 GNVESVMLREHIDTLLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEA 365
Query: 547 RALYRLKQSLGGK 559
+AL +L+ + K
Sbjct: 366 KALRKLRNPVRSK 378
>gi|359460652|ref|ZP_09249215.1| RNA polymerase sigma factor SigD [Acaryochloris sp. CCMEE 5410]
Length = 318
Score = 209 bits (533), Expect = 3e-51, Method: Compositional matrix adjust.
Identities = 114/309 (36%), Positives = 185/309 (59%), Gaps = 1/309 (0%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT +EE Q+QDLI+L+ + +L Q R+P EW+ A
Sbjct: 8 KDSVRSYLREIGRVPLLTHEEEVTFGKQVQDLIKLQAIRDELAEQLERQPNDAEWSVAAQ 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS +L+ LH G +++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 LSEAELQKALHEGEAAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ + +R Q+ +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKTQRQLSQKLGRAAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + R PLS+ V +QDT E+ D + ++Q L
Sbjct: 188 ISELATALDLTTKQVREYLERARQPLSLDVRVGDNQDTELGELIEDPSESPENFTLQASL 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R + L+ L +++ ++ LRFG++DG+P +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 248 -RGDLERLMADLTDQQQQVLHLRFGLDDGQPLTLAKIGDRLSISRERVRQIEREALSKLR 306
Query: 554 QSLGGKASY 562
+ + Y
Sbjct: 307 KRKADISEY 315
>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 = 209 bits (532), Expect = 3e-51, Method: Compositional matrix adjust.
Identities = 112/301 (37%), Positives = 185/301 (61%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q+ +
Sbjct: 141 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAAT 200
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + +R+PLS+ V +QDT ++ DT PD
Sbjct: 201 MNELAAELDLTPKQIREYLEKSRLPLSLDLRVGDNQDTELVDLLEDTS-NSPDEFALNSS 259
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+R + +L+T L ++R ++ LRFG++DG+ +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 260 LRSDLESLMTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREALTKLR 319
Query: 554 Q 554
+
Sbjct: 320 K 320
>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 = 209 bits (532), Expect = 3e-51, Method: Compositional matrix adjust.
Identities = 124/344 (36%), Positives = 189/344 (54%), Gaps = 44/344 (12%)
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 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVR 390
E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++YAYWW+R
Sbjct: 179 EHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIR 238
Query: 391 QTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLER 450
Q I +AI SRTIRLP +I L+K+ +A+R QE +P EDLA + +T ++
Sbjct: 239 QGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAIELEMTPSQVRE 298
Query: 451 LIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKER 510
++ +S++ V D+DT E+ GV P+ + ++ +++ +++LL L +ER
Sbjct: 299 VLLRVPRSVSLETKVGKDKDTELGELLETDGV-TPEEMLMRESLQRDLQHLLADLTSRER 357
Query: 511 CIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ +RFG+ DG P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 358 DVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 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 = 209 bits (532), Expect = 3e-51, Method: Compositional matrix adjust.
Identities = 122/344 (35%), Positives = 189/344 (54%), Gaps = 44/344 (12%)
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 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVR 390
E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++YAYWW+R
Sbjct: 182 EHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIR 241
Query: 391 QTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLER 450
Q I +AI SRTIRLP +I L+K+ +A+R QE +P EDLA + +T ++
Sbjct: 242 QGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAVELEMTPAQVRE 301
Query: 451 LIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKER 510
++ +S++ V D+DT E+ GV P+ + ++ +++ ++NLL L +ER
Sbjct: 302 VLLRVPRSVSLETKVGKDKDTELGELLETDGV-TPEEMLMRESLQRDLQNLLADLTTRER 360
Query: 511 CIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ +RFG+ DG P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 361 DVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 404
>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 = 209 bits (532), Expect = 4e-51, Method: Compositional matrix adjust.
Identities = 109/313 (34%), Positives = 190/313 (60%), Gaps = 4/313 (1%)
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 EGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEA 420
EG GL++ EKF G RF++Y++WW++Q IRK++ + ++ IRLP ++ S+V E
Sbjct: 134 EGIQGLVRGAEKFDASKGFRFSTYSHWWIKQAIRKSVLEQTQIIRLPAHMAEASSRVKEC 193
Query: 421 KRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADT 480
+R ++ P E++A G+ + ++E + + + +S+ V D T+QEIT DT
Sbjct: 194 RRRLRRQLKRLPTNEEIASDTGMPLRRVEAAMSLPKYTVSLTSKV-GCTDMTYQEITPDT 252
Query: 481 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 540
E + + + LM++ V L L+P+ER ++R RFG++DG+ ++L ++G + G+S+ER
Sbjct: 253 STETAEEMLHRWLMKEDVDRALDGLSPRERQVIRYRFGMDDGRLRTLHDIGRLMGVSRER 312
Query: 541 VRQLESRALYRLK 553
+RQ+E A +L+
Sbjct: 313 IRQIELVAFRKLR 325
>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 = 209 bits (531), Expect = 4e-51, Method: Compositional matrix adjust.
Identities = 116/305 (38%), Positives = 182/305 (59%), Gaps = 26/305 (8%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF P G RF++YAYWW+RQ I +AI SRTIRLP +I L+K+ +A+R QE
Sbjct: 244 VEKFDPTKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKG 303
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
+P EDLA + +T ++ ++ +S++ V D+DT E+ +T P+ +
Sbjct: 304 RTPTLEDLAIELEMTPTQVREVLLKVPRSVSLETKVGKDKDTELGELL-ETDCVTPEEML 362
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
++ +++ + +LL L +ER ++ +RFG+ DG P SL+E+G LS+ERVRQ+ES+AL
Sbjct: 363 MRESLQKDLHSLLADLTSRERDVILMRFGLSDGHPYSLAEIGRALDLSRERVRQIESKAL 422
Query: 550 YRLKQ 554
+L+Q
Sbjct: 423 QKLRQ 427
>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 = 209 bits (531), Expect = 4e-51, Method: Compositional matrix adjust.
Identities = 120/299 (40%), Positives = 188/299 (62%), Gaps = 1/299 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+ + +R Q+ +
Sbjct: 138 PTKGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKKTQRQLSQDLGRAATI 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + + EK+ ++R P+S+ V ++DT ++ D G E PD +V +L+
Sbjct: 198 AEIAEELELEPEKIREFFRVSRHPISLDVRVGDNKDTELMDLLEDEG-ESPDTNVTYELL 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+Q +++L+ L P+++ ++ LRFG+ DGK SL+++G LS+ERVRQLE +AL L+
Sbjct: 257 KQDIKDLIADLTPQQQEVIILRFGLNDGKELSLAKIGKRMNLSRERVRQLERQALTHLR 315
>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 = 209 bits (531), Expect = 4e-51, Method: Compositional matrix adjust.
Identities = 112/288 (38%), Positives = 193/288 (67%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 133 AAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 192
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R+ Q+ + +P +++LA+ + I E
Sbjct: 193 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRVLKQQLHRNPTEQELAQALEIDCEH 252
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + +MRQ + +LT +L
Sbjct: 253 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDEELQLPEEKMNEAMMRQDIAAVLTDVLT 312
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG IF LS+ERVRQ++S+A+ +L++
Sbjct: 313 EREKDVIALRYGLITSQPYTLEEVGGIFNLSRERVRQIQSKAMRKLRR 360
>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 = 209 bits (531), Expect = 4e-51, Method: Compositional matrix adjust.
Identities = 123/313 (39%), Positives = 194/313 (61%), Gaps = 3/313 (0%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R QE
Sbjct: 124 VEKFDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLAQENG 183
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
+ +LA+ + +T +++ + R PLS+ V + DT E+ DTG+ D ++
Sbjct: 184 RAATIAELAQELELTPKQVREYLERARQPLSLDLRVGDNHDTELGELLEDTGLLPEDYAI 243
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
L + + L+ L P++R ++ LRFG+ DGKP +L+++G +S+ERVRQ+E AL
Sbjct: 244 HSSL-QLDLEKLMADLTPQQREVLALRFGLTDGKPLTLAKIGIRLNISRERVRQIEREAL 302
Query: 550 YRLKQSLGGKASY 562
+L+Q G Y
Sbjct: 303 SKLRQRKGSIREY 315
>gi|357112914|ref|XP_003558250.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Brachypodium
distachyon]
Length = 537
Score = 209 bits (531), Expect = 4e-51, Method: Compositional matrix adjust.
Identities = 108/313 (34%), Positives = 184/313 (58%), Gaps = 4/313 (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 EGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEA 420
EG GL++ EKF G RF++Y++WW++Q IRK++ + ++ IRLP ++ S+V E
Sbjct: 328 EGMQGLIRGAEKFDASKGFRFSTYSHWWIKQAIRKSVLEQTQIIRLPTHMAEASSRVKEC 387
Query: 421 KRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADT 480
+R ++ N P E++A G+T ++E + + R +S+ V D T+QEI D
Sbjct: 388 RRRLRRQLNRLPTNEEIASDTGLTTRRVEAAMSLPRYSVSLSGKV-GCTDVTYQEIMPDK 446
Query: 481 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 540
E + ++ + M++ V L L+P+ER ++R RFG++DG+ ++L +G + G+S+ER
Sbjct: 447 STETAEETLHRWFMKKDVDTALDSLSPREREVIRYRFGMDDGRMRTLHNIGELMGVSRER 506
Query: 541 VRQLESRALYRLK 553
+RQ+E A +L+
Sbjct: 507 IRQIEMAAFRKLR 519
>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 = 209 bits (531), Expect = 4e-51, Method: Compositional matrix adjust.
Identities = 124/344 (36%), Positives = 190/344 (55%), Gaps = 44/344 (12%)
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 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVR 390
E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++YAYWW+R
Sbjct: 179 EHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIR 238
Query: 391 QTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLER 450
Q I +AI SRTIRLP +I L+K+ +A+R QE +P EDLA + +T ++
Sbjct: 239 QGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAIELDMTPTQVRE 298
Query: 451 LIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKER 510
++ +S++ V D+DT E+ GV P+ + ++ +++ +++LL L +ER
Sbjct: 299 VLLRVPRSVSLETKVGKDKDTELGELLETDGV-TPEEMLMRESLQRDLQHLLADLTSRER 357
Query: 511 CIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ +RFG+ DG P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 358 DVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 401
>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 = 208 bits (530), Expect = 5e-51, Method: Compositional matrix adjust.
Identities = 110/307 (35%), Positives = 183/307 (59%), Gaps = 40/307 (13%)
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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF P+ G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 186 IKGVEKFDPEKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 245
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P ++LA + +T EK++ ++ I R P S++ P+ + D+ + AD V P+
Sbjct: 246 ELGYEPSVKELAEHLDMTEEKVQEIMQIAREPASLETPIGEEDDSNLGDFVADANVLSPE 305
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ +LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 306 GNVESVMLREHIDSLLDDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEA 365
Query: 547 RALYRLK 553
+AL +L+
Sbjct: 366 KALRKLR 372
>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 = 208 bits (530), Expect = 5e-51, Method: Compositional matrix adjust.
Identities = 114/291 (39%), Positives = 174/291 (59%), Gaps = 23/291 (7%)
Query: 286 IRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN------------------ 327
+RL + + +L S+ G P+L WA G+ DLK L +G
Sbjct: 108 LRLIEVQERLSSELGHRPSLERWATTAGIELPDLKPTLANGKRRWAETAKLTVEELDQVQ 167
Query: 328 ----SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAS 383
++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++
Sbjct: 168 SQGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFST 227
Query: 384 YAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGI 443
YAYWW+RQ I +AI SRTIRLP +I L+K+ +A+R QE +P EDLA + +
Sbjct: 228 YAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAIELEM 287
Query: 444 TVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT 503
T ++ ++ +S++ V D+DT E+ +T P+ + ++ +++ + NLL
Sbjct: 288 TPAQVREVLLRVPRSVSLETKVGKDKDTELGELL-ETDCVTPEEMLMRESLQRDLHNLLD 346
Query: 504 LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
L +ER ++ +RFG+ DG P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 347 DLTSRERDVILMRFGLSDGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 397
>gi|142114|gb|AAA22047.1| RNA polymerase sigma-subunit [Nostoc sp. PCC 7120]
Length = 416
Score = 208 bits (530), Expect = 5e-51, Method: Compositional matrix adjust.
Identities = 124/344 (36%), Positives = 190/344 (55%), Gaps = 44/344 (12%)
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 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVR 390
E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++YAYWW+R
Sbjct: 179 EHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIR 238
Query: 391 QTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLER 450
Q I +AI SRTIRLP +I L+K+ +A+R QE +P EDLA + +T ++
Sbjct: 239 QGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAIELDMTPTQVRE 298
Query: 451 LIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKER 510
++ +S++ V D+DT E+ GV P+ + ++ +++ +++LL L +ER
Sbjct: 299 VLLRVPRSVSLETKVGKDKDTELGELLETDGV-TPEEMLMRESLQRDLQHLLADLTSRER 357
Query: 511 CIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ +RFG+ DG P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 358 DVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 401
>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 = 208 bits (530), Expect = 5e-51, Method: Compositional matrix adjust.
Identities = 119/335 (35%), Positives = 193/335 (57%), Gaps = 1/335 (0%)
Query: 220 SKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELI 279
S+K+ + T ++ + S K ++ D +R +L LLT++EE
Sbjct: 2 SRKKSIQAKAGVRSATGSATERSADKGVARPGVSADMVRTYLHEIGKIPLLTSEEEIIFG 61
Query: 280 AQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLR 339
++Q L+RL + L Q R+PT EWA GL+ +L+ + G S+ K+I ANLR
Sbjct: 62 KRVQQLMRLSELYEDLAEQLDRQPTQAEWADKAGLNIEELEQIVRDGTRSKRKMIEANLR 121
Query: 340 LVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQ 399
LVV VAK+YQ R + L DL+QEG++GL ++V+KF P G +F++YAYWW+RQ I +AI Q
Sbjct: 122 LVVSVAKKYQKRNLELLDLVQEGTLGLERAVDKFDPTKGFKFSTYAYWWIRQAITRAIAQ 181
Query: 400 HSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPL 459
+RTIRLP +I L+K+ +A+R Q ++A + + E++ + + R P+
Sbjct: 182 QARTIRLPVHITEKLNKIKKAQRQLSQSLGRVATAAEIADALKLKPEQVREFLSMARQPV 241
Query: 460 SMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGI 519
S+ + +QDT E+ D G + P+ + +R + LL L PK+R ++ +R+G+
Sbjct: 242 SLDLRIGDNQDTELAELLEDEG-DSPESFALSESLRDDIAGLLLDLTPKQREVMIMRYGL 300
Query: 520 EDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
EDGK SL+ + LS+E+VRQLE +A+ L++
Sbjct: 301 EDGKEMSLASISKRMELSREQVRQLERQAMDSLRK 335
>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 = 208 bits (530), Expect = 5e-51, Method: Compositional matrix adjust.
Identities = 112/297 (37%), Positives = 191/297 (64%), Gaps = 1/297 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL ADEE EL +++ L + + ++ L + G+EPT +E A + ++ + L+S L+ G
Sbjct: 80 LLKADEEVELARRVRFLEEIRELQAALNLKLGQEPTKLEIASELEMTEKQLESRLYQGRV 139
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F++YAYWW
Sbjct: 140 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 199
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIRLP +I L+K+ +A+R Q+ +P + ++A + I+V++L
Sbjct: 200 IRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLCRNPTEGEMAEALDISVQQL 259
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNP 507
+L + R LS+ V ++DT ++ D P+ + + +MRQ + +L +L P
Sbjct: 260 RQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNLSPEAKMNENMMRQEIWEVLGDVLTP 319
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ++S+A+ +L++ K G+
Sbjct: 320 REKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKGW 376
>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 = 208 bits (530), Expect = 5e-51, Method: Compositional matrix adjust.
Identities = 114/308 (37%), Positives = 187/308 (60%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q+ +
Sbjct: 129 PTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQQKGRAATV 188
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
+LA + +T +++ + R PLS+ V +QDT ++ D G D + L
Sbjct: 189 VELAEELDLTPKQVREYLERARQPLSLDLRVGDNQDTELGDLLEDDGQSPEDFATHSSL- 247
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ + L+ L +++ ++ LRFG+ DG+P +L+++G+ +S+ERVRQ+E AL +L++
Sbjct: 248 QFDLERLMEDLTSQQKEVIALRFGLLDGQPLTLAKIGSRLNISRERVRQIEREALSKLRK 307
Query: 555 SLGGKASY 562
Y
Sbjct: 308 RKANIQEY 315
>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 = 208 bits (530), Expect = 6e-51, Method: Compositional matrix adjust.
Identities = 124/344 (36%), Positives = 190/344 (55%), Gaps = 44/344 (12%)
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 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVR 390
E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++YAYWW+R
Sbjct: 179 EHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIR 238
Query: 391 QTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLER 450
Q I +AI SRTIRLP +I L+K+ +A+R QE +P EDLA + +T ++
Sbjct: 239 QGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAIELDMTPTQVRE 298
Query: 451 LIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKER 510
++ +S++ V D+DT E+ GV P+ + ++ +++ +++LL L +ER
Sbjct: 299 VLLRVPRSVSLETKVGKDKDTELGELLETDGV-TPEEMLMRESLQRDLQHLLADLTSRER 357
Query: 511 CIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ +RFG+ DG P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 358 DVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 401
>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 = 208 bits (530), Expect = 6e-51, Method: Compositional matrix adjust.
Identities = 116/309 (37%), Positives = 182/309 (58%), Gaps = 1/309 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + +RTIRLP +I L+K+ +A+R Q SP
Sbjct: 142 DPSKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRDLSQTLGRSPS 201
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA+ + IT +++ + R+PLS+ + + DT E+ D G D +Q L
Sbjct: 202 IAELAQELEITPKQVRDCLEKARLPLSLDLRLGDNYDTELGEMLEDPGASPEDYVIQSSL 261
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ R ++T L ++R +++LRFG+ DG+ +L+ +G + +S+ERVRQ+E AL RL+
Sbjct: 262 SSELER-MMTHLTTQQREVIKLRFGLVDGQSMTLARIGEVLNISRERVRQIEREALTRLR 320
Query: 554 QSLGGKASY 562
+ + Y
Sbjct: 321 RCKTSMSEY 329
>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 = 208 bits (530), Expect = 6e-51, Method: Compositional matrix adjust.
Identities = 109/314 (34%), Positives = 192/314 (61%), Gaps = 16/314 (5%)
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 EGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEA 420
EG++GL+K+VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++KV+
Sbjct: 236 EGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVIRV 295
Query: 421 KRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADT 480
R +QE H P E++A + + V+K+ ++ I + P+S++ P+ ++D+ + D
Sbjct: 296 SRQLLQELGHDPSPEEIAEEMNMPVDKVREILKIAQEPVSLETPIGEEEDSHLGDFIPDE 355
Query: 481 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 540
P + L+++ + ++L L P+E +++LRFGIEDG+ ++L EVG F +++ER
Sbjct: 356 DASEPSEAASFTLLKEQLVDVLGTLTPREEKVLKLRFGIEDGRTRTLEEVGKEFNVTRER 415
Query: 541 VRQLESRALYRLKQ 554
+RQ+E++AL +L+
Sbjct: 416 IRQIEAKALRKLRH 429
>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 = 208 bits (530), Expect = 6e-51, Method: Compositional matrix adjust.
Identities = 111/302 (36%), Positives = 181/302 (59%), Gaps = 1/302 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q+ +P
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQKLGRAPS 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA+ + +T ++ + R+PLS+ + + DT E+ DTG P+ V +
Sbjct: 188 AGELAKELDLTPAQVREYLEKARLPLSLDLRLGDNHDTELGEMLEDTGAS-PEEFVMQSS 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + L+ L P++R ++ +RFG++DG+ +L+ +G I +S+ERVRQ+E AL +L+
Sbjct: 247 LSNDLERLMANLTPQQREVISMRFGLKDGQSMTLARIGEILNISRERVRQIEREALTKLR 306
Query: 554 QS 555
+S
Sbjct: 307 KS 308
>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 = 208 bits (529), Expect = 6e-51, Method: Compositional matrix adjust.
Identities = 117/309 (37%), Positives = 179/309 (57%), Gaps = 1/309 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q +P
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQRLGRAPS 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA+ + +T ++ + R+PLS+ + + DT E+ D G P+ V +
Sbjct: 188 VAELAQELELTSRQVREYLEKARVPLSLDIRLGDNYDTELGEMLEDPGAS-PEEFVTQSS 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + L+ L P++R ++ LRFG+ DG +L+++G I +S+ERVRQ+E AL +L+
Sbjct: 247 LSGDLERLMAELTPQQREVISLRFGLNDGHALTLAKIGEILNISRERVRQIEREALSKLR 306
Query: 554 QSLGGKASY 562
+S G Y
Sbjct: 307 KSKLGINEY 315
>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 = 208 bits (529), Expect = 6e-51, Method: Compositional matrix adjust.
Identities = 115/297 (38%), Positives = 178/297 (59%), Gaps = 23/297 (7%)
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 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G RF++YAYWW+RQ I +AI SRTIRLP +I L+K+ +A+R QE +P EDL
Sbjct: 226 GYRFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDL 285
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A + +T ++ ++ +S++ V D+DT E+ +T P+ + ++ +++
Sbjct: 286 AVELEMTPTQVREVLLRVPRSVSLETKVGKDKDTELGELL-ETDCVTPEEMLMRESLQRD 344
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+++LL L +ER ++ +RFG+ DG P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 345 LQHLLADLTSRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 401
>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 = 208 bits (529), Expect = 6e-51, Method: Compositional matrix adjust.
Identities = 96/249 (38%), Positives = 165/249 (66%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G +++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 115 DLDRLVVMGRTAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 174
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE P E++
Sbjct: 175 GYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGVEPTAEEI 234
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A + +T E++ ++ + + P+S+ PV + D +F ++ D P S L+R+H
Sbjct: 235 AVELDLTPERVTEVLRLAQEPVSLHAPVGEEDDVSFGDLIEDGDAASPVESAAFLLLREH 294
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 557
+ +L+ L +ER +V+LR+G+EDG+P++L E+G IFG+++ER+RQ+ES+ L RL+
Sbjct: 295 LEAVLSTLGERERKVVQLRYGLEDGRPRTLEEIGRIFGVTRERIRQIESKTLSRLRDHAF 354
Query: 558 GKASYGYAD 566
GY D
Sbjct: 355 ADQLRGYLD 363
>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 = 208 bits (529), Expect = 6e-51, Method: Compositional matrix adjust.
Identities = 121/313 (38%), Positives = 180/313 (57%), Gaps = 32/313 (10%)
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 LMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYI 425
L ++VEKF P G RF++YAYWW+RQ I +AI SRTIRLP +I L+K+ +A+R
Sbjct: 221 LERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLS 280
Query: 426 QEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIP 485
Q + ED+A+ + +T E++ L+ +S++ V D+DT ++ +E
Sbjct: 281 QSKGRTASIEDIAQEMDMTPEQIRELLVRVPRSVSLEIKVGKDKDTELGDL-----LETD 335
Query: 486 DISVQKQLMR----QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 541
DIS ++ +MR Q ++ LL L P+ER ++ +RFG+ DGK SL+++G LS+ERV
Sbjct: 336 DISPEELIMRESLQQELKQLLADLTPRERDVITMRFGLNDGKTHSLAQIGKSLDLSRERV 395
Query: 542 RQLESRALYRLKQ 554
RQ+ES+AL +L+Q
Sbjct: 396 RQIESKALQKLRQ 408
>gi|318040801|ref|ZP_07972757.1| type II alternative RNA polymerase sigma factor [Synechococcus sp.
CB0101]
Length = 381
Score = 208 bits (529), Expect = 6e-51, Method: Compositional matrix adjust.
Identities = 126/345 (36%), Positives = 195/345 (56%), Gaps = 47/345 (13%)
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 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQ 391
++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEK+ P G RF++YAYWW+RQ
Sbjct: 139 RMIQANLRLVVAVAKKYQQRGMELLDLVQEGTLGLERAVEKYDPTRGFRFSTYAYWWIRQ 198
Query: 392 TIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERL 451
I +AI SRTIRLP ++ L+++ +A+R E DLAR +G++ E++ RL
Sbjct: 199 GITRAIATQSRTIRLPVHVTEKLNRIKKAQRQIATEHGRLASVSDLARELGLS-EEVVRL 257
Query: 452 IFITRMP--LSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKE 509
+ R+P +S+ V +QDT ++ D+ P+ + ++ + + +LL L +E
Sbjct: 258 TLM-RVPRSVSLDTRVGREQDTQLGDLLEDSHA-TPEQELTRESLHDDLESLLEELTARE 315
Query: 510 RCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++RLR+G+ED P++LS++G LS+ERVRQ+ESRAL +L+Q
Sbjct: 316 AAVIRLRYGLEDDTPQTLSQIGEDLHLSRERVRQIESRALLKLRQ 360
>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 = 208 bits (529), Expect = 7e-51, Method: Compositional matrix adjust.
Identities = 108/328 (32%), Positives = 191/328 (58%), Gaps = 28/328 (8%)
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 KQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIR 405
K+Y GRG+ DL+QEG++GL+K+V+KF G +F++YA WW+RQ I +AI +RTIR
Sbjct: 191 KRYVGRGMLFLDLIQEGNLGLIKAVDKFDYTKGYKFSTYATWWIRQAITRAIADQARTIR 250
Query: 406 LPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPV 465
+P ++ ++K++ +R +Q+ P E++A +GITVE++ + I++ P+S++ P+
Sbjct: 251 IPVHMVETINKLVRIQRQLLQDLGREPSPEEIAEGMGITVERVREIQKISQEPVSLETPI 310
Query: 466 WADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPK 525
++D+ + D PD + L+R+ + + + L +E+ ++ LRFG++DGKP+
Sbjct: 311 GEEEDSHLGDFLEDKDAVAPDDAASFILLREQIVEVFSCLTDREQQVLELRFGLKDGKPR 370
Query: 526 SLSEVGNIFGLSKERVRQLESRALYRLK 553
+L EVG F +++ER+RQ+E +AL +L+
Sbjct: 371 TLEEVGQFFNVTRERIRQIEGKALTKLR 398
>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 = 208 bits (529), Expect = 7e-51, Method: Compositional matrix adjust.
Identities = 111/313 (35%), Positives = 185/313 (59%), Gaps = 40/313 (12%)
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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF P+ G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 186 IKGVEKFDPEKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 245
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P ++LA + +T EK++ ++ I R P S++ P+ + D+ + AD V P+
Sbjct: 246 ELGYEPSVKELAEHLDMTEEKVQEIMQIAREPASLETPIGEEDDSNLGDFVADANVLSPE 305
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ +LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 306 GNVESVMLREHIDSLLDDLKERERQVIVLRFGLEDGHPRTLEEVGREFNVTRERIRQIEA 365
Query: 547 RALYRLKQSLGGK 559
+AL +L+ + K
Sbjct: 366 KALRKLRNPVRSK 378
>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 = 207 bits (528), Expect = 8e-51, Method: Compositional matrix adjust.
Identities = 108/309 (34%), Positives = 187/309 (60%), Gaps = 1/309 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + +R IRLP +I L+K+ +A+R Q+ +
Sbjct: 128 DPSKGYRFSTYAYWWIRQAITRAIAEKARAIRLPIHITEKLNKIKKAQRSLAQQFGRAAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + ++ +++ + R PLS+ V +QDT ++ D G+ P+ V
Sbjct: 188 INELAAELELSSKQVREYLERARQPLSLDLRVGDNQDTELGDLLEDPGIS-PEEYVTNSS 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++ + +++ L P+++ ++ LRFG++D +P +L+++G++ +S+ERVRQ+E A+ +L+
Sbjct: 247 LQVDLERMMSELTPQQQQVLTLRFGLKDTQPLTLAKIGDLLNISRERVRQIEREAIAKLR 306
Query: 554 QSLGGKASY 562
+ Y
Sbjct: 307 KRKADIGEY 315
>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 = 207 bits (528), Expect = 9e-51, Method: Compositional matrix adjust.
Identities = 116/307 (37%), Positives = 191/307 (62%), Gaps = 3/307 (0%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G D D + FL LL EE EL +++ L+ L + K +L Q GR TL E A
Sbjct: 57 GLD--DAVGAFLKDMARYPLLQPSEEIELARRVKYLVELSELKDQLGRQLGRSATLPEVA 114
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
A+ L+ + L+ ++ G ++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++
Sbjct: 115 AAMNLTEQQLQIRIYRGQVAKSKMIRSNLRLVVSIAKRYLNRGVPFLDLVQEGALGLNRA 174
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
EKF P+ G +F++YAYWW+RQ I +AI SRTIRLP +I L+K+ + +R +E
Sbjct: 175 TEKFDPEKGFKFSTYAYWWIRQGITRAIANDSRTIRLPIHIVEKLNKLKKLQRHLKKELQ 234
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
+P +++LA + IT+E+L+ L + LS+ + V ++DT ++ + P+ +
Sbjct: 235 RNPTEQELADALEITLEQLQMLQRARQQALSLNRRVGREEDTELLDLLEADSTQSPEKQM 294
Query: 490 QKQLMRQHVRNLLTL-LNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
+ +MRQ + LL L L +ER ++ LR+G+ G+P +L EV +F LS+ERVRQ++++A
Sbjct: 295 GEVMMRQEISQLLDLVLTKQERDVIILRYGLVSGEPNTLEEVSGLFNLSRERVRQIQNKA 354
Query: 549 LYRLKQS 555
+ +L++S
Sbjct: 355 IGKLRRS 361
>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 = 207 bits (528), Expect = 9e-51, Method: Compositional matrix adjust.
Identities = 127/348 (36%), Positives = 190/348 (54%), Gaps = 52/348 (14%)
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 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVR 390
E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++YAYWW+R
Sbjct: 180 EHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIR 239
Query: 391 QTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLER 450
Q I +AI SRTIRLP +I L+K+ +A+R QE +P EDLA + +T ++
Sbjct: 240 QGITRAIATSSRTIRLPVHITEKLNKIKKAQRKISQEKGRTPTLEDLAIELDMTPTQVRE 299
Query: 451 LIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVR----NLLTLLN 506
++ +S++ V D+DT E+ +E I+ ++ LMR+ ++ +LL L
Sbjct: 300 VLLRVPRSVSLETKVGKDKDTELGEL-----LETDSITPEEMLMRESLQKDLHHLLADLT 354
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ER ++ +RFG+ DG P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 355 SRERDVILMRFGLSDGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 402
>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 = 207 bits (528), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 111/301 (36%), Positives = 185/301 (61%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q+ +
Sbjct: 129 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAAT 188
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + +R+PLS+ V +QDT ++ DT P+
Sbjct: 189 MNELAAELDLTPKQIREYLEKSRLPLSLDLRVGDNQDTELVDLLEDT-TNSPEQFALNSS 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+R + +L+T L ++R ++ LRFG++DG+ +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 248 LRSDLESLMTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREALTKLR 307
Query: 554 Q 554
+
Sbjct: 308 K 308
>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 = 207 bits (528), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 111/301 (36%), Positives = 185/301 (61%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q+ +
Sbjct: 141 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAAT 200
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + +R+PLS+ V +QDT ++ DT ++ L
Sbjct: 201 MNELAAELDLTPKQIREYLEKSRLPLSLDLRVGDNQDTELVDLLEDTSNSPEQFALNSSL 260
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R + +L+T L ++R ++ LRFG++DG+ +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 261 -RSDLESLMTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREALTKLR 319
Query: 554 Q 554
+
Sbjct: 320 K 320
>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 = 207 bits (528), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 113/300 (37%), Positives = 187/300 (62%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q+ +
Sbjct: 129 PTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQQKGRAATI 188
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
+LA + +T +++ + +R PLS+ V +QDT ++ D G D + L
Sbjct: 189 SELAEELDLTPKQVRDYLERSRQPLSLDLRVGDNQDTELGDLLEDEGQSPEDFATHSSL- 247
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ + L+ L +++ ++ LRFG+ DG+P +L+++G+ +S+ERVRQ+E AL +L++
Sbjct: 248 QFDLEKLMEDLTIQQKQVIALRFGLMDGQPLTLAKIGSRLNISRERVRQIEREALSKLRK 307
>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 = 207 bits (528), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 106/288 (36%), Positives = 185/288 (64%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 115 VAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAVGLNRATEKFDPNKGYKFSTYAYW 174
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R+ Q+ + +P +E++A + I+ +
Sbjct: 175 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRVLKQQLHRNPKEEEIATEMEISPLQ 234
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L L+ + R LS+ + +DT ++ DT +++P+ + + +MRQ + +L +L
Sbjct: 235 LRYLLELKRQSLSLNHRIGKGEDTELVDLLQDTEIQLPEDKISETMMRQEISEVLAEVLT 294
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ER ++ LR+G+ + +L EVG +F LS+ERVRQ++++A+ +L++
Sbjct: 295 ERERDVISLRYGLTTDQAYTLDEVGGMFNLSRERVRQIQTKAMRKLRR 342
>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 = 207 bits (527), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 114/309 (36%), Positives = 181/309 (58%), Gaps = 1/309 (0%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT +EE Q+Q L + + L +Q GR+P L EWA A
Sbjct: 39 TDLVRTYLREIGRVPLLTHEEEIFYGKQVQRATALHEVREFLATQLGRQPNLEEWAAATK 98
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
L L + G ++ K++ ANLRLVV VAK+Y R + L DL+QEGS+G+ + VEKF
Sbjct: 99 LETTALNEAIADGEIAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKF 158
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + +RTIRLP +I L+K+ +A+R Q+ +P
Sbjct: 159 DPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQQLGRAPT 218
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA+ + +T +++ + R+PLS+ + + DT E+ D G P+ V +
Sbjct: 219 AAELAQELELTPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDPGAS-PEEFVMQSS 277
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + L+ L P+++ ++ LRFG+ DG+ +L+++G I +S+ERVRQ+E AL +L+
Sbjct: 278 LSYDLERLIAELTPQQKEVITLRFGLIDGQALTLAKIGEILNISRERVRQIEREALTKLR 337
Query: 554 QSLGGKASY 562
+S Y
Sbjct: 338 KSKANMDEY 346
>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 = 207 bits (527), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 114/309 (36%), Positives = 180/309 (58%), Gaps = 1/309 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + +RTIRLP +I L+K+ +A+R Q+ +P
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQKLGRAPS 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + R+PLS+ + + DT E+ D G P+ V +
Sbjct: 188 AGELAEELELTTKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDPGAS-PEEFVMQSS 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + L+ L P+++ ++ LRFG+ DG+ +L+ +G I +S+ERVRQ+E AL +L+
Sbjct: 247 LSLDLERLMGELTPQQKEVITLRFGLIDGQALTLARIGEILNISRERVRQIEREALTKLR 306
Query: 554 QSLGGKASY 562
+S Y
Sbjct: 307 KSKANMGEY 315
>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 = 207 bits (527), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 122/344 (35%), Positives = 192/344 (55%), Gaps = 44/344 (12%)
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 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVR 390
E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++YAYWW+R
Sbjct: 179 EHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIR 238
Query: 391 QTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLER 450
Q I +AI SRTIRLP +I L+K+ +A+R QE +P EDLA+ + +T ++
Sbjct: 239 QGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAQELEMTPTQVRE 298
Query: 451 LIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKER 510
++ +S++ V D+DT E+ +T P+ + ++ +++ +++LL L +ER
Sbjct: 299 VLLRVPRSVSLETKVGKDKDTELGELL-ETDCVTPEDMLMRESLQRDLQHLLADLTSRER 357
Query: 511 CIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ +RFG+ DG+P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 358 DVILMRFGLADGQPYSLAEIGRALDLSRERVRQIESKALQKLRQ 401
>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 = 207 bits (527), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 114/322 (35%), Positives = 190/322 (59%), Gaps = 25/322 (7%)
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 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++KV+ R +QE H
Sbjct: 283 EKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVIRVSRQLLQELGH 342
Query: 431 SPD------------------KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTT 472
P +ED +R +E++ ++ I + P+S++ P+ ++D+
Sbjct: 343 DPSPLEIAIEMNGGTAAWEKVREDEKKR---AIERIREILKIAQEPVSLETPIGEEEDSH 399
Query: 473 FQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGN 532
+ D G P + +L+R+ + ++L+ L P+E +++LRFGIEDG+ ++L EVG
Sbjct: 400 LGDFIPDEGASEPSEAASYKLLREQLMDVLSTLTPREEQVLKLRFGIEDGRARTLEEVGK 459
Query: 533 IFGLSKERVRQLESRALYRLKQ 554
F +++ER+RQ+E++AL +L+
Sbjct: 460 EFNVTRERIRQIEAKALRKLRH 481
>gi|125543279|gb|EAY89418.1| hypothetical protein OsI_10924 [Oryza sativa Indica Group]
Length = 540
Score = 207 bits (527), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 101/286 (35%), Positives = 178/286 (62%), Gaps = 1/286 (0%)
Query: 268 KLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN 327
+LLTA +E E IQDL++LE + +L G EPT +WA+A G L+ L+ G
Sbjct: 238 RLLTAKQEVEFSQGIQDLLKLEAIQKELAHYNGGEPTFSQWAEAAGTDENTLRKRLNYGI 297
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
S + ++ +N+RLV+ +A++++G G+ DL+QEG GL++ EKF G RF++Y++W
Sbjct: 298 SCKNTMVKSNVRLVISIAREFEGPGMEFSDLIQEGIQGLVRGAEKFDASKGFRFSTYSHW 357
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W++Q IRK++ + ++ IRLP ++ S+V E +R ++ P E++A G+ + +
Sbjct: 358 WIKQAIRKSVLEQTQIIRLPAHMAEASSRVKECRRRLRRQLKRLPTNEEIASDTGMPLRR 417
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNP 507
+E + + + +S+ V D T+QEIT DT E + + + LM++ V L L+P
Sbjct: 418 VEAAMSLPKYTVSLTSKVGC-TDMTYQEITPDTSTETAEEMLHRWLMKEDVDRALDGLSP 476
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ER ++R RFG++DG+ ++L ++G + G+S+ER+RQ+E A +L+
Sbjct: 477 RERQVIRYRFGMDDGRLRTLHDIGRLMGVSRERIRQIELVAFRKLR 522
>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 = 207 bits (527), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 113/309 (36%), Positives = 184/309 (59%), Gaps = 1/309 (0%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D +R +L LLT +EE Q+Q LI+L+ + +L Q R+P EW+ A
Sbjct: 8 KDSVRSYLREIGRVPLLTHEEEVTFGKQVQHLIKLQTIRDELAEQLERQPNDAEWSAAAK 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
LS +L+ LH G +++ K++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF
Sbjct: 68 LSEAELQKALHEGEAAKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKF 127
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ + +R Q+ +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKTQRQLSQKLGRAAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + R PLS+ V +QDT E+ D + ++Q L
Sbjct: 188 ISELATSLDLTTKQVREYLERARQPLSLDVRVGDNQDTELGELIEDPSESPENFTLQASL 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R + L+ L +++ ++ LRFG++DG+P +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 248 -RGDLERLMADLTDQQQQVLHLRFGLDDGQPLTLAKIGDRLSISRERVRQIEREALSKLR 306
Query: 554 QSLGGKASY 562
+ + Y
Sbjct: 307 KRKADISEY 315
>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 = 207 bits (526), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 112/286 (39%), Positives = 183/286 (63%), Gaps = 1/286 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYWW
Sbjct: 100 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 159
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + SRTIRLP +I +L+K+ + +R QE +P +LA V + + +
Sbjct: 160 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTELAEFVELPEDDV 219
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ L+ R P+S++ V DT E+ + G ++P V++ ++ +R+LL L
Sbjct: 220 KDLMCRARQPVSLEMKVGDGDDTELLELLSGDG-DLPSDQVEEDCLKGDLRSLLGQLPHL 278
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ ++R+R+G++ P SL+ +G I G+S++RVR LE L L++
Sbjct: 279 QEQVLRMRYGMDGEDPMSLTGIGRILGMSRDRVRNLERDGLAGLRR 324
>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 = 207 bits (526), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 110/297 (37%), Positives = 191/297 (64%), Gaps = 1/297 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L +++ ++ L+ Q G +P+ ++ A + ++ + L+S L+ G
Sbjct: 91 LLKPDEEVELARRVRFLEEVKELQAALELQLGAQPSKVQVASQLEITEKQLESRLYQGRV 150
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F++YAYWW
Sbjct: 151 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRASEKFDPDKGYKFSTYAYWW 210
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIRLP +I L+K+ +A+R Q+ +P + ++A + ITV +L
Sbjct: 211 IRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLARNPTEAEMAEALEITVHQL 270
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNP 507
+L + R LS+ V ++DT ++ D + P+ + + +MRQ + +L +L P
Sbjct: 271 RQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNQSPEAKMNENMMRQEIWEVLGDVLTP 330
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ++S+A+ +L++ K G+
Sbjct: 331 REKDVISLRYGLTSSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKGW 387
>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 = 207 bits (526), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 118/310 (38%), Positives = 183/310 (59%), Gaps = 34/310 (10%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+VEKF P G RF++YAYWW+RQ I +AI SRTIRLP +I L+K+ +A+R QE
Sbjct: 215 AVEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEK 274
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDIS 488
+ ED+A+ + +T ++ ++ +S++ V ++DT ++ +E DI+
Sbjct: 275 GRTATMEDIAKELDMTPPQVREVLLRVPRSVSLETKVGKEKDTELGDL-----LETDDIT 329
Query: 489 VQKQLMRQHVR----NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 544
+ LMR+ +R LL L +ER ++++RFG+ DG+P SL+E+G LS+ERVRQ+
Sbjct: 330 PEDTLMREALRRDLQQLLADLTSRERDVIQMRFGLGDGQPYSLAEIGRALDLSRERVRQI 389
Query: 545 ESRALYRLKQ 554
E++AL +L+Q
Sbjct: 390 EAKALQKLRQ 399
>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 = 207 bits (526), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 108/313 (34%), Positives = 177/313 (56%), Gaps = 40/313 (12%)
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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF G + ++YA WW+RQ++ +A+ H+RTIR+P ++ ++++ + +R
Sbjct: 229 IKGVEKFDYTKGYKLSTYATWWIRQSVTRALADHARTIRVPVHMVETINRMSKMQRKLTL 288
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P ++LA + +T EK+ ++ I R P S++ P+ + D+ + AD P+
Sbjct: 289 ELGYEPSTKELATALDMTEEKVLEIMQIAREPASLETPIGEEDDSNLGDFVADNNTVTPE 348
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+++ ++R+H+ LL L +ER ++ LRFG+ DG P++L EVG IF +++ER+RQ+E+
Sbjct: 349 ANIESVMLREHIDVLLQDLKDREREVIILRFGLRDGHPRTLEEVGKIFNVTRERIRQIEA 408
Query: 547 RALYRLKQSLGGK 559
+AL +L+ + K
Sbjct: 409 KALRKLRNPVRSK 421
>gi|359462082|ref|ZP_09250645.1| RNA polymerase sigma factor SigC [Acaryochloris sp. CCMEE 5410]
Length = 423
Score = 207 bits (526), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 121/313 (38%), Positives = 181/313 (57%), Gaps = 32/313 (10%)
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 LMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYI 425
L ++VEKF P G RF++YAYWW+RQ I +AI SRTIRLP +I L+K+ +A+R
Sbjct: 221 LERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLS 280
Query: 426 QEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIP 485
Q + ED+A+ + +T E++ L+ +S++ V D+DT ++ +E
Sbjct: 281 QSKGRTASIEDIAQEMDMTPEQIRELLVRVPRSVSLEIKVGKDKDTELGDL-----LETD 335
Query: 486 DISVQKQLMR---QH-VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 541
DIS ++ +MR QH ++ LL L P+ER ++ +RFG+ DGK SL+++G LS+ERV
Sbjct: 336 DISPEELIMRESLQHELKQLLADLTPRERDVITMRFGLNDGKTHSLAQIGKSLDLSRERV 395
Query: 542 RQLESRALYRLKQ 554
RQ+ES+AL +L+Q
Sbjct: 396 RQIESKALQKLRQ 408
>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 = 207 bits (526), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 112/300 (37%), Positives = 187/300 (62%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q+ +
Sbjct: 129 PTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQQKGRAATI 188
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
+LA + +T +++ + +R PLS+ V +QDT ++ D G D + L
Sbjct: 189 SELAEELDLTPKQVRDYLERSRQPLSLDLRVGDNQDTELGDLLEDEGQSPEDFATHSSL- 247
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ + L+ L +++ ++ LRFG+ DG+P +L+++G+ +S+ERVRQ+E AL +L++
Sbjct: 248 QFDLEKLMEDLTIQQKQVIALRFGLMDGQPLTLAKIGSRLNISRERVRQIEREALSKLRK 307
>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 = 207 bits (526), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 117/325 (36%), Positives = 197/325 (60%), Gaps = 7/325 (2%)
Query: 232 NHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKE 291
N + N RKA +K E D + F LL DEE L +++ ++ E
Sbjct: 44 NIQAANQRKAVGRKSSLE-----DNVGAFFKEMARYPLLNTDEEVVLANEVKLMVEAEAI 98
Query: 292 KSKLQSQFGREPTLIEWAKAIGLS-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQG 350
+ L Q R P+ EWA+AIGLS R+L+ L+ G ++ K+I +NLRLVV +AK+Y
Sbjct: 99 RQDLIEQLDRNPSREEWAQAIGLSSTRELEKFLYRGKVAKRKMIRSNLRLVVSIAKRYLN 158
Query: 351 RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENI 410
RG+ DL+QEG++GL ++ EKF P G +F++YAYWW+RQ I + I +RTIRLP +I
Sbjct: 159 RGVPFLDLIQEGAIGLNRATEKFDPNKGYKFSTYAYWWIRQAITRTIANDARTIRLPIHI 218
Query: 411 YTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQD 470
L+K+ +A+R Q+ +P +++LA + I +L +L+ + R LS+ V +D
Sbjct: 219 VEKLNKLKKAQRNLKQKLQRNPSEQELADELKIPPAQLRQLLELRRQSLSLNHRVGKAED 278
Query: 471 TTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNPKERCIVRLRFGIEDGKPKSLSE 529
T ++ D +++P+ + + +MRQ + ++L +L +E+ ++ LR+G+ +P +L E
Sbjct: 279 TELVDLLEDDDLQLPEEKMSEAMMRQEITDVLDDVLTQREKDVISLRYGLFTSQPYTLEE 338
Query: 530 VGNIFGLSKERVRQLESRALYRLKQ 554
VG +F +S+ERVRQ++S+A+ +L++
Sbjct: 339 VGGMFNISRERVRQIQSKAMRKLRR 363
>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 = 207 bits (526), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 111/286 (38%), Positives = 183/286 (63%), Gaps = 1/286 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYWW
Sbjct: 97 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 156
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + SRTIRLP +I +L+K+ + +R QE +P +LA+ V + + +
Sbjct: 157 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTITELAQYVELPEDDV 216
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ L+ R P+S++ V DT E+ A ++P V++ M+ +R+LL L
Sbjct: 217 KDLMCRARQPVSLEMKVGDGDDTELLELLAGDA-DLPSDQVEEDCMKGDLRSLLGQLPHL 275
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ ++R+R+G++ P SL+ +G I G+S++RVR LE L L++
Sbjct: 276 QEQVLRMRYGMDGEDPMSLTGIGRILGMSRDRVRNLERDGLAGLRR 321
>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 = 207 bits (526), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 102/304 (33%), Positives = 183/304 (60%), Gaps = 17/304 (5%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 193 VEKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLG 252
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + +T EK+ ++ I + P+S++ P+ + D+ + D+ + P
Sbjct: 253 REPSPEEIGEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDSEAQSPSDHA 312
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 313 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 372
Query: 550 YRLK 553
+L+
Sbjct: 373 RKLR 376
>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 = 207 bits (526), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 115/301 (38%), Positives = 182/301 (60%), Gaps = 9/301 (2%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P+ G RF++YAYWW+RQ I +A+ SRTIRLP ++ L+++ + +E P
Sbjct: 131 DPRRGFRFSTYAYWWIRQGITRALASQSRTIRLPVHVTETLNRIRTCQGELTREHGRQPT 190
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LAR VG+ +L + P+S++ V A+ DT ++ D P+ ++ +Q
Sbjct: 191 LAELARAVGLDEARLRSTLAHIPRPVSLEGRVGANADTPLVDLLEDDHA-TPEQTLTRQQ 249
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + LL L+ +E ++R RFG++D P++L+E+G LS+ERVRQ+ESRAL +L+
Sbjct: 250 LHADLEALLDELSAREATVIRQRFGLDDDTPRTLAEIGEQLQLSRERVRQIESRALLKLR 309
Query: 554 Q 554
Q
Sbjct: 310 Q 310
>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 = 207 bits (526), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 103/300 (34%), Positives = 187/300 (62%), Gaps = 4/300 (1%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 358 YTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 417
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L+
Sbjct: 418 EELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLL 477
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ + +L L+ +E +V +RFG++DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 478 QEQLHQVLDTLSEREAGVVSMRFGLQDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRH 537
>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 = 207 bits (526), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 118/308 (38%), Positives = 190/308 (61%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +R IRLP +I L+K+ + +R Q+ +
Sbjct: 138 PTRGYKFSTYAYWWIRQAITRAIAQQARAIRLPIHITEKLNKIKKVQRELAQKLGRNATP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A +G+ ++ + I R P+S+ V +QDT E+ D P+ + ++ M
Sbjct: 198 TEIAEELGLEPSQIREYLSIARQPISLDVRVGDNQDTELSELLEDDE-NSPETYLTQESM 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + ++L+ L P++R ++ LRFG+EDG SL++VG LS+ERVRQLE +AL +L++
Sbjct: 257 RQDIDSMLSELTPQQREVLSLRFGLEDGNELSLAKVGKKLNLSRERVRQLEHQALAKLRR 316
Query: 555 SLGGKASY 562
G Y
Sbjct: 317 RRAGVQEY 324
>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 = 207 bits (526), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 113/282 (40%), Positives = 180/282 (63%), Gaps = 2/282 (0%)
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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYW
Sbjct: 94 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 153
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I +AI + SRTIRLP +I L+K+ + +R QE +P +LA V + E+
Sbjct: 154 WIRQGITRAIAEKSRTIRLPIHITETLNKLKKGQRELSQELGRTPTLSELAVCVELPEEE 213
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNP 507
++ L+ R P+S++ V +DT ++ G +P SV + +R +R LL L
Sbjct: 214 VKDLLCRARQPVSLETKVGDGEDTELLDLLQGDGT-LPAESVDSECLRGDMRALLEQLPE 272
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+R ++ +R+GI+ +P SL+ + G+S+++ R LE RAL
Sbjct: 273 LQRSVLSMRYGIDGDEPMSLTSIARTLGMSRDKTRNLERRAL 314
>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 = 207 bits (526), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 106/324 (32%), Positives = 191/324 (58%), Gaps = 32/324 (9%)
Query: 232 NHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKE 291
++E +++ S+ + EG + +DP+R++L LL+ADEE L QI+
Sbjct: 89 SNEVREAKEVSLDLSIPEGVNIDDPVRMYLKEIGRVPLLSADEEILLAQQIE-------- 140
Query: 292 KSKLQSQFGREPTLIEWAKAIGLSCRDLKS--ELHSGNSSREKLINANLRLVVHVAKQYQ 349
+D S E+ +G +++KLI+ANLRLVV +AK+Y
Sbjct: 141 ----------------------AGAKDDASYKEMKAGEKAKQKLIDANLRLVVSIAKRYV 178
Query: 350 GRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPEN 409
GRG+ DL+QEG++GL+K+V+KF G +F++YA WW+RQ I +AI +RTIR+P +
Sbjct: 179 GRGMLFLDLIQEGNLGLIKAVDKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVH 238
Query: 410 IYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQ 469
+ ++K++ R +Q+ P E++A +GI+VE++ + I + P+S++ P+ ++
Sbjct: 239 MVETINKLIRISRQLLQDKGREPLPEEIAEGMGISVERVREIQKIAQEPVSLETPIGEEE 298
Query: 470 DTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSE 529
D+ + D PD + L+++ + ++ + L +E+ ++ LRFG++DGKP++L E
Sbjct: 299 DSHLGDFIEDQDAIAPDDAASYILLKEQIEDVFSCLTDREQQVLVLRFGLKDGKPRTLEE 358
Query: 530 VGNIFGLSKERVRQLESRALYRLK 553
VG F +++ER+RQ+E +AL +L+
Sbjct: 359 VGQHFNVTRERIRQIEGKALTKLR 382
>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 = 206 bits (525), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 101/291 (34%), Positives = 177/291 (60%), Gaps = 4/291 (1%)
Query: 263 GPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322
GP +LLTA++E E IQDL++LE + ++ EPT +WA A G L+
Sbjct: 224 GP---RLLTAEQEVEFSEGIQDLLKLEAIQKEVAQYNAGEPTFSQWAAAAGTDENTLRRR 280
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
L+ G + +++ +N+RLV+ +AK+++G G+ DL+Q+G GL++ EKF G RF+
Sbjct: 281 LNHGVYCKNRMVKSNVRLVISIAKEHEGPGMEFSDLIQDGMQGLIRGAEKFDASKGFRFS 340
Query: 383 SYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVG 442
+Y++WW++Q IRK++ + ++ IRLP ++ S+V E R +E P E++A G
Sbjct: 341 TYSHWWIKQAIRKSVLEQTQIIRLPAHMAEASSRVKECCRRLGRELKRLPSNEEIAVDTG 400
Query: 443 ITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL 502
+T+ ++E + + + +S V D T+QEI DT E + ++ + LM++ V L
Sbjct: 401 MTIRRVEAAMSLPKYSVSFTSKVGCT-DVTYQEIMPDTSAETAEETLHRWLMKKDVNTAL 459
Query: 503 TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
L+P+E+ ++R RFGIE G+ ++L ++G + G+S+ER+RQ+E A +L+
Sbjct: 460 DSLSPREKQVMRYRFGIEGGRARTLHDIGQLMGVSRERIRQIELGAFRKLR 510
>gi|397614537|gb|EJK62861.1| hypothetical protein THAOC_16512 [Thalassiosira oceanica]
Length = 466
Score = 206 bits (525), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 118/346 (34%), Positives = 203/346 (58%), Gaps = 17/346 (4%)
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 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRK 395
+NLRLV+ +AK+YQ RG+++ DL QEG++GL ++ EKF P+ G RF++YA WW++Q I +
Sbjct: 231 SNLRLVISIAKRYQNRGLNMQDLCQEGTLGLTRACEKFDPEKGFRFSTYATWWIKQGIMR 290
Query: 396 AIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFIT 455
AI +RTIRLP +I+ L+ V + + E P KE++A +VGI +K++ F+
Sbjct: 291 AIADQARTIRLPVHIHDQLNLVRKTENDLASELGRDPTKEEIAAKVGIKPDKID---FLK 347
Query: 456 RMPLSMQQPVW-------ADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
R W +++ T Q+ D + D++ Q ++++ + L+ LN +
Sbjct: 348 RSKGIRGGYRWFQGGAAGSERSFTIQDTLGDPEQQPVDMA-QYRMLQDDLSRLIRTLNAR 406
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
E+ ++RLRFG++DG PK+L E+G F +++ER+RQ+E+RAL++L+Q
Sbjct: 407 EQAVIRLRFGLDDGTPKTLEEIGRKFSVTRERIRQIEARALHKLRQ 452
>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 = 206 bits (525), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 114/300 (38%), Positives = 185/300 (61%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +A+R Q+
Sbjct: 147 PTKGFKFSTYAYWWIRQAITRAIAQQARTIRLPVHITEKLNKIKKAQRQLSQDLGRVATV 206
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + I +++ + ++R P+S+ + +QDT E+ DTG PD V+++ +
Sbjct: 207 AEIAHELKIKTDQVRECLSLSRQPISLDLRIGDNQDTELAELLEDTG-RSPDNYVERESL 265
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R +++LL L K+R ++ LR+G+EDG+ SL+ + LS+E+VRQLE +A+ L++
Sbjct: 266 RTDIQSLLKELPEKQRQVMVLRYGLEDGQEMSLASISKRMDLSREQVRQLERQAMDYLRK 325
>gi|383785810|ref|YP_005470379.1| sigma-70 family RNA polymerase sigma factor [Fervidobacterium
pennivorans DSM 9078]
gi|383108657|gb|AFG34260.1| RNA polymerase sigma factor, sigma-70 family [Fervidobacterium
pennivorans DSM 9078]
Length = 371
Score = 206 bits (525), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 98/226 (43%), Positives = 156/226 (69%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++E+LI +NLRLVV +AK+Y G+G+S DL+QEGS+GL+K+VEKF G +F++YA WW
Sbjct: 129 AKEELIISNLRLVVSMAKRYLGKGLSFLDLIQEGSLGLIKAVEKFDWSKGYKFSTYATWW 188
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIR+P ++ ++K+ + KR Y+QE P E +A +VG VEK+
Sbjct: 189 IRQAITRAIADQARTIRVPVHMVETINKIQKIKREYMQEHGEEPPLEYIAEQVGKPVEKI 248
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
E ++ T LS++ PV ++D++ + AD V P + LM++ + LL LN +
Sbjct: 249 EEILQSTPETLSLETPVGEEEDSSMADFVADESVGSPKKEAIRTLMKEEIDKLLETLNDR 308
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
E+ ++++R+GI DGKPK+L EVG FG+++ER+RQ+E +AL +L+
Sbjct: 309 EKMVLKMRYGILDGKPKTLEEVGQYFGVTRERIRQIEVKALRKLRH 354
>gi|146739110|gb|ABQ42602.1| chloroplast RNA-polymerase sigma factor precursor [Heterosigma
akashiwo]
Length = 404
Score = 206 bits (525), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 112/310 (36%), Positives = 184/310 (59%), Gaps = 8/310 (2%)
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 KFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHS 431
KF P+ G RF++YA WW++Q I +A+ SR +RLP +++ L + AK + E
Sbjct: 191 KFDPRKGFRFSTYATWWIKQGIMRAVTDQSRVVRLPVHVHDALFHIRRAKANFWTEHLRE 250
Query: 432 PDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEI------- 484
P +LA G+T +K+ + S+ + V T E + ++
Sbjct: 251 PTLAELAEATGLTPQKIVFYDTVKDKVSSIDKTVGIGTKTNSMEKSQIAISDMCKDSRNK 310
Query: 485 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 544
P+ + Q + +RQ + L+ L+P+E+ +VR+R+G++DG+ ++L E+G+IF +++ERVRQ+
Sbjct: 311 PEETAQVESLRQDISRLINTLSPREQDVVRMRYGLDDGEIRTLEEIGSIFSVTRERVRQI 370
Query: 545 ESRALYRLKQ 554
E+RAL++L+Q
Sbjct: 371 EARALHKLRQ 380
>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 = 206 bits (525), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 116/303 (38%), Positives = 188/303 (62%), Gaps = 2/303 (0%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG-REPTLIEWAKAI 312
+D +R +L LLT +EE L ++Q ++L++ + LQS+ G R+P+ +EWA A
Sbjct: 9 SDLVRTYLREIGRVPLLTHEEEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLEWAAAA 68
Query: 313 GLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK 372
GLS +L+ + H G ++ K+I ANLRLVV VAK+Y R + L DL+QEG++G+ + VEK
Sbjct: 69 GLSIEELRQQQHLGEQAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQRGVEK 128
Query: 373 FKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSP 432
F P G RF++YAYWW+RQ I +AI + +RTIRLP +I L+K+ + +R Q+ +
Sbjct: 129 FDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKMQRQLSQQLGRTA 188
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
+LA + +T ++ + R PLS+ V +QDT ++ +T P+ +
Sbjct: 189 TLPELAAALDLTPAQVRDYLEKARHPLSLDLRVGDNQDTELGDLL-ETDCTTPEEFTLQA 247
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
MR+ + LL L ++R ++ LR+G+EDG+ +L+ +G+ +S+ERVRQLE AL+ L
Sbjct: 248 SMRRDIDRLLDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLEREALHTL 307
Query: 553 KQS 555
+Q+
Sbjct: 308 RQA 310
>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 = 206 bits (524), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 106/313 (33%), Positives = 185/313 (59%), Gaps = 40/313 (12%)
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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF P+ G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 189 IKGVEKFDPEKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 248
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P ++LA + ++ +K++ ++ I R P S++ P+ + D+ + AD V P+
Sbjct: 249 ELGYEPSVKELAEHLDMSEDKVQEIMQIAREPASLETPIGEEDDSNLGDFVADANVLTPE 308
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ +LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 309 SNVEAVMLREHIDSLLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEA 368
Query: 547 RALYRLKQSLGGK 559
+AL +L+ + K
Sbjct: 369 KALRKLRNPVRSK 381
>gi|323388685|gb|ADX60147.1| SIGMA70-like transcription factor [Zea mays]
Length = 428
Score = 206 bits (524), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 101/291 (34%), Positives = 177/291 (60%), Gaps = 4/291 (1%)
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 SYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVG 442
+Y++WW++Q IRK++ + ++ IRLP ++ S+V E R +E P E++A G
Sbjct: 241 TYSHWWIKQAIRKSVLEQTQIIRLPAHMAEASSRVKECCRRLGRELKRLPSNEEIAVDTG 300
Query: 443 ITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL 502
+T+ ++E + + + +S V D T+QEI DT E + ++ + LM++ V L
Sbjct: 301 MTIRRVEAAMSLPKYSVSFTSKVGCT-DVTYQEIMPDTSAETAEETLHRWLMKKDVNTAL 359
Query: 503 TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
L+P+E+ ++R RFGIE G+ ++L ++G + G+S+ER+RQ+E A +L+
Sbjct: 360 DSLSPREKQVMRYRFGIEGGRARTLHDIGQLMGVSRERIRQIELGAFRKLR 410
>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 = 206 bits (524), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 123/343 (35%), Positives = 190/343 (55%), Gaps = 43/343 (12%)
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 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQ 391
++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++YAYWW+RQ
Sbjct: 139 RMIQANLRLVVAVAKKYQQRGMELLDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWWIRQ 198
Query: 392 TIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERL 451
I +AI SRTIRLP +I L+++ ++ E DLA+ +G++ E + +
Sbjct: 199 GITRAIATQSRTIRLPVHITEKLNRIKRVQQEIASEKGRLASVSDLAKELGVSEETVRQT 258
Query: 452 IFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERC 511
+ +S++ V DQDT ++ D G P+ ++ + + + +LL L+P+E
Sbjct: 259 LARVPRSVSLETRVGKDQDTQLGDLLED-GHATPEQTLTRDSLHDDLEHLLEELSPREAE 317
Query: 512 IVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++R RFG+ED P++L+E+G LS+ERVRQ+E+RAL +L+Q
Sbjct: 318 VIRSRFGLEDDTPRTLAEIGEAMALSRERVRQIETRALLKLRQ 360
>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 = 206 bits (524), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 116/303 (38%), Positives = 188/303 (62%), Gaps = 2/303 (0%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG-REPTLIEWAKAI 312
+D +R +L LLT +EE L ++Q ++L++ + LQS+ G R+P+ +EWA A
Sbjct: 15 SDLVRTYLREIGRVPLLTHEEEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLEWAAAA 74
Query: 313 GLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK 372
GLS +L+ + H G ++ K+I ANLRLVV VAK+Y R + L DL+QEG++G+ + VEK
Sbjct: 75 GLSIEELRQQQHLGEQAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQRGVEK 134
Query: 373 FKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSP 432
F P G RF++YAYWW+RQ I +AI + +RTIRLP +I L+K+ + +R Q+ +
Sbjct: 135 FDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKMQRQLSQQLGRTA 194
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
+LA + +T ++ + R PLS+ V +QDT ++ +T P+ +
Sbjct: 195 TLPELAAALDLTPAQVRDYLEKARHPLSLDLRVGDNQDTELGDLL-ETDCTTPEEFTLQA 253
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
MR+ + LL L ++R ++ LR+G+EDG+ +L+ +G+ +S+ERVRQLE AL+ L
Sbjct: 254 SMRRDIDRLLDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLEREALHTL 313
Query: 553 KQS 555
+Q+
Sbjct: 314 RQA 316
>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 = 206 bits (524), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 113/313 (36%), Positives = 181/313 (57%), Gaps = 40/313 (12%)
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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 210 IKGVEKFDYTKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 269
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P +LA +G+T EK+ ++ I R P S++ P+ + D+ + AD V P+
Sbjct: 270 ELGYEPSVTELANELGMTEEKVMEIMQIAREPASLETPIGEEDDSNLGDFVADANVLTPE 329
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 330 GNVESVMLREHIDTLLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEA 389
Query: 547 RALYRLKQSLGGK 559
+AL +L+ + K
Sbjct: 390 KALRKLRNPVRSK 402
>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 = 206 bits (524), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 110/297 (37%), Positives = 191/297 (64%), Gaps = 1/297 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL ADEE EL +++ L ++ ++ L+ + G++P+ E A ++ + L+S L+ G
Sbjct: 79 LLKADEEVELARRVRFLEEVKDLQAALELELGQQPSKNEVASKFEMTEKQLESRLYQGRV 138
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F++YAYWW
Sbjct: 139 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 198
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIRLP +I L+K+ +A+R Q+ +P + ++A + I+V++L
Sbjct: 199 IRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLARNPSEAEMAESLEISVQQL 258
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNP 507
+L + R LS+ V ++DT ++ D + P+ + + +MRQ + +L +L P
Sbjct: 259 RQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNQSPEAKMNENMMRQEIWEVLGDVLTP 318
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ++S+A+ +L++ K G+
Sbjct: 319 REKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKGW 375
>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 = 206 bits (524), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 119/320 (37%), Positives = 185/320 (57%), Gaps = 6/320 (1%)
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 LHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLL 414
DL+QEG++GL + VEKF P G +F++YAYWW+RQ I +AI Q +R IRLP +I L
Sbjct: 143 FLDLIQEGTLGLERGVEKFDPTRGYKFSTYAYWWIRQAITRAIAQQARAIRLPIHITEKL 202
Query: 415 SKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQ 474
+K+ + +R Q + ++ + + + ++ + I R P+S+ V +QDT
Sbjct: 203 NKIKKVQRELSQRLGRNATPTEIGQELELEPAQIREYLSIARQPVSLDVRVGDNQDTELS 262
Query: 475 EITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIF 534
++ D+G + Q+ L RQ + NLL L P++R ++ LRFG+EDG SL++VG
Sbjct: 263 DLLEDSGPTPVHYTTQESL-RQDLDNLLAELTPQQREVLALRFGLEDGNELSLAKVGQRL 321
Query: 535 GLSKERVRQLESRALYRLKQ 554
LS+ERVRQLE +AL +L++
Sbjct: 322 NLSRERVRQLEHQALAQLRR 341
>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 = 206 bits (524), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 188/317 (59%), Gaps = 28/317 (8%)
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 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEG++GL+K+VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K
Sbjct: 190 DLIQEGNLGLLKAVEKFDYSKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINK 249
Query: 417 VLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEI 476
++ R +QE P E++A ++G+ VE++ ++ I + P+S++ P+ ++D+ +
Sbjct: 250 LIRISRQLLQEKGREPLPEEIAGKMGVPVERVREIMKIAQEPVSLETPIGEEEDSHLGDF 309
Query: 477 TADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 536
D PD + L+++ + ++ + L +ER ++ LRFG++DG+P++L EVG F +
Sbjct: 310 IEDHEAIAPDDAASFILLKEQIEDVFSCLTDRERKVLYLRFGLKDGRPRTLEEVGQHFNV 369
Query: 537 SKERVRQLESRALYRLK 553
++ER+RQ+E +AL +L+
Sbjct: 370 TRERIRQIEGKALSKLR 386
>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 = 206 bits (524), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 116/287 (40%), Positives = 181/287 (63%), Gaps = 2/287 (0%)
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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYW
Sbjct: 105 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 164
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I +AI + SRTIRLP +I +L+K+ + +R QE +P +LA V + E+
Sbjct: 165 WIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTELAEFVELPEEE 224
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNP 507
++ L+ R P+S++ V DT E+ A G E+P V+ + ++ +R+LL L
Sbjct: 225 VKDLMCRARQPVSLEMKVGDGDDTELLELLAGDG-ELPSEQVEGECLKGDLRDLLEQLPE 283
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+R ++R+R+G+ P SL+ +G I G+S++RVR LE L L++
Sbjct: 284 LQRKVLRMRYGMNGEDPMSLTGIGRIIGISRDRVRNLERDGLAGLRR 330
>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 = 206 bits (524), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 111/313 (35%), Positives = 181/313 (57%), Gaps = 40/313 (12%)
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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF P+ G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 215 IKGVEKFDPEKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 274
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P +LA+ + +T EK+ ++ I R P S++ P+ + D+ + AD V P+
Sbjct: 275 ELGYEPSVAELAKALDMTEEKVMEIMQIAREPASLETPIGEEDDSNLGDFVADNNVLTPE 334
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 335 DNVESVMLREHIEALLGDLKERERQVIVLRFGLEDGHPRTLEEVGREFKVTRERIRQIEA 394
Query: 547 RALYRLKQSLGGK 559
+AL +L+ + K
Sbjct: 395 KALRKLRNPVRSK 407
>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 = 206 bits (524), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 107/287 (37%), Positives = 179/287 (62%), Gaps = 1/287 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ ++I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYWW
Sbjct: 154 AKRRMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRATEKFDPDKGYKFSTYAYWW 213
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I + I +RTIRLP +I L+K+ +A R +E +P + +LA+ + +T ++L
Sbjct: 214 IRQGITRTIANDARTIRLPIHIVEKLNKLKKAHRDLRRELQRNPTEVELAQSLDMTPDQL 273
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLNP 507
L + R LS+ V +DT E+ D + P+ + + +MR + ++L +L
Sbjct: 274 RGLQQVRRRSLSLNHRVGKGEDTELMELLEDGNTQSPESQISESMMRHEITSVLAEVLTE 333
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ I+ LR+G+ G+ +L EVG++F LS+ERVRQ++++A+ +L++
Sbjct: 334 REKDIITLRYGLATGETHTLEEVGSMFNLSRERVRQIQTKAMRKLRR 380
>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 = 206 bits (524), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 111/329 (33%), Positives = 196/329 (59%), Gaps = 27/329 (8%)
Query: 237 NSRKASVKKKLSEGFD----RNDPLRLFLWGPETRKLLTADEEFELIAQIQ-------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 KQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIR 405
K+Y GRG+ DL+QEG++GL+++VEKF G +F++YA WW+RQ I +AI +RTIR
Sbjct: 162 KRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIR 221
Query: 406 LPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPV 465
+P ++ ++K++ +R +Q+ N P E++ ++G++ E++ + I++ P+S++ P+
Sbjct: 222 IPVHMVETINKLVRIQRQLLQDLNRDPTPEEIGEKMGLSAERVREIQKISQEPVSLETPI 281
Query: 466 WADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPK 525
++D+ + D +P + ++++ + +L L +ER ++ LRFG+EDG P
Sbjct: 282 GEEEDSQLGDFIEDDSAVVPPDAASFSMLQEQLSKVLDGLAERERKVISLRFGLEDGHPH 341
Query: 526 SLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+L EVG FG+++ER+RQ+ES+ L +L+
Sbjct: 342 TLEEVGREFGVTRERIRQIESKTLAKLRH 370
>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 = 206 bits (524), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 112/287 (39%), Positives = 183/287 (63%), Gaps = 2/287 (0%)
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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYW
Sbjct: 119 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 178
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I +AI + SRTIRLP +I +L+K+ + +R QE +P +LA V + ++
Sbjct: 179 WIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPSVTELASFVELPEDE 238
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNP 507
++ L+ R P+S++ V DT ++ A G E+P V+ + ++ +R+LL L
Sbjct: 239 VKELMCRARQPVSLEMKVGDGDDTELLDLLAGDG-ELPSEQVEGECLKGDLRDLLGQLPE 297
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ ++R+R+G++ +P SL+ +G + G+S++RVR LE L L++
Sbjct: 298 LQERVLRMRYGMDGEEPMSLTGIGRVIGISRDRVRNLERDGLAGLRR 344
>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 = 206 bits (523), Expect = 4e-50, Method: Compositional matrix adjust.
Identities = 115/316 (36%), Positives = 184/316 (58%), Gaps = 14/316 (4%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
E +DP+R++L LLTA EE L Q++ R E+ +LQ ++
Sbjct: 98 ESMGVDDPVRVYLREIGRVNLLTAQEEIMLAQQVE---RGEQASERLQKG--------DY 146
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
A + L L + G ++RE+LI ANLRLVV +AK+Y GRG+SL DL+QEG++GLM+
Sbjct: 147 APSERLQ---LHRWVQEGQAARERLIQANLRLVVSIAKKYLGRGMSLLDLIQEGNIGLMR 203
Query: 369 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+ EKF + G +F++YA WW+RQ I + I SRTIRLP ++ +++V+ A Q
Sbjct: 204 ATEKFDYRKGYKFSTYATWWIRQAITRVIADQSRTIRLPVHVGETINRVMRASNRIQQTT 263
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDIS 488
P +++A +GI VEK+ R++ R +S++ P+ + DT + D P S
Sbjct: 264 GRDPTPDEIALELGIPVEKVRRVLEAARQTISLETPIGTEGDTVLADFIEDGKGVTPMDS 323
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
++R+ + + L L +ER I++LR+G+ DG ++L EVG FG+++ER+RQ+E+R
Sbjct: 324 ASHHILREQIDSALEKLPERERRIIQLRYGLYDGHYRTLEEVGREFGITRERIRQIEARV 383
Query: 549 LYRLKQSLGGKASYGY 564
L +L+ G+ GY
Sbjct: 384 LRKLRHPHYGRGLRGY 399
>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 = 206 bits (523), Expect = 4e-50, Method: Compositional matrix adjust.
Identities = 119/341 (34%), Positives = 189/341 (55%), Gaps = 43/341 (12%)
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 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQ 391
+I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++Y+YWW+RQ
Sbjct: 168 HMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYSYWWIRQ 227
Query: 392 TIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERL 451
I +AI SR IRLP +I L+K+ A+R QE H+P +++A +G+T E++ +
Sbjct: 228 GITRAIATQSRMIRLPVHITEKLNKIKRAQRKISQEKGHTPKIDEVAEELGMTPEQVREV 287
Query: 452 IFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERC 511
+ +S++ V D+DT ++ +T + P+ + ++ ++ ++ +L L P+E+
Sbjct: 288 LTQVPRSVSLELKVGQDKDTELMDLL-ETDTQSPEDELMREALQNDMQEILLDLTPREQE 346
Query: 512 IVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
++ LRFG +DG SLSE+G I LS+ERVRQ+E++AL +L
Sbjct: 347 VIALRFGFQDGVAHSLSEIGRILNLSRERVRQIEAKALQKL 387
>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 = 206 bits (523), Expect = 4e-50, Method: Compositional matrix adjust.
Identities = 116/325 (35%), Positives = 188/325 (57%), Gaps = 1/325 (0%)
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 LLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKV 417
L+QEG++GL + VEKF P G +F++YAYWW+RQ I +AI Q SRTIRLP ++ L+K+
Sbjct: 126 LIQEGALGLERGVEKFDPTLGYKFSTYAYWWIRQGITRAIAQQSRTIRLPIHMADKLNKI 185
Query: 418 LEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEIT 477
+R Q+ H+ D ++A+ + + ++ + R P+S+ + ++Q T Q++
Sbjct: 186 KRVQRELSQKLGHTADVTEIAQALNLEPRQIRECLQFARQPVSLDMGIGSEQGTQLQDML 245
Query: 478 ADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 537
D G+ P+ +++L+ Q V LL L P+++ ++ LRFG+ G +L ++ G+
Sbjct: 246 KDDGMS-PERYTERELLYQDVHKLLAKLTPQQKEVLILRFGLAGGCELTLVQISQRIGIC 304
Query: 538 KERVRQLESRALYRLKQSLGGKASY 562
+ERVRQLE +AL L++ SY
Sbjct: 305 RERVRQLEKQALTLLRRYGFNSRSY 329
>gi|1769588|gb|AAB95226.1| sigma factor [Synechococcus sp. PCC 7002]
Length = 328
Score = 206 bits (523), Expect = 4e-50, Method: Compositional matrix adjust.
Identities = 116/315 (36%), Positives = 192/315 (60%), Gaps = 1/315 (0%)
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 QEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLE 419
QEGS+GL + VEKF P G +F++YAYWW+RQ I +AI Q RTIRLP +I L+K+ +
Sbjct: 123 QEGSLGLERGVEKFDPTKGYKFSTYAYWWIRQAITRAIAQQGRTIRLPIHITEKLNKIKK 182
Query: 420 AKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITAD 479
+R Q+ + ++A + + ++ ++R P+S+ V +QDT ++ D
Sbjct: 183 TQRQLAQDLGRAATIAEIAEALELEPAQIREYFRVSRHPISLDVRVGDNQDTELMDLLED 242
Query: 480 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 539
+G E PD +V +L++Q +R+L+ L P+++ ++ LRFG+ DGK SL+++G LS+E
Sbjct: 243 SG-ESPDNNVTYELLKQDLRDLIADLTPQQQEVIILRFGLNDGKELSLAKIGKRMNLSRE 301
Query: 540 RVRQLESRALYRLKQ 554
RVRQLE +AL L++
Sbjct: 302 RVRQLERQALNHLRR 316
>gi|380302336|ref|ZP_09852029.1| RNA polymerase, sigma 70 subunit, RpoD [Brachybacterium squillarum
M-6-3]
Length = 458
Score = 206 bits (523), Expect = 4e-50, Method: Compositional matrix adjust.
Identities = 101/303 (33%), Positives = 190/303 (62%), Gaps = 20/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLI----RLEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A +E EL +I+ + +L++++S ++++ GRE +I
Sbjct: 159 DPVKDYLKQIGKVALLNAAQEVELAERIEAGLYAEQKLKRDESIVRTKPGRELAMI---- 214
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
+ G ++++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 215 ------------VEDGRAAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 262
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 263 EKFDYSKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGR 322
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V
Sbjct: 323 EPTPEELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVS 382
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + ++L L+ +E +V +RFG+EDG+PK+L E+G ++G+++ER+RQ+ES+ +
Sbjct: 383 FTLLQEQLHSVLDTLSEREAGVVSMRFGLEDGQPKTLDEIGKVYGVTRERIRQIESKTMS 442
Query: 551 RLK 553
+L+
Sbjct: 443 KLR 445
>gi|291565943|dbj|BAI88215.1| group 2 RNA polymerase sigma factor SigD [Arthrospira platensis
NIES-39]
Length = 331
Score = 205 bits (522), Expect = 4e-50, Method: Compositional matrix adjust.
Identities = 110/301 (36%), Positives = 184/301 (61%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q+ +
Sbjct: 141 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLAQQLGRAAT 200
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + +R+PLS+ V +QDT ++ DT P+
Sbjct: 201 MNELAAELDLTPKQIREYLEKSRLPLSLDLRVGDNQDTELVDLLEDT-TNSPEQFALNSS 259
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+R + +L+T L ++R ++ LRFG++DG+ +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 260 LRSDLESLMTDLTDQQRQVLALRFGLDDGQTLTLAKIGDRLNISRERVRQIEREALTKLR 319
Query: 554 Q 554
+
Sbjct: 320 K 320
>gi|281412780|ref|YP_003346859.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermotoga
naphthophila RKU-10]
gi|281373883|gb|ADA67445.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermotoga
naphthophila RKU-10]
Length = 407
Score = 205 bits (522), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 94/239 (39%), Positives = 160/239 (66%), Gaps = 1/239 (0%)
Query: 317 RDLKSELHSGNS-SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
R+L G+ ++EKLI +NLRLVV +AK+Y GRG+S DL+QEG++GL+K+VEKF
Sbjct: 150 RELARRAQMGDKKAKEKLITSNLRLVVSIAKRYMGRGLSFQDLIQEGNIGLLKAVEKFDW 209
Query: 376 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
+ G +F++YA WW+RQ I +AI +RTIR+P ++ ++K+ +R Y Q+ P E
Sbjct: 210 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLNRLRREYYQKHGEEPSIE 269
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMR 495
+LA+ +G EK++ ++ + +S++ P+ D+D++ ++ AD + P + LMR
Sbjct: 270 ELAKMMGKPPEKIKEILEAAKETISLESPIGEDEDSSIEDFVADDSIASPKKEAMRMLMR 329
Query: 496 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ + +L L+P+E ++R+R+G+ DGKPK+L EVG F +++ER+RQ+E +AL +L+
Sbjct: 330 EELEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLRH 388
>gi|222100016|ref|YP_002534584.1| RNA polymerase sigma factor rpoD [Thermotoga neapolitana DSM 4359]
gi|221572406|gb|ACM23218.1| RNA polymerase sigma factor rpoD [Thermotoga neapolitana DSM 4359]
Length = 392
Score = 205 bits (522), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 95/239 (39%), Positives = 160/239 (66%), Gaps = 1/239 (0%)
Query: 317 RDLKSELHSGNS-SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
R+L G+ ++EKLI +NLRLVV +AK+Y GRG+S DL+QEG++GL+K+VEKF
Sbjct: 135 RELARRAQMGDKKAKEKLITSNLRLVVSIAKRYMGRGLSFQDLIQEGNIGLLKAVEKFDW 194
Query: 376 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
+ G +F++YA WW+RQ I +AI +RTIR+P ++ ++K+ +R Y Q+ P E
Sbjct: 195 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLNRLRREYYQKYGEEPSVE 254
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMR 495
+LA+ +G EK++ ++ + +S++ P+ D+D++ ++ AD V P + LMR
Sbjct: 255 ELAKMMGKPPEKIKEILEAAKETISLESPIGEDEDSSIEDFVADESVPSPKKEAMRMLMR 314
Query: 496 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ + +L L+P+E ++R+R+G+ DGKPK+L EVG F +++ER+RQ+E +AL +L+
Sbjct: 315 EELEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLRH 373
>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 = 205 bits (522), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 111/302 (36%), Positives = 181/302 (59%), Gaps = 1/302 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + +RTIRLP +I L+K+ +A+R Q +P
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKAQRQLSQGLGRAPT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+L++ + +T +++ + R+PLS+ + + DT E+ DTG D +Q L
Sbjct: 188 VAELSQELDLTPKQVREYLEKARLPLSLDLRLGDNYDTELGEMLEDTGATPEDFVMQTSL 247
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +++ L P+++ ++ LRFG+ DG+ +L+++G + +S+ERVRQ+E AL +L+
Sbjct: 248 -SYDLERIMSELTPQQKEVISLRFGLVDGQSLTLAKIGEVLNISRERVRQIEREALNKLR 306
Query: 554 QS 555
+S
Sbjct: 307 KS 308
>gi|407960748|dbj|BAM53988.1| RNA polymerase sigma factor SigC [Synechocystis sp. PCC 6803]
Length = 385
Score = 205 bits (522), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 119/341 (34%), Positives = 189/341 (55%), Gaps = 43/341 (12%)
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 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQ 391
+I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++Y+YWW+RQ
Sbjct: 149 HMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYSYWWIRQ 208
Query: 392 TIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERL 451
I +AI SR IRLP +I L+K+ A+R QE H+P +++A +G+T E++ +
Sbjct: 209 GITRAIATQSRMIRLPVHITEKLNKIKRAQRKISQEKGHTPKIDEVAEELGMTPEQVREV 268
Query: 452 IFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERC 511
+ +S++ V D+DT ++ +T + P+ + ++ ++ ++ +L L P+E+
Sbjct: 269 LTQVPRSVSLELKVGQDKDTELMDLL-ETDTQSPEDELMREALQNDMQEILLDLTPREQE 327
Query: 512 IVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
++ LRFG +DG SLSE+G I LS+ERVRQ+E++AL +L
Sbjct: 328 VIALRFGFQDGVAHSLSEIGRILNLSRERVRQIEAKALQKL 368
>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 = 205 bits (522), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 113/300 (37%), Positives = 181/300 (60%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R Q
Sbjct: 129 PTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRELSQARGRDATI 188
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
+LA + +T +++ + R PLS+ V +QDT ++ D G D + L
Sbjct: 189 AELAEELDLTPKQVREYLERARQPLSLDLRVGDNQDTELGDLLEDDGPSPEDFATHSSL- 247
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ + L+ L +++ ++ LRFG+ DG+P +L+++G +S+ERVRQ+E AL +L++
Sbjct: 248 QFDLEILMEDLTTQQKEVIALRFGLTDGQPLTLAKIGCRLNISRERVRQIEREALSKLRK 307
>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 = 205 bits (522), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 107/314 (34%), Positives = 188/314 (59%), Gaps = 18/314 (5%)
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 QEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLE 419
QEG++GL+K+VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++KV+
Sbjct: 247 QEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVIR 306
Query: 420 AKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITAD 479
R +QE H P E++A + + V+K+ ++ I + P+S++ P+ ++D+ + D
Sbjct: 307 VSRQLLQELGHDPSPEEIAEEMSMPVDKVREILKIAQEPVSLETPIGEEEDSHLGDFIPD 366
Query: 480 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 539
P + L+++ + ++L L P+E +++LRFGIEDG+ ++L EVG F +++E
Sbjct: 367 EDASEPSEAASFTLLKEQLVDVLGTLTPREEKVLKLRFGIEDGRTRTLEEVGKEFNVTRE 426
Query: 540 RVRQLESRALYRLK 553
R+RQ+E++AL +L+
Sbjct: 427 RIRQIEAKALRKLR 440
>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 = 205 bits (521), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 123/344 (35%), Positives = 188/344 (54%), Gaps = 44/344 (12%)
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 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVR 390
E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++YAYWW+R
Sbjct: 205 EHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIR 264
Query: 391 QTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLER 450
Q I +AI SRTIRLP +I L+K+ +A+R QE +P EDLA + +T +
Sbjct: 265 QGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAVELEMTPTAVRE 324
Query: 451 LIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKER 510
++ +S++ V D+DT E+ V P+ + ++ +++ + +LL+ L +ER
Sbjct: 325 VLLRVPRSVSLETKVGKDKDTELGELLETDSV-TPEEMLMRESLQRDLHHLLSDLTTRER 383
Query: 511 CIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ +RFG+ DG P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 384 DVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 427
>gi|410450654|ref|ZP_11304688.1| RNA polymerase sigma factor RpoD [Leptospira sp. Fiocruz LV3954]
gi|410015532|gb|EKO77630.1| RNA polymerase sigma factor RpoD [Leptospira sp. Fiocruz LV3954]
Length = 579
Score = 205 bits (521), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 107/306 (34%), Positives = 188/306 (61%), Gaps = 17/306 (5%)
Query: 265 ETRKLLTADEEFELIAQIQD----LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLK 320
E R + DE E+I I++ L R+E+E + +W + I R++
Sbjct: 286 EVRMGVNIDEVREVIKDIRNNERKLRRMEQEAGSTVQEIK------DWGEKIIKGEREI- 338
Query: 321 SELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCR 380
+ ++++L+ ANLRLVV +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +
Sbjct: 339 ------SQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYK 392
Query: 381 FASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARR 440
F++YA WW+RQ I +AI +RTIR+P ++ ++KV+ RL+IQE P+ E++A R
Sbjct: 393 FSTYATWWIRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAER 452
Query: 441 VGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRN 500
+G V+K++ + + R P+S++ PV +++D+ + DT VE P + ++ + +R
Sbjct: 453 LGWPVQKVKMVKNVAREPISLEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQ 512
Query: 501 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 560
+L L +E+ ++R+RFG++DG P++L EVG F +++ER+RQ+E++AL RL+ K
Sbjct: 513 VLHTLPAREQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKK 572
Query: 561 SYGYAD 566
Y D
Sbjct: 573 LKDYID 578
>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 = 205 bits (521), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 107/319 (33%), Positives = 189/319 (59%), Gaps = 30/319 (9%)
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 LHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLL 414
DL+QEG++GL+K+VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ +
Sbjct: 227 FLDLIQEGNLGLLKAVEKFDYSKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETI 286
Query: 415 SKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQ 474
+K++ R +Q+ P E++A ++G+ VE++ ++ I + P+S++ P+ ++D+
Sbjct: 287 NKLIRISRQLLQDKGREPLPEEIAEKMGVPVERVREIMKIAQEPVSLETPIGEEEDSHLG 346
Query: 475 EITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIF 534
+ D PD + L+++ + ++ + L +ER ++ LRFG++DG+P++L EVG F
Sbjct: 347 DFIEDQEAIAPDDAASFILLKEQIEDVFSCLTDRERKVLYLRFGLKDGRPRTLEEVGQHF 406
Query: 535 GLSKERVRQLESRALYRLK 553
+++ER+RQ+E +AL +L+
Sbjct: 407 NVTRERIRQIEGKALSKLR 425
>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 = 205 bits (521), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 121/318 (38%), Positives = 195/318 (61%), Gaps = 3/318 (0%)
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 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEG++GL++ VEKF P G +F++YAYWW+RQ I +AI + SRTIRLP +I +L+K
Sbjct: 128 DLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNK 187
Query: 417 VLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEI 476
+ + +R QE +P +LA V + E+++ L+ R P+S++ V DT E+
Sbjct: 188 LKKGQRELSQELGRTPSVTELASFVELPEEEVKDLMCRARQPVSLEMKVGDGDDTELLEL 247
Query: 477 TADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 536
A G E+P V+ + ++ +R+LL+ L + ++R+R+G++ +P SL+ +G I G+
Sbjct: 248 LAGDG-ELPSDQVEGECLKGDLRDLLSQLPELQGKVLRMRYGMDGEEPMSLTGIGRIIGI 306
Query: 537 SKERVRQLESRALYRLKQ 554
S++RVR LE L L++
Sbjct: 307 SRDRVRNLERDGLAGLRR 324
>gi|162458864|ref|NP_001104924.1| sigma-like factor2B [Zea mays]
gi|4336608|gb|AAD17855.1| sigma factor SIG2B [Zea mays]
Length = 527
Score = 205 bits (521), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 100/291 (34%), Positives = 177/291 (60%), Gaps = 4/291 (1%)
Query: 263 GPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSE 322
GP +LLTA++E E IQDL++LE + ++ EPT +WA A G L+
Sbjct: 223 GP---RLLTAEQEVEFSEGIQDLLKLEAIQKEVAQYNAGEPTFSQWAAAAGTDENTLRRR 279
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
L+ G + +++ +N+RLV+ +AK+++G G+ DL+Q+G GL++ EKF G RF+
Sbjct: 280 LNHGVYCKNRMVKSNVRLVISIAKEHEGPGMEFSDLIQDGMQGLIRGAEKFDASKGFRFS 339
Query: 383 SYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVG 442
+Y++WW++Q IRK++ + ++ IRLP ++ S+V E R +E P E++A G
Sbjct: 340 TYSHWWIKQAIRKSVLEQTQIIRLPAHMAEASSRVKECCRRLGRELKRLPSNEEIAVDTG 399
Query: 443 ITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL 502
+T+ ++E + + + +S V D T+QEI DT E + ++ + LM++ V L
Sbjct: 400 MTIRRVEAAMSLPKYSVSFTSKV-GCTDVTYQEIMPDTSAETAEETLHRWLMKKDVNTAL 458
Query: 503 TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
L+P+++ ++R RFGIE G+ ++L ++G + G+S+ER+RQ+E A +L+
Sbjct: 459 DSLSPRKKQVMRYRFGIEGGRARTLHDIGQLMGVSRERIRQIELGAFRKLR 509
>gi|359685998|ref|ZP_09255999.1| RNA polymerase sigma-70 factor [Leptospira santarosai str.
2000030832]
gi|422004532|ref|ZP_16351749.1| RNA polymerase sigma-70 factor [Leptospira santarosai serovar
Shermani str. LT 821]
gi|417256834|gb|EKT86248.1| RNA polymerase sigma-70 factor [Leptospira santarosai serovar
Shermani str. LT 821]
Length = 585
Score = 205 bits (521), Expect = 6e-50, Method: Compositional matrix adjust.
Identities = 107/306 (34%), Positives = 188/306 (61%), Gaps = 17/306 (5%)
Query: 265 ETRKLLTADEEFELIAQIQD----LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLK 320
E R + DE E+I I++ L R+E+E + +W + I R++
Sbjct: 292 EVRMGVNIDEVREVIKDIRNNERKLRRMEQEAGSTVQEIK------DWGEKIIKGEREI- 344
Query: 321 SELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCR 380
+ ++++L+ ANLRLVV +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +
Sbjct: 345 ------SQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYK 398
Query: 381 FASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARR 440
F++YA WW+RQ I +AI +RTIR+P ++ ++KV+ RL+IQE P+ E++A R
Sbjct: 399 FSTYATWWIRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAER 458
Query: 441 VGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRN 500
+G V+K++ + + R P+S++ PV +++D+ + DT VE P + ++ + +R
Sbjct: 459 LGWPVQKVKMVKNVAREPISLEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQ 518
Query: 501 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 560
+L L +E+ ++R+RFG++DG P++L EVG F +++ER+RQ+E++AL RL+ K
Sbjct: 519 VLHTLPAREQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKK 578
Query: 561 SYGYAD 566
Y D
Sbjct: 579 LKDYID 584
>gi|408532063|emb|CCK30237.1| RNA polymerase principal sigma factor hrdA [Streptomyces davawensis
JCM 4913]
Length = 437
Score = 205 bits (521), Expect = 6e-50, Method: Compositional matrix adjust.
Identities = 106/301 (35%), Positives = 181/301 (60%), Gaps = 19/301 (6%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSK---LQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325
LLTA EE EL +++ + E++ S L SQ G DL +
Sbjct: 153 LLTAAEEVELARRVEAGLFAEEKLSNTPDLDSQLGL----------------DLDRLVVM 196
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA
Sbjct: 197 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 256
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++A + +
Sbjct: 257 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAHLDLPP 316
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
E++ ++ + + P+S+ PV + D ++ D P S L+R+H+ +L+ L
Sbjct: 317 ERVSEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTL 376
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYA 565
+ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+ GY
Sbjct: 377 GERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYL 436
Query: 566 D 566
D
Sbjct: 437 D 437
>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 = 205 bits (521), Expect = 6e-50, Method: Compositional matrix adjust.
Identities = 113/312 (36%), Positives = 184/312 (58%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G +F++YAYWW+ Q + +AI Q SRTIRLP +I L+K + +R Q+ SP
Sbjct: 132 DPTRGYKFSTYAYWWISQAMTRAISQQSRTIRLPIHITEKLNKFKKVQRELSQKLKRSPS 191
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+++A ++ + ++ L+ I+R P S+ + V ++DT QE+ + P+I V + L
Sbjct: 192 ADEIAEKMKLNPAQIRELLMISRQPASLDKQVGDNEDTELQELLTEVPETSPEIQVTQNL 251
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
MRQ + L L P+++ ++ L +G+ED +L++V +S+ RVR LE +AL L+
Sbjct: 252 MRQDIYLSLRELTPQQQQVLILHYGLEDNYELTLTQVAQHLNISERRVRYLEKQALSYLR 311
Query: 554 QSLGGKASYGYA 565
+ Y ++
Sbjct: 312 RCQTNLREYIFS 323
>gi|358068528|ref|ZP_09154990.1| hypothetical protein HMPREF9333_01871 [Johnsonella ignava ATCC
51276]
gi|356693345|gb|EHI55024.1| hypothetical protein HMPREF9333_01871 [Johnsonella ignava ATCC
51276]
Length = 349
Score = 205 bits (521), Expect = 6e-50, Method: Compositional matrix adjust.
Identities = 92/227 (40%), Positives = 158/227 (69%)
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
S+R+KL+ ANLRLVV +A++Y RG+ L DL+QEG++GLM++V+KF G RF++YA W
Sbjct: 112 SARKKLVEANLRLVVSIARKYTNRGLHLLDLIQEGNLGLMRAVDKFDVSKGFRFSTYATW 171
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I +AI + SRTIR+P ++ +++K++ K+ ++ + N P E+LA +GI++EK
Sbjct: 172 WIRQAISRAISEQSRTIRIPVHMVEVMNKLVNEKKRFLIQHNREPLAEELAEIMGISIEK 231
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNP 507
+ +I +T+ +S++ P+ D+D+ ++ +D P Q+ ++++ V L+ L
Sbjct: 232 VNEVIKLTQDTISIETPINGDEDSYLRDFISDERASTPYEKTQENILKEKVEEALSDLTL 291
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ER +++LRFGI DGK +L EVG FG+++ER+RQ+E +AL +L+
Sbjct: 292 REREVIKLRFGIPDGKTHTLEEVGKYFGITRERIRQIEVKALRKLRH 338
>gi|403253616|ref|ZP_10919917.1| RNA polymerase, sigma 70 subunit, RpoD subfamily protein
[Thermotoga sp. EMP]
gi|418045507|ref|ZP_12683602.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermotoga
maritima MSB8]
gi|5030433|gb|AAC44889.2| sigma 70-type sigma factor SigA [Thermotoga maritima]
gi|351676392|gb|EHA59545.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermotoga
maritima MSB8]
gi|402811150|gb|EJX25638.1| RNA polymerase, sigma 70 subunit, RpoD subfamily protein
[Thermotoga sp. EMP]
Length = 407
Score = 205 bits (521), Expect = 6e-50, Method: Compositional matrix adjust.
Identities = 94/239 (39%), Positives = 160/239 (66%), Gaps = 1/239 (0%)
Query: 317 RDLKSELHSGNS-SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
R+L G+ ++EKLI +NLRLVV +AK+Y GRG+S DL+QEG++GL+K+VEKF
Sbjct: 150 RELARRAQMGDKKAKEKLITSNLRLVVSIAKRYMGRGLSFQDLIQEGNIGLLKAVEKFDW 209
Query: 376 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
+ G +F++YA WW+RQ I +AI +RTIR+P ++ ++K+ +R Y Q+ P E
Sbjct: 210 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLNRLRREYYQKHGEEPSIE 269
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMR 495
+LA+ +G EK++ ++ + +S++ P+ D+D++ ++ AD + P + LMR
Sbjct: 270 ELAKMMGKPPEKIKEILEAAKETISLESPIGEDEDSSIEDFVADDSIASPKKEAMRMLMR 329
Query: 496 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ + +L L+P+E ++R+R+G+ DGKPK+L EVG F +++ER+RQ+E +AL +L+
Sbjct: 330 EELEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLRH 388
>gi|452821128|gb|EME28162.1| RNA polymerase primary sigma factor [Galdieria sulphuraria]
Length = 670
Score = 205 bits (521), Expect = 6e-50, Method: Compositional matrix adjust.
Identities = 116/319 (36%), Positives = 190/319 (59%), Gaps = 3/319 (0%)
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 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEGS+GL++ VEK+ G RF++YA WW+RQ I KA+ + SR RLP ++ ++
Sbjct: 443 DLVQEGSIGLIRGVEKYDAHRGFRFSTYASWWIRQGIHKALLECSRMFRLPVHVNEMIKD 502
Query: 417 VLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQD--TTFQ 474
+ + + P K ++A +VG+ EK+ L+ T+ LS++ P+ D + TT
Sbjct: 503 IRKCSLELMTSLGREPTKLEIAMKVGMPEEKVIFLLQRTQSALSLEMPIGHDMECRTTLA 562
Query: 475 EITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIF 534
++ TG E P+ + +R + LT+LN +ER I+R+RFG++DG+ KSL EVG++F
Sbjct: 563 DVVHSTG-ETPEENAVCSSLRYDLERALTVLNLREREIIRMRFGLDDGRTKSLGEVGHLF 621
Query: 535 GLSKERVRQLESRALYRLK 553
+++ERVRQ+E++AL +L+
Sbjct: 622 CVTRERVRQIETQALRKLR 640
>gi|418747116|ref|ZP_13303426.1| RNA polymerase sigma factor RpoD [Leptospira santarosai str.
CBC379]
gi|418752464|ref|ZP_13308725.1| RNA polymerase sigma factor RpoD [Leptospira santarosai str.
MOR084]
gi|421110278|ref|ZP_15570779.1| RNA polymerase sigma factor RpoD [Leptospira santarosai str. JET]
gi|409967194|gb|EKO35030.1| RNA polymerase sigma factor RpoD [Leptospira santarosai str.
MOR084]
gi|410791910|gb|EKR89855.1| RNA polymerase sigma factor RpoD [Leptospira santarosai str.
CBC379]
gi|410804463|gb|EKS10580.1| RNA polymerase sigma factor RpoD [Leptospira santarosai str. JET]
gi|456876656|gb|EMF91735.1| RNA polymerase sigma factor RpoD [Leptospira santarosai str. ST188]
Length = 586
Score = 205 bits (521), Expect = 6e-50, Method: Compositional matrix adjust.
Identities = 107/306 (34%), Positives = 188/306 (61%), Gaps = 17/306 (5%)
Query: 265 ETRKLLTADEEFELIAQIQD----LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLK 320
E R + DE E+I I++ L R+E+E + +W + I R++
Sbjct: 293 EVRMGVNIDEVREVIKDIRNNERKLRRMEQEAGSTVQEIK------DWGEKIIKGEREI- 345
Query: 321 SELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCR 380
+ ++++L+ ANLRLVV +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +
Sbjct: 346 ------SQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYK 399
Query: 381 FASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARR 440
F++YA WW+RQ I +AI +RTIR+P ++ ++KV+ RL+IQE P+ E++A R
Sbjct: 400 FSTYATWWIRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAER 459
Query: 441 VGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRN 500
+G V+K++ + + R P+S++ PV +++D+ + DT VE P + ++ + +R
Sbjct: 460 LGWPVQKVKMVKNVAREPISLEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQ 519
Query: 501 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 560
+L L +E+ ++R+RFG++DG P++L EVG F +++ER+RQ+E++AL RL+ K
Sbjct: 520 VLHTLPAREQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKK 579
Query: 561 SYGYAD 566
Y D
Sbjct: 580 LKDYID 585
>gi|398786196|ref|ZP_10548973.1| RNA polymerase sigma factor [Streptomyces auratus AGR0001]
gi|396993817|gb|EJJ04874.1| RNA polymerase sigma factor [Streptomyces auratus AGR0001]
Length = 385
Score = 205 bits (521), Expect = 6e-50, Method: Compositional matrix adjust.
Identities = 93/249 (37%), Positives = 164/249 (65%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G ++ +LI +NLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 137 DLDRLVVLGRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 196
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++
Sbjct: 197 GYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEV 256
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A +G+T E++ ++ + + P+S+ PV ++D ++ D P S L+R+H
Sbjct: 257 AAHLGLTGERVTEVLRLAQEPVSLHAPVGEEEDVALGDLIEDGDAASPVESAAFLLLREH 316
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 557
+ +L+ L +ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+
Sbjct: 317 LDAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLGKLRDHAF 376
Query: 558 GKASYGYAD 566
GY D
Sbjct: 377 ADQLRGYLD 385
>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 = 205 bits (521), Expect = 6e-50, Method: Compositional matrix adjust.
Identities = 107/314 (34%), Positives = 188/314 (59%), Gaps = 18/314 (5%)
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 QEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLE 419
QEG++GL+K+VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++KV+
Sbjct: 242 QEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVIR 301
Query: 420 AKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITAD 479
R +QE H P E++A + + V+K+ ++ I + P+S++ P+ ++D+ + D
Sbjct: 302 VSRQLLQELGHDPSPEEIAEEMSMPVDKVREILKIAQEPVSLETPIGEEEDSHLGDFIPD 361
Query: 480 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 539
P + L+++ + ++L L P+E +++LRFGIEDG+ ++L EVG F +++E
Sbjct: 362 EDASEPSEAASFTLLKEQLVDVLGTLTPREEKVLKLRFGIEDGRTRTLEEVGKEFNVTRE 421
Query: 540 RVRQLESRALYRLK 553
R+RQ+E++AL +L+
Sbjct: 422 RIRQIEAKALRKLR 435
>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 = 205 bits (521), Expect = 6e-50, Method: Compositional matrix adjust.
Identities = 102/248 (41%), Positives = 161/248 (64%), Gaps = 1/248 (0%)
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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
++VEKF P G RF++YAYWW+RQ I +AI SRTIRLP +I L+K+ +A+R Q
Sbjct: 233 ERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQ 292
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
+ ED+AR + +T ++ ++ +S++ V ++DT ++ + +
Sbjct: 293 TKGRTATVEDIARELKMTAPQVREVLLKVPRSISLETKVGKERDTELGDLLETDALSPEE 352
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
++V+ L R+ + LL L +E+ ++RLRFG+ DG P SL+E+G LS+ERVRQ+ES
Sbjct: 353 LAVRDAL-RRDLHQLLADLTTREQEVIRLRFGLGDGVPYSLAEIGRTLELSRERVRQIES 411
Query: 547 RALYRLKQ 554
+AL +L+Q
Sbjct: 412 KALQKLRQ 419
>gi|148270473|ref|YP_001244933.1| RpoD family RNA polymerase sigma factor [Thermotoga petrophila
RKU-1]
gi|170289132|ref|YP_001739370.1| RpoD family RNA polymerase sigma factor [Thermotoga sp. RQ2]
gi|147736017|gb|ABQ47357.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermotoga
petrophila RKU-1]
gi|170176635|gb|ACB09687.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermotoga sp. RQ2]
Length = 407
Score = 205 bits (521), Expect = 7e-50, Method: Compositional matrix adjust.
Identities = 94/239 (39%), Positives = 160/239 (66%), Gaps = 1/239 (0%)
Query: 317 RDLKSELHSGNS-SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
R+L G+ ++EKLI +NLRLVV +AK+Y GRG+S DL+QEG++GL+K+VEKF
Sbjct: 150 RELARRAQMGDKKAKEKLITSNLRLVVSIAKRYMGRGLSFQDLIQEGNIGLLKAVEKFDW 209
Query: 376 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
+ G +F++YA WW+RQ I +AI +RTIR+P ++ ++K+ +R Y Q+ P E
Sbjct: 210 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLNRLRREYYQKHGEEPSIE 269
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMR 495
+LA+ +G EK++ ++ + +S++ P+ D+D++ ++ AD + P + LMR
Sbjct: 270 ELAKMMGKPPEKIKEILEAAKETISLESPIGEDEDSSIEDFVADDSIASPKKEAMRMLMR 329
Query: 496 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ + +L L+P+E ++R+R+G+ DGKPK+L EVG F +++ER+RQ+E +AL +L+
Sbjct: 330 EELEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLRH 388
>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 = 204 bits (520), Expect = 7e-50, Method: Compositional matrix adjust.
Identities = 121/315 (38%), Positives = 184/315 (58%), Gaps = 3/315 (0%)
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 EGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEA 420
EG++GL + VEKF P G +F++YAYWW+RQ I +AI Q +R IRLP +I L+K+ +
Sbjct: 124 EGTLGLERGVEKFDPMRGYKFSTYAYWWIRQAITRAIAQQARAIRLPIHITEKLNKIKKT 183
Query: 421 KRLYIQE-GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITAD 479
+R Q+ G H+ E +A + + ++ + I R P+S+ V +QDT E+ D
Sbjct: 184 QRELAQKLGRHATPTE-IAVALELEPAQIREYLNIARQPVSLDVRVGDNQDTELSELLED 242
Query: 480 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 539
G + Q+ L RQ + +LL L P++R ++ LRFG++DG SL++VG LS+E
Sbjct: 243 EGPSPEHFTTQESL-RQDLDDLLAELTPQQREVITLRFGLQDGNELSLAKVGQRLNLSRE 301
Query: 540 RVRQLESRALYRLKQ 554
RVRQLE +AL L++
Sbjct: 302 RVRQLEHQALAHLRR 316
>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 = 204 bits (520), Expect = 7e-50, Method: Compositional matrix adjust.
Identities = 111/294 (37%), Positives = 175/294 (59%), Gaps = 1/294 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT +EE Q+ L+ K L ++F R+PTL EWA+ L +DL+ + G
Sbjct: 27 LLTHEEEILFGKQVHRATVLQSLKESLTNEFNRQPTLDEWAERAKLEPQDLEEAIEKGEV 86
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K++ ANLRLVV VAK+Y R + L DL+QEGS+G+ + VEKF P G RF++YAYWW
Sbjct: 87 AKRKMVEANLRLVVSVAKKYIKRNVDLLDLIQEGSIGMQRGVEKFDPSKGYRFSTYAYWW 146
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + RTIRLP +I L+K+ +A+R Q + +LA+ + +T +++
Sbjct: 147 IRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQRLGRAATISELAQELDLTPKQV 206
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ R+PLS+ + + DT E+ D D +Q L + + +L+ L P+
Sbjct: 207 REYLEKARVPLSLDLRLGDNYDTELGEMLEDPNASPEDFVMQSSLSYE-LESLIADLTPQ 265
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASY 562
+R ++ LRFG+ DGK +L ++G +S+ERVRQ+E AL +L+++ G Y
Sbjct: 266 QRQVITLRFGLNDGKAMTLVKIGEQLNISRERVRQIEREALNKLRKAKGDMNEY 319
>gi|15644200|ref|NP_229250.1| RNA polymerase sigma-A factor [Thermotoga maritima MSB8]
gi|6831649|sp|P77994.3|RPOD_THEMA RecName: Full=RNA polymerase sigma factor RpoD; Short=Sigma-A
gi|4982015|gb|AAD36519.1|AE001796_11 RNA polymerase sigma-A factor [Thermotoga maritima MSB8]
Length = 399
Score = 204 bits (520), Expect = 7e-50, Method: Compositional matrix adjust.
Identities = 94/239 (39%), Positives = 160/239 (66%), Gaps = 1/239 (0%)
Query: 317 RDLKSELHSGNS-SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
R+L G+ ++EKLI +NLRLVV +AK+Y GRG+S DL+QEG++GL+K+VEKF
Sbjct: 142 RELARRAQMGDKKAKEKLITSNLRLVVSIAKRYMGRGLSFQDLIQEGNIGLLKAVEKFDW 201
Query: 376 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
+ G +F++YA WW+RQ I +AI +RTIR+P ++ ++K+ +R Y Q+ P E
Sbjct: 202 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLNRLRREYYQKHGEEPSIE 261
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMR 495
+LA+ +G EK++ ++ + +S++ P+ D+D++ ++ AD + P + LMR
Sbjct: 262 ELAKMMGKPPEKIKEILEAAKETISLESPIGEDEDSSIEDFVADDSIASPKKEAMRMLMR 321
Query: 496 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ + +L L+P+E ++R+R+G+ DGKPK+L EVG F +++ER+RQ+E +AL +L+
Sbjct: 322 EELEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLRH 380
>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 = 204 bits (520), Expect = 7e-50, Method: Compositional matrix adjust.
Identities = 123/347 (35%), Positives = 190/347 (54%), Gaps = 51/347 (14%)
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 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQ 391
+I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++YAYWW+RQ
Sbjct: 219 HMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 278
Query: 392 TIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERL 451
I +AI SRTIRLP +I L+K+ +A+R QE H+P ED+A + +TV ++ L
Sbjct: 279 GITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGHTPSIEDIATELEMTVPQVREL 338
Query: 452 IFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ----HVRNLLTLLNP 507
+ +S++ V D+DT ++ +E D+S ++ +MR+ + LL L
Sbjct: 339 LVRVPRSVSLETKVGKDKDTELGDL-----LETDDLSPEEMMMRESLHRELEKLLADLTS 393
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ER ++ +RFG+ DG SL+++G LS+ERVRQ+E++AL +L+Q
Sbjct: 394 RERDVISMRFGLGDGHAYSLADIGRALDLSRERVRQIEAKALQKLRQ 440
>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 = 204 bits (520), Expect = 7e-50, Method: Compositional matrix adjust.
Identities = 111/291 (38%), Positives = 174/291 (59%), Gaps = 23/291 (7%)
Query: 286 IRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN------------------ 327
+RL + + +L S+ G P+L WA + DL+ L +G
Sbjct: 112 LRLVEVQERLTSELGHRPSLERWAATADIVLSDLRPTLANGKRRWAEIAKLTVEELEQVQ 171
Query: 328 ----SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAS 383
++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++
Sbjct: 172 SQGLQAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFST 231
Query: 384 YAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGI 443
YAYWW+RQ I +AI SRTIRLP +I L+K+ +A+R QE +P EDLA + +
Sbjct: 232 YAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLATELEM 291
Query: 444 TVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT 503
T ++ ++ +S++ V D+DT E+ +T P+ + ++ +++ + +LL+
Sbjct: 292 TPTQVREVLLRVPRSVSLETKVGKDKDTELGELL-ETDCVTPEEMLMRESLQRDLHHLLS 350
Query: 504 LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
L +ER ++ +RFG+ DG P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 351 DLTSRERDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 401
>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 = 204 bits (520), Expect = 7e-50, Method: Compositional matrix adjust.
Identities = 106/251 (42%), Positives = 170/251 (67%), Gaps = 9/251 (3%)
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 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
++V+KF P G RF++YAYWW+RQ I +AI SRTIRLP ++ L+K+ +A+R Q
Sbjct: 198 RAVDKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHVTEKLNKIKKAQRQISQT 257
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDI 487
+P +D+A+ + +T E++ ++ +S++ V D+DT ++ +E D
Sbjct: 258 QGCTPSLDDVAQALEMTPEQVREVLQKVPRSVSLEIRVGKDRDTELGDL-----LETQDA 312
Query: 488 SVQKQLMRQHVR----NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 543
S ++ L+R+ ++ NLLT L +ER +++LR+G+ DGK SL+E+G + LS+ERVRQ
Sbjct: 313 SPEENLVRESLQRDLHNLLTELTDREREVIQLRYGLGDGKTYSLAEIGRMLELSRERVRQ 372
Query: 544 LESRALYRLKQ 554
+E++AL +L+Q
Sbjct: 373 IEAKALQKLRQ 383
>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 = 204 bits (520), Expect = 7e-50, Method: Compositional matrix adjust.
Identities = 118/319 (36%), Positives = 186/319 (58%), Gaps = 10/319 (3%)
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 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
+ VEKF P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +R Q+
Sbjct: 193 RGVEKFDPMKGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRVQRELSQK 252
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDI 487
SP+ ++ + + + +++ + I R P+S+ + +QDT Q++ D G D
Sbjct: 253 LGRSPNAAEIGQELELEPKQVREYLSIARQPISLDVRIGDNQDTELQDLLEDDGASPEDY 312
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
+VQ Q +R + +L+ L +++ ++ LRFG+ DG P SL++VG G+S+ERVRQLE +
Sbjct: 313 TVQ-QSLRSDIFRMLSELTSQQQEVINLRFGLADGNPLSLAKVGQRMGISRERVRQLEQQ 371
Query: 548 ALYRL---KQSLGGKASYG 563
AL L K S+ G + G
Sbjct: 372 ALKHLRRRKASINGYLAAG 390
>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 = 204 bits (520), Expect = 8e-50, Method: Compositional matrix adjust.
Identities = 117/348 (33%), Positives = 211/348 (60%), Gaps = 6/348 (1%)
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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P+ G +F++YAYW
Sbjct: 138 VAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRATEKFDPEKGYKFSTYAYW 197
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R Q +P++E+LA+ + IT
Sbjct: 198 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRELKQGLQRNPNEEELAKALEITPSN 257
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D + +P+ + + +MRQ + +L+ +L
Sbjct: 258 LRQLLQLRRRSLSLNHRVGKGEDTELVDLLEDNELRLPEEQMSETMMRQEIWEVLSDVLT 317
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++S+A+ +L++
Sbjct: 318 EREKDVISLRYGLASSEPYTLEEVGGMFNLSRERVRQIQSKAMRKLRR 365
>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 = 204 bits (520), Expect = 8e-50, Method: Compositional matrix adjust.
Identities = 109/300 (36%), Positives = 179/300 (59%), Gaps = 1/300 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G +F++YAYWW+RQ I +A+ Q SR+IRLP ++ L K+ +A+R Q+ +P
Sbjct: 140 DPDKGYKFSTYAYWWIRQAITRALDQKSRSIRLPIHVCQTLKKIKKARRDLTQQLGRNPT 199
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+++ V + +++ + ++R P+S+ V QDT Q++ DT I D V Q
Sbjct: 200 ISEISSHVSLKPAQIQDYLHMSRQPVSLDLRVGEGQDTELQDLLEDTNSSIDDY-VNSQS 258
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + +L L P++R +V L FG+ DG+ +L+EV +S RVRQL+ +A+ RL+
Sbjct: 259 LKECLDEMLVELTPQQREVVNLHFGLSDGRELTLTEVAKRMDISHTRVRQLQRQAIARLR 318
>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 = 204 bits (520), Expect = 8e-50, Method: Compositional matrix adjust.
Identities = 104/298 (34%), Positives = 181/298 (60%), Gaps = 13/298 (4%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTA EE +L +++ + +EK +L S + L DL + G
Sbjct: 137 LLTAAEEVDLARRVEAGL-FAEEKLRLASDLDSQLAL------------DLDRLVVLGRM 183
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA WW
Sbjct: 184 AKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWW 243
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++A + + E++
Sbjct: 244 IRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAHLDLLPERV 303
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
++ + + P+S+ PV + D ++ D P S L+R+H+ +L+ L +
Sbjct: 304 SEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGER 363
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+ GY D
Sbjct: 364 ERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 421
>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 = 204 bits (520), Expect = 8e-50, Method: Compositional matrix adjust.
Identities = 105/301 (34%), Positives = 180/301 (59%), Gaps = 19/301 (6%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSK---LQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325
LLTA EE EL +++ + E++ S L S+ DL +
Sbjct: 145 LLTAAEEVELARRVEAGLFAEEKLSNTPDLDSEL----------------ALDLDRLVVM 188
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA
Sbjct: 189 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 248
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE H P E++A + +
Sbjct: 249 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGHEPTPEEVAAHLDLLP 308
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
E++ ++ + + P+S+ PV + D ++ D P S L+R+H+ +L+ L
Sbjct: 309 ERVSEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTL 368
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYA 565
+ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+ GY
Sbjct: 369 GERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYL 428
Query: 566 D 566
D
Sbjct: 429 D 429
>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 = 204 bits (520), Expect = 9e-50, Method: Compositional matrix adjust.
Identities = 115/301 (38%), Positives = 185/301 (61%), Gaps = 2/301 (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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + SRTIRLP +I L+K+ +A+R QE +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQEKGRAAS 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + +R PLS+ V +QDT ++ D G +P+
Sbjct: 188 IAELAEHLELTPKQVREYLERSRHPLSLDLRVGDNQDTELGDLLEDDG-PLPEDFATYAS 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++ + +L+ L P++R ++ LRFG+ DG+P +L+ +G++ +S+ERVRQ+E AL +L+
Sbjct: 247 LQLDLDSLMAELTPQQREVLILRFGLNDGQPLTLASIGSMLSISRERVRQIEREALNKLR 306
Query: 554 Q 554
+
Sbjct: 307 K 307
>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 = 204 bits (520), Expect = 9e-50, Method: Compositional matrix adjust.
Identities = 111/286 (38%), Positives = 182/286 (63%), Gaps = 1/286 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYWW
Sbjct: 100 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 159
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + SRTIRLP +I +L+K+ + +R QE +P +LA V + + +
Sbjct: 160 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTELAEFVELPEDDV 219
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ L+ R P+S++ V DT E+ + G ++P V++ ++ +R+LL L
Sbjct: 220 KDLMCRARQPVSLEMKVGDGDDTELLELLSGDG-DLPSDQVEEDCLKGDLRSLLGQLPHL 278
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ ++R+R+G++ P SL+ +G I G+S++RVR LE L L++
Sbjct: 279 QEQVLRMRYGMDGEDPMSLTGIGRILGMSRDRVRNLERDGLAGLRR 324
>gi|29832222|ref|NP_826856.1| RNA polymerase sigma factor [Streptomyces avermitilis MA-4680]
gi|29609340|dbj|BAC73391.1| putative RNA polymerase sigma factor [Streptomyces avermitilis
MA-4680]
Length = 389
Score = 204 bits (519), Expect = 9e-50, Method: Compositional matrix adjust.
Identities = 106/301 (35%), Positives = 181/301 (60%), Gaps = 19/301 (6%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSK---LQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325
LLTA EE EL +++ + E++ S L SQ G DL +
Sbjct: 105 LLTAAEEVELARRVEAGLFAEEKLSSTPDLDSQLGL----------------DLDKLVVM 148
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA
Sbjct: 149 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 208
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++A + +
Sbjct: 209 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAHLDLPG 268
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
E++ ++ + + P+S+ PV + D ++ D P S L+R+H+ +L+ L
Sbjct: 269 ERVSEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDATSPVESAAFLLLREHLDAVLSTL 328
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYA 565
+ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+ GY
Sbjct: 329 GERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYL 388
Query: 566 D 566
D
Sbjct: 389 D 389
>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 = 204 bits (519), Expect = 9e-50, Method: Compositional matrix adjust.
Identities = 122/331 (36%), Positives = 198/331 (59%), Gaps = 14/331 (4%)
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 LHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLL 414
L DL+QEG++GL++ VEKF P G +F++YAYWW+RQ I +AI + SR IRLP +I LL
Sbjct: 119 LLDLIQEGTIGLVRGVEKFDPARGYKFSTYAYWWIRQGITRAIAEKSRIIRLPIHITELL 178
Query: 415 SKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQ 474
+K+ + +R Q +P ++L+ V I VE+++ L+F P+S++ V +DT+
Sbjct: 179 NKLKKGQRELSQHLERTPTMQELSAYVEIPVEEVKDLMFRASQPVSLESKVGDGEDTSLL 238
Query: 475 EITA-DTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 533
++ A DT ++PD ++ M+ + LL L + ++R+RFGI +P +L+ +G +
Sbjct: 239 DLLAIDT--DLPDQQIELDCMKGDLEVLLQKLPELQNRVLRMRFGINGEEPMTLTGIGRM 296
Query: 534 FGLSKERVRQLESRALYRLKQSLGGKASYGY 564
G+S++RVR L L+ L G YG+
Sbjct: 297 LGISRDRVRNL-------LRDGLKGLRQYGH 320
>gi|408825995|ref|ZP_11210885.1| RNA polymerase sigma factor [Streptomyces somaliensis DSM 40738]
Length = 363
Score = 204 bits (519), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 107/298 (35%), Positives = 181/298 (60%), Gaps = 14/298 (4%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTA EE EL +I+ + E+ + R P L DL + + G +
Sbjct: 80 LLTAAEEVELARRIEAGLFAEE-------KLARTPDLDSRLAG------DLDTLVVRGRT 126
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ +LI ANLRLVV +AK+Y GRG++L DL+QEG++GL+++VEKF + G +F++YA WW
Sbjct: 127 AKRRLIEANLRLVVSIAKRYAGRGLTLPDLVQEGNLGLIRAVEKFDHERGFKFSTYATWW 186
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE P E++A +G+ E++
Sbjct: 187 IRQAMSRALADQARTIRVPVHVVELINRVVRTQRRILQEHGREPTAEEVAAHLGLPPERV 246
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
++ + + P+S+ PV +DT ++ D P S L+RQH+ +L L +
Sbjct: 247 GEVLRLAQEPVSLHAPVGG-EDTALGDLIEDGDAASPVESAAFLLLRQHLEAVLCTLGER 305
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
ER +V+LR+G+ DG+P++L E+G +FG+++ER+RQ+ES L +L+ GY D
Sbjct: 306 EREVVQLRYGLVDGRPRTLEEIGRLFGVTRERIRQIESNTLGKLRAHAFAGHLRGYLD 363
>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 = 204 bits (519), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 111/297 (37%), Positives = 188/297 (63%), Gaps = 1/297 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F++YAYWW
Sbjct: 162 AKRKMIRSNLRLVVSIAKRYLNRGLPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 221
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIRLP +I L+K+ + +R Q+ +P + +LA + + E+L
Sbjct: 222 IRQAITRAIANDARTIRLPIHIVEKLNKLKKYQRELKQKLQRNPSEIELAAALEVPPEQL 281
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNP 507
+L + R LS+ V ++DT ++ D + P+ + + +MRQ + ++L +L P
Sbjct: 282 RQLQQLRRKALSLNHRVGKEEDTELVDLLEDNDAQSPEQQMSETMMRQEIWDVLGDVLTP 341
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++S+A+ +L++ K G+
Sbjct: 342 REKDVISLRYGLTTSEPCTLEEVGCLFNLSRERVRQIQSKAMRKLRRPHIAKRLKGW 398
>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 = 204 bits (519), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 112/313 (35%), Positives = 181/313 (57%), Gaps = 40/313 (12%)
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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 208 IKGVEKFDYTKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 267
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P +LA + +T EK+ ++ I R P S++ P+ + D+ + AD+ V P+
Sbjct: 268 ELGYEPSVTELANALDMTEEKVMEIMQIAREPASLETPIGEEDDSNLGDFVADSNVLTPE 327
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 328 GNVESVMLREHIDTLLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEA 387
Query: 547 RALYRLKQSLGGK 559
+AL +L+ + K
Sbjct: 388 KALRKLRNPVRSK 400
>gi|357413573|ref|YP_004925309.1| RpoD subfamily RNA polymerase sigma-70 subunit [Streptomyces
flavogriseus ATCC 33331]
gi|320010942|gb|ADW05792.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Streptomyces
flavogriseus ATCC 33331]
Length = 358
Score = 204 bits (519), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 95/254 (37%), Positives = 168/254 (66%), Gaps = 1/254 (0%)
Query: 313 GLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK 372
GL+ DL + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEK
Sbjct: 106 GLAV-DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEK 164
Query: 373 FKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSP 432
F G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P
Sbjct: 165 FDYARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEP 224
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
E++A ++ +T E++ ++ + + P+S+ PV + D F ++ D P +
Sbjct: 225 APEEVAAQLDLTPERVSEVLRLAQEPVSLHAPVGEEDDVAFGDLIEDGDAASPVETAAFL 284
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
L+R+H+ +L+ L +ER +V+LR+G++DG+P++L E+G IFG+++ER+RQ+ES+ L +L
Sbjct: 285 LLREHLEVVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLDKL 344
Query: 553 KQSLGGKASYGYAD 566
+ GY D
Sbjct: 345 RGHAFADQLRGYLD 358
>gi|423348933|ref|ZP_17326589.1| RNA polymerase principal sigma factor hrdB [Scardovia wiggsiae
F0424]
gi|393703162|gb|EJD65363.1| RNA polymerase principal sigma factor hrdB [Scardovia wiggsiae
F0424]
Length = 593
Score = 204 bits (519), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 101/304 (33%), Positives = 192/304 (63%), Gaps = 17/304 (5%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP++ +L LL A++E +L +I+ + L +Q L++ + A
Sbjct: 290 SDPVKDYLKQIGRVNLLNAEQEVDLSERIE---------AGLYAQH-----LLDTSPAED 335
Query: 314 LSC---RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
L+ R+L+ + G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 336 LTFQRRRELRWAANDGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 395
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 396 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 455
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 456 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSEAVA 515
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + +L L+P+E ++R+R+G+EDG+PK+L ++G+++G+++ER+RQ+ES+ +
Sbjct: 516 FSLLQEQFKQVLETLSPREAGVIRMRYGLEDGQPKTLDDIGHVYGVTRERIRQIESKTMA 575
Query: 551 RLKQ 554
+L+
Sbjct: 576 KLRH 579
>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 = 204 bits (519), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 122/366 (33%), Positives = 199/366 (54%), Gaps = 18/366 (4%)
Query: 203 PLEEVKQFSQPRFLERRSKKRKV----SKPQVTNHETYNSRKASVKKKLSEGFDRNDPLR 258
P+ E + R LER + + P HE + +G +DP+R
Sbjct: 52 PVAEPASETVERILERTVGDHDLFDHHADPCHALHEQDDDSLDHDLDADVDGIGVDDPVR 111
Query: 259 LFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRD 318
++L LLTA EE L Q++ R E+ +LQ+ + T +E +
Sbjct: 112 VYLREIGRVNLLTAQEEIMLAQQVE---RGEQANERLQNG---DYTPVERLQ-------- 157
Query: 319 LKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAG 378
L + G ++RE+LI ANLRLVV +AK+Y GRG+SL DL+QEG++GLM++ EKF + G
Sbjct: 158 LHRWVQEGQAARERLIQANLRLVVSIAKKYLGRGMSLLDLIQEGNIGLMRATEKFDYRKG 217
Query: 379 CRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLA 438
+F++YA WW+RQ I + I SRTIRLP ++ +++V+ Q P +++A
Sbjct: 218 YKFSTYATWWIRQAITRVIADQSRTIRLPVHVGETINRVMRTSNRIQQTTGRDPTPDEIA 277
Query: 439 RRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHV 498
+GI VEK+ R++ R +S++ P+ + D+ + D P S ++R+ +
Sbjct: 278 LELGIPVEKVRRVLEAARQTISLETPIGPEGDSVLADFIEDGKGATPMESASSHILREQI 337
Query: 499 RNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGG 558
+ L L +ER I++LR+G+ DG ++L EVG FG+++ER+RQ+E+R L +L+ G
Sbjct: 338 DSALEKLPERERRIIQLRYGLYDGHYRTLEEVGREFGITRERIRQIEARVLRKLRHPHYG 397
Query: 559 KASYGY 564
+ GY
Sbjct: 398 RGLRGY 403
>gi|421102433|ref|ZP_15563037.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Icterohaemorrhagiae str. Verdun LP]
gi|410367547|gb|EKP22931.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Icterohaemorrhagiae str. Verdun LP]
Length = 585
Score = 204 bits (519), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 102/286 (35%), Positives = 182/286 (63%), Gaps = 8/286 (2%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLI-EWAKAIGLSCRDLKSELHSGNSSREKLINANLRL 340
I+D+ E++ +++ + G I +W + I R++ + ++++L+ ANLRL
Sbjct: 306 IKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREI-------SQAKKELVKANLRL 358
Query: 341 VVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 400
VV +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +F++YA WW+RQ I +AI
Sbjct: 359 VVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQ 418
Query: 401 SRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLS 460
+RTIR+P ++ ++KV+ RL+IQE P+ E++A R+G V+K++ + + R P+S
Sbjct: 419 ARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPIS 478
Query: 461 MQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIE 520
++ PV +++D+ DT VE P + ++ + +R +L L +ER ++R+RFG++
Sbjct: 479 LEIPVGSEEDSELGGFIPDTEVETPVNAAASSILAEQIRQVLHTLPARERKVIRMRFGLD 538
Query: 521 DGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
DG P++L EVG F +++ER+RQ+E++AL RL+ K Y D
Sbjct: 539 DGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDYID 584
>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 = 204 bits (519), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 116/301 (38%), Positives = 179/301 (59%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G +F++YAYWW+RQ I +AI Q +RTIRLP +I L+K+ +R Q S
Sbjct: 135 DPTRGYKFSTYAYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKRTQRELSQGLGRSAT 194
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
++A+ + + ++ + ++R P+S+ V +QDT E+ D G P+ +
Sbjct: 195 PAEIAQALELEPAQIREYLTLSRQPISLDLRVGDNQDTELGELLEDEGPS-PEQFTAGEA 253
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+R + + L L+P++R ++ LR+G+ DG+ SL++VG LS+ERVRQLE +AL L+
Sbjct: 254 LRDDMHHWLAELSPQQRQVLSLRYGLSDGQELSLAKVGEQLSLSRERVRQLERQALDHLR 313
Query: 554 Q 554
+
Sbjct: 314 R 314
>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 = 204 bits (519), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 108/297 (36%), Positives = 190/297 (63%), Gaps = 1/297 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L ++ ++ L+ + G++P+ E A ++ + L+S L+ G
Sbjct: 91 LLKPDEEVELARRVRFLEEVKDLQAALEEELGQQPSRSEVAAKFEMTEKQLESRLYQGRV 150
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F++YAYWW
Sbjct: 151 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 210
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIRLP +I L+K+ +A+R Q+ +P + ++A + I++++L
Sbjct: 211 IRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLARNPSEAEMATALEISIQQL 270
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNP 507
+L + R LS+ V ++DT ++ D + P+ + + +MRQ + +L +L P
Sbjct: 271 RQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNQSPEAKMNENMMRQEIWEVLGDVLTP 330
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ++S+A+ +L++ K G+
Sbjct: 331 REKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKGW 387
>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 = 204 bits (519), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 104/304 (34%), Positives = 186/304 (61%), Gaps = 13/304 (4%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 351 VEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLG 410
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V
Sbjct: 411 REPTPEELAKELDMTPEKVVEVQKYGREPISLSTPLGEDGDSEFGDLIEDSEAVVPADAV 470
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
L+++ + +L L+ +E +V +RFG++DG+PK+L E+G ++G+++ER+RQ+ES+ +
Sbjct: 471 SFTLLQEQLHQVLDTLSEREAGVVSMRFGLQDGQPKTLDEIGKVYGVTRERIRQIESKTM 530
Query: 550 YRLK 553
+L+
Sbjct: 531 SKLR 534
>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 = 204 bits (519), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 111/302 (36%), Positives = 183/302 (60%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q P
Sbjct: 127 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQTLGREPT 186
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI VEK+ L+ +R P+S+ PV +D++ + D + +V +L
Sbjct: 187 DEELAEESGIPVEKIADLLDHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVIAEL 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 247 LHTDIRHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 306
Query: 554 QS 555
Sbjct: 307 HG 308
>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 = 204 bits (519), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 113/287 (39%), Positives = 183/287 (63%), Gaps = 2/287 (0%)
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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYW
Sbjct: 73 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 132
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I +AI + SRTIRLP +I +L+K+ + +R QE +P +LA V + E+
Sbjct: 133 WIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTELAGFVELPEEE 192
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNP 507
++ L+ R P+S++ V DT E+ A G E+P+ V+ + ++ +R+LL L
Sbjct: 193 VKDLMCRARQPVSLEMKVGDGDDTELLELLAGDG-ELPEEQVEVECLKGDLRDLLEQLPD 251
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+R ++R+R+G++ +P SL+ +G + G+S++RVR LE L L++
Sbjct: 252 LQRRVLRMRYGMDGEEPMSLTGIGRVIGISRDRVRNLERDGLAGLRR 298
>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 = 204 bits (518), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 115/300 (38%), Positives = 175/300 (58%), Gaps = 26/300 (8%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G RF++YAYWW+RQ I +AI SRTIRLP +I L+K+ +A+R QE +P
Sbjct: 223 PTKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTL 282
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
EDLA + +T ++ ++ +S++ V D+DT E+ V P+ + ++ +
Sbjct: 283 EDLAIELDMTPTQVREVLLRVPRSVSLETKVGKDKDTELGELLETDSV-TPEEMLMRESL 341
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ + NLL L +ER ++ +RFG+ DG SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 342 QKDLHNLLDDLTSRERDVILMRFGLSDGHAYSLAEIGRALDLSRERVRQIESKALQKLRQ 401
>gi|315226631|ref|ZP_07868419.1| DNA-directed RNA polymerase sigma subunit RpoD [Parascardovia
denticolens DSM 10105 = JCM 12538]
gi|315120763|gb|EFT83895.1| DNA-directed RNA polymerase sigma subunit RpoD [Parascardovia
denticolens DSM 10105 = JCM 12538]
Length = 690
Score = 204 bits (518), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 87/237 (36%), Positives = 163/237 (68%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK + G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 439 RELKWAANDGRKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 498
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 499 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 558
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 559 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSEAVAFSLLQE 618
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +L L+P+E ++++R+G+EDG+PK+L ++G+++G+++ER+RQ+ES+ + +L+
Sbjct: 619 QFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGHVYGVTRERIRQIESKTMSKLR 675
>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 = 204 bits (518), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 112/295 (37%), Positives = 176/295 (59%), Gaps = 23/295 (7%)
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 RFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLAR 439
RF++YAYWW+RQ I +AI SRTIRLP +I L+K+ +A+R QE + ED+A
Sbjct: 229 RFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTATIEDIAL 288
Query: 440 RVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVR 499
+ +T E++ ++ +S++ V ++DT ++ +T P+ + ++ +++ ++
Sbjct: 289 ELEMTKEQVREVLLRVPRSVSLEIKVGKEKDTELGDLL-ETEETSPEEVLMREALQRDLQ 347
Query: 500 NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
LL L +ER ++R+RFG+ DG P SL+E+G LS+ERVRQ+E++AL +L+Q
Sbjct: 348 QLLADLTSRERDVIRMRFGLGDGHPYSLAEIGRALELSRERVRQIEAKALQKLRQ 402
>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 = 204 bits (518), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 106/304 (34%), Positives = 172/304 (56%), Gaps = 37/304 (12%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R IQ+
Sbjct: 261 VEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLG 320
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ +G+T +K+ + I + P+S++ P+ + D+ + D E P S
Sbjct: 321 RDPMPEEIGAEMGLTADKVREIQKIAQEPVSLETPIGEENDSHLGDFIEDNEGESPIEST 380
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
Q+++ + +L L +E ++RLRFG+EDGK ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 381 SDQMLKDQLEEVLGTLTEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKAL 440
Query: 550 YRLK 553
+L+
Sbjct: 441 RKLR 444
>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 = 204 bits (518), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 114/302 (37%), Positives = 185/302 (61%), Gaps = 2/302 (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 FKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSP 432
F P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q+ +P
Sbjct: 128 FDPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQKLGRAP 187
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
+LA + +T +++ + R+PLS+ V +QDT E+ DTG P+ V +
Sbjct: 188 TAGELATELELTTKQVREYLERARLPLSLDLRVGDNQDTELGELLEDTGAS-PEEFVMQS 246
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
+ + L+ L P++R ++ LRFG+ DG+ +L+++G+ +S+ERVRQ+E AL +L
Sbjct: 247 SLATDLDLLMADLTPQQREVLILRFGLSDGQALTLAKIGDRLNISRERVRQIEREALTKL 306
Query: 553 KQ 554
++
Sbjct: 307 RK 308
>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 = 204 bits (518), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 112/303 (36%), Positives = 177/303 (58%), Gaps = 1/303 (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 FKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSP 432
F P G R ++YAYWW+RQ I +AI Q+SR IRLP ++ L+K+ + +R Q +P
Sbjct: 132 FDPTKGYRLSTYAYWWIRQAITRAIAQNSRNIRLPIHVTEKLNKIKKTQRQLSQHLKRTP 191
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
+LA + +T ++ + + R P+S+++ V D+DT E+ D + ++Q
Sbjct: 192 SISELAAALELTPNQVISYLEVARQPISLEKQVGEDRDTELGEMLQDPAASPEEFAIQSS 251
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
L + + +L +++ ++ LRFG+EDG+ SL +G S+ERVRQ++ AL +L
Sbjct: 252 LSDNLKQVMAAVLTLQQQQVLSLRFGLEDGRALSLKNIGERLNFSRERVRQIQQEALAKL 311
Query: 553 KQS 555
++
Sbjct: 312 RKC 314
>gi|239616750|ref|YP_002940072.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Kosmotoga olearia
TBF 19.5.1]
gi|239505581|gb|ACR79068.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Kosmotoga olearia
TBF 19.5.1]
Length = 405
Score = 204 bits (518), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 95/239 (39%), Positives = 161/239 (67%), Gaps = 1/239 (0%)
Query: 317 RDLKSELHSGNS-SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
R+L G+ +RE+LI ANLRLVV +AK+Y GRG+S DL+QEG++GL+K+VEKF
Sbjct: 147 RELARRAQKGDKKAREELITANLRLVVSIAKRYIGRGLSFLDLIQEGNIGLIKAVEKFDW 206
Query: 376 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
+ G +F++YA WW+RQ I +AI +RTIR+P ++ ++KV + R ++QE P E
Sbjct: 207 KKGYKFSTYATWWIRQAITRAIADQARTIRVPVHMVETINKVNKVIREHLQEHGEYPTVE 266
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMR 495
+L + G T EK+E ++ ++ +S++ P+ D+++T + D +E P+ + K L+R
Sbjct: 267 ELGKLTGKTPEKIEEILAASKETVSLESPISGDEESTMGDFVHDESIEKPEEAAIKMLLR 326
Query: 496 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ + +L L+P+E ++++R+G+ DGK K+L EVG F +++ER+RQ+E +AL +L+
Sbjct: 327 EQIDEVLDTLSPREAMVLKMRYGLLDGKTKTLEEVGQFFNVTRERIRQIEVKALRKLRH 385
>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 = 204 bits (518), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 113/286 (39%), Positives = 176/286 (61%), Gaps = 1/286 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
+++K+I ANLRLVV VAK+YQ R + L DL+QEG++GL + VEKF P G +F++YAYWW
Sbjct: 74 AKQKMIEANLRLVVSVAKKYQKRNLELLDLVQEGTLGLERGVEKFDPTRGYKFSTYAYWW 133
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI Q +RTIRLP +I L+K+ +R Q+ S ++A+ + + E++
Sbjct: 134 IRQAITRAIAQQARTIRLPIHITEKLNKIKRTQRELAQKLGRSATPAEVAKALELEPEQI 193
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ + R P+S+ V +QDT E+ D + P+ + +R V L L P+
Sbjct: 194 REYLTLARQPVSLDLRVGDNQDTELGELLEDDSLS-PEQFTTVESLRDDVNLWLAELTPQ 252
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+R ++ LR+G+ DG+ SL++VG LS+ERVRQLE +AL L++
Sbjct: 253 QRQVLTLRYGLGDGQELSLAKVGEQLNLSRERVRQLERQALDHLRR 298
>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 = 204 bits (518), Expect = 1e-49, Method: Compositional matrix adjust.
Identities = 120/318 (37%), Positives = 195/318 (61%), Gaps = 3/318 (0%)
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 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEG++GL++ VEKF P G +F++YAYWW+RQ I +AI + SRTIRLP +I +L+K
Sbjct: 128 DLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWWIRQGITRAIAEKSRTIRLPIHITEMLNK 187
Query: 417 VLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEI 476
+ + +R QE +P +LA V + E+++ L+ R P+S++ V DT E+
Sbjct: 188 LKKGQRELSQELGRTPSVTELASFVELPEEEVKDLMCRARQPVSLEMKVGDGDDTELLEL 247
Query: 477 TADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 536
A G E+P V+ + ++ +R+LL+ L + ++R+R+G++ +P SL+ +G I G+
Sbjct: 248 LAGDG-ELPSEQVEGECLKGDLRDLLSQLPELQGKVLRMRYGMDGEEPMSLTGIGRIIGI 306
Query: 537 SKERVRQLESRALYRLKQ 554
S++RVR LE L L++
Sbjct: 307 SRDRVRNLERDGLAGLRR 324
>gi|418681199|ref|ZP_13242432.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Pomona str. Kennewicki LC82-25]
gi|400327020|gb|EJO79276.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Pomona str. Kennewicki LC82-25]
gi|455666955|gb|EMF32326.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Pomona str. Fox 32256]
Length = 585
Score = 203 bits (517), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 101/286 (35%), Positives = 183/286 (63%), Gaps = 8/286 (2%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLI-EWAKAIGLSCRDLKSELHSGNSSREKLINANLRL 340
I+D+ E++ +++ + G I +W + I R++ + ++++L+ ANLRL
Sbjct: 306 IKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREI-------SQAKKELVKANLRL 358
Query: 341 VVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 400
VV +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +F++YA WW+RQ I +AI
Sbjct: 359 VVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQ 418
Query: 401 SRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLS 460
+RTIR+P ++ ++KV+ RL+IQE P+ E++A R+G V+K++ + + R P+S
Sbjct: 419 ARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPIS 478
Query: 461 MQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIE 520
++ PV +++D+ + DT VE P + ++ + +R +L L +E+ ++R+RFG++
Sbjct: 479 LEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAREQKVIRMRFGLD 538
Query: 521 DGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
DG P++L EVG F +++ER+RQ+E++AL RL+ K Y D
Sbjct: 539 DGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDYID 584
>gi|398339101|ref|ZP_10523804.1| RNA polymerase sigma-70 factor [Leptospira kirschneri serovar Bim
str. 1051]
gi|418677117|ref|ZP_13238395.1| RNA polymerase sigma factor RpoD [Leptospira kirschneri serovar
Grippotyphosa str. RM52]
gi|418688253|ref|ZP_13249409.1| RNA polymerase sigma factor RpoD [Leptospira kirschneri serovar
Grippotyphosa str. Moskva]
gi|418739874|ref|ZP_13296255.1| RNA polymerase sigma factor RpoD [Leptospira kirschneri serovar
Valbuzzi str. 200702274]
gi|421090834|ref|ZP_15551624.1| RNA polymerase sigma factor RpoD [Leptospira kirschneri str.
200802841]
gi|421106512|ref|ZP_15567079.1| RNA polymerase sigma factor RpoD [Leptospira kirschneri str. H2]
gi|421132400|ref|ZP_15592568.1| RNA polymerase sigma factor RpoD [Leptospira kirschneri str.
2008720114]
gi|400323017|gb|EJO70873.1| RNA polymerase sigma factor RpoD [Leptospira kirschneri serovar
Grippotyphosa str. RM52]
gi|410000420|gb|EKO51050.1| RNA polymerase sigma factor RpoD [Leptospira kirschneri str.
200802841]
gi|410008439|gb|EKO62109.1| RNA polymerase sigma factor RpoD [Leptospira kirschneri str. H2]
gi|410356165|gb|EKP03522.1| RNA polymerase sigma factor RpoD [Leptospira kirschneri str.
2008720114]
gi|410737110|gb|EKQ81852.1| RNA polymerase sigma factor RpoD [Leptospira kirschneri serovar
Grippotyphosa str. Moskva]
gi|410752996|gb|EKR09968.1| RNA polymerase sigma factor RpoD [Leptospira kirschneri serovar
Valbuzzi str. 200702274]
Length = 585
Score = 203 bits (517), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 101/286 (35%), Positives = 183/286 (63%), Gaps = 8/286 (2%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLI-EWAKAIGLSCRDLKSELHSGNSSREKLINANLRL 340
I+D+ E++ +++ + G I +W + I R++ + ++++L+ ANLRL
Sbjct: 306 IKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREI-------SQAKKELVKANLRL 358
Query: 341 VVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 400
VV +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +F++YA WW+RQ I +AI
Sbjct: 359 VVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQ 418
Query: 401 SRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLS 460
+RTIR+P ++ ++KV+ RL+IQE P+ E++A R+G V+K++ + + R P+S
Sbjct: 419 ARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPIS 478
Query: 461 MQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIE 520
++ PV +++D+ + DT VE P + ++ + +R +L L +E+ ++R+RFG++
Sbjct: 479 LEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAREQKVIRMRFGLD 538
Query: 521 DGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
DG P++L EVG F +++ER+RQ+E++AL RL+ K Y D
Sbjct: 539 DGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDYID 584
>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 = 203 bits (517), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 106/308 (34%), Positives = 185/308 (60%), Gaps = 23/308 (7%)
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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+++VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q
Sbjct: 194 IRAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQ 253
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
+ N P E++ ++G++ E++ + I++ P+S++ P+ ++D+ + D +P
Sbjct: 254 DLNRDPTPEEIGEKMGLSAERVREIQKISQEPVSLETPIGEEEDSQLGDFIEDDSAVVPP 313
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+ ++++ + +L L +ER ++ LRFG+EDG P +L EVG FG+++ER+RQ+ES
Sbjct: 314 DAASFSMLQEQLSKVLDGLAERERKVISLRFGLEDGHPHTLEEVGREFGVTRERIRQIES 373
Query: 547 RALYRLKQ 554
+ L +L+
Sbjct: 374 KTLAKLRH 381
>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 = 203 bits (517), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 113/309 (36%), Positives = 182/309 (58%), Gaps = 1/309 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + +R IRLP +I L+K+ +A+R Q+ +
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKARAIRLPIHITEKLNKIKKAQRSLSQKLGRAAT 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T ++ + R PLS+ V QDT ++ DTG P+ V +
Sbjct: 188 VTELAEELELTPPQVREYLERARQPLSLDLRVGDHQDTELGDLLEDTGPS-PEDFVTQSA 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
M+ + LL+ L ++R ++ LRFG+ DG+P +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 247 MQMDLEKLLSDLTQQQRDVLSLRFGLADGQPLTLAKIGDRLSISRERVRQIEREALAKLR 306
Query: 554 QSLGGKASY 562
+ Y
Sbjct: 307 KRKADMGEY 315
>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 = 203 bits (517), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 115/286 (40%), Positives = 180/286 (62%), Gaps = 1/286 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++E++++ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYWW
Sbjct: 100 AKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 159
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + SRTIRLP +I +L+K+ + +R QE +P +LA V + E++
Sbjct: 160 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQEMGRTPTVSELAEFVELPEEEV 219
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ L+ R P+S++ V D D T E+P V+ M+ +R LL L
Sbjct: 220 KDLMCRARQPMSLEMKV-GDGDETELLELLAGEEELPSEKVEVDCMKGDLRTLLEKLPEL 278
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ ++R+R+GI+ G+P +L+ +G I +S++RVR LE L L+Q
Sbjct: 279 QGRVLRMRYGIDGGEPMNLTGIGRILDISRDRVRNLERHGLNGLRQ 324
>gi|359726555|ref|ZP_09265251.1| RNA polymerase sigma-70 factor [Leptospira weilii str. 2006001855]
gi|398332850|ref|ZP_10517555.1| RNA polymerase sigma-70 factor [Leptospira alexanderi serovar
Manhao 3 str. L 60]
gi|417780595|ref|ZP_12428356.1| RNA polymerase sigma factor RpoD [Leptospira weilii str.
2006001853]
gi|410779304|gb|EKR63921.1| RNA polymerase sigma factor RpoD [Leptospira weilii str.
2006001853]
gi|456865569|gb|EMF83903.1| RNA polymerase sigma factor RpoD [Leptospira weilii serovar Topaz
str. LT2116]
Length = 585
Score = 203 bits (517), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 101/286 (35%), Positives = 183/286 (63%), Gaps = 8/286 (2%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLI-EWAKAIGLSCRDLKSELHSGNSSREKLINANLRL 340
I+D+ E++ +++ + G I +W + I R++ + ++++L+ ANLRL
Sbjct: 306 IKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREI-------SQAKKELVKANLRL 358
Query: 341 VVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 400
VV +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +F++YA WW+RQ I +AI
Sbjct: 359 VVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQ 418
Query: 401 SRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLS 460
+RTIR+P ++ ++KV+ RL+IQE P+ E++A R+G V+K++ + + R P+S
Sbjct: 419 ARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPIS 478
Query: 461 MQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIE 520
++ PV +++D+ + DT VE P + ++ + +R +L L +E+ ++R+RFG++
Sbjct: 479 LEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAREQKVIRMRFGLD 538
Query: 521 DGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
DG P++L EVG F +++ER+RQ+E++AL RL+ K Y D
Sbjct: 539 DGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDYID 584
>gi|410940970|ref|ZP_11372769.1| RNA polymerase sigma factor RpoD [Leptospira noguchii str.
2006001870]
gi|410783529|gb|EKR72521.1| RNA polymerase sigma factor RpoD [Leptospira noguchii str.
2006001870]
Length = 585
Score = 203 bits (517), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 101/286 (35%), Positives = 183/286 (63%), Gaps = 8/286 (2%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLI-EWAKAIGLSCRDLKSELHSGNSSREKLINANLRL 340
I+D+ E++ +++ + G I +W + I R++ + ++++L+ ANLRL
Sbjct: 306 IKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREI-------SQAKKELVKANLRL 358
Query: 341 VVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 400
VV +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +F++YA WW+RQ I +AI
Sbjct: 359 VVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQ 418
Query: 401 SRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLS 460
+RTIR+P ++ ++KV+ RL+IQE P+ E++A R+G V+K++ + + R P+S
Sbjct: 419 ARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPIS 478
Query: 461 MQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIE 520
++ PV +++D+ + DT VE P + ++ + +R +L L +E+ ++R+RFG++
Sbjct: 479 LEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAREQKVIRMRFGLD 538
Query: 521 DGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
DG P++L EVG F +++ER+RQ+E++AL RL+ K Y D
Sbjct: 539 DGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDYID 584
>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 = 203 bits (517), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 112/313 (35%), Positives = 181/313 (57%), Gaps = 40/313 (12%)
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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 211 IKGVEKFDYTKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 270
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P +LA + +T EK+ ++ I R P S++ P+ + D+ + AD+ V P+
Sbjct: 271 ELGYEPSVTELANALDMTEEKVMEIMQIAREPASLETPIGEEDDSNLGDFVADSNVLTPE 330
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 331 GNVESVMLREHIDTLLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEA 390
Query: 547 RALYRLKQSLGGK 559
+AL +L+ + K
Sbjct: 391 KALRKLRNPVRSK 403
>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 = 203 bits (517), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 110/297 (37%), Positives = 188/297 (63%), Gaps = 1/297 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L + ++ LQ Q G+ PT + A + ++ + L++ L+ G
Sbjct: 92 LLKPDEEVELARRVRFLEEVRDLQADLQLQIGQHPTKAQVAGQLEITEKQLENRLYQGRV 151
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F++YAYWW
Sbjct: 152 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 211
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIRLP +I L+K+ +A+R Q+ + +P + ++A + I+V +L
Sbjct: 212 IRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKFSRNPSEAEMAEALEISVPQL 271
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNP 507
+L + R LS+ V ++DT ++ D P+ + + +MRQ + +L +L P
Sbjct: 272 RQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNLSPEAKMNENMMRQEIWEVLGDVLTP 331
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ++S+A+ +L++ K G+
Sbjct: 332 REKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKGW 388
>gi|24214932|ref|NP_712413.1| RNA polymerase sigma-70 factor [Leptospira interrogans serovar Lai
str. 56601]
gi|45657567|ref|YP_001653.1| RNA polymerase sigma-70 factor [Leptospira interrogans serovar
Copenhageni str. Fiocruz L1-130]
gi|386074282|ref|YP_005988599.1| RNA polymerase sigma-70 factor [Leptospira interrogans serovar Lai
str. IPAV]
gi|417761074|ref|ZP_12409088.1| RNA polymerase sigma factor RpoD [Leptospira interrogans str.
2002000624]
gi|417768940|ref|ZP_12416862.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Pomona str. Pomona]
gi|417773531|ref|ZP_12421408.1| RNA polymerase sigma factor RpoD [Leptospira interrogans str.
2002000621]
gi|417782997|ref|ZP_12430720.1| RNA polymerase sigma factor RpoD [Leptospira interrogans str.
C10069]
gi|418667800|ref|ZP_13229205.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Pyrogenes str. 2006006960]
gi|418672640|ref|ZP_13233976.1| RNA polymerase sigma factor RpoD [Leptospira interrogans str.
2002000623]
gi|418692659|ref|ZP_13253737.1| RNA polymerase sigma factor RpoD [Leptospira interrogans str.
FPW2026]
gi|418701583|ref|ZP_13262507.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Bataviae str. L1111]
gi|418703527|ref|ZP_13264411.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Hebdomadis str. R499]
gi|418710902|ref|ZP_13271668.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Grippotyphosa str. UI 08368]
gi|418717863|ref|ZP_13277402.1| RNA polymerase sigma factor RpoD [Leptospira interrogans str. UI
08452]
gi|418726272|ref|ZP_13284883.1| RNA polymerase sigma factor RpoD [Leptospira interrogans str. UI
12621]
gi|418733427|ref|ZP_13290551.1| RNA polymerase sigma factor RpoD [Leptospira interrogans str. UI
12758]
gi|421086235|ref|ZP_15547086.1| RNA polymerase sigma factor RpoD [Leptospira santarosai str.
HAI1594]
gi|421118518|ref|ZP_15578855.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Canicola str. Fiocruz LV133]
gi|421121172|ref|ZP_15581471.1| RNA polymerase sigma factor RpoD [Leptospira interrogans str. Brem
329]
gi|421124053|ref|ZP_15584323.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Grippotyphosa str. 2006006986]
gi|421134692|ref|ZP_15594825.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Grippotyphosa str. Andaman]
gi|26399555|sp|P59117.1|RPOD_LEPIN RecName: Full=RNA polymerase sigma factor RpoD
gi|47605974|sp|P61540.1|RPOD_LEPIC RecName: Full=RNA polymerase sigma factor RpoD
gi|24195965|gb|AAN49431.1|AE011394_5 RNA polymerase sigma-70 factor [Leptospira interrogans serovar Lai
str. 56601]
gi|45600806|gb|AAS70290.1| RNA polymerase sigma-70 factor [Leptospira interrogans serovar
Copenhageni str. Fiocruz L1-130]
gi|353458071|gb|AER02616.1| RNA polymerase sigma-70 factor [Leptospira interrogans serovar Lai
str. IPAV]
gi|400357892|gb|EJP14012.1| RNA polymerase sigma factor RpoD [Leptospira interrogans str.
FPW2026]
gi|409943068|gb|EKN88671.1| RNA polymerase sigma factor RpoD [Leptospira interrogans str.
2002000624]
gi|409949090|gb|EKN99072.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Pomona str. Pomona]
gi|409953698|gb|EKO08194.1| RNA polymerase sigma factor RpoD [Leptospira interrogans str.
C10069]
gi|409960182|gb|EKO23936.1| RNA polymerase sigma factor RpoD [Leptospira interrogans str. UI
12621]
gi|410009877|gb|EKO68031.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Canicola str. Fiocruz LV133]
gi|410021276|gb|EKO88068.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Grippotyphosa str. Andaman]
gi|410346000|gb|EKO97044.1| RNA polymerase sigma factor RpoD [Leptospira interrogans str. Brem
329]
gi|410431800|gb|EKP76160.1| RNA polymerase sigma factor RpoD [Leptospira santarosai str.
HAI1594]
gi|410438540|gb|EKP87626.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Grippotyphosa str. 2006006986]
gi|410576619|gb|EKQ39624.1| RNA polymerase sigma factor RpoD [Leptospira interrogans str.
2002000621]
gi|410580328|gb|EKQ48153.1| RNA polymerase sigma factor RpoD [Leptospira interrogans str.
2002000623]
gi|410756245|gb|EKR17870.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Pyrogenes str. 2006006960]
gi|410759368|gb|EKR25581.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Bataviae str. L1111]
gi|410766663|gb|EKR37346.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Hebdomadis str. R499]
gi|410768502|gb|EKR43749.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Grippotyphosa str. UI 08368]
gi|410773036|gb|EKR53067.1| RNA polymerase sigma factor RpoD [Leptospira interrogans str. UI
12758]
gi|410786736|gb|EKR80474.1| RNA polymerase sigma factor RpoD [Leptospira interrogans str. UI
08452]
gi|455792672|gb|EMF44412.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Lora str. TE 1992]
gi|456821632|gb|EMF70138.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Canicola str. LT1962]
Length = 585
Score = 203 bits (517), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 101/286 (35%), Positives = 183/286 (63%), Gaps = 8/286 (2%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLI-EWAKAIGLSCRDLKSELHSGNSSREKLINANLRL 340
I+D+ E++ +++ + G I +W + I R++ + ++++L+ ANLRL
Sbjct: 306 IKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREI-------SQAKKELVKANLRL 358
Query: 341 VVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 400
VV +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +F++YA WW+RQ I +AI
Sbjct: 359 VVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQ 418
Query: 401 SRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLS 460
+RTIR+P ++ ++KV+ RL+IQE P+ E++A R+G V+K++ + + R P+S
Sbjct: 419 ARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPIS 478
Query: 461 MQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIE 520
++ PV +++D+ + DT VE P + ++ + +R +L L +E+ ++R+RFG++
Sbjct: 479 LEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAREQKVIRMRFGLD 538
Query: 521 DGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
DG P++L EVG F +++ER+RQ+E++AL RL+ K Y D
Sbjct: 539 DGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDYID 584
>gi|417764155|ref|ZP_12412127.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Bulgarica str. Mallika]
gi|400353669|gb|EJP05831.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Bulgarica str. Mallika]
Length = 585
Score = 203 bits (517), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 101/286 (35%), Positives = 183/286 (63%), Gaps = 8/286 (2%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLI-EWAKAIGLSCRDLKSELHSGNSSREKLINANLRL 340
I+D+ E++ +++ + G I +W + I R++ + ++++L+ ANLRL
Sbjct: 306 IKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREI-------SQAKKELVKANLRL 358
Query: 341 VVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 400
VV +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +F++YA WW+RQ I +AI
Sbjct: 359 VVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQ 418
Query: 401 SRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLS 460
+RTIR+P ++ ++KV+ RL+IQE P+ E++A R+G V+K++ + + R P+S
Sbjct: 419 ARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPIS 478
Query: 461 MQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIE 520
++ PV +++D+ + DT VE P + ++ + +R +L L +E+ ++R+RFG++
Sbjct: 479 LEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAREQKVIRMRFGLD 538
Query: 521 DGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
DG P++L EVG F +++ER+RQ+E++AL RL+ K Y D
Sbjct: 539 DGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDYID 584
>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 = 203 bits (517), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 108/297 (36%), Positives = 190/297 (63%), Gaps = 1/297 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L ++ + L ++ G+ + ++ A + ++ + L+S L+ G
Sbjct: 79 LLKPDEEVELARRVRFLEEIKDLQESLSTELGQPASKLQVANQLEMTEKQLESRLYQGRV 138
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F++YAYWW
Sbjct: 139 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 198
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIRLP +I L+K+ +A+R Q+ + +P + ++A + ITV++L
Sbjct: 199 IRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLSRNPSEAEMAEALEITVQQL 258
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNP 507
+L + R LS+ V ++DT ++ D + P+ + + +MRQ + +L +L P
Sbjct: 259 RQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNQSPEAKMNENMMRQEIWEVLGDVLTP 318
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ++S+A+ +L++ K G+
Sbjct: 319 REKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKGW 375
>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 = 203 bits (517), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 103/306 (33%), Positives = 193/306 (63%), Gaps = 13/306 (4%)
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 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
K+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +QE
Sbjct: 237 KAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQE 296
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDI 487
P E++A+ + + VE++ ++ I++ P+S++ P+ +QD+ + D V +P
Sbjct: 297 LGREPLPEEIAKEMEMPVERVREILKISQEPVSLETPIGEEQDSHLGDFIQDDNVPVPAD 356
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
+ L+++ + +L L +E+ ++RLRFG++DG+ ++L EVG F +++ER+RQ+E++
Sbjct: 357 AAAFTLLKEQLVEVLGTLTEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAK 416
Query: 548 ALYRLK 553
AL +L+
Sbjct: 417 ALRKLR 422
>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 = 203 bits (517), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 103/305 (33%), Positives = 192/305 (62%), Gaps = 2/305 (0%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +QE
Sbjct: 229 AVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEL 288
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDIS 488
P E++A + + VE++ ++ I++ P+S++ P+ ++D+ + D V +P +
Sbjct: 289 GREPSPEEIAAEMNMPVERVREILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPADA 348
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
L+++ + +L L +E+ ++ LRFG+EDG+ ++L EVG F +++ER+RQ+E++A
Sbjct: 349 AAFTLLKEQLEEVLGTLTEREQKVLTLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKA 408
Query: 549 LYRLK 553
L +L+
Sbjct: 409 LRKLR 413
>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 = 203 bits (517), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 110/287 (38%), Positives = 181/287 (63%), Gaps = 2/287 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYW
Sbjct: 119 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 178
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I +AI + SRTIRLP +I +L+K+ + +R Q+ +P +LA V + ++
Sbjct: 179 WIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQDLGRTPSVTELAAFVELPEDE 238
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNP 507
++ L+ R P+S++ V DT ++ A G E+P V+ + ++ +R+LL L
Sbjct: 239 VKELMCRARQPVSLEMKVGDGDDTELLDLLAGDG-ELPSEQVEGECLKGDLRDLLGQLPE 297
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ ++R+R+G++ P SL+ +G + G+S++RVR LE L L++
Sbjct: 298 LQERVLRMRYGMDGEDPMSLTGIGRVIGISRDRVRNLERDGLAGLRR 344
>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 = 203 bits (517), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 110/285 (38%), Positives = 170/285 (59%), Gaps = 23/285 (8%)
Query: 292 KSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN----------------------SS 329
+ +L S+ G P+L WA G+ DLK L G +
Sbjct: 131 QERLVSELGHRPSLERWASTAGIKLMDLKPTLSEGKRRWGEIAQLTVEELDEIQSQGIQA 190
Query: 330 REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWV 389
+E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++YAYWW+
Sbjct: 191 KEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWI 250
Query: 390 RQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLE 449
RQ I +AI SRTIRLP +I L+K+ +A+R QE +P EDLA + +T ++
Sbjct: 251 RQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLALELDMTPNQVR 310
Query: 450 RLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKE 509
++ +S++ V D+DT E+ +T P+ ++ ++ +++ + +LL+ L +E
Sbjct: 311 EVLLRVPRSVSLETKVGKDKDTELGELL-ETDTITPEETLMRESLQKDIHHLLSDLTTRE 369
Query: 510 RCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R ++ +RFG+ DG SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 370 REVILMRFGLADGHSYSLAEIGRALELSRERVRQIESKALQKLRQ 414
>gi|418696549|ref|ZP_13257558.1| RNA polymerase sigma factor RpoD [Leptospira kirschneri str. H1]
gi|409956078|gb|EKO15010.1| RNA polymerase sigma factor RpoD [Leptospira kirschneri str. H1]
Length = 579
Score = 203 bits (517), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 101/286 (35%), Positives = 183/286 (63%), Gaps = 8/286 (2%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLI-EWAKAIGLSCRDLKSELHSGNSSREKLINANLRL 340
I+D+ E++ +++ + G I +W + I R++ + ++++L+ ANLRL
Sbjct: 300 IKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREI-------SQAKKELVKANLRL 352
Query: 341 VVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 400
VV +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +F++YA WW+RQ I +AI
Sbjct: 353 VVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQ 412
Query: 401 SRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLS 460
+RTIR+P ++ ++KV+ RL+IQE P+ E++A R+G V+K++ + + R P+S
Sbjct: 413 ARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPIS 472
Query: 461 MQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIE 520
++ PV +++D+ + DT VE P + ++ + +R +L L +E+ ++R+RFG++
Sbjct: 473 LEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAREQKVIRMRFGLD 532
Query: 521 DGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
DG P++L EVG F +++ER+RQ+E++AL RL+ K Y D
Sbjct: 533 DGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDYID 578
>gi|116328273|ref|YP_797993.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Leptospira borgpetersenii serovar Hardjo-bovis str.
L550]
gi|116330997|ref|YP_800715.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Leptospira borgpetersenii serovar Hardjo-bovis str.
JB197]
gi|116121017|gb|ABJ79060.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Leptospira borgpetersenii serovar Hardjo-bovis str.
L550]
gi|116124686|gb|ABJ75957.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Leptospira borgpetersenii serovar Hardjo-bovis str.
JB197]
Length = 585
Score = 203 bits (517), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 106/306 (34%), Positives = 188/306 (61%), Gaps = 17/306 (5%)
Query: 265 ETRKLLTADEEFELIAQIQD----LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLK 320
E + + DE E+I I++ L R+E+E + +W + I R++
Sbjct: 292 EVKMGVNIDEVREVIKDIRNNERKLRRMEQEAGSTVQEIK------DWGEKIIKGEREI- 344
Query: 321 SELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCR 380
+ ++++L+ ANLRLVV +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +
Sbjct: 345 ------SQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYK 398
Query: 381 FASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARR 440
F++YA WW+RQ I +AI +RTIR+P ++ ++KV+ RL+IQE P+ E++A R
Sbjct: 399 FSTYATWWIRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAER 458
Query: 441 VGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRN 500
+G V+K++ + + R P+S++ PV +++D+ + DT VE P + ++ + +R
Sbjct: 459 LGWPVQKVKMVKNVAREPISLEIPVGSEEDSELGDFIPDTEVETPVNTAASSILAEQIRQ 518
Query: 501 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 560
+L L +E+ ++R+RFG++DG P++L EVG F +++ER+RQ+E++AL RL+ K
Sbjct: 519 VLHTLPAREQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKK 578
Query: 561 SYGYAD 566
Y D
Sbjct: 579 LKDYID 584
>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 = 203 bits (516), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 93/249 (37%), Positives = 162/249 (65%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 195 DLDRLVVLGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 254
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++
Sbjct: 255 GYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEV 314
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A + +T E++ ++ + + P+S+ PV + D ++ D P S L+R+H
Sbjct: 315 AIHLDLTPERVSEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 374
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 557
+ +L+ L +ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+
Sbjct: 375 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 434
Query: 558 GKASYGYAD 566
GY D
Sbjct: 435 ADQLRGYLD 443
>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 = 203 bits (516), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 106/287 (36%), Positives = 175/287 (60%), Gaps = 1/287 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL EE EL Q++ ++ +E K R PT E A A G + L+ +L +
Sbjct: 169 LLQPTEEIELARQVRIIVEIEDYSEKASETLKRRPTHAELATAFGYTEGQLRQKLRQARA 228
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ ++I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYWW
Sbjct: 229 AKRRMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPDKGYKFSTYAYWW 288
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I + I +RTIRLP +I L+K+ +A+R +E +P + ++A + +T E+L
Sbjct: 289 IRQGITRTIANDARTIRLPIHIVEKLNKLKKAQRELRKELQRTPTEVEVAAALEMTPEQL 348
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLNP 507
L + R LS+ V +DT E+ D P+ + + +MRQ + ++LT +L
Sbjct: 349 RTLQQVQRKSLSLNHRVGKGEDTELMELLEDGNSLSPESQISESMMRQEISDVLTEVLTE 408
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ I+ LR+G+ G+ +L EVG IF LS+ERVRQ++++A+ +L++
Sbjct: 409 REKEIIALRYGLTTGETHTLEEVGGIFQLSRERVRQIQTKAMRKLRR 455
>gi|418719109|ref|ZP_13278309.1| RNA polymerase sigma factor RpoD [Leptospira borgpetersenii str. UI
09149]
gi|418738638|ref|ZP_13295031.1| RNA polymerase sigma factor RpoD [Leptospira borgpetersenii serovar
Castellonis str. 200801910]
gi|421094152|ref|ZP_15554872.1| RNA polymerase sigma factor RpoD [Leptospira borgpetersenii str.
200801926]
gi|410362878|gb|EKP13911.1| RNA polymerase sigma factor RpoD [Leptospira borgpetersenii str.
200801926]
gi|410744262|gb|EKQ93003.1| RNA polymerase sigma factor RpoD [Leptospira borgpetersenii str. UI
09149]
gi|410745336|gb|EKQ98246.1| RNA polymerase sigma factor RpoD [Leptospira borgpetersenii serovar
Castellonis str. 200801910]
gi|456887892|gb|EMF98905.1| RNA polymerase sigma factor RpoD [Leptospira borgpetersenii str.
200701203]
Length = 585
Score = 203 bits (516), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 101/286 (35%), Positives = 183/286 (63%), Gaps = 8/286 (2%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLI-EWAKAIGLSCRDLKSELHSGNSSREKLINANLRL 340
I+D+ E++ +++ + G I +W + I R++ + ++++L+ ANLRL
Sbjct: 306 IKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREI-------SQAKKELVKANLRL 358
Query: 341 VVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 400
VV +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +F++YA WW+RQ I +AI
Sbjct: 359 VVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQ 418
Query: 401 SRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLS 460
+RTIR+P ++ ++KV+ RL+IQE P+ E++A R+G V+K++ + + R P+S
Sbjct: 419 ARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVKMVKNVAREPIS 478
Query: 461 MQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIE 520
++ PV +++D+ + DT VE P + ++ + +R +L L +E+ ++R+RFG++
Sbjct: 479 LEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAREQKVIRMRFGLD 538
Query: 521 DGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
DG P++L EVG F +++ER+RQ+E++AL RL+ K Y D
Sbjct: 539 DGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDYID 584
>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 = 203 bits (516), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 93/249 (37%), Positives = 165/249 (66%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G ++ KLI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 88 DLDRLVVLGRIAKRKLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 147
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++
Sbjct: 148 GYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVIRVQRRMLQERGYEPTAEEV 207
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A ++ + E++ ++ + + P+S+ PV ++D ++ D P S L+R+H
Sbjct: 208 AAQLDLAPERVGEVLRLAQEPVSLHAPVGEEEDVALGDLIEDGDAASPVESAAFLLLRRH 267
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 557
+ ++L+ L +ER +V+LR+G++DG+P++L E+G IFG+++ER+RQ+ES+ L +L+
Sbjct: 268 LEDVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRIFGVTRERIRQIESKTLGKLRDHAY 327
Query: 558 GKASYGYAD 566
GY D
Sbjct: 328 ADQLRGYLD 336
>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 = 203 bits (516), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 111/307 (36%), Positives = 178/307 (57%), Gaps = 40/307 (13%)
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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 211 IKGVEKFDYTKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 270
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P +LA + +T EK+ ++ I R P S++ P+ + D+ + AD V P+
Sbjct: 271 ELGYEPSVTELANALDMTEEKVMEIMQIAREPASLETPIGEEDDSNLGDFVADANVLTPE 330
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 331 GNVESVMLREHIDTLLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEA 390
Query: 547 RALYRLK 553
+AL +L+
Sbjct: 391 KALRKLR 397
>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 = 203 bits (516), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 106/288 (36%), Positives = 190/288 (65%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 136 CAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRATEKFDPNKGYKFSTYAYW 195
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R+ Q +P++++LA+ + ++ +
Sbjct: 196 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRVLKQNLQRNPNEDELAQELEVSRNQ 255
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + ++RQ + +L+ +L
Sbjct: 256 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDNDLQLPEEKMSEAMLRQEISEVLSDVLT 315
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++S+A+ +L++
Sbjct: 316 EREKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQSKAMRKLRR 363
>gi|420236839|ref|ZP_14741316.1| RNA polymerase sigma factor [Parascardovia denticolens IPLA 20019]
gi|391879942|gb|EIT88442.1| RNA polymerase sigma factor [Parascardovia denticolens IPLA 20019]
Length = 624
Score = 203 bits (516), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 87/237 (36%), Positives = 162/237 (68%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R LK + G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 373 RGLKWAANDGRKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 432
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 433 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 492
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 493 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSEAVAFSLLQE 552
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +L L+P+E ++++R+G+EDG+PK+L ++G+++G+++ER+RQ+ES+ + +L+
Sbjct: 553 QFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGHVYGVTRERIRQIESKTMSKLR 609
>gi|417001145|ref|ZP_11941059.1| RNA polymerase sigma factor RpoD [Veillonella parvula
ACS-068-V-Sch12]
gi|333975628|gb|EGL76507.1| RNA polymerase sigma factor RpoD [Veillonella parvula
ACS-068-V-Sch12]
Length = 386
Score = 203 bits (516), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 108/320 (33%), Positives = 190/320 (59%), Gaps = 28/320 (8%)
Query: 234 ETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKS 293
E + +K S+ + G + +DP+R++L LL+ADEE L QI+ S
Sbjct: 83 EVSSEKKISIDLSVDSGVNIDDPVRMYLKEIGRVPLLSADEEIVLAKQIE-------AGS 135
Query: 294 KLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGI 353
+ + + K I LS + +++KL++ANLRLVV +AK+Y GRG+
Sbjct: 136 QEDATY----------KDIQLSKK-----------AKKKLVDANLRLVVSIAKRYVGRGM 174
Query: 354 SLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTL 413
DL+QEG++GL+K+V+KF G +F++YA WW+RQ I +AI +RTIR+P ++
Sbjct: 175 LFLDLIQEGNLGLIKAVDKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 234
Query: 414 LSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
++K++ R +Q+ P E++A +GITVE++ + I + P+S++ P+ ++D+
Sbjct: 235 INKLIRISRQLLQDKGREPLPEEIAEGMGITVERVREIQKIAQEPVSLETPIGEEEDSHL 294
Query: 474 QEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 533
+ D PD + L+++ + ++ T L +E+ ++ LRFG++DGKP++L EVG
Sbjct: 295 GDFIEDQDAIAPDDAASYILLQEQIEDVFTCLTDREQQVLILRFGLKDGKPRTLEEVGQH 354
Query: 534 FGLSKERVRQLESRALYRLK 553
F +++ER+RQ+E +AL +L+
Sbjct: 355 FNVTRERIRQIEGKALTKLR 374
>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 = 203 bits (516), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 110/317 (34%), Positives = 189/317 (59%), Gaps = 15/317 (4%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G ND +R++L LLTA+EE EL I+ + E L E
Sbjct: 66 GAPTNDLVRIYLREIGKVPLLTAEEEVELAKAIE-------------AGLFAEDKLCE-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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R Q+
Sbjct: 172 VEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLHQDLG 231
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++A+ + + VE++ + I + P+S+Q P+ ++D+ + D +P +
Sbjct: 232 REPTPEEIAKEMDLPVERVVEIQRIAQEPVSLQSPI-GEEDSDLGDFIEDADAVVPLEAA 290
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
L++ H+ ++L+ L+ +E+ I++LRFG+ DG P++L EVG FG+++ER+RQ+ES+ L
Sbjct: 291 AFILLQDHLDDILSTLSEREQRIIQLRFGLADGHPRTLEEVGREFGVTRERIRQIESKTL 350
Query: 550 YRLKQSLGGKASYGYAD 566
+L+ + Y D
Sbjct: 351 AKLRHPTRAQVLRDYLD 367
>gi|421097573|ref|ZP_15558258.1| RNA polymerase sigma factor RpoD [Leptospira borgpetersenii str.
200901122]
gi|410799400|gb|EKS01475.1| RNA polymerase sigma factor RpoD [Leptospira borgpetersenii str.
200901122]
Length = 585
Score = 203 bits (516), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 96/260 (36%), Positives = 170/260 (65%), Gaps = 7/260 (2%)
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+W + I R++ + ++++L+ ANLRLVV +AK+Y RG+ DL+QEG++GL
Sbjct: 332 DWGEKIIKGEREI-------SQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGL 384
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K+V+KF+ + G +F++YA WW+RQ I +AI +RTIR+P ++ ++KV+ RL+IQ
Sbjct: 385 IKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQ 444
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E P+ E++A R+G V+K++ + + R P+S++ PV +++D+ + DT VE P
Sbjct: 445 EFGRDPNNEEIAERLGWPVQKVKMVKNVAREPISLEIPVGSEEDSELGDFIPDTEVETPV 504
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+ ++ + +R +L L +E+ ++R+RFG++DG P++L EVG F +++ER+RQ+E+
Sbjct: 505 NAAASSILAEQIRQVLHTLPAREQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEA 564
Query: 547 RALYRLKQSLGGKASYGYAD 566
+AL RL+ K Y D
Sbjct: 565 KALRRLRHPSRSKKLKDYID 584
>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 = 203 bits (516), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 107/287 (37%), Positives = 186/287 (64%), Gaps = 1/287 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
S+ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYWW
Sbjct: 136 SKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPAKGYKFSTYAYWW 195
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I + I +RTIRLP +I L+K+ + +R Q+ +PD+ +LA + I+ L
Sbjct: 196 IRQAITRTIANDARTIRLPIHIVEKLNKLKKVQRELKQKLQRTPDETELAEALDISRTNL 255
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLNP 507
+L+ + R LS+ V +DT ++ D + +P+ + + +MRQ + ++L+ +L
Sbjct: 256 RQLLQLRRRSLSLNHRVGKGEDTELVDLLEDNDLHLPEQQMSESMMRQEISDVLSDVLTE 315
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ + +L EVG++F LS+ERVRQ++S+A+ +L++
Sbjct: 316 REKDVISLRYGLATPESYTLEEVGSMFNLSRERVRQIQSKAMRKLRR 362
>gi|156740279|ref|YP_001430408.1| RpoD family RNA polymerase sigma factor [Roseiflexus castenholzii
DSM 13941]
gi|156231607|gb|ABU56390.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus
castenholzii DSM 13941]
Length = 541
Score = 203 bits (516), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 98/248 (39%), Positives = 160/248 (64%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
RD + G ++RE L ANLRLVV VAK+Y GRG+ L DL+QEG++GL+++VEKF +
Sbjct: 292 RDWNLAIEQGKTAREDLTQANLRLVVSVAKKYIGRGLQLLDLIQEGNVGLIRAVEKFDYR 351
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +AI +RTIR+P ++ +++++ R +QE P E+
Sbjct: 352 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRLMRESRRMLQELGREPTDEE 411
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
L+R +GI V+K+ + + P+S++ PV ++D+ + D+ V P + Q++R+
Sbjct: 412 LSRALGIPVDKVRSIRKTSLEPVSLETPVGQEEDSQLGDFIEDSKVLAPSDAASHQMLRE 471
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSL 556
V +L L +ER +++LRFG+EDG ++L EVG FG+++ER+RQ+E +AL +L+
Sbjct: 472 QVEQVLNQLTERERRVLQLRFGLEDGHSRTLEEVGKEFGVTRERIRQIEVKALRKLRHPR 531
Query: 557 GGKASYGY 564
GK Y
Sbjct: 532 LGKKLRDY 539
>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 = 203 bits (516), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 111/307 (36%), Positives = 178/307 (57%), Gaps = 40/307 (13%)
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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 211 IKGVEKFDYTKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 270
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P +LA + +T EK+ ++ I R P S++ P+ + D+ + AD V P+
Sbjct: 271 ELGYEPSVTELANALDMTEEKVMEIMQIAREPASLETPIGEEDDSNLGDFVADANVLTPE 330
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 331 GNVESVMLREHIDTLLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEA 390
Query: 547 RALYRLK 553
+AL +L+
Sbjct: 391 KALRKLR 397
>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 = 203 bits (516), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 111/308 (36%), Positives = 179/308 (58%), Gaps = 40/308 (12%)
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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 211 IKGVEKFDYTKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 270
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P +LA + +T EK+ ++ I R P S++ P+ + D+ + AD+ V P+
Sbjct: 271 ELGYEPSVTELANALDMTEEKVMEIMQIAREPASLETPIGEEDDSNLGDFVADSNVLTPE 330
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 331 GNVESVMLREHIDTLLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFKVTRERIRQIEA 390
Query: 547 RALYRLKQ 554
+AL +L+
Sbjct: 391 KALRKLRN 398
>gi|443627733|ref|ZP_21112109.1| putative RNA polymerase sigma factor [Streptomyces
viridochromogenes Tue57]
gi|443338746|gb|ELS53012.1| putative RNA polymerase sigma factor [Streptomyces
viridochromogenes Tue57]
Length = 430
Score = 203 bits (516), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 105/298 (35%), Positives = 181/298 (60%), Gaps = 13/298 (4%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTA EE EL +++ + E+ + G P L + L DL + G
Sbjct: 146 LLTAAEEVELARRVEAGLFAEE-------KLGNTPDL---DSELAL---DLDRLVVMGRM 192
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA WW
Sbjct: 193 AKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWW 252
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++A + + E++
Sbjct: 253 IRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAHLDLPPERV 312
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
++ + + P+S+ PV + D ++ D P S L+R+H+ +L+ L +
Sbjct: 313 SEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGER 372
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+ GY D
Sbjct: 373 ERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 430
>gi|442804827|ref|YP_007372976.1| RNA polymerase sigma factor RpoD [Clostridium stercorarium subsp.
stercorarium DSM 8532]
gi|442740677|gb|AGC68366.1| RNA polymerase sigma factor RpoD [Clostridium stercorarium subsp.
stercorarium DSM 8532]
Length = 443
Score = 203 bits (516), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 107/320 (33%), Positives = 183/320 (57%), Gaps = 40/320 (12%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG +DP+R++L LLTA+EE EL +++ G E
Sbjct: 164 LPEGVAIDDPVRMYLKEIGKIPLLTAEEEIELAKRME---------------AGEE---- 204
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+++L ANLRLVV +AK+Y GRG+ DL+QEG++GL
Sbjct: 205 ---------------------EPKKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGL 243
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +Q
Sbjct: 244 IKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQ 303
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E P E++A+ +G++VEK+ ++ I++ P+S++ P+ ++D+ + D PD
Sbjct: 304 ELGREPTPEEIAQEMGMSVEKVREIMKISQEPVSLETPIGEEEDSHLGDFIPDDDAPAPD 363
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
S L+++ + ++L L P+E ++RLRFG++DG+ ++L EVG F +++ER+RQ+E+
Sbjct: 364 ESAAFTLLKEQLMDVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEA 423
Query: 547 RALYRLKQSLGGKASYGYAD 566
+AL +L+ K Y D
Sbjct: 424 KALRKLRHPSRSKKLKDYLD 443
>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 = 203 bits (516), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 111/301 (36%), Positives = 182/301 (60%), Gaps = 1/301 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G RF++YAYWW+RQ I +AI + RTIRLP +I L+K+ +A+R Q +P
Sbjct: 128 DPTKGYRFSTYAYWWIRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQNLGRAPS 187
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + +T +++ + R+PLS+ V +QDT E+ DT + P+ V +
Sbjct: 188 IVELATALELTPKQVREYLERARLPLSLDLRVGDNQDTELGELLEDTSLS-PEEFVTESC 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + L+ L P++R ++ LRFG+ DG+ +L+++G+ +S+ERVRQ+E AL +L+
Sbjct: 247 LSTDIEKLMADLTPQQREVLSLRFGLADGQAMTLAKIGDRLNISRERVRQIEREALTKLR 306
Query: 554 Q 554
+
Sbjct: 307 K 307
>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 = 203 bits (516), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 114/303 (37%), Positives = 185/303 (61%), Gaps = 17/303 (5%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR-LYIQEGNHSP 432
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR L+ Q G +
Sbjct: 130 DYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREAT 189
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
D E LA GI VEK+ L+ +R P+S+ PV D++ + D+ + +V
Sbjct: 190 DDE-LANESGIPVEKIADLLDHSRDPVSLDMPVGNDEEAPLGDFIEDSEATSAESAVIAG 248
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
L+ VR++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L
Sbjct: 249 LLHHDVRSVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMSKL 308
Query: 553 KQS 555
++
Sbjct: 309 RKG 311
>gi|329934715|ref|ZP_08284756.1| RNA polymerase principal sigma factor HrdA [Streptomyces
griseoaurantiacus M045]
gi|329305537|gb|EGG49393.1| RNA polymerase principal sigma factor HrdA [Streptomyces
griseoaurantiacus M045]
Length = 363
Score = 203 bits (516), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 105/300 (35%), Positives = 185/300 (61%), Gaps = 20/300 (6%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTA EE EL +++ + E+ + G P L DL + + G
Sbjct: 79 LLTAAEEVELARRVEAGLFAEE-------KLGSTPDLDSRL------ALDLDTLVVRGRM 125
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA WW
Sbjct: 126 AKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWW 185
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++A ++ ++ E++
Sbjct: 186 IRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPSAEEVAAQLDLSPERV 245
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
++ + + P+S+ PV ++D ++ D P S L+R+H+ +L+ L +
Sbjct: 246 GEVLRLAQEPVSLHAPVGEEEDVALGDLIEDGDATSPVESAAFLLLREHLDAVLSTLGER 305
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYADLL 568
ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+ + YAD L
Sbjct: 306 ERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLR-------DHAYADQL 358
>gi|421733382|ref|ZP_16172488.1| RNA polymerase sigma factor [Bifidobacterium bifidum LMG 13195]
gi|407078624|gb|EKE51424.1| RNA polymerase sigma factor [Bifidobacterium bifidum LMG 13195]
Length = 506
Score = 202 bits (515), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 87/237 (36%), Positives = 162/237 (68%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK + G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 256 RELKWAANDGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 315
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 316 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 375
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 376 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQE 435
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 436 QFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLR 492
>gi|311064624|ref|YP_003971349.1| RNA polymerase principal sigma factor HrdB [Bifidobacterium bifidum
PRL2010]
gi|421736043|ref|ZP_16174897.1| RNA polymerase sigma factor [Bifidobacterium bifidum IPLA 20015]
gi|310866943|gb|ADP36312.1| RNA polymerase principal sigma factor HrdB [Bifidobacterium bifidum
PRL2010]
gi|407296670|gb|EKF16198.1| RNA polymerase sigma factor [Bifidobacterium bifidum IPLA 20015]
Length = 506
Score = 202 bits (515), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 87/237 (36%), Positives = 162/237 (68%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK + G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 256 RELKWAANDGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 315
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 316 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 375
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 376 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQE 435
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 436 QFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLR 492
>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 = 202 bits (515), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 110/285 (38%), Positives = 170/285 (59%), Gaps = 23/285 (8%)
Query: 292 KSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN----------------------SS 329
+ +L S+ G P+L WA G+ DLK L G +
Sbjct: 134 QERLVSELGHRPSLERWASTAGIKLVDLKPTLSEGKRRWAEIAKLTVEELDQIQSQGIQA 193
Query: 330 REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWV 389
+E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++YAYWW+
Sbjct: 194 KEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWI 253
Query: 390 RQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLE 449
RQ I +AI SRTIRLP +I L+K+ +A+R QE +P EDLA + +T ++
Sbjct: 254 RQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLALELDMTPNQVR 313
Query: 450 RLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKE 509
++ +S++ V D+DT E+ +T P+ ++ ++ +++ + +LL+ L +E
Sbjct: 314 EVLLRVPRSVSLETKVGKDKDTELGELL-ETDTITPEETLMRESLQKDIHHLLSDLTTRE 372
Query: 510 RCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R ++ +RFG+ DG SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 373 REVILMRFGLADGHSYSLAEIGRALELSRERVRQIESKALQKLRQ 417
>gi|148654464|ref|YP_001274669.1| RpoD family RNA polymerase sigma factor [Roseiflexus sp. RS-1]
gi|148566574|gb|ABQ88719.1| RNA polymerase, sigma 70 subunit, RpoD family [Roseiflexus sp.
RS-1]
Length = 541
Score = 202 bits (515), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 98/248 (39%), Positives = 160/248 (64%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
RD + G ++RE L ANLRLVV VAK+Y GRG+ L DL+QEG++GL+++VEKF +
Sbjct: 292 RDWNLAIDQGKTAREDLTQANLRLVVSVAKKYIGRGLQLLDLIQEGNVGLIRAVEKFDYR 351
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +AI +RTIR+P ++ +++++ R +QE P E+
Sbjct: 352 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRLMRESRRMLQELGREPTDEE 411
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
L+R +GI V+K+ + + P+S++ PV ++D+ + D+ V P + Q++R+
Sbjct: 412 LSRALGIPVDKVRSIRKTSLEPVSLETPVGQEEDSQLGDFIEDSKVLAPSDAASHQMLRE 471
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSL 556
V +L L +ER +++LRFG+EDG ++L EVG FG+++ER+RQ+E +AL +L+
Sbjct: 472 QVEQVLNQLTERERRVLQLRFGLEDGHSRTLEEVGKEFGVTRERIRQIEVKALRKLRHPR 531
Query: 557 GGKASYGY 564
GK Y
Sbjct: 532 LGKKLRDY 539
>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 = 202 bits (515), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 100/300 (33%), Positives = 186/300 (62%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+R++L LLTA+EE +L +++ ++ +++ L+ + E +
Sbjct: 302 DDPVRMYLKEIGKVHLLTAEEEVDLAQKMEKGLKADEQIEILREEIRSGDLSEEDMMNLE 361
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ LK++ G +++KL ANLRLVV +AK+Y GRG+ DL+QEG++GL+K+VEKF
Sbjct: 362 AQIKILKNDSAVGERAKQKLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKF 421
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +QE P
Sbjct: 422 DYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPS 481
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++AR + T +++ ++ I++ P+S++ P+ ++D+ + D +P + L
Sbjct: 482 PEEIAREMETTPDRVREILKISQEPVSLETPIGEEEDSHLGDFIQDENAPVPAEAATFTL 541
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + +L L +ER ++ LRFG+EDG+ ++L EVG F +++ER+RQ+E++AL +L+
Sbjct: 542 LKEQLNEVLDTLTERERKVLILRFGLEDGRGRTLEEVGKEFNVTRERIRQIEAKALRKLR 601
>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 = 202 bits (515), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 104/301 (34%), Positives = 185/301 (61%), Gaps = 10/301 (3%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
+ G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R QE P
Sbjct: 205 DYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRQLTQELGRDPL 264
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++A+++ IT +K+ ++ I++ P+S++ PV + D+ + D+ P +L
Sbjct: 265 PEEIAKKMDITPDKVREILKISQDPISLESPVGEEDDSNLGDFIPDSETISPAEFASNEL 324
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++Q + +L L +E ++RLRFG+ DG+ ++L EVG FG+++ER+RQ+E++AL +L+
Sbjct: 325 LKQELNEVLETLTDREERVLRLRFGLNDGRTRTLEEVGKEFGVTRERIRQIEAKALRKLR 384
Query: 554 Q 554
Sbjct: 385 H 385
>gi|212715646|ref|ZP_03323774.1| hypothetical protein BIFCAT_00546 [Bifidobacterium catenulatum DSM
16992 = JCM 1194]
gi|212661013|gb|EEB21588.1| hypothetical protein BIFCAT_00546 [Bifidobacterium catenulatum DSM
16992 = JCM 1194]
Length = 448
Score = 202 bits (515), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 88/237 (37%), Positives = 162/237 (68%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK + G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 198 RELKWAANDGRRAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 257
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 258 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 317
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 318 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQE 377
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 378 QFRQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLR 434
>gi|310287737|ref|YP_003938995.1| RNA polymerase sigma factor [Bifidobacterium bifidum S17]
gi|309251673|gb|ADO53421.1| RNA polymerase sigma factor [Bifidobacterium bifidum S17]
Length = 506
Score = 202 bits (515), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 87/237 (36%), Positives = 162/237 (68%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK + G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 256 RELKWAANDGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 315
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 316 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 375
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 376 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQE 435
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 436 QFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLR 492
>gi|313140538|ref|ZP_07802731.1| RNA polymerase principal sigma factor [Bifidobacterium bifidum
NCIMB 41171]
gi|313133048|gb|EFR50665.1| RNA polymerase principal sigma factor [Bifidobacterium bifidum
NCIMB 41171]
Length = 500
Score = 202 bits (515), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 87/237 (36%), Positives = 162/237 (68%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK + G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 250 RELKWAANDGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 309
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 310 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 369
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 370 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQE 429
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 430 QFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLR 486
>gi|384191381|ref|YP_005577129.1| HrdB [Bifidobacterium animalis subsp. lactis BB-12]
gi|384192526|ref|YP_005578273.1| HrdB [Bifidobacterium animalis subsp. lactis CNCM I-2494]
gi|289178873|gb|ADC86119.1| HrdB [Bifidobacterium animalis subsp. lactis BB-12]
gi|340365263|gb|AEK30554.1| HrdB [Bifidobacterium animalis subsp. lactis CNCM I-2494]
Length = 522
Score = 202 bits (515), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 102/304 (33%), Positives = 187/304 (61%), Gaps = 20/304 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIR----LEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E +L +I+ + L+ E ++ + RE ++WA
Sbjct: 222 DPVKDYLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTEGDTMEFRRKRE---LKWAA 278
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
A G +D L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 279 ADGKKAKD-------------HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 325
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 326 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 385
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 386 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSEAVA 445
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ R +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ +
Sbjct: 446 FSLLQEQFRQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 505
Query: 551 RLKQ 554
+L+
Sbjct: 506 KLRH 509
>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 = 202 bits (515), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 110/297 (37%), Positives = 187/297 (62%), Gaps = 1/297 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L + ++ LQ Q G PT + A + ++ + L++ L+ G
Sbjct: 80 LLKPDEEVELARRVRFLEEVRDLQADLQLQLGLHPTKAQVAAQLEITEKQLENRLYQGRV 139
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F++YAYWW
Sbjct: 140 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 199
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIRLP +I L+K+ +A+R Q+ + +P + ++A + I+V +L
Sbjct: 200 IRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKFSRNPSEAEMAEALEISVPQL 259
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNP 507
+L + R LS+ V ++DT ++ D P+ + + +MRQ + +L +L P
Sbjct: 260 RQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNLSPEAKMNENMMRQEIWEVLGDVLTP 319
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ++S+A+ +L++ K G+
Sbjct: 320 REKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKGW 376
>gi|256396128|ref|YP_003117692.1| RpoD subfamily RNA polymerase sigma-70 subunit [Catenulispora
acidiphila DSM 44928]
gi|256362354|gb|ACU75851.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Catenulispora
acidiphila DSM 44928]
Length = 390
Score = 202 bits (515), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 93/253 (36%), Positives = 166/253 (65%), Gaps = 7/253 (2%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+L + G +++ +LI ANLRLVV +AK+Y GRG+S+ DL+QEG++GL+++VEKF
Sbjct: 141 RELAILVLEGQAAKRRLIEANLRLVVSIAKRYLGRGMSILDLVQEGNLGLIRAVEKFDYT 200
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE P +D
Sbjct: 201 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELMNRVVRLQRRLLQENGVEPTPDD 260
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
+A +G+ VE++ ++ + + P+S+ PV + D ++ D P SV ++R+
Sbjct: 261 IAEVLGVAVERVVEVLRLAQEPVSLHAPVGEEDDVALGDLIEDADAVSPADSVAVVMLRE 320
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSL 556
H+ LL+ L +E+ +V+LR+G+ DG+P +L E+G FG+++ER+RQ+E++ L +L+
Sbjct: 321 HLDALLSTLGEREKRVVQLRYGLTDGQPHTLEEIGRTFGVTRERIRQIEAKTLAKLR--- 377
Query: 557 GGKASYGYADLLI 569
+ YAD L+
Sbjct: 378 ----GHTYADQLL 386
>gi|269798255|ref|YP_003312155.1| RpoD subfamily RNA polymerase sigma-70 subunit [Veillonella parvula
DSM 2008]
gi|282850493|ref|ZP_06259872.1| RNA polymerase sigma factor RpoD [Veillonella parvula ATCC 17745]
gi|294792116|ref|ZP_06757264.1| RNA polymerase sigma factor RpoD [Veillonella sp. 6_1_27]
gi|294793987|ref|ZP_06759124.1| RNA polymerase sigma factor RpoD [Veillonella sp. 3_1_44]
gi|269094884|gb|ACZ24875.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Veillonella
parvula DSM 2008]
gi|282579986|gb|EFB85390.1| RNA polymerase sigma factor RpoD [Veillonella parvula ATCC 17745]
gi|294455557|gb|EFG23929.1| RNA polymerase sigma factor RpoD [Veillonella sp. 3_1_44]
gi|294457346|gb|EFG25708.1| RNA polymerase sigma factor RpoD [Veillonella sp. 6_1_27]
Length = 386
Score = 202 bits (515), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 104/320 (32%), Positives = 184/320 (57%), Gaps = 28/320 (8%)
Query: 234 ETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKS 293
E + +K S+ + G + +DP+R++L LL+ADEE L QI+
Sbjct: 83 EVSSEKKISIDLSVDSGVNIDDPVRMYLKEIGRVPLLSADEEIVLAKQIE---------- 132
Query: 294 KLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGI 353
G ++ +++KL++ANLRLVV +AK+Y GRG+
Sbjct: 133 ------------------AGAQEDATYKDIQLSKKAKKKLVDANLRLVVSIAKRYVGRGM 174
Query: 354 SLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTL 413
DL+QEG++GL+K+V+KF G +F++YA WW+RQ I +AI +RTIR+P ++
Sbjct: 175 LFLDLIQEGNLGLIKAVDKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVET 234
Query: 414 LSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
++K++ R +Q+ P E++A +GITVE++ + I + P+S++ P+ ++D+
Sbjct: 235 INKLIRISRQLLQDKGREPLPEEIAEGMGITVERVREIQKIAQEPVSLETPIGEEEDSHL 294
Query: 474 QEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 533
+ D PD + L+++ + ++ T L +E+ ++ LRFG++DGKP++L EVG
Sbjct: 295 GDFIEDQDAIAPDDAASYILLQEQIEDVFTCLTDREQQVLILRFGLKDGKPRTLEEVGQH 354
Query: 534 FGLSKERVRQLESRALYRLK 553
F +++ER+RQ+E +AL +L+
Sbjct: 355 FNVTRERIRQIEGKALTKLR 374
>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 = 202 bits (515), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 113/296 (38%), Positives = 176/296 (59%), Gaps = 1/296 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G +F++YAYWW+RQ I +AI Q R+IRLP +I L+K+ + +R Q+ S
Sbjct: 136 DPSRGYKFSTYAYWWIRQAITRAIAQQGRSIRLPIHITEKLNKIKKTQRELSQQLGRSAT 195
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
++A + + ++ + ++R P+S+ V QDT E+ D G+ +VQ Q
Sbjct: 196 SAEIAVALELEPAQIRDYLTLSRQPISLDAKVGDRQDTELSELLEDGGISPEKYTVQ-QS 254
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+RQ +++ L L ++R ++ LRFG+E G SL++VG I LS+ERVRQLE +AL
Sbjct: 255 LRQELQSTLDELTRQQREVINLRFGLEGGTELSLAKVGEILNLSRERVRQLEHQAL 310
>gi|383647771|ref|ZP_09958177.1| RNA polymerase sigma factor [Streptomyces chartreusis NRRL 12338]
Length = 430
Score = 202 bits (515), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 103/298 (34%), Positives = 180/298 (60%), Gaps = 13/298 (4%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTA EE EL +++ + +EK +L + L DL + G
Sbjct: 146 LLTAAEEVELARRVEAGL-FAEEKLRLAPDLDSQLAL------------DLDRLVVMGRM 192
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA WW
Sbjct: 193 AKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWW 252
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++A + + E++
Sbjct: 253 IRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAHLDLPPERV 312
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
++ + + P+S+ PV + D ++ D P S L+++H+ +L+ L +
Sbjct: 313 SEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDATSPVESAAFLLLKEHLEAVLSTLGER 372
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+ GY D
Sbjct: 373 ERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 430
>gi|23295779|gb|AAN12882.1| principal sigma factor RpoD [Bifidobacterium animalis subsp.
lactis]
Length = 508
Score = 202 bits (514), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 102/304 (33%), Positives = 187/304 (61%), Gaps = 20/304 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIR----LEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E +L +I+ + L+ E ++ + RE ++WA
Sbjct: 208 DPVKDYLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTEGDTMEFRRKRE---LKWAA 264
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
A G +D L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 265 ADGKKAKD-------------HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 311
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 312 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 371
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 372 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSEAVA 431
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ R +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ +
Sbjct: 432 FSLLQEQFRQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 491
Query: 551 RLKQ 554
+L+
Sbjct: 492 KLRH 495
>gi|456983033|gb|EMG19441.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Copenhageni str. LT2050]
Length = 477
Score = 202 bits (514), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 93/238 (39%), Positives = 162/238 (68%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++++L+ ANLRLVV +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +F++YA WW
Sbjct: 239 AKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWW 298
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIR+P ++ ++KV+ RL+IQE P+ E++A R+G V+K+
Sbjct: 299 IRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKV 358
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ + + R P+S++ PV +++D+ + DT VE P + ++ + +R +L L +
Sbjct: 359 KMVKNVAREPISLEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAR 418
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
E+ ++R+RFG++DG P++L EVG F +++ER+RQ+E++AL RL+ K Y D
Sbjct: 419 EQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDYID 476
>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 = 202 bits (514), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 103/299 (34%), Positives = 183/299 (61%), Gaps = 13/299 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ + +A+ RTIR+P ++ ++KV +R +QE P
Sbjct: 208 DYTKGYKFSTYATWWIRQAVTRALADQGRTIRIPVHMAETVNKVTRIQRQLLQELGREPS 267
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++ ++ +T K+E ++ I + P++++ P+ A+QD+ + D P + L
Sbjct: 268 PEEIGTQIDLTAHKVEEILKIAQTPVALETPIGAEQDSQLGDFIEDDDAIAPFEAASSVL 327
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
+++H+ ++L L +E+ +++LRFG+ DG+P++L ++G FG+ +ER+RQ+ESR L +L
Sbjct: 328 LQKHIESVLHTLPAREKKVIQLRFGLTDGQPRTLEQIGREFGIPQERIRQIESRTLAKL 386
>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 = 202 bits (514), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 111/297 (37%), Positives = 187/297 (62%), Gaps = 1/297 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L ++ ++ L+ QFG T E A L+ + L++ L+ G
Sbjct: 98 LLKPDEEVELAHRVRFLEEVKDLQAALEEQFGHSATKGEIANKFDLNEKQLENRLYQGRV 157
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F++YAYWW
Sbjct: 158 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 217
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIRLP +I L+K+ +A+R Q+ +P + ++A + +TV++L
Sbjct: 218 IRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKFARNPTEAEMAEFLEMTVQQL 277
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNP 507
+L + R LS+ V ++DT ++ D + P+ + + +MRQ + +L +L
Sbjct: 278 RQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNQSPEAKMNENMMRQEIWEVLGDVLTS 337
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
+E+ ++ LR+G+ +P +L EVGNIF LS+ERVRQ++S+A+ +L++ K G+
Sbjct: 338 REKDVISLRYGLTTSEPCTLEEVGNIFNLSRERVRQIQSKAMRKLRRPHIAKRLKGW 394
>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 = 202 bits (514), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 105/297 (35%), Positives = 181/297 (60%), Gaps = 1/297 (0%)
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 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G + ++YAYWW+ Q I +AI + SRT+RLP ++ L+++ +A+R Q N +
Sbjct: 122 RGYKLSTYAYWWISQAITRAIAEKSRTVRLPVHVNEKLNQIKKAQRELFQTLNRRATVTE 181
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
+A+++ + ++ + + +S+ V +QDT E+ D G+ P+ + ++L+RQ
Sbjct: 182 IAQKLNLEPSQIREYLSVASGTISLDLKVGDNQDTELSELLPDEGIS-PNEQITQELLRQ 240
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +LL L P +R ++ LRFG+ D + +SL+++G +S+ERVRQ++ +A+ L+
Sbjct: 241 DLSDLLASLKPVQREVLILRFGLLDNQERSLAQIGEKLNVSRERVRQIQQQAMTALR 297
>gi|294629207|ref|ZP_06707767.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. e14]
gi|292832540|gb|EFF90889.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. e14]
Length = 386
Score = 202 bits (514), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 103/298 (34%), Positives = 180/298 (60%), Gaps = 13/298 (4%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTA EE EL +++ + E++ S R DL + SG
Sbjct: 102 LLTAAEEVELARRVEAGLFAEEKLSSTPDLDSR-------------LAGDLDRLVVSGRM 148
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA WW
Sbjct: 149 AKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWW 208
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P ++A ++ +T +++
Sbjct: 209 IRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPAEVAAQLDLTPDRV 268
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
++ + + P+S+ PV + D ++ D P S L+R+H+ +L+ L +
Sbjct: 269 GEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGER 328
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+ GY D
Sbjct: 329 ERKVVQLRYGLMDGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 386
>gi|225388546|ref|ZP_03758270.1| hypothetical protein CLOSTASPAR_02282 [Clostridium asparagiforme
DSM 15981]
gi|225045391|gb|EEG55637.1| hypothetical protein CLOSTASPAR_02282 [Clostridium asparagiforme
DSM 15981]
Length = 381
Score = 202 bits (514), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 109/313 (34%), Positives = 179/313 (57%), Gaps = 40/313 (12%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LLTADEE +L +
Sbjct: 103 LLEGIGTEDPVRMYLKEIGTVPLLTADEELQLAQR------------------------- 137
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
KA G +++E+LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 138 ---KAEG------------DEAAKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 182
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 183 IKGVEKFDYTKGYKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 242
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P +LA + +T +K+ ++ I R P S++ P+ + D+ + AD V P+
Sbjct: 243 ELGYEPSVTELAEALDMTEDKVMEIMQIAREPASLETPIGEEDDSNLGDFVADNNVVTPE 302
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 303 GNVESVMLREHIDALLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEA 362
Query: 547 RALYRLKQSLGGK 559
+AL +L+ + K
Sbjct: 363 KALRKLRNPVRSK 375
>gi|415728225|ref|ZP_11471798.1| RNA polymerase sigma factor [Gardnerella vaginalis 6119V5]
gi|388065363|gb|EIK87854.1| RNA polymerase sigma factor [Gardnerella vaginalis 6119V5]
Length = 501
Score = 202 bits (514), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 101/304 (33%), Positives = 187/304 (61%), Gaps = 20/304 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIR----LEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E +L +I+ + L+ E ++ + RE ++WA
Sbjct: 201 DPVKDYLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTEIDNMEFKRKRE---LKWAA 257
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
A G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 258 A-------------DGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 304
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 305 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 364
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 365 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVA 424
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ R +L L P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ +
Sbjct: 425 FSLLQEQFRQVLETLAPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 484
Query: 551 RLKQ 554
+L+
Sbjct: 485 KLRH 488
>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 = 202 bits (514), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 96/283 (33%), Positives = 177/283 (62%), Gaps = 3/283 (1%)
Query: 273 DEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKA--IGLSCRDLKSELHSGNSSR 330
DE + + ++Q + LE + +L+ E L W A +G + ++L+ L ++
Sbjct: 390 DEARDRVLRMQKKVALEPDNKELKEHLA-ELELRMWMTADEMGDAYQELRKWLREARRAK 448
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVR 390
++++ ANLRLV+ +AK+Y RG+S DL+QEG+MGLMK+VEKF+ + G +F++YA WW+R
Sbjct: 449 DEMVEANLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYATWWIR 508
Query: 391 QTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLER 450
Q I ++I +RTIR+P ++ ++K++ ++ +QE P E++A + + VE++
Sbjct: 509 QAITRSIADQARTIRIPVHMIETINKLMRVQKQLVQEYGREPTPEEIAEEIHLPVERVRS 568
Query: 451 LIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKER 510
++ + + P+S+Q PV DT+F + D E P +++ ++++L L +ER
Sbjct: 569 VLKMAQQPISLQAPVGDSDDTSFGDFIEDKAAENPMEEASFSFLKEKIKDVLDTLTDRER 628
Query: 511 CIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++ RFG+ DG P++L EVG F +++ER+RQ+E++AL +L+
Sbjct: 629 EVIEQRFGLRDGSPRTLEEVGRQFSVTRERIRQIEAKALRKLR 671
>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 = 202 bits (514), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 104/318 (32%), Positives = 189/318 (59%), Gaps = 21/318 (6%)
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 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEG+MGL+++VEKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K
Sbjct: 253 DLIQEGNMGLIRAVEKFDYTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINK 312
Query: 417 VLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEI 476
+ +R +Q+ P E+LA + +T EK+ + R P+S+ P+ D D+ F ++
Sbjct: 313 LARVQRQMLQDLGREPTPEELALELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDL 372
Query: 477 TADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 536
D+ +P +V L+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+
Sbjct: 373 IEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGV 432
Query: 537 SKERVRQLESRALYRLKQ 554
++ER+RQ+ES+ + +L+
Sbjct: 433 TRERIRQIESKTMSKLRH 450
>gi|183601374|ref|ZP_02962744.1| RNA polymerase sigma factor RpoD [Bifidobacterium animalis subsp.
lactis HN019]
gi|219683429|ref|YP_002469812.1| RNA polymerase sigma factor [Bifidobacterium animalis subsp. lactis
AD011]
gi|241191127|ref|YP_002968521.1| RNA polymerase sigma factor [Bifidobacterium animalis subsp. lactis
Bl-04]
gi|241196533|ref|YP_002970088.1| RNA polymerase sigma factor [Bifidobacterium animalis subsp. lactis
DSM 10140]
gi|384194120|ref|YP_005579866.1| RNA polymerase sigma factor RpoD [Bifidobacterium animalis subsp.
lactis BLC1]
gi|384195685|ref|YP_005581430.1| DNA-directed RNA polymerase sigma subunit [Bifidobacterium animalis
subsp. lactis V9]
gi|387820993|ref|YP_006301036.1| RNA polymerase sigma factor RpoD [Bifidobacterium animalis subsp.
lactis B420]
gi|387822671|ref|YP_006302620.1| RNA polymerase sigma factor RpoD [Bifidobacterium animalis subsp.
lactis Bi-07]
gi|423679653|ref|ZP_17654529.1| RNA polymerase sigma factor [Bifidobacterium animalis subsp. lactis
BS 01]
gi|183218980|gb|EDT89621.1| RNA polymerase sigma factor RpoD [Bifidobacterium animalis subsp.
lactis HN019]
gi|219621079|gb|ACL29236.1| principal sigma factor RpoD [Bifidobacterium animalis subsp. lactis
AD011]
gi|240249519|gb|ACS46459.1| DNA-directed RNA polymerase sigma subunit [Bifidobacterium animalis
subsp. lactis Bl-04]
gi|240251087|gb|ACS48026.1| DNA-directed RNA polymerase sigma subunit [Bifidobacterium animalis
subsp. lactis DSM 10140]
gi|295794116|gb|ADG33651.1| DNA-directed RNA polymerase sigma subunit [Bifidobacterium animalis
subsp. lactis V9]
gi|345282979|gb|AEN76833.1| RNA polymerase sigma factor RpoD [Bifidobacterium animalis subsp.
lactis BLC1]
gi|366041297|gb|EHN17801.1| RNA polymerase sigma factor [Bifidobacterium animalis subsp. lactis
BS 01]
gi|386653694|gb|AFJ16824.1| RNA polymerase sigma factor RpoD [Bifidobacterium animalis subsp.
lactis B420]
gi|386655279|gb|AFJ18408.1| RNA polymerase sigma factor RpoD [Bifidobacterium animalis subsp.
lactis Bi-07]
Length = 488
Score = 202 bits (514), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 102/303 (33%), Positives = 187/303 (61%), Gaps = 20/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIR----LEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E +L +I+ + L+ E ++ + RE ++WA
Sbjct: 188 DPVKDYLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTEGDTMEFRRKRE---LKWAA 244
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
A G +D L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 245 ADGKKAKD-------------HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 291
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 292 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 351
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 352 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSEAVA 411
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ R +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ +
Sbjct: 412 FSLLQEQFRQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 471
Query: 551 RLK 553
+L+
Sbjct: 472 KLR 474
>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 = 202 bits (514), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 110/297 (37%), Positives = 184/297 (61%), Gaps = 1/297 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L + + ++ Q + G P AK +G+ + L+ L+ G
Sbjct: 80 LLKPDEEVELARRVRILEEVRQAQAAAQEKLGYFPDKAAIAKEMGIVQKQLEHRLYQGKV 139
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F++YAYWW
Sbjct: 140 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 199
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIRLP +I L+K+ +A+R Q+ +P +E+LA + I +L
Sbjct: 200 IRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLARNPTEEELAEVLDIPANQL 259
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNP 507
+L + R LS+ V ++DT ++ D + P+ + + +MRQ + +L +L P
Sbjct: 260 RQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNQSPEARMNESMMRQEIWEVLGDVLTP 319
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ++S+A+ +L++ K G+
Sbjct: 320 REKDVISLRYGLTSSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKGW 376
>gi|456969936|gb|EMG10820.1| RNA polymerase sigma factor RpoD [Leptospira interrogans serovar
Grippotyphosa str. LT2186]
Length = 336
Score = 202 bits (514), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 106/306 (34%), Positives = 188/306 (61%), Gaps = 17/306 (5%)
Query: 265 ETRKLLTADEEFELIAQIQD----LIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLK 320
E + + DE E+I I++ L R+E+E + +W + I R++
Sbjct: 43 EVKMGVNIDEVREVIKDIRNNERKLRRMEQEAGSTVQEIK------DWGEKIIKGEREI- 95
Query: 321 SELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCR 380
+ ++++L+ ANLRLVV +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +
Sbjct: 96 ------SQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYK 149
Query: 381 FASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARR 440
F++YA WW+RQ I +AI +RTIR+P ++ ++KV+ RL+IQE P+ E++A R
Sbjct: 150 FSTYATWWIRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAER 209
Query: 441 VGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRN 500
+G V+K++ + + R P+S++ PV +++D+ + DT VE P + ++ + +R
Sbjct: 210 LGWPVQKVKMVKNVAREPISLEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQ 269
Query: 501 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 560
+L L +E+ ++R+RFG++DG P++L EVG F +++ER+RQ+E++AL RL+ K
Sbjct: 270 VLHTLPAREQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKK 329
Query: 561 SYGYAD 566
Y D
Sbjct: 330 LKDYID 335
>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 = 202 bits (514), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 110/286 (38%), Positives = 182/286 (63%), Gaps = 1/286 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYWW
Sbjct: 97 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 156
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + SRTIRLP +I +L+K+ + +R QE +P +LA+ V + +++
Sbjct: 157 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTELAQFVDLPEDEV 216
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ L+ R P+S++ V DT E+ + E+P V++ ++ +R+LL L
Sbjct: 217 KDLMCRARQPVSLEMKVGDGDDTELLELLSGDN-ELPSDQVEEDCLKGDLRSLLGQLPHL 275
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ ++R+RFG++ P SL+ +G I G+S++RVR LE L L++
Sbjct: 276 QEQVLRMRFGMDGEDPMSLTGIGRILGMSRDRVRNLERDGLAGLRR 321
>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 = 202 bits (514), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 113/313 (36%), Positives = 186/313 (59%), Gaps = 19/313 (6%)
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 SMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR 422
++GL++++EKF G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR
Sbjct: 120 NLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKR 179
Query: 423 LYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGV 482
Q E+LA GI VEK+ L+ +R P+S+ PV D++ + DT
Sbjct: 180 ELHQRLGREASDEELAEESGIPVEKIGDLLDHSRDPVSLDMPVGTDEEAPLGDFIEDTEA 239
Query: 483 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 542
+ +V +L+ VR++L L+ +E+ ++RLR+G++DG+ ++L ++G +FGLS+ERVR
Sbjct: 240 MSAENAVIAELLHSDVRSVLATLDEREQQVIRLRYGLDDGQARTLDQIGKLFGLSRERVR 299
Query: 543 QLESRALYRLKQS 555
Q+E + +L+
Sbjct: 300 QIEREVMAKLRHG 312
>gi|390937151|ref|YP_006394710.1| RNA polymerase principal sigma factor [Bifidobacterium bifidum
BGN4]
gi|389890764|gb|AFL04831.1| RNA polymerase principal sigma factor [Bifidobacterium bifidum
BGN4]
Length = 500
Score = 202 bits (514), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 87/237 (36%), Positives = 162/237 (68%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK + G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 250 RELKWAANDGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 309
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 310 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 369
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 370 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQE 429
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 430 QFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLR 486
>gi|290960625|ref|YP_003491807.1| Principal sigma factor HrdA [Streptomyces scabiei 87.22]
gi|260650151|emb|CBG73267.1| Principal sigma factor HrdA [Streptomyces scabiei 87.22]
Length = 387
Score = 202 bits (514), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 105/301 (34%), Positives = 178/301 (59%), Gaps = 19/301 (6%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCR---DLKSELHS 325
LLTA EE EL +++ F E A GL R DL +
Sbjct: 103 LLTAVEEVELARRVE------------AGLFAEE----RLGTASGLDTRLALDLDRLVVM 146
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA
Sbjct: 147 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 206
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P +++A + +
Sbjct: 207 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPDEVAAHLDLAP 266
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
E++ ++ + + P+S+ PV + D ++ D P S L+R+H+ +L+ L
Sbjct: 267 ERVSEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTL 326
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYA 565
+ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+ GY
Sbjct: 327 GERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYL 386
Query: 566 D 566
D
Sbjct: 387 D 387
>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 = 202 bits (514), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 113/303 (37%), Positives = 187/303 (61%), Gaps = 17/303 (5%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR-LYIQEGNHSP 432
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR L+ Q G +
Sbjct: 130 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREAT 189
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
D E+LA GI VEK+ L+ +R P+S+ PV D++ + D+ + +V
Sbjct: 190 D-EELAAESGIPVEKIADLLDHSRDPVSLDMPVGNDEEAPLGDFIEDSEATSAESAVIAG 248
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
L+ VR++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L
Sbjct: 249 LLHHDVRSVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKL 308
Query: 553 KQS 555
++
Sbjct: 309 RKG 311
>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 = 202 bits (514), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 110/286 (38%), Positives = 182/286 (63%), Gaps = 1/286 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYWW
Sbjct: 97 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 156
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + SRTIRLP +I +L+K+ + +R QE +P +LA+ V + +++
Sbjct: 157 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTELAQFVDLPEDEV 216
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ L+ R P+S++ V DT E+ + E+P V++ ++ +R+LL L
Sbjct: 217 KDLMCRARQPVSLEMKVGDGDDTELLELLSGDN-ELPSDQVEEDCLKGDLRSLLGQLPHL 275
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ ++R+RFG++ P SL+ +G I G+S++RVR LE L L++
Sbjct: 276 QEQVLRMRFGMDGEDPMSLTGIGRILGMSRDRVRNLERDGLAGLRR 321
>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 = 202 bits (514), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 113/313 (36%), Positives = 186/313 (59%), Gaps = 19/313 (6%)
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 SMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR 422
++GL++++EKF G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR
Sbjct: 120 NLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKR 179
Query: 423 LYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGV 482
Q E+LA GI VEK+ L+ +R P+S+ PV D++ + DT
Sbjct: 180 ELHQRLGREATDEELAEESGIPVEKIGDLLDHSRDPVSLDMPVGTDEEAPLGDFIEDTEA 239
Query: 483 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 542
+ +V +L+ VR++L L+ +E+ ++RLR+G++DG+ ++L ++G +FGLS+ERVR
Sbjct: 240 MSAENAVIAELLHSDVRSVLATLDEREQQVIRLRYGLDDGQARTLDQIGKLFGLSRERVR 299
Query: 543 QLESRALYRLKQS 555
Q+E + +L+
Sbjct: 300 QIEREVMAKLRHG 312
>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 = 202 bits (513), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 113/300 (37%), Positives = 184/300 (61%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI + RTIRLP ++ L+K+ +R Q+ H+P
Sbjct: 143 PTRGYKFSTYAYWWIRQAITRAIAEQGRTIRLPIHLTEKLNKIKRTQRELAQKLGHTPST 202
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A + + +++ + + R PLS++ V ++DT ++ D G+ P+ + +
Sbjct: 203 TEIAAELSLDPKEIRDYLLLARQPLSLELRVGPERDTELHDMLEDDGLS-PESYADQSFL 261
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+Q++ +LL+ L ++R I+ LRFG+ + SLSE+G G+S+ERVRQLE +AL L++
Sbjct: 262 QQNIHDLLSKLTAQQREILTLRFGLTNENTLSLSEIGQRMGISRERVRQLELQALMTLRR 321
>gi|441180909|ref|ZP_20970215.1| RNA polymerase sigma factor [Streptomyces rimosus subsp. rimosus
ATCC 10970]
gi|440614305|gb|ELQ77593.1| RNA polymerase sigma factor [Streptomyces rimosus subsp. rimosus
ATCC 10970]
Length = 398
Score = 202 bits (513), Expect = 4e-49, Method: Compositional matrix adjust.
Identities = 104/298 (34%), Positives = 181/298 (60%), Gaps = 13/298 (4%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTA EE EL +++ + +EK +L + L DL + G
Sbjct: 114 LLTAVEEVELARRVEAGL-FAEEKLRLAPDLDSQLAL------------DLDKLVVLGRM 160
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA WW
Sbjct: 161 AKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWW 220
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++A ++ + E++
Sbjct: 221 IRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPAPEEVAAQLDLPPERV 280
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
++ + + P+S+ PV + D ++ D P S L+R+H+ +L+ L +
Sbjct: 281 SEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGER 340
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+ GY D
Sbjct: 341 ERKVVQLRYGLVDGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 398
>gi|406956443|gb|EKD84538.1| hypothetical protein ACD_38C00204G0004 [uncultured bacterium]
Length = 363
Score = 202 bits (513), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 94/238 (39%), Positives = 164/238 (68%), Gaps = 1/238 (0%)
Query: 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAY 386
++R+KLI+ANLRLVV +AK+Y GRG+SL DL++EG++GLM++V+K+ + G +F++YA
Sbjct: 125 KAARDKLISANLRLVVSIAKKYVGRGMSLLDLIEEGNIGLMRAVDKYDWRRGYKFSTYAT 184
Query: 387 WWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVE 446
WW+RQ I +AI +RTIR+P ++ +++ +R +QE P E++A+ +GI
Sbjct: 185 WWIRQAITRAIADQARTIRIPVHMVETINRFNRTQRKLMQELGREPTPEEVAKALGIDET 244
Query: 447 KLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLN 506
K +I +++ P S++ PV ++D+ + AD G++ PD ++L++ H+ +L L+
Sbjct: 245 KAREIIKVSQEPTSLETPVGDEEDSHLGDFIADQGLQ-PDEQATRELLKIHLDEVLDSLS 303
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
P+E+ +++LRFG+EDGK ++L EVG FG+++ER+RQ+E++A+ +LK K Y
Sbjct: 304 PREKRVLQLRFGLEDGKQRTLEEVGKEFGVTRERIRQIEAKAIRKLKHPTRAKKLRDY 361
>gi|302551232|ref|ZP_07303574.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes
DSM 40736]
gi|302468850|gb|EFL31943.1| RNA polymerase sigma factor RpoS [Streptomyces viridochromogenes
DSM 40736]
Length = 438
Score = 202 bits (513), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 103/298 (34%), Positives = 180/298 (60%), Gaps = 13/298 (4%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTA EE EL +++ + +EK +L + + DL + G
Sbjct: 154 LLTAAEEVELARRVEAGL-FAEEKLRLAPDLDSQLAV------------DLDRLVVMGRM 200
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA WW
Sbjct: 201 AKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWW 260
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++A + + E++
Sbjct: 261 IRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAAHLELPPERV 320
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
++ + + P+S+ PV + D ++ D P S L+R+H+ +L+ L +
Sbjct: 321 GEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGER 380
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+ GY D
Sbjct: 381 ERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 438
>gi|415718247|ref|ZP_11467229.1| RNA polymerase sigma factor [Gardnerella vaginalis 1500E]
gi|388060076|gb|EIK82777.1| RNA polymerase sigma factor [Gardnerella vaginalis 1500E]
Length = 497
Score = 202 bits (513), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 101/304 (33%), Positives = 187/304 (61%), Gaps = 20/304 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIR----LEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E +L +I+ + L+ E ++ + RE ++WA
Sbjct: 197 DPVKDYLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTEIDSMEFKRKRE---LKWAA 253
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
A G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 254 A-------------DGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 300
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 301 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 360
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 361 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVA 420
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ R +L L P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ +
Sbjct: 421 FSLLQEQFRQVLETLAPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 480
Query: 551 RLKQ 554
+L+
Sbjct: 481 KLRH 484
>gi|386867263|ref|YP_006280257.1| RNA polymerase sigma factor [Bifidobacterium animalis subsp.
animalis ATCC 25527]
gi|385701346|gb|AFI63294.1| RNA polymerase sigma factor [Bifidobacterium animalis subsp.
animalis ATCC 25527]
Length = 488
Score = 202 bits (513), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 101/303 (33%), Positives = 188/303 (62%), Gaps = 20/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIR----LEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E +L +I+ + L+ E ++ + RE ++WA
Sbjct: 188 DPVKDYLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTEGDTMEFRRKRE---LKWAA 244
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
A G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 245 A-------------DGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 291
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 292 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 351
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 352 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSEAVA 411
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ R +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ +
Sbjct: 412 FSLLQEQFRQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 471
Query: 551 RLK 553
+L+
Sbjct: 472 KLR 474
>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 = 202 bits (513), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 107/313 (34%), Positives = 179/313 (57%), Gaps = 40/313 (12%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LL+ADEE EL + D
Sbjct: 98 LLEGIGTEDPVRMYLKEIGTVPLLSADEELELAKRKAD---------------------- 135
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+S++E+LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 136 ------------------GDDSAKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 177
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 178 IKGVEKFDYTKGYKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 237
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P +LA + ++ +K+ ++ I R P S++ P+ + D+ + AD+ V P+
Sbjct: 238 ELGYEPSVTELAEALEMSEDKVMEIMQIAREPASLETPIGEEDDSNLGDFVADSNVVTPE 297
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 298 GNVESVMLREHIDALLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEA 357
Query: 547 RALYRLKQSLGGK 559
+AL +L+ + K
Sbjct: 358 KALRKLRNPVRSK 370
>gi|406917815|gb|EKD56514.1| hypothetical protein ACD_58C00166G0002 [uncultured bacterium]
Length = 369
Score = 202 bits (513), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 94/227 (41%), Positives = 158/227 (69%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
+++KL ANLRLVV +AK+Y GRG+SL DL+QEG+ GL+++VEKF G +F++YA WW
Sbjct: 132 AKKKLAEANLRLVVSIAKKYIGRGLSLLDLIQEGNSGLLRAVEKFNFHKGYKFSTYATWW 191
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIR+P ++ +++K++ +R +Q+ +P E++A + + VEK+
Sbjct: 192 IRQAITRAIADQARTIRIPVHMVEMINKLIRVQRQLVQDLGRAPLPEEIAEELELPVEKV 251
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
E ++ I++ +S++ PV ++D+ + D PD S QL+R HV L L P+
Sbjct: 252 EHILKISQETVSLESPVGEEEDSKLGDFLEDKDNMTPDESAIYQLLRGHVTEFLQTLQPR 311
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
E+ I+++RFG+EDG+ +L EVG FG+++ER+RQ+E+++L RLK++
Sbjct: 312 EQKILKMRFGLEDGRTHTLEEVGKEFGVTRERIRQIEAKSLQRLKKN 358
>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 = 202 bits (513), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 116/314 (36%), Positives = 180/314 (57%), Gaps = 31/314 (9%)
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 CRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLA 438
RF++YAYWW+RQ I +AI SRTIRLP +I L+K+ +A+R QE + ED+A
Sbjct: 229 YRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLSQEKGRTASIEDVA 288
Query: 439 RRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ-- 496
+ + +T ++ ++ +S++ V ++DT ++ +E DIS +++LM++
Sbjct: 289 KELEMTPAQVREVLLRVPRSVSLETKVGKEKDTELGDL-----LETDDISPEEKLMQEAL 343
Query: 497 --HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ +LL L +ER ++ +RFG+ DG P SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 344 HRELHHLLADLTSRERDVIGMRFGLTDGHPYSLAEIGRALDLSRERVRQIESKALQKLRQ 403
Query: 555 SLGGKASYGYADLL 568
Y +LL
Sbjct: 404 PKRRNRVRDYLELL 417
>gi|19910026|dbj|BAB87264.1| RNA polymerase sigma factor [Cyanophora paradoxa]
Length = 427
Score = 202 bits (513), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 111/295 (37%), Positives = 180/295 (61%), Gaps = 12/295 (4%)
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-GISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
+R +L+ +NLR VV +AK+Y + + L DL+QEGS+GLMK+ E+F G +F +YA
Sbjct: 176 RRARARLVQSNLRWVVSIAKKYANKHTMPLQDLIQEGSIGLMKAAERFDLDKGFKFLTYA 235
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ I +++ RTIRLP +++ L + + ++ P E+LA + I V
Sbjct: 236 TWWIRQAIFRSLQDQGRTIRLPVHVHDSLYLIKKTRQQLASRLGRIPTPEELADELNIPV 295
Query: 446 EKLERLIFITR---MPLSMQQPVWADQDTTFQEITADTGVEI----PDISVQKQLMRQHV 498
RL FIT+ +P+S++ P+ ++ +T +E PD +++ ++R+ +
Sbjct: 296 ---SRLAFITQAASLPISLESPISSETSSTKARNNLGDFIESECLQPDEQLERTMLREDL 352
Query: 499 RNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
N+L L +ER I+R+R+G+ DG PK+L E+G I GL++ER+RQ+E A+ +LK
Sbjct: 353 ENVLATLKARERDIIRMRYGLVDGSPKTLDEIGEIVGLTRERIRQIEQSAMRKLK 407
>gi|398336925|ref|ZP_10521630.1| RNA polymerase sigma-70 factor [Leptospira kmetyi serovar Malaysia
str. Bejo-Iso9]
Length = 585
Score = 202 bits (513), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 100/286 (34%), Positives = 182/286 (63%), Gaps = 8/286 (2%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLI-EWAKAIGLSCRDLKSELHSGNSSREKLINANLRL 340
I+D+ E++ +++ + G I +W + I R++ + ++++L+ ANLRL
Sbjct: 306 IKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREI-------SQAKKELVKANLRL 358
Query: 341 VVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 400
VV +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +F++YA WW+RQ I +AI
Sbjct: 359 VVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQ 418
Query: 401 SRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLS 460
+RTIR+P ++ ++KV+ RL++QE P E++A R+G V+K++ + + R P+S
Sbjct: 419 ARTIRVPVHMIEQVNKVIRETRLFVQEFGRDPSNEEIAERLGWPVQKVKMVKNVAREPIS 478
Query: 461 MQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIE 520
++ PV +++D+ + DT VE P + ++ + +R +L L +E+ ++R+RFG++
Sbjct: 479 LEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPAREQKVIRMRFGLD 538
Query: 521 DGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
DG P++L EVG F +++ER+RQ+E++AL RL+ K Y D
Sbjct: 539 DGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDYID 584
>gi|384196835|ref|YP_005582579.1| RNA polymerase sigma factor RpoD [Bifidobacterium breve
ACS-071-V-Sch8b]
gi|333110812|gb|AEF27828.1| RNA polymerase sigma factor RpoD [Bifidobacterium breve
ACS-071-V-Sch8b]
Length = 472
Score = 202 bits (513), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 101/303 (33%), Positives = 187/303 (61%), Gaps = 20/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIR----LEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E +L +I+ + L+ E ++ + RE ++WA
Sbjct: 172 DPVKDYLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTESEGMEFKRKRE---LKWAA 228
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
A G +D L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 229 ADGKKAKD-------------HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 275
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 276 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 335
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 336 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVA 395
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ +
Sbjct: 396 FSLLQEQFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 455
Query: 551 RLK 553
+L+
Sbjct: 456 KLR 458
>gi|339479381|gb|ABE95849.1| RNA polymerase principal sigma factor hrdB [Bifidobacterium breve
UCC2003]
Length = 472
Score = 202 bits (513), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 101/303 (33%), Positives = 187/303 (61%), Gaps = 20/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIR----LEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E +L +I+ + L+ E ++ + RE ++WA
Sbjct: 172 DPVKDYLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTESEGMEFKRKRE---LKWAA 228
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
A G +D L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 229 ADGKKAKD-------------HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 275
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 276 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 335
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 336 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVA 395
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ +
Sbjct: 396 FSLLQEQFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 455
Query: 551 RLK 553
+L+
Sbjct: 456 KLR 458
>gi|296454312|ref|YP_003661455.1| RpoD family RNA polymerase sigma-70 factor [Bifidobacterium longum
subsp. longum JDM301]
gi|296183743|gb|ADH00625.1| RNA polymerase, sigma 70 subunit, RpoD family [Bifidobacterium
longum subsp. longum JDM301]
Length = 474
Score = 202 bits (513), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 101/303 (33%), Positives = 187/303 (61%), Gaps = 20/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIR----LEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E +L +I+ + L+ E ++ + RE ++WA
Sbjct: 174 DPVKDYLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTESEGMEFKRKRE---LKWAA 230
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
A G +D L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 231 ADGKKAKD-------------HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 277
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 278 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 337
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 338 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVA 397
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ +
Sbjct: 398 FSLLQEQFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 457
Query: 551 RLK 553
+L+
Sbjct: 458 KLR 460
>gi|227547666|ref|ZP_03977715.1| RNA polymerase sigma factor [Bifidobacterium longum subsp. longum
ATCC 55813]
gi|227211921|gb|EEI79817.1| RNA polymerase sigma factor [Bifidobacterium longum subsp. infantis
ATCC 55813]
Length = 464
Score = 202 bits (513), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 101/303 (33%), Positives = 187/303 (61%), Gaps = 20/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIR----LEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E +L +I+ + L+ E ++ + RE ++WA
Sbjct: 164 DPVKDYLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTESEGMEFKRKRE---LKWAA 220
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
A G +D L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 221 ADGKKAKD-------------HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 267
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 268 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 327
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 328 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVA 387
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ +
Sbjct: 388 FSLLQEQFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 447
Query: 551 RLK 553
+L+
Sbjct: 448 KLR 450
>gi|23465986|ref|NP_696589.1| RNA polymerase sigma factor [Bifidobacterium longum NCC2705]
gi|46191322|ref|ZP_00206768.1| COG0568: DNA-directed RNA polymerase, sigma subunit
(sigma70/sigma32) [Bifidobacterium longum DJO10A]
gi|189439160|ref|YP_001954241.1| RNA polymerase sigma factor [Bifidobacterium longum DJO10A]
gi|312132592|ref|YP_003999931.1| rpod [Bifidobacterium longum subsp. longum BBMN68]
gi|317482450|ref|ZP_07941467.1| RNA polymerase sigma factor RpoD [Bifidobacterium sp. 12_1_47BFAA]
gi|322689398|ref|YP_004209132.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp.
infantis 157F]
gi|322691364|ref|YP_004220934.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp.
longum JCM 1217]
gi|384201340|ref|YP_005587087.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp.
longum KACC 91563]
gi|419846679|ref|ZP_14369907.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp.
longum 1-6B]
gi|419850914|ref|ZP_14373876.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp.
longum 35B]
gi|419853859|ref|ZP_14376659.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp.
longum 2-2B]
gi|419855743|ref|ZP_14378493.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp.
longum 44B]
gi|23326702|gb|AAN25225.1| RNA polymerase principal sigma factor; sigma 70 [Bifidobacterium
longum NCC2705]
gi|189427595|gb|ACD97743.1| DNA-directed RNA polymerase sigma subunit [Bifidobacterium longum
DJO10A]
gi|311773536|gb|ADQ03024.1| RpoD [Bifidobacterium longum subsp. longum BBMN68]
gi|316916110|gb|EFV37515.1| RNA polymerase sigma factor RpoD [Bifidobacterium sp. 12_1_47BFAA]
gi|320456220|dbj|BAJ66842.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp.
longum JCM 1217]
gi|320460734|dbj|BAJ71354.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp.
infantis 157F]
gi|338754347|gb|AEI97336.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp.
longum KACC 91563]
gi|386406433|gb|EIJ21440.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp.
longum 2-2B]
gi|386407605|gb|EIJ22573.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp.
longum 35B]
gi|386413459|gb|EIJ28065.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp.
longum 1-6B]
gi|386414966|gb|EIJ29507.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp.
longum 44B]
Length = 474
Score = 202 bits (513), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 101/303 (33%), Positives = 187/303 (61%), Gaps = 20/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIR----LEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E +L +I+ + L+ E ++ + RE ++WA
Sbjct: 174 DPVKDYLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTESEGMEFKRKRE---LKWAA 230
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
A G +D L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 231 ADGKKAKD-------------HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 277
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 278 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 337
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 338 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVA 397
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ +
Sbjct: 398 FSLLQEQFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 457
Query: 551 RLK 553
+L+
Sbjct: 458 KLR 460
>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 = 202 bits (513), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 111/288 (38%), Positives = 190/288 (65%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 197
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R+ Q+ +P++ +LA + IT E+
Sbjct: 198 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRILKQDLQRNPNERELAEALEITPEQ 257
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + +MRQ + +L+ +L
Sbjct: 258 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDDLQLPEDKMNEMMMRQEIFAVLSDVLT 317
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++++A+ +L++
Sbjct: 318 EREKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQTKAMRKLRR 365
>gi|171742642|ref|ZP_02918449.1| hypothetical protein BIFDEN_01756 [Bifidobacterium dentium ATCC
27678]
gi|171278256|gb|EDT45917.1| RNA polymerase sigma factor RpoD [Bifidobacterium dentium ATCC
27678]
Length = 461
Score = 202 bits (513), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 87/237 (36%), Positives = 162/237 (68%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK + G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 211 RELKWAANDGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 270
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 271 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 330
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 331 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQE 390
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 391 QFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLR 447
>gi|239621277|ref|ZP_04664308.1| RNA polymerase principal sigma factor [Bifidobacterium longum
subsp. infantis CCUG 52486]
gi|239515738|gb|EEQ55605.1| RNA polymerase principal sigma factor [Bifidobacterium longum
subsp. infantis CCUG 52486]
Length = 488
Score = 202 bits (513), Expect = 6e-49, Method: Compositional matrix adjust.
Identities = 101/303 (33%), Positives = 187/303 (61%), Gaps = 20/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIR----LEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E +L +I+ + L+ E ++ + RE ++WA
Sbjct: 188 DPVKDYLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTESEGMEFKRKRE---LKWAA 244
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
A G +D L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 245 ADGKKAKD-------------HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 291
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 292 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 351
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 352 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVA 411
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ +
Sbjct: 412 FSLLQEQFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 471
Query: 551 RLK 553
+L+
Sbjct: 472 KLR 474
>gi|345851793|ref|ZP_08804757.1| RNA polymerase sigma factor [Streptomyces zinciresistens K42]
gi|345636744|gb|EGX58287.1| RNA polymerase sigma factor [Streptomyces zinciresistens K42]
Length = 442
Score = 202 bits (513), Expect = 6e-49, Method: Compositional matrix adjust.
Identities = 105/298 (35%), Positives = 181/298 (60%), Gaps = 13/298 (4%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTA EE EL +++ + E+ + G P L + L DL + G
Sbjct: 158 LLTAAEEVELARRVEAGLFAEE-------KLGGTPDL---DSELAL---DLDRLVVMGRM 204
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA WW
Sbjct: 205 AKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWW 264
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++A + + E++
Sbjct: 265 IRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTHEEVADHLDLLPERV 324
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
++ + + P+S+ PV + D ++ D P S L+R+H+ +L+ L +
Sbjct: 325 SEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGER 384
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+ GY D
Sbjct: 385 ERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 442
>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 = 202 bits (513), Expect = 6e-49, Method: Compositional matrix adjust.
Identities = 103/318 (32%), Positives = 191/318 (60%), Gaps = 10/318 (3%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +QE
Sbjct: 324 AVEKFDFRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEL 383
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDIS 488
P E++A+ + + VE++ ++ I++ P+S++ P+ ++D+ + D V +P +
Sbjct: 384 GREPLPEEVAKEMNMPVERVREILKISQEPVSLETPIGEEEDSHLGDFIQDDNVPVPADA 443
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
L+++ + +L L +E+ ++RLRFG++DG+ ++L EVG F +++ER+RQ+E++A
Sbjct: 444 AAFTLLKEQLVEVLGTLTEREQKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEAKA 503
Query: 549 LYRLKQSLGGKASYGYAD 566
L +L+ + Y D
Sbjct: 504 LRKLRHPSRSRKLKDYLD 521
>gi|213691851|ref|YP_002322437.1| RNA polymerase sigma factor [Bifidobacterium longum subsp. infantis
ATCC 15697 = JCM 1222]
gi|384198994|ref|YP_005584737.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp.
infantis ATCC 15697 = JCM 1222]
gi|213523312|gb|ACJ52059.1| RNA polymerase, sigma 70 subunit, RpoD family [Bifidobacterium
longum subsp. infantis ATCC 15697 = JCM 1222]
gi|320457946|dbj|BAJ68567.1| RNA polymerase sigma factor RpoD [Bifidobacterium longum subsp.
infantis ATCC 15697 = JCM 1222]
Length = 464
Score = 201 bits (512), Expect = 6e-49, Method: Compositional matrix adjust.
Identities = 100/303 (33%), Positives = 188/303 (62%), Gaps = 20/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIR----LEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E +L +I+ + L+ E ++ + RE ++WA
Sbjct: 164 DPVKDYLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTESEGMEFKRKRE---LKWAA 220
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
A G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 221 A-------------DGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 267
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 268 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 327
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 328 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVA 387
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ +
Sbjct: 388 FSLLQEQFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 447
Query: 551 RLK 553
+L+
Sbjct: 448 KLR 450
>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 = 201 bits (512), Expect = 6e-49, Method: Compositional matrix adjust.
Identities = 110/288 (38%), Positives = 190/288 (65%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 197
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R+ Q+ +P++ +LA + +T E+
Sbjct: 198 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRILKQDLQRNPNERELAEALEMTPEQ 257
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + +MRQ + +L+ +L
Sbjct: 258 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDDLQLPEDKMNEMMMRQEIFAVLSDVLT 317
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++++A+ +L++
Sbjct: 318 EREKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQTKAMRKLRR 365
>gi|294790965|ref|ZP_06756123.1| RNA polymerase sigma (70) factor RpoD [Scardovia inopinata F0304]
gi|294458862|gb|EFG27215.1| RNA polymerase sigma (70) factor RpoD [Scardovia inopinata F0304]
Length = 588
Score = 201 bits (512), Expect = 6e-49, Method: Compositional matrix adjust.
Identities = 87/237 (36%), Positives = 162/237 (68%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK + G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 337 RELKWAANDGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 396
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 397 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 456
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 457 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSEAVAFSLLQE 516
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+L L+P+E ++++R+G+EDG+PK+L ++G+++G+++ER+RQ+ES+ + +L+
Sbjct: 517 QFTQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGHVYGVTRERIRQIESKTMSKLR 573
>gi|386773591|ref|ZP_10095969.1| RNA polymerase, sigma 70 subunit, RpoD [Brachybacterium
paraconglomeratum LC44]
Length = 437
Score = 201 bits (512), Expect = 6e-49, Method: Compositional matrix adjust.
Identities = 102/309 (33%), Positives = 186/309 (60%), Gaps = 25/309 (8%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLE---------KEKSKLQSQFGREPTL 305
DP++ +L LL A +E EL +I+ + E ++K+ ++ GRE T+
Sbjct: 133 DPVKDYLKQIGKVALLNAAQEVELAERIEAGLYAEQKLKGDESYRDKNGRLTKAGRELTM 192
Query: 306 IEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMG 365
I G ++++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++G
Sbjct: 193 I----------------ADDGRAAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLG 236
Query: 366 LMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYI 425
L+++VEKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +
Sbjct: 237 LIRAVEKFDYAKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQML 296
Query: 426 QEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIP 485
Q+ P E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P
Sbjct: 297 QDLGREPTPEELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVP 356
Query: 486 DISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 545
+V L+++ + ++L L+ +E +V +RFG+EDG+PK+L E+G ++G+++ER+RQ+E
Sbjct: 357 ADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLEDGQPKTLDEIGKVYGVTRERIRQIE 416
Query: 546 SRALYRLKQ 554
S+ + +L+
Sbjct: 417 SKTMSKLRH 425
>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 = 201 bits (512), Expect = 7e-49, Method: Compositional matrix adjust.
Identities = 109/302 (36%), Positives = 182/302 (60%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 127 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREAT 186
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI VEK+ L+ +R P+S+ PV D++ + D+ + +V +L
Sbjct: 187 DEELAEESGIPVEKINDLLEHSRDPVSLDMPVGTDEEAPLGDFIEDSEAMSAENAVISEL 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R +L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 247 LHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 306
Query: 554 QS 555
Sbjct: 307 NG 308
>gi|254389040|ref|ZP_05004270.1| RNA polymerase principal sigma factor hrdA [Streptomyces
clavuligerus ATCC 27064]
gi|326441042|ref|ZP_08215776.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064]
gi|197702757|gb|EDY48569.1| RNA polymerase principal sigma factor hrdA [Streptomyces
clavuligerus ATCC 27064]
Length = 385
Score = 201 bits (512), Expect = 7e-49, Method: Compositional matrix adjust.
Identities = 92/249 (36%), Positives = 162/249 (65%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 137 DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYTR 196
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE P E++
Sbjct: 197 GYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQEQGSEPTPEEV 256
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A ++ + E++ ++ + + P+S+ PV ++D ++ D P S L+R+H
Sbjct: 257 AAQLDLPPERVSEVLRLAQEPVSLHAPVGEEEDVALGDLIEDGDAASPVESAAFLLLREH 316
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 557
+ +L+ L +ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+
Sbjct: 317 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 376
Query: 558 GKASYGYAD 566
GY D
Sbjct: 377 ADQLRGYLD 385
>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 = 201 bits (512), Expect = 7e-49, Method: Compositional matrix adjust.
Identities = 112/322 (34%), Positives = 186/322 (57%), Gaps = 15/322 (4%)
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 LHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLL 414
L DL+QEG++GL++++EKF G +F++YA WW+RQ I + + SRTIRLP ++ +
Sbjct: 128 LLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQV 187
Query: 415 SKVLEAKR-LYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
+K+ KR L+ Q G + D E LA GI EK+ L+ +R P+S+ PV +D++
Sbjct: 188 NKIARIKRELHQQLGREATDDE-LANESGIPAEKIADLLDHSRDPVSLDMPVGSDEEAPL 246
Query: 474 QEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 533
+ D + +V L+ VR +L L+ +E+ ++R+R+G++DG+P++L ++G +
Sbjct: 247 GDFIEDAEATSAENAVIAGLLHSDVRAVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRM 306
Query: 534 FGLSKERVRQLESRALYRLKQS 555
FGLS+ERVRQ+E + +L+Q
Sbjct: 307 FGLSRERVRQIEREVMGKLRQG 328
>gi|357055293|ref|ZP_09116365.1| hypothetical protein HMPREF9467_03337 [Clostridium clostridioforme
2_1_49FAA]
gi|355382932|gb|EHG30022.1| hypothetical protein HMPREF9467_03337 [Clostridium clostridioforme
2_1_49FAA]
Length = 381
Score = 201 bits (512), Expect = 7e-49, Method: Compositional matrix adjust.
Identities = 112/313 (35%), Positives = 180/313 (57%), Gaps = 40/313 (12%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LLTADEE +L AQ R+
Sbjct: 103 LLEGIGTEDPVRMYLKEIGTVPLLTADEELDL-AQ-------------------RKADGD 142
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
E+AK E+LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 143 EFAK--------------------ERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 182
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 183 IKGVEKFDYTKGYKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 242
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P +LA + +T +K+ ++ I R P S++ P+ + D+ + AD V P+
Sbjct: 243 ELGYEPSVTELAEALDMTEDKVMEIMQIAREPASLETPIGEEDDSNLGDFVADNNVVTPE 302
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 303 GNVESVMLREHIDALLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEA 362
Query: 547 RALYRLKQSLGGK 559
+AL +L+ + K
Sbjct: 363 KALRKLRNPVRSK 375
>gi|160941160|ref|ZP_02088497.1| hypothetical protein CLOBOL_06053 [Clostridium bolteae ATCC
BAA-613]
gi|158435721|gb|EDP13488.1| hypothetical protein CLOBOL_06053 [Clostridium bolteae ATCC
BAA-613]
Length = 381
Score = 201 bits (512), Expect = 7e-49, Method: Compositional matrix adjust.
Identities = 112/313 (35%), Positives = 180/313 (57%), Gaps = 40/313 (12%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LLTADEE +L AQ R+
Sbjct: 103 LLEGIGTEDPVRMYLKEIGTVPLLTADEELDL-AQ-------------------RKADGD 142
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
E+AK E+LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 143 EFAK--------------------ERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 182
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 183 IKGVEKFDYTKGYKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 242
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P +LA + +T +K+ ++ I R P S++ P+ + D+ + AD V P+
Sbjct: 243 ELGYEPSVTELAEALDMTEDKVMEIMQIAREPASLETPIGEEDDSNLGDFVADNNVVTPE 302
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 303 GNVESVMLREHIDALLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEA 362
Query: 547 RALYRLKQSLGGK 559
+AL +L+ + K
Sbjct: 363 KALRKLRNPVRSK 375
>gi|408500874|ref|YP_006864793.1| RNA polymerase sigma factor [Bifidobacterium asteroides PRL2011]
gi|408465698|gb|AFU71227.1| RNA polymerase sigma factor [Bifidobacterium asteroides PRL2011]
Length = 474
Score = 201 bits (512), Expect = 7e-49, Method: Compositional matrix adjust.
Identities = 87/237 (36%), Positives = 161/237 (67%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK + G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 224 RELKWAANDGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYT 283
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 284 KGYKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 343
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 344 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQE 403
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 404 QFQQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLR 460
>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 = 201 bits (512), Expect = 7e-49, Method: Compositional matrix adjust.
Identities = 110/302 (36%), Positives = 181/302 (59%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 137 DYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREAT 196
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI VEK+ L+ +R P+S+ PV +D++ + D + +V +L
Sbjct: 197 DEELAEESGIPVEKINDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISEL 256
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R +L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 257 LHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 316
Query: 554 QS 555
Sbjct: 317 NG 318
>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 = 201 bits (512), Expect = 7e-49, Method: Compositional matrix adjust.
Identities = 110/288 (38%), Positives = 189/288 (65%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 197
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R+ Q+ +P++ +LA + +T E+
Sbjct: 198 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRILKQDLQRNPNERELAEALEMTPEQ 257
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + +MRQ + +L+ +L
Sbjct: 258 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDDLQLPEDKMNEMMMRQEIFAVLSDVLT 317
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++++A+ +L++
Sbjct: 318 EREKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQTKAMRKLRR 365
>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 = 201 bits (512), Expect = 7e-49, Method: Compositional matrix adjust.
Identities = 112/322 (34%), Positives = 186/322 (57%), Gaps = 15/322 (4%)
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 LHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLL 414
L DL+QEG++GL++++EKF G +F++YA WW+RQ I + + SRTIRLP ++ +
Sbjct: 128 LLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQV 187
Query: 415 SKVLEAKR-LYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
+K+ KR L+ Q G + D E LA GI EK+ L+ +R P+S+ PV +D++
Sbjct: 188 NKIARIKRELHQQLGREATDDE-LANESGIPAEKIADLLDHSRDPVSLDMPVGSDEEAPL 246
Query: 474 QEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 533
+ D + +V L+ VR +L L+ +E+ ++R+R+G++DG+P++L ++G +
Sbjct: 247 GDFIEDAEATSAENAVIAGLLHSDVRAVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRM 306
Query: 534 FGLSKERVRQLESRALYRLKQS 555
FGLS+ERVRQ+E + +L+Q
Sbjct: 307 FGLSRERVRQIEREVMGKLRQG 328
>gi|555686|gb|AAA85644.1| sigma factor MysB [Mycobacterium smegmatis str. MC2 155]
Length = 319
Score = 201 bits (512), Expect = 7e-49, Method: Compositional matrix adjust.
Identities = 109/302 (36%), Positives = 182/302 (60%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 127 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREAT 186
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI VEK+ L+ +R P+S+ PV D++ + D+ + +V +L
Sbjct: 187 DEELAEESGIPVEKINDLLEHSRDPVSLDMPVGTDEEAPLGDFIEDSEAMSAENAVISEL 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R +L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 247 LHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 306
Query: 554 QS 555
Sbjct: 307 NG 308
>gi|225351336|ref|ZP_03742359.1| hypothetical protein BIFPSEUDO_02929 [Bifidobacterium
pseudocatenulatum DSM 20438 = JCM 1200]
gi|225157680|gb|EEG70963.1| hypothetical protein BIFPSEUDO_02929 [Bifidobacterium
pseudocatenulatum DSM 20438 = JCM 1200]
Length = 472
Score = 201 bits (512), Expect = 7e-49, Method: Compositional matrix adjust.
Identities = 88/237 (37%), Positives = 162/237 (68%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK + G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 222 RELKWAANDGRRAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 281
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 282 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 341
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 342 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQE 401
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 402 QFRQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLR 458
>gi|239626154|ref|ZP_04669185.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47_FAA]
gi|355682437|ref|ZP_09062447.1| hypothetical protein HMPREF9469_05484 [Clostridium citroniae
WAL-17108]
gi|239520384|gb|EEQ60250.1| conserved hypothetical protein [Clostridiales bacterium 1_7_47FAA]
gi|354811017|gb|EHE95653.1| hypothetical protein HMPREF9469_05484 [Clostridium citroniae
WAL-17108]
Length = 381
Score = 201 bits (512), Expect = 7e-49, Method: Compositional matrix adjust.
Identities = 107/313 (34%), Positives = 176/313 (56%), Gaps = 40/313 (12%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LLTADEE L + D
Sbjct: 103 LLEGIGTEDPVRMYLKEIGTVPLLTADEELNLAQRKAD---------------------- 140
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+ ++E+LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 141 ------------------GDDYAKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 182
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 183 IKGVEKFDYTKGYKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 242
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P +LA + +T +K+ ++ I R P S++ P+ + D+ + AD V P+
Sbjct: 243 ELGYEPSVTELAEALDMTEDKVMEIMQIAREPASLETPIGEEDDSNLGDFVADNNVVTPE 302
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 303 GNVESVMLREHIDALLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEA 362
Query: 547 RALYRLKQSLGGK 559
+AL +L+ + K
Sbjct: 363 KALRKLRNPVRSK 375
>gi|291457726|ref|ZP_06597116.1| RNA polymerase sigma factor RpoD [Bifidobacterium breve DSM 20213 =
JCM 1192]
gi|417942051|ref|ZP_12585328.1| RNA polymerase sigma factor [Bifidobacterium breve CECT 7263]
gi|291380779|gb|EFE88297.1| RNA polymerase sigma factor RpoD [Bifidobacterium breve DSM 20213 =
JCM 1192]
gi|376167436|gb|EHS86272.1| RNA polymerase sigma factor [Bifidobacterium breve CECT 7263]
Length = 472
Score = 201 bits (511), Expect = 8e-49, Method: Compositional matrix adjust.
Identities = 101/303 (33%), Positives = 187/303 (61%), Gaps = 20/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIR----LEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E +L +I+ + L+ E ++ + RE ++WA
Sbjct: 172 DPVKDYLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTESEGMEFKRKRE---LKWAA 228
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
A G +D L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 229 ADGKKAKD-------------HLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 275
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 276 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 335
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 336 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVA 395
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ +
Sbjct: 396 FSLLQEQFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 455
Query: 551 RLK 553
+L+
Sbjct: 456 KLR 458
>gi|297243591|ref|ZP_06927522.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Gardnerella vaginalis AMD]
gi|415709860|ref|ZP_11463439.1| RNA polymerase sigma factor [Gardnerella vaginalis 6420B]
gi|296888342|gb|EFH27083.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Gardnerella vaginalis AMD]
gi|388055862|gb|EIK78747.1| RNA polymerase sigma factor [Gardnerella vaginalis 6420B]
Length = 489
Score = 201 bits (511), Expect = 8e-49, Method: Compositional matrix adjust.
Identities = 100/303 (33%), Positives = 188/303 (62%), Gaps = 20/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIR----LEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E +L +I+ + L+ + +++ + RE ++WA
Sbjct: 189 DPVKDYLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTQIDQMEFKRKRE---LKWAA 245
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
A G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 246 A-------------DGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 292
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 293 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 352
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 353 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVA 412
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ R +L L P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ +
Sbjct: 413 FSLLQEQFRQVLETLAPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 472
Query: 551 RLK 553
+L+
Sbjct: 473 KLR 475
>gi|297194519|ref|ZP_06911917.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC
25486]
gi|297152294|gb|EFH31643.1| RNA polymerase sigma factor [Streptomyces pristinaespiralis ATCC
25486]
Length = 366
Score = 201 bits (511), Expect = 8e-49, Method: Compositional matrix adjust.
Identities = 92/249 (36%), Positives = 163/249 (65%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 118 DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 177
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++
Sbjct: 178 GYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEV 237
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A + +T E++ ++ + + P+S+ PV + D ++ D P S L+R+H
Sbjct: 238 ATHLELTSERVSEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 297
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 557
+ +L+ L +ER +V+LR+G++DG+P++L E+G +FG+++ER+RQ+ES+ L +L+
Sbjct: 298 LDAVLSTLGERERKVVQLRYGLDDGRPRTLEEIGRLFGVTRERIRQIESKTLNKLRDHAF 357
Query: 558 GKASYGYAD 566
GY D
Sbjct: 358 ADQLRGYLD 366
>gi|260655747|ref|ZP_05861216.1| RNA polymerase major sigma factor [Jonquetella anthropi E3_33 E1]
gi|260629363|gb|EEX47557.1| RNA polymerase major sigma factor [Jonquetella anthropi E3_33 E1]
Length = 969
Score = 201 bits (511), Expect = 8e-49, Method: Compositional matrix adjust.
Identities = 90/251 (35%), Positives = 169/251 (67%), Gaps = 6/251 (2%)
Query: 304 TLIEWAKAIGLSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEG 362
+L++ A+ + L+ R + +G+ ++++++INANLRLVV +AK+Y GRG+ DL+QEG
Sbjct: 711 SLLDAAEEVALAKR-----VEAGDETAKDEIINANLRLVVSIAKKYIGRGMQFLDLIQEG 765
Query: 363 SMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR 422
++GL+++VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R
Sbjct: 766 NLGLIRAVEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKMVRISR 825
Query: 423 LYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGV 482
+Q+ P E++A + I E++E + I++MP+S++ P+ ++D+ + D +
Sbjct: 826 QLVQKLGREPSDEEIAAEMKIEPERVEEIKRISQMPVSLETPIGEEEDSQLGDFIEDRSL 885
Query: 483 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 542
P+ L+++ + +L L+ +ER ++R RFG+EDG+ +L EVG FG+++ER+R
Sbjct: 886 PSPEDVAADNLLQEQIEEMLNALSDREREVLRYRFGLEDGRSYTLEEVGRRFGVTRERIR 945
Query: 543 QLESRALYRLK 553
Q+E++AL +L+
Sbjct: 946 QIEAKALRKLR 956
>gi|381397349|ref|ZP_09922761.1| RNA polymerase sigma factor RpoD [Microbacterium laevaniformans
OR221]
gi|380775334|gb|EIC08626.1| RNA polymerase sigma factor RpoD [Microbacterium laevaniformans
OR221]
Length = 443
Score = 201 bits (511), Expect = 8e-49, Method: Compositional matrix adjust.
Identities = 103/300 (34%), Positives = 185/300 (61%), Gaps = 11/300 (3%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A EE EL +I+ + E++ S + + E + +GL
Sbjct: 143 DPVKDYLKQIGKVPLLNAAEEVELAMRIEAGLFAEEKLSHMSAS--------EKSSQLGL 194
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
DL+ G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 195 ---DLQWVARDGQRAKSHLLGANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFD 251
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 252 YTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 311
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+L+R + +T EK+ + R P+S+ P+ D D+ F ++ DT +P +V ++
Sbjct: 312 EELSRELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDTEAVVPADAVGFTML 371
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ + +LL L+ +E ++R+RFG+ DG+PK+L ++G+ FG+++ER+RQ+ES+ + +L+
Sbjct: 372 QRQLESLLDSLSEREAGVIRMRFGLGDGQPKTLDQIGDTFGVTRERIRQIESKTMAKLRH 431
>gi|333919424|ref|YP_004493005.1| RNA polymerase sigma factor [Amycolicicoccus subflavus DQS3-9A1]
gi|333481645|gb|AEF40205.1| RNA polymerase sigma factor [Amycolicicoccus subflavus DQS3-9A1]
Length = 327
Score = 201 bits (511), Expect = 8e-49, Method: Compositional matrix adjust.
Identities = 116/312 (37%), Positives = 185/312 (59%), Gaps = 15/312 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA +E EL +I+ + LQ+ P L K
Sbjct: 29 DLVRVYLNGIGRTALLTAADEVELAKRIEAGL---YATHILQTA----PKLTPAKK---- 77
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDL + G +R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 78 --RDLAYIVRDGQKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 135
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR-LYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR L+ Q G + +
Sbjct: 136 YAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATE 195
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E LAR GI EK++ L+ +R P+S+ PV D++ + D+ + +V +L
Sbjct: 196 AE-LARESGIPQEKIQDLLDHSRDPVSLDMPVGNDEEAPLGDFIEDSDATDAETAVITRL 254
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R +L+ L+ +ER ++ R+G+EDG+P++L ++G IFGLS+ERVRQ+E + +L+
Sbjct: 255 LHSDIRTVLSTLDERERQVITFRYGLEDGQPRTLDQIGRIFGLSRERVRQIEREVMTKLR 314
Query: 554 QSLGGKASYGYA 565
Q + GYA
Sbjct: 315 QGDRAEKLRGYA 326
>gi|294812504|ref|ZP_06771147.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064]
gi|294325103|gb|EFG06746.1| RNA polymerase sigma factor [Streptomyces clavuligerus ATCC 27064]
Length = 436
Score = 201 bits (511), Expect = 8e-49, Method: Compositional matrix adjust.
Identities = 92/249 (36%), Positives = 162/249 (65%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 188 DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYTR 247
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE P E++
Sbjct: 248 GYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQEQGSEPTPEEV 307
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A ++ + E++ ++ + + P+S+ PV ++D ++ D P S L+R+H
Sbjct: 308 AAQLDLPPERVSEVLRLAQEPVSLHAPVGEEEDVALGDLIEDGDAASPVESAAFLLLREH 367
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 557
+ +L+ L +ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+
Sbjct: 368 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 427
Query: 558 GKASYGYAD 566
GY D
Sbjct: 428 ADQLRGYLD 436
>gi|302534283|ref|ZP_07286625.1| RNA polymerase sigma factor RpoS [Streptomyces sp. C]
gi|302443178|gb|EFL14994.1| RNA polymerase sigma factor RpoS [Streptomyces sp. C]
Length = 361
Score = 201 bits (511), Expect = 8e-49, Method: Compositional matrix adjust.
Identities = 104/301 (34%), Positives = 181/301 (60%), Gaps = 19/301 (6%)
Query: 269 LLTADEEFELIAQIQDLIRLEKE---KSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHS 325
LLTA EE EL +++ + E++ + L SQ DL +
Sbjct: 77 LLTAAEEVELARRVEAGLFAEEKLAGATDLDSQL----------------AVDLDKLVVM 120
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
G ++ +LI +NLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA
Sbjct: 121 GRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 180
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++A + +T
Sbjct: 181 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTAEEVAAHLELTP 240
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
E++ ++ + + P+S+ PV + D ++ D P S L+R+H+ +L+ L
Sbjct: 241 ERVLEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPMESAAFFLLREHLEAVLSTL 300
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYA 565
+ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+ GY
Sbjct: 301 GERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYL 360
Query: 566 D 566
D
Sbjct: 361 D 361
>gi|283783165|ref|YP_003373919.1| RNA polymerase sigma factor RpoD [Gardnerella vaginalis 409-05]
gi|283441732|gb|ADB14198.1| RNA polymerase sigma factor RpoD [Gardnerella vaginalis 409-05]
Length = 489
Score = 201 bits (511), Expect = 8e-49, Method: Compositional matrix adjust.
Identities = 100/304 (32%), Positives = 188/304 (61%), Gaps = 20/304 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIR----LEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E +L +I+ + L+ + +++ + RE ++WA
Sbjct: 189 DPVKDYLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTQIDQMEFKRKRE---LKWAA 245
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
A G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 246 A-------------DGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 292
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 293 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 352
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 353 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVA 412
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ R +L L P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ +
Sbjct: 413 FSLLQEQFRQVLETLAPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 472
Query: 551 RLKQ 554
+L+
Sbjct: 473 KLRH 476
>gi|323359909|ref|YP_004226305.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Microbacterium testaceum StLB037]
gi|323276280|dbj|BAJ76425.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Microbacterium testaceum StLB037]
Length = 436
Score = 201 bits (511), Expect = 8e-49, Method: Compositional matrix adjust.
Identities = 103/299 (34%), Positives = 184/299 (61%), Gaps = 11/299 (3%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A EE EL +I+ + E++ S + + E +GL
Sbjct: 136 DPVKDYLKQIGKVPLLNAAEEVELAMRIEAGLFAEEKLSNMSAA--------EKTSQLGL 187
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
DL+ G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 188 ---DLQWVARDGQRAKSHLLGANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAVEKFD 244
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 245 YTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 304
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+L+R + +T EK+ + R P+S+ P+ D D+ F ++ DT +P +V ++
Sbjct: 305 EELSRELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDTEAVVPADAVGFTML 364
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++ + +LL L+ +E ++R+RFG+ DG+PK+L ++G+ FG+++ER+RQ+ES+ + +L+
Sbjct: 365 QRQLESLLDSLSEREAGVIRMRFGLGDGQPKTLDQIGDTFGVTRERIRQIESKTMAKLR 423
>gi|424844271|ref|ZP_18268882.1| RNA polymerase sigma factor, sigma-70 family [Jonquetella anthropi
DSM 22815]
gi|363985709|gb|EHM12539.1| RNA polymerase sigma factor, sigma-70 family [Jonquetella anthropi
DSM 22815]
Length = 805
Score = 201 bits (511), Expect = 8e-49, Method: Compositional matrix adjust.
Identities = 90/251 (35%), Positives = 169/251 (67%), Gaps = 6/251 (2%)
Query: 304 TLIEWAKAIGLSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEG 362
+L++ A+ + L+ R + +G+ ++++++INANLRLVV +AK+Y GRG+ DL+QEG
Sbjct: 547 SLLDAAEEVALAKR-----VEAGDETAKDEIINANLRLVVSIAKKYIGRGMQFLDLIQEG 601
Query: 363 SMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR 422
++GL+++VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R
Sbjct: 602 NLGLIRAVEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKMVRISR 661
Query: 423 LYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGV 482
+Q+ P E++A + I E++E + I++MP+S++ P+ ++D+ + D +
Sbjct: 662 QLVQKLGREPSDEEIAAEMKIEPERVEEIKRISQMPVSLETPIGEEEDSQLGDFIEDRSL 721
Query: 483 EIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVR 542
P+ L+++ + +L L+ +ER ++R RFG+EDG+ +L EVG FG+++ER+R
Sbjct: 722 PSPEDVAADNLLQEQIEEMLNALSDREREVLRYRFGLEDGRSYTLEEVGRRFGVTRERIR 781
Query: 543 QLESRALYRLK 553
Q+E++AL +L+
Sbjct: 782 QIEAKALRKLR 792
>gi|257068601|ref|YP_003154856.1| RNA polymerase, sigma 70 subunit, RpoD [Brachybacterium faecium DSM
4810]
gi|256559419|gb|ACU85266.1| RNA polymerase, sigma 70 subunit, RpoD [Brachybacterium faecium DSM
4810]
Length = 433
Score = 201 bits (511), Expect = 8e-49, Method: Compositional matrix adjust.
Identities = 102/309 (33%), Positives = 186/309 (60%), Gaps = 25/309 (8%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLE---------KEKSKLQSQFGREPTL 305
DP++ +L LL A +E EL +I+ + E ++K+ ++ GRE T+
Sbjct: 129 DPVKDYLKQIGKVALLNAAQEVELAERIEAGLYAEQKLKGDDSFRDKNGRLTKAGRELTM 188
Query: 306 IEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMG 365
I G ++++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++G
Sbjct: 189 I----------------ADDGRAAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLG 232
Query: 366 LMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYI 425
L+++VEKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +
Sbjct: 233 LIRAVEKFDYAKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQML 292
Query: 426 QEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIP 485
Q+ P E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P
Sbjct: 293 QDLGREPTPEELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVP 352
Query: 486 DISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 545
+V L+++ + ++L L+ +E +V +RFG+EDG+PK+L E+G ++G+++ER+RQ+E
Sbjct: 353 ADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLEDGQPKTLDEIGKVYGVTRERIRQIE 412
Query: 546 SRALYRLKQ 554
S+ + +L+
Sbjct: 413 SKTMSKLRH 421
>gi|309801431|ref|ZP_07695558.1| RNA polymerase sigma factor RpoD [Bifidobacterium dentium
JCVIHMP022]
gi|308221946|gb|EFO78231.1| RNA polymerase sigma factor RpoD [Bifidobacterium dentium
JCVIHMP022]
Length = 461
Score = 201 bits (511), Expect = 9e-49, Method: Compositional matrix adjust.
Identities = 87/237 (36%), Positives = 162/237 (68%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK + G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 211 RELKWAANDGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 270
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 271 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 330
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 331 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQE 390
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 391 QFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLR 447
>gi|325849230|ref|ZP_08170681.1| RNA polymerase sigma factor RpoD [Anaerococcus hydrogenalis
ACS-025-V-Sch4]
gi|325480230|gb|EGC83297.1| RNA polymerase sigma factor RpoD [Anaerococcus hydrogenalis
ACS-025-V-Sch4]
Length = 612
Score = 201 bits (511), Expect = 9e-49, Method: Compositional matrix adjust.
Identities = 99/275 (36%), Positives = 170/275 (61%), Gaps = 13/275 (4%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKS---ELHSGNSSREKLINANL 338
I+DL R EK K + F + G D+K + N +++KL NL
Sbjct: 336 IKDLERFEKTKELCKKIFEDQ----------GFDADDVKRLNRAIFDANRAKQKLAETNL 385
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIF 398
RLVV +AK+Y GRG+S DL+QEG+MGLMK+V+K+ G +F++YA WW+RQ I +AI
Sbjct: 386 RLVVSIAKKYVGRGMSFLDLIQEGNMGLMKAVDKYDYNRGFKFSTYATWWIRQAITRAIA 445
Query: 399 QHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMP 458
+RTIR+P ++ ++K++ +R +Q+ P E++A ++GI VEK++ + I + P
Sbjct: 446 DQARTIRIPVHMVETINKLVRIQRQLVQDLGRDPSNEEIAEQMGIEVEKVQEIRKIAQEP 505
Query: 459 LSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFG 518
+S++ P+ ++D+ + D PD + ++R + ++L+ L +E+ +++LRFG
Sbjct: 506 VSLETPIGEEEDSHLGDFIEDDTAINPDDAANYSMLRDQLNDVLSCLGAREKRVLQLRFG 565
Query: 519 IEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ DG P++L EVG F +++ER+RQ+E++AL +LK
Sbjct: 566 LIDGTPRTLEEVGKEFDVTRERIRQIEAKALRKLK 600
>gi|295394756|ref|ZP_06804971.1| DNA-directed RNA polymerase sigma subunit RpoD [Brevibacterium
mcbrellneri ATCC 49030]
gi|294972352|gb|EFG48212.1| DNA-directed RNA polymerase sigma subunit RpoD [Brevibacterium
mcbrellneri ATCC 49030]
Length = 473
Score = 201 bits (511), Expect = 9e-49, Method: Compositional matrix adjust.
Identities = 101/300 (33%), Positives = 180/300 (60%), Gaps = 15/300 (5%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAI-G 313
DP++ +L LL A EE +L +I+ + E L++ K
Sbjct: 175 DPVKDYLKQIGKVALLNAAEEVDLAKRIEAGMYAEH--------------LVDEGKVTDA 220
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
RD K +H G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 221 RDLRDYKWIIHDGRIAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKF 280
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 281 DYTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPT 340
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA+ + +T E++ + R P+S+ P+ D D+ F ++ D+ +P SV L
Sbjct: 341 PEELAKELDMTPERVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADSVSFTL 400
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 401 LQEQLHSVLDTLSEREAGVVSMRFGLNDGQPKTLDEIGKVYGVTRERIRQIESKTMAKLR 460
>gi|298253932|ref|ZP_06977519.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Gardnerella vaginalis 5-1]
gi|297532075|gb|EFH71050.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Gardnerella vaginalis 5-1]
Length = 489
Score = 201 bits (511), Expect = 9e-49, Method: Compositional matrix adjust.
Identities = 100/303 (33%), Positives = 188/303 (62%), Gaps = 20/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIR----LEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E +L +I+ + L+ + +++ + RE ++WA
Sbjct: 189 DPVKDYLKQIGRVSLLNAEQEVDLSERIEAGLYAQHLLDTQIDQMEFKRKRE---LKWAA 245
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
A G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 246 A-------------DGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 292
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 293 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 352
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 353 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVA 412
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ R +L L P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ +
Sbjct: 413 FSLLQEQFRQVLETLAPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 472
Query: 551 RLK 553
+L+
Sbjct: 473 KLR 475
>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 = 201 bits (511), Expect = 9e-49, Method: Compositional matrix adjust.
Identities = 116/331 (35%), Positives = 187/331 (56%), Gaps = 15/331 (4%)
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 KQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIR 405
K+Y GRG+ L DL+QEG++GL++++EKF G +F++YA WW+RQ I + + SRTIR
Sbjct: 116 KRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIR 175
Query: 406 LPENIYTLLSKVLEAKR-LYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQP 464
LP ++ ++K+ KR L+ Q G + D E LA GI EK+ L+ +R P+S+ P
Sbjct: 176 LPVHLVEQVNKLARIKRELHQQLGREATDDE-LANESGIPAEKIADLLDHSRDPVSLDMP 234
Query: 465 VWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKP 524
V +D++ + D + +V LM VR +L L+ +E+ ++R+R+G++DG+P
Sbjct: 235 VGSDEEAPLGDFIEDAEATSAESAVIAGLMHTDVRAVLATLDEREQQVIRMRYGLDDGQP 294
Query: 525 KSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
++L ++G +FGLS+ERVRQ+E + +L+Q
Sbjct: 295 RTLDQIGRMFGLSRERVRQIEREVMGKLRQG 325
>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 = 201 bits (511), Expect = 9e-49, Method: Compositional matrix adjust.
Identities = 109/302 (36%), Positives = 181/302 (59%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 127 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREAT 186
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI VEK+ L+ +R P+S+ PV D++ + D+ + +V +L
Sbjct: 187 DEELAEESGIPVEKINDLLEHSRDPVSLDMPVGTDEEAPLGDFIEDSEAMSAENAVISEL 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 247 LHTDIRHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 306
Query: 554 QS 555
Sbjct: 307 NG 308
>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 = 201 bits (511), Expect = 9e-49, Method: Compositional matrix adjust.
Identities = 111/311 (35%), Positives = 183/311 (58%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YAYWW+ Q + +AI Q SRTIRLP ++ L+K+ + +R Q+ N SP
Sbjct: 138 STRGYKFSTYAYWWISQGMTRAISQQSRTIRLPIHLTEKLNKLKKVQRELSQKLNRSPSM 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A ++ + ++ L+ I+R P+S+ + V ++DT QE+ + P+I V + LM
Sbjct: 198 FEIAEKMQLNPAQIRELLMISRQPVSLDKQVGDNEDTELQELLTEAPEASPEIQVTQNLM 257
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + L L P+++ ++ L +G+E +L++V +S+ RVR LE +AL L++
Sbjct: 258 RQDIYLSLRELTPQQQQVLILHYGLEHNCELTLTQVAQHLNISERRVRYLEKQALSYLRR 317
Query: 555 SLGGKASYGYA 565
Y ++
Sbjct: 318 CHTNLQEYIFS 328
>gi|269792833|ref|YP_003317737.1| RpoD subfamily RNA polymerase sigma-70 subunit [Thermanaerovibrio
acidaminovorans DSM 6589]
gi|269100468|gb|ACZ19455.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermanaerovibrio
acidaminovorans DSM 6589]
Length = 387
Score = 201 bits (511), Expect = 9e-49, Method: Compositional matrix adjust.
Identities = 96/263 (36%), Positives = 169/263 (64%), Gaps = 17/263 (6%)
Query: 298 QFGREPTL-----IEWAKAIGLSCRDLKSELHSGNS-SREKLINANLRLVVHVAKQYQGR 351
+ GR P L +E AK + +G+ ++EKL+ ANLRLVV +AK+Y GR
Sbjct: 124 EIGRIPLLSPEEEVELAKGV-----------EAGDKRAKEKLVEANLRLVVSIAKKYIGR 172
Query: 352 GISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIY 411
G+ DL+QEG++GL+++VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++
Sbjct: 173 GMLFLDLIQEGNLGLIRAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMV 232
Query: 412 TLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDT 471
++K++ R+ +Q P E++A+ +G+TV+++E + I + P+S++ P+ ++D+
Sbjct: 233 ETINKLIRISRVLVQRLGREPSAEEIAQEMGVTVDRVEEIQKIAQEPVSLETPIGEEEDS 292
Query: 472 TFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVG 531
+ D + PD + Q++R+ + +L L +E+ ++RLRFG+EDG +L EVG
Sbjct: 293 QLGDFLEDKDLPSPDEAAANQILREQLEEMLEDLTDREKEVLRLRFGLEDGHSHTLEEVG 352
Query: 532 NIFGLSKERVRQLESRALYRLKQ 554
FG+++ER+RQ+E++AL +L+
Sbjct: 353 RRFGVTRERIRQIEAKALRKLRH 375
>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 = 201 bits (511), Expect = 9e-49, Method: Compositional matrix adjust.
Identities = 111/288 (38%), Positives = 190/288 (65%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 197
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R+ Q+ +P++ +LA + IT E+
Sbjct: 198 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRILKQDLQRNPNERELAEALEITPEQ 257
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + +MRQ + +L+ +L
Sbjct: 258 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDDLQLPEDKMNEMMMRQEIFAVLSDVLT 317
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++++A+ +L++
Sbjct: 318 EREKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQTKAMRKLRR 365
>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 = 201 bits (511), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 108/301 (35%), Positives = 184/301 (61%), Gaps = 6/301 (1%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLE-AKRLYIQEGNHSP- 432
G +F++Y WW+RQ I +AI +SR +RLP +Y +S++ + K++ I+ SP
Sbjct: 307 HTKGYKFSTYGIWWIRQAITRAICDYSRIVRLPVYLYETISQIKKIVKQISIE---CSPL 363
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
E++A R+ +T EKL+ +I + LS+ P+ ++ ++E+ G E P V +
Sbjct: 364 TAEEVATRMEMTTEKLQFIIECAQETLSLDYPINKGENIIYKEMIKFNG-ETPTKYVFEN 422
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
+++ V ++L L +ER ++++RFG++DG+ K+L E+G+ F L++ER+RQ+E++AL +L
Sbjct: 423 CLQEDVESVLKTLTERERNVLQMRFGLDDGQEKTLKEIGDTFNLTRERIRQIEAKALRKL 482
Query: 553 K 553
+
Sbjct: 483 E 483
>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 = 201 bits (511), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 110/297 (37%), Positives = 187/297 (62%), Gaps = 1/297 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L ++ ++ L+ Q G + E A L+ + L+S L+ G
Sbjct: 101 LLKPDEEVELARRVRFLEEVKDLQAALEEQLGHSVSKSEVASKFDLNEKQLESRLYQGRV 160
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F++YAYWW
Sbjct: 161 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 220
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIRLP +I L+K+ +A+R Q+ +P + ++A + +TV++L
Sbjct: 221 IRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKFARNPTEVEMAEFLEMTVQQL 280
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNP 507
+L + R LS+ V ++DT ++ D + P+ + + +MRQ + +L +L P
Sbjct: 281 RQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNQSPEAKMNENMMRQEIWEVLGDVLTP 340
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ++S+A+ +L++ K G+
Sbjct: 341 REKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKGW 397
>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 = 201 bits (511), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 113/303 (37%), Positives = 185/303 (61%), Gaps = 17/303 (5%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR-LYIQEGNHSP 432
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR L+ Q G +
Sbjct: 130 DYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREAT 189
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
D E LA GI V+K+ L+ +R P+S+ PV D++ + D+ + +V
Sbjct: 190 DAE-LANESGIPVDKISDLLDHSRDPVSLDMPVGNDEEAPLGDFIEDSEATSAESAVIAG 248
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
L+ VR++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L
Sbjct: 249 LLHHDVRSVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMSKL 308
Query: 553 KQS 555
++
Sbjct: 309 RKG 311
>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 = 201 bits (511), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 109/311 (35%), Positives = 179/311 (57%), Gaps = 40/311 (12%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
VEKF G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R +
Sbjct: 231 GVEKFDYTKGFKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTLQL 290
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDIS 488
+ P +LA+ + +T EK+ ++ I R P S++ P+ + D+ + AD+ V P+ +
Sbjct: 291 GYEPSVSELAKALDMTDEKVMEIMQIAREPASLETPIGEEDDSNLGDFVADSNVVSPEGN 350
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E++A
Sbjct: 351 VESVMLREHIETLLADLKERERQVIVLRFGLEDGHPRTLEEVGREFKVTRERIRQIEAKA 410
Query: 549 LYRLKQSLGGK 559
L +L+ + K
Sbjct: 411 LRKLRNPIRSK 421
>gi|297617785|ref|YP_003702944.1| RpoD subfamily RNA polymerase sigma-70 subunit [Syntrophothermus
lipocalidus DSM 12680]
gi|297145622|gb|ADI02379.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Syntrophothermus
lipocalidus DSM 12680]
Length = 361
Score = 201 bits (511), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 102/306 (33%), Positives = 177/306 (57%), Gaps = 40/306 (13%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
EG + +DP+R++L LL+A+EE EL +I+
Sbjct: 84 EGVEIDDPVRMYLKEIGRVPLLSAEEEIELAKRIE------------------------- 118
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
+ ++ KL+ ANLRLVV +AK+Y GRG+ DL+QEG++GLMK
Sbjct: 119 ---------------NGDEDAKRKLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLMK 163
Query: 369 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K+ +R +Q+
Sbjct: 164 AVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLSRIQRALLQKL 223
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDIS 488
P ++A + I VE++ ++ + + P+S++ P+ + D+ + D E P+ S
Sbjct: 224 GREPTPAEVAEEMDIPVERVMEIMKVAQEPVSLETPIGEEDDSHLGDFITDEDAESPEES 283
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
L+R+H+ +L+ L +E ++RLRFG++DG+P++L EVG FG+++ER+RQ+E++A
Sbjct: 284 ASFVLLREHLDGILSTLTDREEKVLRLRFGLDDGRPRTLEEVGQEFGVTRERIRQIEAKA 343
Query: 549 LYRLKQ 554
L +L+
Sbjct: 344 LRKLRH 349
>gi|212697198|ref|ZP_03305326.1| hypothetical protein ANHYDRO_01765 [Anaerococcus hydrogenalis DSM
7454]
gi|212675973|gb|EEB35580.1| hypothetical protein ANHYDRO_01765 [Anaerococcus hydrogenalis DSM
7454]
Length = 617
Score = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 99/275 (36%), Positives = 170/275 (61%), Gaps = 13/275 (4%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKS---ELHSGNSSREKLINANL 338
I+DL R EK K + F + G D+K + N +++KL NL
Sbjct: 341 IKDLERFEKTKELCKKIFEDQ----------GFDADDVKRLNRAIFDANRAKQKLAETNL 390
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIF 398
RLVV +AK+Y GRG+S DL+QEG+MGLMK+V+K+ G +F++YA WW+RQ I +AI
Sbjct: 391 RLVVSIAKKYVGRGMSFLDLIQEGNMGLMKAVDKYDYNRGFKFSTYATWWIRQAITRAIA 450
Query: 399 QHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMP 458
+RTIR+P ++ ++K++ +R +Q+ P E++A ++GI VEK++ + I + P
Sbjct: 451 DQARTIRIPVHMVETINKLVRIQRQLVQDLGRDPSNEEIAEQMGIEVEKVQEIRKIAQEP 510
Query: 459 LSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFG 518
+S++ P+ ++D+ + D PD + ++R + ++L+ L +E+ +++LRFG
Sbjct: 511 VSLETPIGEEEDSHLGDFIEDDTAINPDDAANYSMLRDQLNDVLSCLGAREKRVLQLRFG 570
Query: 519 IEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ DG P++L EVG F +++ER+RQ+E++AL +LK
Sbjct: 571 LIDGTPRTLEEVGKEFDVTRERIRQIEAKALRKLK 605
>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 = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 110/302 (36%), Positives = 181/302 (59%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 127 DYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREAT 186
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI VEK+ L+ +R P+S+ PV +D++ + D + +V +L
Sbjct: 187 DEELAEESGIPVEKINDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISEL 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R +L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 247 LHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 306
Query: 554 QS 555
Sbjct: 307 NG 308
>gi|306822519|ref|ZP_07455897.1| DNA-directed RNA polymerase sigma subunit RpoD [Bifidobacterium
dentium ATCC 27679]
gi|304554064|gb|EFM41973.1| DNA-directed RNA polymerase sigma subunit RpoD [Bifidobacterium
dentium ATCC 27679]
Length = 472
Score = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 87/237 (36%), Positives = 162/237 (68%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK + G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 222 RELKWAANDGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 281
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 282 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 341
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 342 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQE 401
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 402 QFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLR 458
>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 = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 110/285 (38%), Positives = 173/285 (60%), Gaps = 13/285 (4%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTA+EE EL +I+ R ++ + +L ++ + G R+L+ E+ GN
Sbjct: 62 LLTANEEVELSERIE---RGDEAEERLATE----------DQLSGTQRRNLEHEVERGND 108
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
+R LI ANLRLVV +AK+Y GRG+SL DL+QEG++GLM++VEKF + G RF++YA WW
Sbjct: 109 ARRHLIQANLRLVVSIAKKYVGRGLSLLDLIQEGNIGLMRAVEKFDHRKGNRFSTYATWW 168
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ + ++I + RTIRLP ++ +S+V Q P E++A +G E++
Sbjct: 169 IRQAVTRSIAEQGRTIRLPVHMSESVSQVKRTSERLSQSLERQPSAEEIAIALGQPTERI 228
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
ER++ R P+S++ PV + + T + D + P QL+RQ + L LN +
Sbjct: 229 ERVLEAARRPVSLETPVGDEGEHTLGDFLPDDDLPTPGDFASAQLLRQDLCAALDHLNER 288
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
ER I+ LR+G+ DG+ ++L EVG G+++ER RQ+E+ AL RL+
Sbjct: 289 ERRIIDLRYGLLDGRRRTLEEVGRTLGMTRERARQIEAEALRRLR 333
>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 = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 103/305 (33%), Positives = 189/305 (61%), Gaps = 2/305 (0%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +QE
Sbjct: 237 AVEKFDYKKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEL 296
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDIS 488
P E++A+ + + VE++ ++ I++ P+S++ P+ ++D+ + D V +P +
Sbjct: 297 GREPSPEEIAKEMNMPVERVREILKISQEPVSLETPIGEEEDSHLGDFIKDDNVPVPADA 356
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
L+++ + +L L +E+ ++ LRFG+EDG+ ++L EVG F +++ER+RQ+E++A
Sbjct: 357 AAFTLLKEQLEEVLGTLTEREQKVLTLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKA 416
Query: 549 LYRLK 553
L +L+
Sbjct: 417 LRKLR 421
>gi|359689819|ref|ZP_09259820.1| RNA polymerase sigma-70 factor [Leptospira licerasiae serovar
Varillal str. MMD0835]
gi|418748064|ref|ZP_13304356.1| RNA polymerase sigma factor RpoD [Leptospira licerasiae str.
MMD4847]
gi|418757607|ref|ZP_13313794.1| RNA polymerase sigma factor RpoD [Leptospira licerasiae serovar
Varillal str. VAR 010]
gi|384115384|gb|EIE01642.1| RNA polymerase sigma factor RpoD [Leptospira licerasiae serovar
Varillal str. VAR 010]
gi|404275133|gb|EJZ42447.1| RNA polymerase sigma factor RpoD [Leptospira licerasiae str.
MMD4847]
Length = 588
Score = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 102/286 (35%), Positives = 179/286 (62%), Gaps = 8/286 (2%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLI-EWAKAIGLSCRDLKSELHSGNSSREKLINANLRL 340
I+D+ E++ +++ + G I +W + I +K E + +E L+ ANLRL
Sbjct: 310 IKDIRNNERKLRRMEQEAGSSVQEIKDWGEKI------IKGEREIAQAKKE-LVKANLRL 362
Query: 341 VVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 400
VV +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +F++YA WW+RQ I +AI
Sbjct: 363 VVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQ 422
Query: 401 SRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLS 460
+RTIR+P ++ ++KV+ RL++QE P E++A R+G V+K++ + + R P+S
Sbjct: 423 ARTIRVPVHMIEQVNKVIRETRLFVQEFGRDPSNEEIAERLGWPVQKVKAVKNVAREPIS 482
Query: 461 MQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIE 520
++ PV +++D+ + D VE P S ++ + +R +L L +E+ ++R+RFG++
Sbjct: 483 LEIPVGSEEDSELGDFIEDKDVESPVNSAASSILAEQIRQVLHTLPAREQKVIRMRFGLD 542
Query: 521 DGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
DG P++L EVG F +++ER+RQ+E++AL RL+ K Y D
Sbjct: 543 DGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLRDYID 588
>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 = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 106/288 (36%), Positives = 187/288 (64%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 135 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 194
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP ++ L+K+ +A+R+ Q+ +P++++LA + ++ +
Sbjct: 195 WIRQAITRTIANDARTIRLPIHVVEKLNKLKKAQRVLKQKLQRNPNEKELADELEVSPSQ 254
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + ++R V +L+ +L
Sbjct: 255 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDQDLQLPEELMNEGMLRYEVSAVLSDVLT 314
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG IF LS+ERVRQ++S+A+ +L++
Sbjct: 315 QREKDVISLRYGLCTSQPHTLEEVGGIFNLSRERVRQIQSKAMRKLRR 362
>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 = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 103/305 (33%), Positives = 189/305 (61%), Gaps = 2/305 (0%)
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 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +QE
Sbjct: 221 AVEKFDYKKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQEL 280
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDIS 488
P E++A+ + + VE++ ++ I++ P+S++ P+ ++D+ + D V +P +
Sbjct: 281 GREPSPEEIAKEMNMPVERVREILKISQEPVSLETPIGEEEDSHLGDFIKDDNVPVPADA 340
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
L+++ + +L L +E+ ++ LRFG+EDG+ ++L EVG F +++ER+RQ+E++A
Sbjct: 341 AAFTLLKEQLEEVLGTLTEREQKVLTLRFGLEDGRARTLEEVGKEFNVTRERIRQIEAKA 400
Query: 549 LYRLK 553
L +L+
Sbjct: 401 LRKLR 405
>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 = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 116/331 (35%), Positives = 187/331 (56%), Gaps = 15/331 (4%)
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 KQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIR 405
K+Y GRG+ L DL+QEG++GL++++EKF G +F++YA WW+RQ I + + SRTIR
Sbjct: 116 KRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIR 175
Query: 406 LPENIYTLLSKVLEAKR-LYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQP 464
LP ++ ++K+ KR L+ Q G + D E LA GI EK+ L+ +R P+S+ P
Sbjct: 176 LPVHLVEQVNKLARIKRELHQQLGREATDDE-LANESGIPAEKIADLLDHSRDPVSLDMP 234
Query: 465 VWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKP 524
V +D++ + D + +V LM VR +L L+ +E+ ++R+R+G++DG+P
Sbjct: 235 VGSDEEAPLGDFIEDAEATSAESAVIAGLMHTDVRAVLATLDEREQQVIRMRYGLDDGQP 294
Query: 525 KSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
++L ++G +FGLS+ERVRQ+E + +L+Q
Sbjct: 295 RTLDQIGRMFGLSRERVRQIEREVMGKLRQG 325
>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 = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 110/288 (38%), Positives = 190/288 (65%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 197
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R+ Q+ +P++ +LA + +T E+
Sbjct: 198 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRILKQDLQRNPNERELAEALEMTPEQ 257
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + +MRQ + +L+ +L
Sbjct: 258 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDDLQLPEDKMNEMMMRQEIFAVLSDVLT 317
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++++A+ +L++
Sbjct: 318 EREKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQTKAMRKLRR 365
>gi|386840029|ref|YP_006245087.1| RNA polymerase sigma factor [Streptomyces hygroscopicus subsp.
jinggangensis 5008]
gi|374100330|gb|AEY89214.1| RNA polymerase sigma factor [Streptomyces hygroscopicus subsp.
jinggangensis 5008]
gi|451793323|gb|AGF63372.1| RNA polymerase sigma factor [Streptomyces hygroscopicus subsp.
jinggangensis TL01]
Length = 374
Score = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 105/299 (35%), Positives = 181/299 (60%), Gaps = 15/299 (5%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTL-IEWAKAIGLSCRDLKSELHSGN 327
LLTA EE EL +++ + E+ + G P L E A+ DL + G
Sbjct: 90 LLTAAEEVELARRVEAGLFAEE-------KLGTTPDLDSELAQ-------DLDRLVVMGR 135
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA W
Sbjct: 136 MAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATW 195
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++ + + E+
Sbjct: 196 WIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTAEEVGAHLDLPPER 255
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNP 507
+ ++ + + P+S+ PV + D ++ D P S L+R+H+ +L+ L
Sbjct: 256 VGEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDATSPVESAAFLLLREHLEAVLSTLGE 315
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
+ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+ GY D
Sbjct: 316 RERKVVQLRYGLVDGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 374
>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 = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 104/315 (33%), Positives = 187/315 (59%), Gaps = 20/315 (6%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I +++ +RTIR+P ++ ++++++ +R + E
Sbjct: 189 VEKFDYAKGFKFSTYATWWIRQAISRSLADQARTIRIPVHLVEIINRLVRVQRQLVSELG 248
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E+LA + +T +++ ++ I+R P+S+ P+ D F ++ D+ +P +
Sbjct: 249 RDPSPEELAAEMDLTPQRVREILMISREPVSLDTPIGEDASAHFGDLIEDSDAVVPFEAA 308
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
L ++ + +L L +ER +VRLR+G+ DG+P++L EVG+ FG+++ER+RQ+ES+AL
Sbjct: 309 TVGLFQEQLDAVLRTLPDRERQVVRLRYGLTDGRPRTLEEVGHEFGVTRERIRQIESKAL 368
Query: 550 YRLKQSLGGKASYGY 564
+L+ + +GY
Sbjct: 369 AKLRHPSRSEKLHGY 383
>gi|225163701|ref|ZP_03726004.1| RNA polymerase, sigma 70 subunit, RpoD family [Diplosphaera
colitermitum TAV2]
gi|224801692|gb|EEG19985.1| RNA polymerase, sigma 70 subunit, RpoD family [Diplosphaera
colitermitum TAV2]
Length = 631
Score = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 94/261 (36%), Positives = 168/261 (64%), Gaps = 1/261 (0%)
Query: 306 IEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMG 365
IE A+ I + R + + ++ +++ ANLRLV+ +AK+Y RG+S DL+QEG+MG
Sbjct: 310 IEPAQLIEV-VRKTNVHIREAHQAKTEMVEANLRLVISIAKKYTNRGLSFLDLIQEGNMG 368
Query: 366 LMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYI 425
LMK+VEKF+ + G +F++YA WW+RQ I ++I +RTIR+P ++ L+KV++ ++ +
Sbjct: 369 LMKAVEKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETLNKVMQVQKQLL 428
Query: 426 QEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIP 485
QE H P E++A + + VE++++++ + + P+S+Q PV DT+F + D E P
Sbjct: 429 QEFGHEPTPEEVADEMNLPVERVQQIMKMAQQPISLQSPVGDGDDTSFGDFIEDKSAENP 488
Query: 486 DISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 545
L+R+ + ++L L +ER ++ LRFG+ DG ++L EVG F +++ER+RQ+E
Sbjct: 489 YDMTAYSLLREKIIDVLDSLTERERKVLSLRFGLVDGYSRTLEEVGKQFKVTRERIRQIE 548
Query: 546 SRALYRLKQSLGGKASYGYAD 566
++AL +++ + +G+ D
Sbjct: 549 AKALRKMRHPTRIRQLHGFFD 569
>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 = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 92/249 (36%), Positives = 161/249 (64%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 166 DLDRLVVLGRVAKRRLIEANLRLVVSVAKRYIGRGLTMLDLVQEGNLGLIRAVEKFDYAR 225
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++
Sbjct: 226 GYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEV 285
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A + + E++ ++ + + P+S+ PV + D ++ D P S L+R+H
Sbjct: 286 AAHLDLLPERVSEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 345
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 557
+ +L+ L +ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+
Sbjct: 346 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 405
Query: 558 GKASYGYAD 566
GY D
Sbjct: 406 ADQLRGYLD 414
>gi|403713571|ref|ZP_10939671.1| RNA polymerase principal sigma factor HrdB [Kineosphaera limosa
NBRC 100340]
gi|403212335|dbj|GAB94354.1| RNA polymerase principal sigma factor HrdB [Kineosphaera limosa
NBRC 100340]
Length = 633
Score = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 104/299 (34%), Positives = 183/299 (61%), Gaps = 13/299 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E EL +I+ + E+ KL S EP L
Sbjct: 335 DPVKDYLKQIGKVALLNAEQEVELAKRIEAGLFAEE---KLNSGEEVEPQL--------- 382
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDL G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 383 -KRDLWWIAQDGKNAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 441
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 442 YTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 501
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L+
Sbjct: 502 EELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLL 561
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 562 QEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLR 620
>gi|229817449|ref|ZP_04447731.1| hypothetical protein BIFANG_02712 [Bifidobacterium angulatum DSM
20098 = JCM 7096]
gi|229785238|gb|EEP21352.1| hypothetical protein BIFANG_02712 [Bifidobacterium angulatum DSM
20098 = JCM 7096]
Length = 482
Score = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 87/237 (36%), Positives = 161/237 (67%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK + G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 232 RELKWAANDGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 291
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 292 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 351
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L++
Sbjct: 352 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQD 411
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 412 QFKQVLETLSPRESGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLR 468
>gi|415726886|ref|ZP_11471114.1| RNA polymerase sigma factor [Gardnerella vaginalis 00703Dmash]
gi|388062615|gb|EIK85220.1| RNA polymerase sigma factor [Gardnerella vaginalis 00703Dmash]
Length = 501
Score = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 88/237 (37%), Positives = 160/237 (67%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 251 RELKWAAADGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 310
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 311 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 370
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 371 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQE 430
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R +L L P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 431 QFRQVLETLAPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLR 487
>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 = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 100/300 (33%), Positives = 184/300 (61%), Gaps = 12/300 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+ P
Sbjct: 200 DYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPS 259
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++A+ + +T +K+ ++ +++ P+S++ P+ ++D+ + D +P + L
Sbjct: 260 PEEIAKEMDLTPDKVREILKVSQEPVSLETPIGEEEDSHLGDFIEDCDAVVPVDAASFIL 319
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + ++L L+ +E+ +++LRFG+ DG P++L EVG FG+++ER+RQ+ES+ L +L+
Sbjct: 320 LQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKLR 379
>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 = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 101/251 (40%), Positives = 167/251 (66%), Gaps = 9/251 (3%)
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
WA + L +++++ L +G ++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL
Sbjct: 136 WAACVDLDIKEIEAVLKAGAKAKEHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLE 195
Query: 368 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
++V+KF P G RF++YAYWW+RQ I +AI SRTIRLP ++ L+K+ +A+R Q
Sbjct: 196 RAVDKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHVTEKLNKIKKAQRQISQT 255
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDI 487
+P ED+A+ + +T ++ ++ +S++ V D+DT ++ +E D
Sbjct: 256 QGCTPSLEDVAKVLNMTAAQVREVLQKVPRSVSLEIRVGQDRDTELGDL-----LETKDA 310
Query: 488 SVQKQLMRQ----HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 543
S ++ L+R+ +RNLL L +E+ +++LR+G++DGK SL+E+G + LS+ERVRQ
Sbjct: 311 SPEENLVRESLQRDLRNLLAELTDREQEVIQLRYGLDDGKTHSLAEIGRVLELSRERVRQ 370
Query: 544 LESRALYRLKQ 554
+E++AL +L+Q
Sbjct: 371 IEAKALQKLRQ 381
>gi|398347296|ref|ZP_10531999.1| RNA polymerase sigma-70 factor [Leptospira broomii str. 5399]
Length = 589
Score = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 102/286 (35%), Positives = 179/286 (62%), Gaps = 8/286 (2%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLI-EWAKAIGLSCRDLKSELHSGNSSREKLINANLRL 340
I+D+ E++ +++ + G I +W + I +K E + +E L+ ANLRL
Sbjct: 311 IKDIRNNERKLRRMEQEAGSSVQEIKDWGEKI------IKGEREIAQAKKE-LVKANLRL 363
Query: 341 VVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 400
VV +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +F++YA WW+RQ I +AI
Sbjct: 364 VVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQ 423
Query: 401 SRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLS 460
+RTIR+P ++ ++KV+ RL++QE P E++A R+G V+K++ + + R P+S
Sbjct: 424 ARTIRVPVHMIEQVNKVIRETRLFVQEFGRDPSNEEIAERLGWPVQKVKAVKNVAREPIS 483
Query: 461 MQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIE 520
++ PV +++D+ + D VE P S ++ + +R +L L +E+ ++R+RFG++
Sbjct: 484 LEIPVGSEEDSELGDFIEDKDVESPVNSAASSILAEQIRQVLHTLPAREQKVIRMRFGLD 543
Query: 521 DGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
DG P++L EVG F +++ER+RQ+E++AL RL+ K Y D
Sbjct: 544 DGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLRDYID 589
>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 = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 100/301 (33%), Positives = 184/301 (61%), Gaps = 12/301 (3%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+ P
Sbjct: 217 DYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPS 276
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++A+ + +T +K+ ++ +++ P+S++ P+ ++D+ + D +P + L
Sbjct: 277 PEEIAKEMDLTPDKVREILKVSQEPVSLETPIGEEEDSHLGDFIEDCDAVVPVDAASFIL 336
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + ++L L+ +E+ +++LRFG+ DG P++L EVG FG+++ER+RQ+ES+ L +L+
Sbjct: 337 LQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKLR 396
Query: 554 Q 554
Sbjct: 397 H 397
>gi|398345316|ref|ZP_10530019.1| RNA polymerase sigma-70 factor [Leptospira inadai serovar Lyme str.
10]
Length = 589
Score = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 102/286 (35%), Positives = 179/286 (62%), Gaps = 8/286 (2%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLI-EWAKAIGLSCRDLKSELHSGNSSREKLINANLRL 340
I+D+ E++ +++ + G I +W + I +K E + +E L+ ANLRL
Sbjct: 311 IKDIRNNERKLRRMEQEAGSSVQEIKDWGEKI------IKGEREIAQAKKE-LVKANLRL 363
Query: 341 VVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 400
VV +AK+Y RG+ DL+QEG++GL+K+V+KF+ + G +F++YA WW+RQ I +AI
Sbjct: 364 VVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWIRQAITRAISDQ 423
Query: 401 SRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLS 460
+RTIR+P ++ ++KV+ RL++QE P E++A R+G V+K++ + + R P+S
Sbjct: 424 ARTIRVPVHMIEQVNKVIRETRLFVQEFGRDPSNEEIAERLGWPVQKVKAVKNVAREPIS 483
Query: 461 MQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIE 520
++ PV +++D+ + D VE P S ++ + +R +L L +E+ ++R+RFG++
Sbjct: 484 LEIPVGSEEDSELGDFIEDKDVESPVNSAASSILAEQIRQVLHTLPAREQKVIRMRFGLD 543
Query: 521 DGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
DG P++L EVG F +++ER+RQ+E++AL RL+ K Y D
Sbjct: 544 DGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLRDYID 589
>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 = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 110/288 (38%), Positives = 190/288 (65%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 197
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R+ Q+ +P++ +LA+ + +T E+
Sbjct: 198 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRILKQDLQRNPNERELAQALEMTPEQ 257
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + +MRQ + +L+ +L
Sbjct: 258 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDDLQLPEDKMNEMMMRQEIFAVLSDVLT 317
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++++A+ +L++
Sbjct: 318 EREKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQTKAMRKLRR 365
>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 = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 100/300 (33%), Positives = 184/300 (61%), Gaps = 12/300 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+ P
Sbjct: 217 DYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPS 276
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++A+ + +T +K+ ++ +++ P+S++ P+ ++D+ + D +P + L
Sbjct: 277 PEEIAKEMDLTPDKVREILKVSQEPVSLETPIGEEEDSHLGDFIEDCDAVVPVDAASFIL 336
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + ++L L+ +E+ +++LRFG+ DG P++L EVG FG+++ER+RQ+ES+ L +L+
Sbjct: 337 LQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKLR 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 = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 100/300 (33%), Positives = 184/300 (61%), Gaps = 12/300 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+ P
Sbjct: 200 DYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPS 259
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++A+ + +T +K+ ++ +++ P+S++ P+ ++D+ + D +P + L
Sbjct: 260 PEEIAKEMDLTPDKVREILKVSQEPVSLETPIGEEEDSHLGDFIEDCDAVVPVDAASFIL 319
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + ++L L+ +E+ +++LRFG+ DG P++L EVG FG+++ER+RQ+ES+ L +L+
Sbjct: 320 LQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKLR 379
>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 = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 108/297 (36%), Positives = 190/297 (63%), Gaps = 1/297 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L + + ++ L+ + G+ T ++ A + ++ + L+S L+ G
Sbjct: 91 LLKPDEEVELARRVRFLEEVREVQAALELELGQPTTKVQVAGQLEMTEKQLESRLYQGRV 150
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F++YAYWW
Sbjct: 151 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 210
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIRLP +I L+K+ +A+R Q+ +P++ ++A + I+V++L
Sbjct: 211 IRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLCRNPNEAEMAEALEISVQQL 270
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNP 507
+L + R LS+ V ++DT ++ D P+ + + +MRQ + +L +L P
Sbjct: 271 RQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNLSPEAKMNENMMRQEIWEVLGDVLTP 330
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ++S+A+ +L++ K G+
Sbjct: 331 REKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKGW 387
>gi|261367093|ref|ZP_05979976.1| RNA polymerase sigma factor RpoD [Subdoligranulum variabile DSM
15176]
gi|282571217|gb|EFB76752.1| RNA polymerase sigma factor RpoD [Subdoligranulum variabile DSM
15176]
Length = 364
Score = 201 bits (510), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 92/257 (35%), Positives = 169/257 (65%), Gaps = 2/257 (0%)
Query: 298 QFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHD 357
+ GR P L+ + I L+ + +++ G ++++L ANLRLVV +AK+Y GRG+ D
Sbjct: 98 EIGRVP-LLTPEEEIDLALK-IQAGGPEGEKAKQRLSEANLRLVVSIAKRYVGRGMQFLD 155
Query: 358 LLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKV 417
L+QEG++GL+K+VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++KV
Sbjct: 156 LIQEGNLGLIKAVEKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKV 215
Query: 418 LEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEIT 477
+ + E H P E++A R+ ++V+K+ ++ + + P+S++ P+ ++D+ +
Sbjct: 216 KKVSSQLLHEYGHDPSAEEIAERLDMSVDKVREIMRVAQEPVSLETPIGEEEDSHLGDFI 275
Query: 478 ADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 537
D +P + + L+++ + ++L L P+E ++RLRFG+EDG+P++L EVG F ++
Sbjct: 276 PDDDAPVPAEAASQTLLKEQLADVLKTLTPREEKVLRLRFGLEDGRPRTLEEVGKEFNVT 335
Query: 538 KERVRQLESRALYRLKQ 554
+ER+RQ+E++AL +L+
Sbjct: 336 RERIRQIEAKALRKLRH 352
>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 = 200 bits (509), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 100/300 (33%), Positives = 184/300 (61%), Gaps = 12/300 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+ P
Sbjct: 217 DYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPS 276
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++A+ + +T +K+ ++ +++ P+S++ P+ ++D+ + D +P + L
Sbjct: 277 PEEIAKEMDLTPDKVREILKVSQEPVSLETPIGEEEDSHLGDFIEDCDAVVPVDAASFIL 336
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + ++L L+ +E+ +++LRFG+ DG P++L EVG FG+++ER+RQ+ES+ L +L+
Sbjct: 337 LQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKLR 396
>gi|294786990|ref|ZP_06752244.1| RNA polymerase sigma (70) factor RpoD [Parascardovia denticolens
F0305]
gi|294485823|gb|EFG33457.1| RNA polymerase sigma (70) factor RpoD [Parascardovia denticolens
F0305]
Length = 403
Score = 200 bits (509), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 87/238 (36%), Positives = 163/238 (68%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK + G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 152 RELKWAANDGRKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 211
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 212 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 271
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 272 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSEAVAFSLLQE 331
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ +L L+P+E ++++R+G+EDG+PK+L ++G+++G+++ER+RQ+ES+ + +L+
Sbjct: 332 QFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGHVYGVTRERIRQIESKTMSKLRH 389
>gi|374990114|ref|YP_004965609.1| RNA polymerase sigma factor [Streptomyces bingchenggensis BCW-1]
gi|297160766|gb|ADI10478.1| RNA polymerase sigma factor [Streptomyces bingchenggensis BCW-1]
Length = 453
Score = 200 bits (509), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 90/241 (37%), Positives = 158/241 (65%)
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA
Sbjct: 213 GRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 272
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++A + +
Sbjct: 273 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEVAHHLDLLP 332
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
E++ ++ + + P+S+ PV + D ++ D P S L+R+H+ +L+ L
Sbjct: 333 ERVSEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTL 392
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYA 565
+ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+ GY
Sbjct: 393 GERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYL 452
Query: 566 D 566
D
Sbjct: 453 D 453
>gi|415715691|ref|ZP_11466114.1| RNA polymerase sigma factor [Gardnerella vaginalis 1400E]
gi|388058138|gb|EIK80936.1| RNA polymerase sigma factor [Gardnerella vaginalis 1400E]
Length = 434
Score = 200 bits (509), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 88/237 (37%), Positives = 161/237 (67%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 184 RELKWAAADGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 243
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 244 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 303
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 304 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQE 363
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 364 QFRQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLR 420
>gi|415707695|ref|ZP_11462312.1| RNA polymerase sigma factor [Gardnerella vaginalis 0288E]
gi|415712116|ref|ZP_11464612.1| RNA polymerase sigma factor [Gardnerella vaginalis 55152]
gi|388053374|gb|EIK76363.1| RNA polymerase sigma factor [Gardnerella vaginalis 0288E]
gi|388057343|gb|EIK80175.1| RNA polymerase sigma factor [Gardnerella vaginalis 55152]
Length = 434
Score = 200 bits (509), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 88/237 (37%), Positives = 161/237 (67%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 184 RELKWAAADGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 243
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 244 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 303
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 304 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQE 363
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 364 QFRQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLR 420
>gi|308234847|ref|ZP_07665584.1| RNA polymerase sigma factor [Gardnerella vaginalis ATCC 14018 = JCM
11026]
gi|311114490|ref|YP_003985711.1| DNA-directed RNA polymerase sigma subunit RpoD [Gardnerella
vaginalis ATCC 14019]
gi|385801872|ref|YP_005838275.1| RNA polymerase sigma factor RpoD [Gardnerella vaginalis HMP9231]
gi|415702756|ref|ZP_11458902.1| RNA polymerase sigma factor [Gardnerella vaginalis 284V]
gi|415705487|ref|ZP_11460758.1| RNA polymerase sigma factor [Gardnerella vaginalis 75712]
gi|417556475|ref|ZP_12207534.1| RNA polymerase sigma factor RpoD [Gardnerella vaginalis 315-A]
gi|310945984|gb|ADP38688.1| DNA-directed RNA polymerase sigma subunit RpoD [Gardnerella
vaginalis ATCC 14019]
gi|333394129|gb|AEF32047.1| RNA polymerase sigma factor RpoD [Gardnerella vaginalis HMP9231]
gi|333602970|gb|EGL14395.1| RNA polymerase sigma factor RpoD [Gardnerella vaginalis 315-A]
gi|388052209|gb|EIK75233.1| RNA polymerase sigma factor [Gardnerella vaginalis 75712]
gi|388053302|gb|EIK76293.1| RNA polymerase sigma factor [Gardnerella vaginalis 284V]
Length = 434
Score = 200 bits (509), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 88/237 (37%), Positives = 161/237 (67%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 184 RELKWAAADGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 243
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 244 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 303
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 304 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQE 363
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 364 QFRQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLR 420
>gi|57864855|gb|AAW57030.1| putative group 2 RNA polymerase sigma factor [Cyanothece sp. ATCC
51142]
Length = 368
Score = 200 bits (509), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 106/288 (36%), Positives = 187/288 (64%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 129 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 188
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP ++ L+K+ +A+R+ Q+ +P++++LA + ++ +
Sbjct: 189 WIRQAITRTIANDARTIRLPIHVVEKLNKLKKAQRVLKQKLQRNPNEKELADELEVSPSQ 248
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + ++R V +L+ +L
Sbjct: 249 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDQDLQLPEELMNEGMLRYEVSAVLSDVLT 308
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG IF LS+ERVRQ++S+A+ +L++
Sbjct: 309 QREKDVISLRYGLCTSQPHTLEEVGGIFNLSRERVRQIQSKAMRKLRR 356
>gi|154488794|ref|ZP_02029643.1| hypothetical protein BIFADO_02101 [Bifidobacterium adolescentis
L2-32]
gi|154082931|gb|EDN81976.1| RNA polymerase sigma factor RpoD [Bifidobacterium adolescentis
L2-32]
Length = 478
Score = 200 bits (509), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 100/303 (33%), Positives = 188/303 (62%), Gaps = 20/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIR----LEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E +L +I+ + L+ E K+ + RE ++WA
Sbjct: 178 DPVKDYLKQIGRVNLLNAEQEVDLSERIEAGLYAQHLLDTESDKMDFKRRRE---LKWAA 234
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
+ G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 235 -------------NDGKRAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 281
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 282 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 341
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 342 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVA 401
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ +
Sbjct: 402 FSLLQEQFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 461
Query: 551 RLK 553
+L+
Sbjct: 462 KLR 464
>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 = 200 bits (509), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 115/329 (34%), Positives = 187/329 (56%), Gaps = 35/329 (10%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQ----DLIRLEK------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 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEG++GLM++ EKF G +F++YA WW+RQ I ++I HSRTIRLP ++ +++
Sbjct: 165 DLIQEGNIGLMRATEKFDYHKGFKFSTYATWWIRQAITRSISDHSRTIRLPVHVGETINR 224
Query: 417 VLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEI 476
V Q P E++ +G+ +K+ R++ + R P+S++ PV + D+ +
Sbjct: 225 VKRTAHKLQQALEREPSAEEIGEALGLPADKVRRVLEVARQPVSLETPVGNEGDSVLGDF 284
Query: 477 TADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 536
D P + L+R+ + +L L+ +ER I+ LR+G+ DGK ++L EVG FG+
Sbjct: 285 IEDDRSSEPLDHATEHLLREQLDEVLCKLDERERRIIELRYGLVDGKYRTLEEVGREFGI 344
Query: 537 SKERVRQLESRALYRLKQ-SLGGKASYGY 564
++ER+RQ+E++ L +L+ + GG+ Y
Sbjct: 345 TRERIRQIEAKVLRKLRHPAFGGRKLRAY 373
>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 = 200 bits (509), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 110/290 (37%), Positives = 171/290 (58%), Gaps = 23/290 (7%)
Query: 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN------------------- 327
RL + + +L+++ G P+L WA G+S DLK L +G
Sbjct: 108 RLMEVQERLKAELGHRPSLERWATTAGISLPDLKPTLANGKRRWAEIANLTVEELEQVQT 167
Query: 328 ---SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASY 384
++ +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++Y
Sbjct: 168 QGLQAKSHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTY 227
Query: 385 AYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGIT 444
AYWW+RQ I +AI SRTIRLP +I L+K+ +A+R QE +P EDL + +T
Sbjct: 228 AYWWIRQGITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLGIELDMT 287
Query: 445 VEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTL 504
++ ++ +S++ V D+DT E+ +T P+ + ++ + + + +LL
Sbjct: 288 PAQVREVLLRVPRSVSLETKVGKDKDTELGELL-ETDTITPEEMLMRESLHKDLHSLLDD 346
Query: 505 LNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
L +ER ++ +RFG+ DG SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 347 LTGRERDVILMRFGLSDGHAYSLAEIGRALDLSRERVRQIESKALQKLRQ 396
>gi|119026029|ref|YP_909874.1| RNA polymerase sigma factor [Bifidobacterium adolescentis ATCC
15703]
gi|118765613|dbj|BAF39792.1| RNA polymerase principal sigma factor; sigma 70 [Bifidobacterium
adolescentis ATCC 15703]
Length = 479
Score = 200 bits (509), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 100/303 (33%), Positives = 188/303 (62%), Gaps = 20/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIR----LEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E +L +I+ + L+ E K+ + RE ++WA
Sbjct: 179 DPVKDYLKQIGRVNLLNAEQEVDLSERIEAGLYAQHLLDTESDKMDFKRRRE---LKWAA 235
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
+ G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 236 -------------NDGKRAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 282
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF + G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 283 EKFDWKKGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGR 342
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P ++LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V
Sbjct: 343 EPTPDELARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVA 402
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ +
Sbjct: 403 FSLLQEQFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMS 462
Query: 551 RLK 553
+L+
Sbjct: 463 KLR 465
>gi|415722105|ref|ZP_11468993.1| RNA polymerase sigma factor [Gardnerella vaginalis 00703Bmash]
gi|388060269|gb|EIK82968.1| RNA polymerase sigma factor [Gardnerella vaginalis 00703Bmash]
Length = 434
Score = 200 bits (509), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 88/237 (37%), Positives = 160/237 (67%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 184 RELKWAAADGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 243
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 244 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 303
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 304 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQE 363
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R +L L P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 364 QFRQVLETLAPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLR 420
>gi|32476381|ref|NP_869375.1| RNA polymerase sigma factor rpoD [Rhodopirellula baltica SH 1]
gi|417304657|ref|ZP_12091667.1| RNA polymerase sigma factor rpoD [Rhodopirellula baltica WH47]
gi|421613991|ref|ZP_16055060.1| RNA polymerase sigma factor rpoD [Rhodopirellula baltica SH28]
gi|440714500|ref|ZP_20895079.1| RNA polymerase sigma factor rpoD [Rhodopirellula baltica SWK14]
gi|449132183|ref|ZP_21768338.1| RNA polymerase sigma factor rpoD [Rhodopirellula europaea 6C]
gi|32446926|emb|CAD78832.1| RNA polymerase sigma factor rpoD [Rhodopirellula baltica SH 1]
gi|327539012|gb|EGF25646.1| RNA polymerase sigma factor rpoD [Rhodopirellula baltica WH47]
gi|408495198|gb|EKJ99787.1| RNA polymerase sigma factor rpoD [Rhodopirellula baltica SH28]
gi|436440696|gb|ELP34000.1| RNA polymerase sigma factor rpoD [Rhodopirellula baltica SWK14]
gi|448888538|gb|EMB18853.1| RNA polymerase sigma factor rpoD [Rhodopirellula europaea 6C]
Length = 519
Score = 200 bits (509), Expect = 1e-48, Method: Compositional matrix adjust.
Identities = 103/301 (34%), Positives = 184/301 (61%), Gaps = 18/301 (5%)
Query: 279 IAQIQDLIRLEKEKSKLQSQFGRE--PTLIEWAKAIGLSCRDLKSELHSG---------- 326
+ +I +L+R +K +++ GRE L+ + I +C++ + L +
Sbjct: 224 LDEIDELVRQQK-----RTKHGREVREQLLHERRQILTACQETPTSLRNRVKMLGSVYSD 278
Query: 327 -NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
++ +L NLRLVV +AK+Y+ RG+S DL+QEG+ GLM++V+KF+ + G +F +YA
Sbjct: 279 YQQAKRELSEGNLRLVVSIAKKYRNRGLSFLDLIQEGNAGLMRAVDKFEYRRGFKFCTYA 338
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ I +A+ SRTIR+P ++ +S+V R +QE P E+ ARR +T+
Sbjct: 339 TWWIRQAITRAVADQSRTIRIPVHMVETMSRVRNVARQLLQELGREPSIEETARRADVTI 398
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
E+ R++ ++R P+S+ +PV +D+ F ++ D E P I ++++RQ + +L L
Sbjct: 399 EEARRVLTMSRFPISLDRPVGNSEDSQFGDLLPDGTAESPQIGATQEMLRQRITGVLKSL 458
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYA 565
+ +ER I++LR+G+ DG +L EVG+IF +++ER+RQ+E++A+ +L+Q + G+
Sbjct: 459 SYREREIIKLRYGLGDGYSYTLEEVGHIFKVTRERIRQIEAKAVRKLQQPSRSQDLVGFL 518
Query: 566 D 566
D
Sbjct: 519 D 519
>gi|415723156|ref|ZP_11469330.1| RNA polymerase sigma factor [Gardnerella vaginalis 00703C2mash]
gi|388063606|gb|EIK86175.1| RNA polymerase sigma factor [Gardnerella vaginalis 00703C2mash]
Length = 429
Score = 200 bits (509), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 88/237 (37%), Positives = 160/237 (67%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 179 RELKWAAADGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 238
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 239 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 298
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 299 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQE 358
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
R +L L P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 359 QFRQVLETLAPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLR 415
>gi|357399134|ref|YP_004911059.1| RNA polymerase principal sigma factor hrdA [Streptomyces cattleya
NRRL 8057 = DSM 46488]
gi|386355181|ref|YP_006053427.1| RNA polymerase sigma factor [Streptomyces cattleya NRRL 8057 = DSM
46488]
gi|337765543|emb|CCB74252.1| RNA polymerase principal sigma factor hrdA [Streptomyces cattleya
NRRL 8057 = DSM 46488]
gi|365805689|gb|AEW93905.1| RNA polymerase sigma factor [Streptomyces cattleya NRRL 8057 = DSM
46488]
Length = 393
Score = 200 bits (509), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 93/249 (37%), Positives = 163/249 (65%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 145 DLDRLVVLGRIAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 204
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P D+
Sbjct: 205 GYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRLLQERGYEPCAADV 264
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A ++ +T E++ ++ + + P+S+ PV + D ++ D P S L+R+H
Sbjct: 265 ADQLDLTEERVGEVLRLAQEPVSLHAPVGDEDDVALGDLIEDGDAASPVESAAFLLLREH 324
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 557
+ +L+ L +ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+
Sbjct: 325 LEAVLSTLGERERRVVQLRYGLLDGRPRTLEEIGRIFGVTRERIRQIESKTLGKLRDHAF 384
Query: 558 GKASYGYAD 566
+ GY D
Sbjct: 385 AEQLRGYLD 393
>gi|116491026|ref|YP_810570.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni PSU-1]
gi|290890507|ref|ZP_06553582.1| hypothetical protein AWRIB429_0972 [Oenococcus oeni AWRIB429]
gi|419758826|ref|ZP_14285138.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB304]
gi|419857734|ref|ZP_14380437.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB202]
gi|419859523|ref|ZP_14382177.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni DSM 20252 = AWRIB129]
gi|421185425|ref|ZP_15642836.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB318]
gi|421188904|ref|ZP_15646236.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB419]
gi|421193631|ref|ZP_15650877.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB553]
gi|421195329|ref|ZP_15652537.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB568]
gi|421197442|ref|ZP_15654617.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB576]
gi|116091751|gb|ABJ56905.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni PSU-1]
gi|290479903|gb|EFD88552.1| hypothetical protein AWRIB429_0972 [Oenococcus oeni AWRIB429]
gi|399904281|gb|EJN91737.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB304]
gi|399964237|gb|EJN98891.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB419]
gi|399964606|gb|EJN99247.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB318]
gi|399971790|gb|EJO06029.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB553]
gi|399975051|gb|EJO09119.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB576]
gi|399975754|gb|EJO09789.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB568]
gi|410496540|gb|EKP88023.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni DSM 20252 = AWRIB129]
gi|410497205|gb|EKP88680.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB202]
Length = 458
Score = 200 bits (509), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 105/304 (34%), Positives = 171/304 (56%), Gaps = 37/304 (12%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R IQ+
Sbjct: 261 VEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLG 320
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + +T +K+ + I + P+S++ P+ + D+ + D E P S
Sbjct: 321 RDPMPEEIGAEMELTADKVREIQKIAQEPVSLETPIGEENDSHLGDFIEDNEGESPIEST 380
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
Q+++ + +L L +E ++RLRFG+EDGK ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 381 SDQMLKDQLEEVLGTLTEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKAL 440
Query: 550 YRLK 553
+L+
Sbjct: 441 RKLR 444
>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 = 200 bits (509), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 110/288 (38%), Positives = 181/288 (62%), Gaps = 2/288 (0%)
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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYW
Sbjct: 85 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 144
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I +AI + SRTIRLP +I +L+K+ + +R QE +P +LA V + ++
Sbjct: 145 WIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPSVTELASFVELPEDE 204
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNP 507
++ L+ R P+S++ V DT ++ A G E+P V+ + ++ +R+LL L
Sbjct: 205 VKELMCRARQPVSLEMKVGDGDDTELLDLLAGDG-ELPSEQVEGECLKGDLRDLLGQLPE 263
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
+ ++R+R+G++ +P SL+ + +S++R R+LE L L+Q+
Sbjct: 264 LQERVLRMRYGMDGEEPMSLTGIAKTLKMSRDRTRRLEREGLQSLRQA 311
>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 = 200 bits (509), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 108/302 (35%), Positives = 182/302 (60%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 127 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQNLGREAT 186
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI ++K+ L+ +R P+S+ PV +D++ + D + +V +L
Sbjct: 187 DEELAEESGIPIDKINDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAASAENTVIAEL 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E+ +VRLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 247 LHTDIRSVLATLDEREQQVVRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 306
Query: 554 QS 555
Sbjct: 307 HG 308
>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 = 200 bits (509), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 110/288 (38%), Positives = 189/288 (65%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 197
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R+ Q+ +P++ +LA + +T E+
Sbjct: 198 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRILKQDLQRNPNERELAEALEMTPEQ 257
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + +MRQ + +L+ +L
Sbjct: 258 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDDLQLPEDKMNEMMMRQEIFAVLSDVLT 317
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++++A+ +L++
Sbjct: 318 EREKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQTKAMRKLRR 365
>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 = 200 bits (509), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 110/288 (38%), Positives = 189/288 (65%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 197
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R+ Q+ +P++ +LA + +T E+
Sbjct: 198 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRILKQDLQRNPNERELAEALEMTPEQ 257
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + +MRQ + +L+ +L
Sbjct: 258 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDDLQLPEDKMNEMMMRQEIFAVLSDVLT 317
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++++A+ +L++
Sbjct: 318 EREKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQTKAMRKLRR 365
>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 = 200 bits (509), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 109/302 (36%), Positives = 180/302 (59%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 127 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREAT 186
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI EK+ L+ +R P+S+ PV +D++ + D + +V +L
Sbjct: 187 DEELAEESGIPAEKIADLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISEL 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 247 LHTDIRHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 306
Query: 554 QS 555
Sbjct: 307 NG 308
>gi|47679387|gb|AAT36674.1| DNA-directed RNA polymerase sigma A subunit [Oenococcus oeni PSU-1]
Length = 465
Score = 200 bits (509), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 105/304 (34%), Positives = 171/304 (56%), Gaps = 37/304 (12%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL AD+E + R+EK S
Sbjct: 185 GVKINDPVRMYLKEIGRVSLLNADQEVAIAK------RIEKGGS---------------- 222
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
G +R++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 223 ---------------DGERARQELAEANLRLVVSIAKRYVGRGMHFLDLIQEGNMGLMKA 267
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R IQ+
Sbjct: 268 VEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLG 327
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + +T +K+ + I + P+S++ P+ + D+ + D E P S
Sbjct: 328 RDPMPEEIGAEMELTADKVREIQKIAQEPVSLETPIGEENDSHLGDFIEDNEGESPIEST 387
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
Q+++ + +L L +E ++RLRFG+EDGK ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 388 SDQMLKDQLEEVLGTLTEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKAL 447
Query: 550 YRLK 553
+L+
Sbjct: 448 RKLR 451
>gi|118586868|ref|ZP_01544302.1| DNA-directed RNA polymerase RpoD, sigma subunit, Sigma-42
[Oenococcus oeni ATCC BAA-1163]
gi|71466858|emb|CAH41003.1| rpoD protein [Oenococcus oeni]
gi|118432700|gb|EAV39432.1| DNA-directed RNA polymerase RpoD, sigma subunit, Sigma-42
[Oenococcus oeni ATCC BAA-1163]
Length = 458
Score = 200 bits (508), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 105/304 (34%), Positives = 171/304 (56%), Gaps = 37/304 (12%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R IQ+
Sbjct: 261 VEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLG 320
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + +T +K+ + I + P+S++ P+ + D+ + D E P S
Sbjct: 321 RDPMPEEIGAEMELTADKVREIQKIAQEPVSLETPIGEEDDSHLGDFIEDNEGESPIEST 380
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
Q+++ + +L L +E ++RLRFG+EDGK ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 381 SDQMLKDQLEEVLGTLTEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKAL 440
Query: 550 YRLK 553
+L+
Sbjct: 441 RKLR 444
>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 = 200 bits (508), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 109/302 (36%), Positives = 181/302 (59%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 127 DYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREAT 186
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI VEK+ L+ +R P+S+ PV +D++ + D + +V +L
Sbjct: 187 DEELAEESGIPVEKINDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISEL 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R +L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 247 LHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 306
Query: 554 QS 555
Sbjct: 307 NG 308
>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 = 200 bits (508), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 123/398 (30%), Positives = 218/398 (54%), Gaps = 39/398 (9%)
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 ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRK 395
ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF G +F++YA WW+RQ I +
Sbjct: 161 ANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQAITR 220
Query: 396 AIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFIT 455
AI SRTIR+P ++ ++K++ +R +QE P E++ ++G+T E++ + I+
Sbjct: 221 AIADQSRTIRIPVHMVETINKLVRIQRQLLQELGRDPSPEEIGEKMGLTAERVREIQKIS 280
Query: 456 RMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRL 515
+ P+S++ P+ ++D+ + D +P + ++++ + +L L +ER ++ L
Sbjct: 281 QEPVSLETPIGEEEDSQLGDFIEDDAAIVPPDAASFSMLQEQLSKVLDGLAERERKVISL 340
Query: 516 RFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
RFG+EDG P +L EVG FG+++ER+RQ+ES+ L +L+
Sbjct: 341 RFGLEDGHPHTLEEVGRQFGVTRERIRQIESKTLAKLR 378
>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 = 200 bits (508), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 111/286 (38%), Positives = 177/286 (61%), Gaps = 1/286 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT ++E Q+Q L L+ + L ++ REPT EWA+A G+S DL+ + G
Sbjct: 23 LLTHEQEILYGKQVQRLSGLQSIREGLVERWDREPTSTEWAEAAGVSEADLEQVIQEGEL 82
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ +++ ANLRLVV VAK+Y R + L DL+QEG++G+ + VEKF P G RF++YAYWW
Sbjct: 83 AKRRMVEANLRLVVSVAKKYIKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWW 142
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + RTIRLP +I L+K+ +A+R Q+ + +LA + +T +++
Sbjct: 143 IRQAITRAIAEKGRTIRLPIHITEKLNKIKKAQRQLSQKLGRAASAAELAEELDLTTKQV 202
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ R PLS+ V +QDT E+ DTG + + Q L R + L+ L P+
Sbjct: 203 RDYLEKARQPLSLDLRVGDNQDTELGELLEDTGPSPEEFTAQVAL-RMDLEELMADLTPQ 261
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+R ++ LRFG+ DG+ +L+++G+ +S+ERVRQ+E AL +L++
Sbjct: 262 QREVLSLRFGLRDGQAMTLAKIGDRLNISRERVRQIEREALTKLRK 307
>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 = 200 bits (508), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 101/301 (33%), Positives = 188/301 (62%), Gaps = 15/301 (4%)
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 FKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSP 432
F G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+ P
Sbjct: 199 FDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREP 258
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
E++ + + +T +K+ + +++ P+S++ P+ ++D+ + DT +P +
Sbjct: 259 TPEEIGKEMDLTPDKVREIQKVSQEPVSLETPIGEEEDSHLGDFIEDTDAVVPVDAASFL 318
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
L+++ + ++L L+ +E+ +++LRFG+ DG P++L EVG FG+++ER+RQ+ES+ L +L
Sbjct: 319 LLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKL 378
Query: 553 K 553
+
Sbjct: 379 R 379
>gi|297199501|ref|ZP_06916898.1| RNA polymerase sigma factor RpoS [Streptomyces sviceus ATCC 29083]
gi|297147415|gb|EDY56986.2| RNA polymerase sigma factor RpoS [Streptomyces sviceus ATCC 29083]
Length = 428
Score = 200 bits (508), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 108/326 (33%), Positives = 188/326 (57%), Gaps = 19/326 (5%)
Query: 244 KKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSK---LQSQFG 300
+ ++ G +D R +L LLTA EE EL +++ + E++ S L SQ
Sbjct: 119 RSRVDTGGPSSDLFRQYLREIGRIPLLTAVEEVELARRVEAGLFAEEKLSSTPDLDSQL- 177
Query: 301 REPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
DL + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+Q
Sbjct: 178 ---------------ALDLDRLVVLGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQ 222
Query: 361 EGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEA 420
EG++GL+++VEKF G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+
Sbjct: 223 EGNLGLIRAVEKFDYARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRV 282
Query: 421 KRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADT 480
+R +QE + P E++A + + E++ ++ + + P+S+ PV + D ++ D
Sbjct: 283 QRRMLQERGYEPTPEEVAAHLDLAPERVSEVLRLAQEPVSLHAPVGEEDDVALGDLIEDG 342
Query: 481 GVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKER 540
P S L+R+H+ +L+ L +ER +V+LR+G+ DG+ ++L E+G IFG+++ER
Sbjct: 343 DAASPVESAAFLLLREHLEAVLSTLGERERKVVQLRYGLADGRARTLEEIGRIFGVTRER 402
Query: 541 VRQLESRALYRLKQSLGGKASYGYAD 566
+RQ+ES+ L +L+ GY D
Sbjct: 403 IRQIESKTLNKLRDHAFADQLRGYLD 428
>gi|227495524|ref|ZP_03925840.1| sigma factor [Actinomyces coleocanis DSM 15436]
gi|226831071|gb|EEH63454.1| sigma factor [Actinomyces coleocanis DSM 15436]
Length = 505
Score = 200 bits (508), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 101/301 (33%), Positives = 185/301 (61%), Gaps = 12/301 (3%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP++ +L LLTA +E +L +I+ + E K++++ P+ +
Sbjct: 205 TDPVKDYLKQIGKVSLLTAADEVDLARRIEAGLYAE---HKIKTEGDELPSKLR------ 255
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
R+L+ +H G S+ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 256 ---RELQILVHDGQLSKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKF 312
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 313 DYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPT 372
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L
Sbjct: 373 PEELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPTDAVSFTL 432
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + +L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 433 LQEQLHKVLDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLR 492
Query: 554 Q 554
Sbjct: 493 H 493
>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 = 200 bits (508), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 110/288 (38%), Positives = 189/288 (65%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 197
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R+ Q+ +P++ +LA + T E+
Sbjct: 198 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRILKQDLQRNPNERELAEALETTPEQ 257
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + +MRQ + +L+ +L
Sbjct: 258 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDDLQLPEDKMNEMMMRQEIFAVLSDVLT 317
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++++A+ +L++
Sbjct: 318 EREKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQTKAMRKLRR 365
>gi|421186327|ref|ZP_15643720.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB418]
gi|399967280|gb|EJO01762.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Oenococcus oeni AWRIB418]
Length = 458
Score = 200 bits (508), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 105/304 (34%), Positives = 171/304 (56%), Gaps = 37/304 (12%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R IQ+
Sbjct: 261 VEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLG 320
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + +T +K+ + I + P+S++ P+ + D+ + D E P S
Sbjct: 321 RDPMPEEVGAEMELTADKVREIQKIAQEPVSLETPIGEEDDSHLGDFIEDNEGESPIEST 380
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
Q+++ + +L L +E ++RLRFG+EDGK ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 381 SDQMLKDQLEEVLGTLTEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKAL 440
Query: 550 YRLK 553
+L+
Sbjct: 441 RKLR 444
>gi|385815881|ref|YP_005852272.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp.
bulgaricus 2038]
gi|325125918|gb|ADY85248.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp.
bulgaricus 2038]
Length = 373
Score = 200 bits (508), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 106/317 (33%), Positives = 179/317 (56%), Gaps = 40/317 (12%)
Query: 237 NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ 296
N KA ++ + G NDP+R +L LL+ DEE +L
Sbjct: 84 NVEKAELEHLSAPGSRMNDPVRQYLKRIGRVSLLSGDEEVQL------------------ 125
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
AK IG ++ K EL NANLRLVV +AK+Y GRG+S
Sbjct: 126 ------------AKRIGAGDQEAKDEL----------TNANLRLVVSIAKRYVGRGMSFL 163
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEG+MGLMK+V+KF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K
Sbjct: 164 DLIQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINK 223
Query: 417 VLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEI 476
++ +R +Q+ P+ E++A + + V+K+ + + + P+S++ P+ + D+ +
Sbjct: 224 LIRIQRQLLQDLGRDPEPEEIAAEMDLPVKKVREALKVAQEPVSLETPIGEEDDSHLGDF 283
Query: 477 TADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 536
D P+ +++R + +L L +E ++RLRFG++DG P++L EVG +FG+
Sbjct: 284 IEDKDATSPEQHAASEMLRDQLAEVLDTLTDREENVLRLRFGLDDGNPRTLEEVGRVFGV 343
Query: 537 SKERVRQLESRALYRLK 553
++ER+RQ+E++AL +L+
Sbjct: 344 TRERIRQIEAKALRKLR 360
>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 = 200 bits (508), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 103/307 (33%), Positives = 183/307 (59%), Gaps = 23/307 (7%)
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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+++VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q
Sbjct: 209 IRAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQ 268
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E P E++ + +G+ E++ + I++ P+S++ P+ ++D+ + D +P
Sbjct: 269 ELGREPSPEEIGKEMGLPAERVREIQKISQEPVSLETPIGEEEDSQLGDFIEDDAAVVPP 328
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+ ++++ + +L L +ER ++ LRFG+EDG P++L EVG FG+++ER+RQ+ES
Sbjct: 329 DAASFSMLQEQLSKVLDGLAERERKVISLRFGLEDGHPRTLEEVGREFGVTRERIRQIES 388
Query: 547 RALYRLK 553
+ L +L+
Sbjct: 389 KTLAKLR 395
>gi|210620870|ref|ZP_03292287.1| hypothetical protein CLOHIR_00230 [Clostridium hiranonis DSM 13275]
gi|210155082|gb|EEA86088.1| hypothetical protein CLOHIR_00230 [Clostridium hiranonis DSM 13275]
Length = 388
Score = 200 bits (508), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 91/245 (37%), Positives = 162/245 (66%), Gaps = 1/245 (0%)
Query: 323 LHSGNS-SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRF 381
+H G+ ++++L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+K+VEKF + G +F
Sbjct: 144 MHEGDELAKQRLVEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVEKFDYEKGFKF 203
Query: 382 ASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRV 441
++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +QE E++A+ +
Sbjct: 204 STYATWWIRQAITRAIADQARTIRIPVHMVETINKLMRVSRQLLQELGRDAKPEEIAKEM 263
Query: 442 GITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNL 501
++VEK+ ++ I + P+S++ P+ ++D+ + D PDIS L+++ + +
Sbjct: 264 DLSVEKVREIMKIAQDPVSLETPIGEEEDSHLGDFIPDDDAPAPDISAAYSLLKEQIDEV 323
Query: 502 LTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKAS 561
L LN +E+ +++LRFG+EDG+ ++L EVG F +++ER+RQ+E++AL +L+ K
Sbjct: 324 LGSLNEREQKVLKLRFGLEDGRARTLEEVGKEFDVTRERIRQIEAKALRKLRHPSRSKKL 383
Query: 562 YGYAD 566
Y D
Sbjct: 384 RDYLD 388
>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 = 199 bits (507), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 110/288 (38%), Positives = 188/288 (65%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 197
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R+ Q+ +P++ +LA + T E+
Sbjct: 198 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRILKQDLQRNPNERELAEALETTPEQ 257
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + +MRQ + +L+ +L
Sbjct: 258 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDDLQLPEDKMNEMMMRQEIFAVLSDVLT 317
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++++A+ +L++
Sbjct: 318 EREKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQTKAMRKLRR 365
>gi|119961685|ref|YP_947521.1| RNA polymerase sigma (70) factor RpoD [Arthrobacter aurescens TC1]
gi|403526728|ref|YP_006661615.1| RNA polymerase principal sigma factor HrdB [Arthrobacter sp.
Rue61a]
gi|119948544|gb|ABM07455.1| RNA polymerase sigma (70) factor RpoD [Arthrobacter aurescens TC1]
gi|403229155|gb|AFR28577.1| RNA polymerase principal sigma factor HrdB [Arthrobacter sp.
Rue61a]
Length = 437
Score = 199 bits (507), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 105/315 (33%), Positives = 192/315 (60%), Gaps = 15/315 (4%)
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG 300
A V++ +S G DP++ +L LL A++E +L +I+ + E+ K+ + G
Sbjct: 125 APVQQVMSAGA-TADPVKDYLKQIGKVALLNAEQEVDLALRIEAGLFAEE---KINADDG 180
Query: 301 R-EPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLL 359
+P L R+L+ +H G ++ L+ ANLRLVV +AK+Y GRG+ DL+
Sbjct: 181 SMDPKL----------KRELEFVIHDGKRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLI 230
Query: 360 QEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLE 419
QEG++GL+++VEKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+
Sbjct: 231 QEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLAR 290
Query: 420 AKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITAD 479
+R +Q+ P E+LA + +T EK+ + R P+S+ P+ D D+ F ++ D
Sbjct: 291 VQRQMLQDLGREPTPEELALELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIED 350
Query: 480 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 539
+ +P +V L+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++E
Sbjct: 351 SEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTRE 410
Query: 540 RVRQLESRALYRLKQ 554
R+RQ+ES+ + +L+
Sbjct: 411 RIRQIESKTMSKLRH 425
>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 = 199 bits (507), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 109/302 (36%), Positives = 181/302 (59%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 137 DYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREAT 196
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI VEK+ L+ +R P+S+ PV +D++ + D + +V +L
Sbjct: 197 DEELAAESGIPVEKITDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISEL 256
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R +L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 257 LHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 316
Query: 554 QS 555
Sbjct: 317 NG 318
>gi|363420377|ref|ZP_09308469.1| RNA polymerase sigma factor SigB [Rhodococcus pyridinivorans AK37]
gi|359735619|gb|EHK84576.1| RNA polymerase sigma factor SigB [Rhodococcus pyridinivorans AK37]
Length = 320
Score = 199 bits (507), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 112/303 (36%), Positives = 185/303 (61%), Gaps = 17/303 (5%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA +E EL +I+ + L ++ L+E K +
Sbjct: 22 DLVRVYLNGIGRTALLTAADEVELAKRIE---------AGLYAKH-----LLETKKRLSA 67
Query: 315 SC-RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 68 AKKRDLAIIVREGQAARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 127
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR-LYIQEGNHSP 432
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR L+ Q G +
Sbjct: 128 DYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREAT 187
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
D E+LA GI VEK+ L+ +R P+S+ PV D++ + D + +V
Sbjct: 188 D-EELANESGIPVEKIADLLDHSRDPVSLDMPVGNDEEAPLGDFIEDAEATSAETAVIAG 246
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
L+ VR++L L+ +E+ ++RLR+G++DG+P++L ++G +FGLS+ERVRQ+E + +L
Sbjct: 247 LLHSDVRSVLATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMVKL 306
Query: 553 KQS 555
++
Sbjct: 307 REG 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 = 199 bits (507), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 118/345 (34%), Positives = 188/345 (54%), Gaps = 44/345 (12%)
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 REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWV 389
++ +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++YAYWW+
Sbjct: 223 KDHMIQANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTRGYRFSTYAYWWI 282
Query: 390 RQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLE 449
RQ I +AI SRTIRLP +I L+K+ +A+R QE + ED+A +G+T ++
Sbjct: 283 RQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTASIEDIAAELGMTAPQVR 342
Query: 450 RLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKE 509
++ +S++ V ++DT ++ D P+ + ++ + + ++ LL L +E
Sbjct: 343 EVLLRVPRSVSLETKVGNEKDTELGDLLDDADSVSPEELLMREALHRDLQQLLADLTSRE 402
Query: 510 RCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R ++ +RFG+ DG P SL+E+G LS+ERVRQ+E++AL +L+Q
Sbjct: 403 RDVILMRFGLGDGHPYSLAEIGRALDLSRERVRQIEAKALQKLRQ 447
>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 = 199 bits (507), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 110/288 (38%), Positives = 181/288 (62%), Gaps = 2/288 (0%)
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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYW
Sbjct: 82 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 141
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I +AI + SRTIRLP +I +L+K+ + +R QE +P +LA V + E+
Sbjct: 142 WIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPSVTELASFVELPEEE 201
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNP 507
++ L+ R P+S++ V DT E+ A G E+P V+ + ++ +R+LL+ L
Sbjct: 202 VKDLMCRARQPVSLEMKVGDGDDTELLELLAGDG-ELPSDQVEGECLKGDLRDLLSQLPE 260
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
+ ++R+R+G++ +P SL+ + +S++R R+LE L L++
Sbjct: 261 LQGKVLRMRYGMDGEEPMSLTGIAKSMKMSRDRTRRLEREGLEMLRRG 308
>gi|302560773|ref|ZP_07313115.1| RNA polymerase sigma (70) factor RpoD [Streptomyces griseoflavus
Tu4000]
gi|302478391|gb|EFL41484.1| RNA polymerase sigma (70) factor RpoD [Streptomyces griseoflavus
Tu4000]
Length = 404
Score = 199 bits (507), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 110/333 (33%), Positives = 193/333 (57%), Gaps = 13/333 (3%)
Query: 234 ETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKS 293
ET S + + + + G +D R +L LLTA EE EL +++ + +EK
Sbjct: 85 ETAGSAEPASRIRPETGGPSSDLFRQYLREIGRIPLLTAAEEVELARRVEAGL-FAEEKL 143
Query: 294 KLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGI 353
+L GL+ DL + G ++ +LI ANLRLVV VAK+Y GRG+
Sbjct: 144 RLTPDLDS-----------GLAL-DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGL 191
Query: 354 SLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTL 413
++ DL+QEG++GL+++VEKF G +F++YA WW+RQ + +A+ +RTIR+P ++ L
Sbjct: 192 TMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVEL 251
Query: 414 LSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
+++V+ +R +QE + P ++A + + E++ ++ + + P+S+ PV + D
Sbjct: 252 INRVVRVQRRMLQERGYEPTPGEVAAHLDLPPERVGEVLRLAQEPVSLHAPVGEEDDVAL 311
Query: 474 QEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 533
++ D P S L+R+H+ +L+ L +ER +V+LR+G+ DG+P++L E+G +
Sbjct: 312 GDLIEDGDAASPVESAAFLLLREHLEAVLSTLGERERKVVQLRYGLVDGRPRTLEEIGRL 371
Query: 534 FGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
FG+++ER+RQ+ES+ L +L+ GY D
Sbjct: 372 FGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 404
>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 = 199 bits (507), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 102/253 (40%), Positives = 165/253 (65%), Gaps = 9/253 (3%)
Query: 306 IEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMG 365
+ WAK GL+ ++L+ G +R ++I+ NLRLVV +AK+YQ RG+ L DL+QEG++G
Sbjct: 148 LRWAKLTGLNVKELEQIQTEGIEARHQMISTNLRLVVSIAKKYQNRGVELLDLIQEGTLG 207
Query: 366 LMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYI 425
L ++VEKF PQ G RF++YAYWW+RQ I +AI SRTIRLP ++ L+K+ + ++
Sbjct: 208 LERAVEKFDPQRGYRFSTYAYWWIRQGITRAIATQSRTIRLPIHVSEKLNKIKKVQQKIF 267
Query: 426 QEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIP 485
QE ++ E++AR + IT ++ ++ +S++ V D+DT E+ +E
Sbjct: 268 QEKGYTAKVEEIARELKITAAQVREVLVKIPHSVSLETKVGRDRDTELGEL-----LETK 322
Query: 486 DISVQKQLMR----QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 541
D S ++ L+R Q ++ LL L +ER ++ +R+G+EDG+ SLSE+ + LS+ERV
Sbjct: 323 DASPEEMLIRESLVQALKELLLDLTQRERYVITMRYGLEDGRACSLSEIASALKLSRERV 382
Query: 542 RQLESRALYRLKQ 554
RQ+E +AL++L+Q
Sbjct: 383 RQIEVKALHKLRQ 395
>gi|429205294|ref|ZP_19196571.1| RNA polymerase sigma factor RpoD [Lactobacillus saerimneri 30a]
gi|428146366|gb|EKW98605.1| RNA polymerase sigma factor RpoD [Lactobacillus saerimneri 30a]
Length = 371
Score = 199 bits (507), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 104/330 (31%), Positives = 185/330 (56%), Gaps = 42/330 (12%)
Query: 226 SKPQVTNHETYNSRKASVKKKLS--EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQ 283
+P + + ++ ++KK +S G NDP+R++L LLTAD+E EL +I+
Sbjct: 70 GEPSAHSLKVAKKQEETMKKDVSAPSGVKINDPVRMYLKEIGRVDLLTADQEVELALRIE 129
Query: 284 DLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVH 343
+ ++++L ANLRLVV
Sbjct: 130 E----------------------------------------GDEEAKQRLAEANLRLVVS 149
Query: 344 VAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 403
+AK+Y GRG+S DL+QEG+MGLMK+VEKF + G +F++YA WW+RQ I +AI +RT
Sbjct: 150 IAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQART 209
Query: 404 IRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQ 463
IR+P ++ ++K++ +R +Q+ P E++ + + EK+ ++ I + P+S++
Sbjct: 210 IRIPVHMVETINKLIRIQRQLLQDLGREPVPEEIGAEMNMPTEKVREILKIAQEPVSLET 269
Query: 464 PVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGK 523
P+ + D+ + D P +L+++ + N+L L +E ++RLRFG++DG+
Sbjct: 270 PIGEEDDSHLGDFIEDQDATSPADHAAYELLKEQLENVLDTLTDREENVLRLRFGLDDGR 329
Query: 524 PKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++L EVG +FG+++ER+RQ+E++AL +L+
Sbjct: 330 TRTLEEVGQVFGVTRERIRQIEAKALRKLR 359
>gi|6463980|dbj|BAA86957.1| group 2 sigma factor RpoD3 [Synechococcus sp. PCC 7942]
Length = 320
Score = 199 bits (507), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 117/304 (38%), Positives = 189/304 (62%), Gaps = 4/304 (1%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG-REPTLIEWAKAI 312
+D +R +L LLT +EE L ++Q ++L++ + LQS+ G R+P+ +EWA A
Sbjct: 9 SDLVRTYLREIGRVPLLTHEEEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLEWAAAA 68
Query: 313 GLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK 372
GLS +L+ + H G ++ K+I ANLRLVV VAK+Y R + L DL+QEG++G+ + VEK
Sbjct: 69 GLSIEELRQQQHLGEQAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQRGVEK 128
Query: 373 FKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSP 432
F P G RF++YAYWW+RQ I +AI + +RTIRLP +I L+K+ + +R Q+ + +
Sbjct: 129 FDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKMQRQLSQQLSTAT 188
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEIT-ADTGVEIPDISVQK 491
E LA + +T ++ + R PLS+ V +QDT ++ D + ++Q
Sbjct: 189 LPE-LAAALDLTPAQVRDYLEKARHPLSLDLRVGDNQDTELGDLLETDMQRRRKEFTLQA 247
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
MR+ + LL L ++R ++ LR+G+EDG+ +L+ +G+ +S+ERVRQLE AL+
Sbjct: 248 S-MRRDIDRLLDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLEREALHT 306
Query: 552 LKQS 555
L+Q+
Sbjct: 307 LRQA 310
>gi|87307035|ref|ZP_01089181.1| RNA polymerase sigma factor rpoD [Blastopirellula marina DSM 3645]
gi|87290408|gb|EAQ82296.1| RNA polymerase sigma factor rpoD [Blastopirellula marina DSM 3645]
Length = 519
Score = 199 bits (507), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 93/238 (39%), Positives = 157/238 (65%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ +L NLRLVV +AK+Y+ RG+S DL+QEG+ GLM++V+KF+ + G +F +YA WW
Sbjct: 282 AKRELSEGNLRLVVSIAKKYRNRGLSFLDLIQEGNAGLMRAVDKFEYRRGFKFCTYATWW 341
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +A+ SRTIR+P ++ +S+V R +QE P E+ ARR G TVE+
Sbjct: 342 IRQAITRAVADQSRTIRIPVHMVETMSRVRNVARQLLQEKGREPTLEETARRAGTTVEEA 401
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
R++ ++R P+S+ +PV +D+ F ++ D E P I ++++R + +L L+ +
Sbjct: 402 RRVLAMSRYPISLDRPVGNSEDSQFGDLLPDGEAESPAIGAAQEMLRTRISRVLKTLSYR 461
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
ER I++LR+G+ DG +L EVG+IF +++ER+RQ+E++A+ +L+Q + G+ D
Sbjct: 462 EREIIKLRYGLGDGYSYTLEEVGHIFKVTRERIRQIEAKAVRKLQQPSRSQELVGFLD 519
>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 = 199 bits (507), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 105/288 (36%), Positives = 189/288 (65%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 136 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 195
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R+ Q+ +P++++LA+ + +T +
Sbjct: 196 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRILKQKLQRNPNEKELAQELEMTPPQ 255
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + ++R + +L+ +L
Sbjct: 256 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDQDLQLPEEQMNEGMLRNEISAVLSDVLT 315
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++S+A+ +L++
Sbjct: 316 EREKDVISLRYGLSTSQPHTLEEVGGMFNLSRERVRQIQSKAMRKLRR 363
>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 = 199 bits (507), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 120/345 (34%), Positives = 190/345 (55%), Gaps = 45/345 (13%)
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 REKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWV 389
+E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++YAYWW+
Sbjct: 179 KEHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTKGYRFSTYAYWWI 238
Query: 390 RQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLE 449
RQ I +AI SRTIRLP +I L+K+ +A+R QE + +D+A + +T ++
Sbjct: 239 RQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQERGRTATIDDIAVELEMTAAQVR 298
Query: 450 RLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKE 509
++ +S++ V ++DT ++ +T P+ + ++ +++ ++ LL L +E
Sbjct: 299 EVLLRVPRSVSLEIKVGKERDTELGDLL-ETEETSPEEVLMREALQRDLQQLLADLTNRE 357
Query: 510 RCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R ++R+RFG+ D +P SL+E+G LS+ERVRQ+E++AL +L+Q
Sbjct: 358 RDVIRMRFGLGDNQPYSLAEIGRALDLSRERVRQIEAKALQKLRQ 402
>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 = 199 bits (507), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 107/297 (36%), Positives = 189/297 (63%), Gaps = 1/297 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L ++ + L+ + G++PT + A ++ + L++ L+ G
Sbjct: 90 LLKPDEEVELAKRVRFLEDVKDLQEALELELGQQPTKAQIADKFEITEKQLENRLYQGRV 149
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F++YAYWW
Sbjct: 150 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 209
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIRLP +I L+K+ +A+R Q+ + +P + ++A + ++V++L
Sbjct: 210 IRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKFSRNPSEAEIAEFLEMSVQQL 269
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNP 507
+L + R LS+ V ++DT ++ D P+ + + +MRQ + +L +L P
Sbjct: 270 RQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNLSPEAKMNENMMRQEIWEVLGDVLTP 329
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ++S+A+ +L++ K G+
Sbjct: 330 REKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKGW 386
>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 = 199 bits (506), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 109/302 (36%), Positives = 181/302 (59%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 127 DYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREAT 186
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI VEK+ L+ +R P+S+ PV +D++ + D + +V +L
Sbjct: 187 DEELAAESGIPVEKINDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISEL 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 247 LHTDIRHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 306
Query: 554 QS 555
Sbjct: 307 NG 308
>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 = 199 bits (506), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 105/288 (36%), Positives = 189/288 (65%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 136 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 195
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+R+ Q+ +P++++LA+ + +T +
Sbjct: 196 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRILKQKLQRNPNEKELAQELEMTPPQ 255
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + ++R + +L+ +L
Sbjct: 256 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDQDLQLPEEQMNEGMLRNEISAVLSDVLT 315
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++S+A+ +L++
Sbjct: 316 EREKDVISLRYGLSTSQPHTLEEVGGMFNLSRERVRQIQSKAMRKLRR 363
>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 = 199 bits (506), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 117/299 (39%), Positives = 176/299 (58%), Gaps = 31/299 (10%)
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 RFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLAR 439
RF++YAYWW+RQ I +AI SRTIRLP +I L+K+ + +R Q H+P E++A
Sbjct: 234 RFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKVQRQLSQTQGHTPTIEEIAA 293
Query: 440 RVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVR 499
+ +T ++ ++ +S++ V ++DT ++ +E DIS ++ LMR+ ++
Sbjct: 294 ALEMTPPQVREVLLRVPRSVSLEIKVGKEKDTELGDL-----LEAEDISPEELLMREALQ 348
Query: 500 ----NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
LL L +ER ++ +RFG+ DG SLSE+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 349 IELLKLLADLTSRERDVISMRFGMVDGNVYSLSEIGRALDLSRERVRQIESKALQKLRQ 407
>gi|134098366|ref|YP_001104027.1| RNA polymerase sigma factor SigB [Saccharopolyspora erythraea NRRL
2338]
gi|291006932|ref|ZP_06564905.1| RNA polymerase sigma factor SigB [Saccharopolyspora erythraea NRRL
2338]
gi|133910989|emb|CAM01102.1| RNA polymerase sigma factor [Saccharopolyspora erythraea NRRL 2338]
Length = 324
Score = 199 bits (506), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 112/327 (34%), Positives = 189/327 (57%), Gaps = 15/327 (4%)
Query: 230 VTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLE 289
+T +T S A+++ L D +R++L G LLTA EE +L +I+ +
Sbjct: 1 MTVPQTITSDAAAIEADLDTQGPSADLVRVYLNGIGRTALLTAQEEVDLAKRIEAGV--- 57
Query: 290 KEKSKLQSQFGREPTLIEWAKAIGLSCR-DLKSELHSGNSSREKLINANLRLVVHVAKQY 348
F ++E + + R DLK+ + G ++ L+ ANLRLVV +AK+Y
Sbjct: 58 ---------FANH--VLETSGKLSPERRSDLKAVVRDGVLAKNHLMEANLRLVVSLAKRY 106
Query: 349 QGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPE 408
GRG+ L DL+QEG++GL+++VEKF G +F++YA WW+RQ I + + SRTIRLP
Sbjct: 107 TGRGMPLLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPV 166
Query: 409 NIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWAD 468
++ ++K+ KR Q+ E+LA G+TVEK+ L+ +R P+S+ PV A+
Sbjct: 167 HLVEQVNKIARIKRDLHQKLGREATDEELANEAGLTVEKVADLLDHSRDPVSLDMPVGAE 226
Query: 469 QDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLS 528
+D + D + +V ++ +R +L+ L +E+ ++R+R+G++DG+P++L
Sbjct: 227 EDAPLGDFIEDAESADAENAVISGFLQDDLRRVLSTLEEREQAVIRMRYGLDDGQPRTLD 286
Query: 529 EVGNIFGLSKERVRQLESRALYRLKQS 555
++G FGLS+ERVRQ+E + +L+Q
Sbjct: 287 QIGKAFGLSRERVRQIEREVMSKLRQG 313
>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 = 199 bits (506), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 102/299 (34%), Positives = 184/299 (61%), Gaps = 13/299 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ + +AI RTIR+P ++ ++KV +R +Q+ P
Sbjct: 208 DYTKGYKFSTYATWWIRQAVTRAIADQGRTIRIPVHMVETINKVTRIQRQLLQDLGREPS 267
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++A +V + ++E ++ + + P++++ P+ +QD+ + D +P + L
Sbjct: 268 PEEIATQVDLAPHRVEEILKVGQTPVALETPIGEEQDSQLGDFIEDNDAIVPFEAASFVL 327
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
+++ + ++L L+ +E+ +++LRFG+ DG+P++L +VG FG+++ER+RQ+ESR L +L
Sbjct: 328 LQEQIDSVLHTLSEREKKVIQLRFGLTDGQPRTLEQVGREFGVTRERIRQIESRTLAKL 386
>gi|453051815|gb|EME99312.1| RNA polymerase sigma factor [Streptomyces mobaraensis NBRC 13819 =
DSM 40847]
Length = 379
Score = 199 bits (506), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 105/298 (35%), Positives = 183/298 (61%), Gaps = 13/298 (4%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTA EE EL +++ + E++ S +P L + A+ DL + G
Sbjct: 95 LLTAAEEVELARRVEAGLFAEEKLSN-------DPDL-DTCLAL-----DLDRLVVLGRM 141
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA WW
Sbjct: 142 AKRRLIEANLRLVVSVAKRYIGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWW 201
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE P E++A + ++ E++
Sbjct: 202 IRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGSEPTAEEVAAYLDLSEERV 261
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
++ + + P+S+ PV + D ++ D P S L+R+H+ +L+ L +
Sbjct: 262 SEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGER 321
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+ GY D
Sbjct: 322 ERKVVQLRYGLVDGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 379
>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 = 199 bits (506), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 114/315 (36%), Positives = 184/315 (58%), Gaps = 17/315 (5%)
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 KFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHS 431
KF G +F++YA WW+RQ I +AI SRTIRLP ++ +S+V Q
Sbjct: 197 KFDYTKGHKFSTYATWWIRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHKLQQSMQRE 256
Query: 432 PDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQK 491
P E++A +GI+ K+ R + + PLS++ PV + + + D + P +
Sbjct: 257 PTPEEIAEAMGISAGKVRRTLEASMHPLSLEMPVGQEGEGRMGDFIEDDRISTPSEAAAA 316
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
++R+ + +L L +ER I++LR+G++DG+ ++L EVG FG+++ER+RQ+E+ AL +
Sbjct: 317 AMLREQIEEVLQKLPERERKIIQLRYGLKDGRYRTLEEVGVEFGITRERIRQIEAVALRK 376
Query: 552 LKQSLGGKASYGYAD 566
L+ GK GY D
Sbjct: 377 LRHPHLGKKLRGYLD 391
>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 = 199 bits (506), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 112/288 (38%), Positives = 185/288 (64%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 124 VAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 183
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I SRTIRLP +I L+K+ +A+R Q +P + +LA +GI +
Sbjct: 184 WIRQAITRTIANDSRTIRLPIHIVEKLNKLKKAQRELKQSLQRNPTEVELAEEMGINEQA 243
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT E+ DT + +P+ + + +M Q + ++L+ +L+
Sbjct: 244 LHQLLQLKRQSLSLNHRVGKGEDTELLELLEDTNLLLPEEKMNEAMMHQEIVSVLSDVLS 303
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ KP +L EVG IF LS+ERVRQ++++A+ +L++
Sbjct: 304 EREKEVIILRYGLSSCKPHTLEEVGQIFDLSRERVRQIQTKAMRKLRR 351
>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 = 199 bits (506), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 112/287 (39%), Positives = 179/287 (62%), Gaps = 1/287 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++E++++ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYWW
Sbjct: 85 AKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 144
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + SRTIRLP +I +L+K+ + +R QE +P +LA V + E++
Sbjct: 145 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQEMGRTPTVSELAEFVELPEEEV 204
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ L+ R P+S++ V D D T E+P V+ M+ +R LL L
Sbjct: 205 KDLMCRARQPMSLEMKV-GDGDETELLELLAGEEELPSEKVEVDCMKGDLRTLLEKLPEL 263
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
+ ++R+R+GI+ G+P +L+ + G+S++R R+LE L ++ S
Sbjct: 264 QGRVLRMRYGIDGGEPMNLTGIAKTLGMSRDRTRRLEREGLALMRTS 310
>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 = 199 bits (506), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 106/320 (33%), Positives = 182/320 (56%), Gaps = 44/320 (13%)
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 LHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLL 414
DL+QEG+MGLMK+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ +
Sbjct: 163 FLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETI 222
Query: 415 SKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQ 474
+K++ +R +Q+ P E++ + + +K+ ++ I + P+S++ P+ + D+
Sbjct: 223 NKLIRIQRQMLQDLGREPVPEEIGAEMDMPTDKVREILKIAQEPVSLETPIGEEDDSHLG 282
Query: 475 EITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIF 534
+ D P +L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +F
Sbjct: 283 DFIEDHDATSPADHAAYELLKEQLESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVF 342
Query: 535 GLSKERVRQLESRALYRLKQ 554
G+++ER+RQ+E++AL +L+
Sbjct: 343 GVTRERIRQIEAKALRKLRH 362
>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 = 199 bits (506), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 112/303 (36%), Positives = 185/303 (61%), Gaps = 17/303 (5%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR-LYIQEGNHSP 432
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ +R L+ Q G +
Sbjct: 138 DYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIRRELHQQLGREAT 197
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
D E LA GI EK+ L+ +R P+S+ PV +D++ + D + +V
Sbjct: 198 DAE-LAAESGIPAEKIADLMDHSRDPVSLDMPVGSDEEAPLGDFIEDAEAASAESAVIST 256
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
LM VR++L L+ +E+ ++RLR+G++DG+P++L ++G +FGLS+ERVRQ+E + +L
Sbjct: 257 LMHSDVRSVLATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMSKL 316
Query: 553 KQS 555
+
Sbjct: 317 RNG 319
>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 = 199 bits (506), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 109/295 (36%), Positives = 175/295 (59%), Gaps = 23/295 (7%)
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 RFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLAR 439
RF++YAYWW+RQ I +AI SRTIRLP +I L+K+ +A+R QE +P ED+A
Sbjct: 228 RFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKLAQEKGRTPTIEDIAL 287
Query: 440 RVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVR 499
+ +T ++ ++ +S++ V ++DT ++ + + P+ + ++ + + ++
Sbjct: 288 ELEMTAPQVREVLLRVPRSVSLETKVGKEKDTELGDLLENDSIS-PEELLMREALHRDLQ 346
Query: 500 NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
LL L +ER ++ +RFG+ DG SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 347 QLLADLTDRERDVILMRFGLGDGHCYSLAEIGRALDLSRERVRQIESKALQKLRQ 401
>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 = 199 bits (506), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 116/308 (37%), Positives = 188/308 (61%), Gaps = 1/308 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +R IRLP +I L+K+ + +R Q+ +
Sbjct: 138 PTRGYKFSTYAYWWIRQAITRAIAQQARAIRLPIHITEKLNKIKKVQRELAQKLGRNATP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+ + + ++ + I R P+S+ V +QDT E+ D P+ + ++ M
Sbjct: 198 TEIAKELELEPSQIREYLSIARQPISLDVRVGDNQDTELSELLEDDE-NSPETYLTQESM 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + ++L+ L P++R ++ LRFG+EDG SL++VG LS+ERVRQLE +AL +L++
Sbjct: 257 RQDIDSMLSELTPQQREVLSLRFGLEDGNELSLAKVGKKLNLSRERVRQLEHQALAKLRR 316
Query: 555 SLGGKASY 562
GG Y
Sbjct: 317 RRGGVQEY 324
>gi|294055048|ref|YP_003548706.1| RpoD subfamily RNA polymerase sigma-70 subunit [Coraliomargarita
akajimensis DSM 45221]
gi|293614381|gb|ADE54536.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Coraliomargarita
akajimensis DSM 45221]
Length = 639
Score = 199 bits (506), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 89/249 (35%), Positives = 162/249 (65%)
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
R+++ + ++ +++ ANLRLV+ +AK+Y RG+S DL+QEG+MGLMK+VEKF+
Sbjct: 368 IREVRIGTREAHKAKTEMVEANLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEY 427
Query: 376 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
+ G +F++YA WW+RQ I ++I +RTIR+P ++ L+KV++ ++ +QE H P E
Sbjct: 428 RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETLNKVMQVQKQLLQELGHEPTAE 487
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMR 495
++A + + +E+++ ++ + + P+S+Q PV DT F + D G E P L+R
Sbjct: 488 EVADEMNLPIERVQSIMKMAQQPISLQSPVGDSDDTNFGDFIEDKGAENPYDMTAYSLLR 547
Query: 496 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
+ + ++L L +ER ++ LRFG+ DG ++L EVG F +++ER+RQ+E++AL +++
Sbjct: 548 EKITDVLDSLTERERRVLSLRFGLADGYSRTLEEVGRQFKVTRERIRQIEAKALRKMRHP 607
Query: 556 LGGKASYGY 564
+ +G+
Sbjct: 608 TRIRQLHGF 616
>gi|1769598|gb|AAB39998.1| sigma factor [Synechococcus sp. PCC 7002]
Length = 398
Score = 199 bits (506), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 103/251 (41%), Positives = 168/251 (66%), Gaps = 9/251 (3%)
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 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
++V+KF P G RF++YAYWW+RQ I + SRTIRLP ++ L+K+ +A+R Q
Sbjct: 198 RAVDKFDPTKGYRFSTYAYWWIRQGITRGDRTQSRTIRLPVHVTEKLNKIKKAQRQISQT 257
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDI 487
+P +D+A+ + +T E++ ++ +S++ V D+DT ++ +E D
Sbjct: 258 QGCTPSLDDVAQALEMTPEQVREVLQKVPRSVSLEIRVGKDRDTELGDL-----LETQDA 312
Query: 488 SVQKQLMRQHVR----NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 543
S ++ L+R+ ++ NLLT L +ER +++LR+G+ DGK SL+E+G + +S+ERVRQ
Sbjct: 313 SPEENLVRESLQRDLHNLLTELTDREREVIQLRYGLGDGKTYSLAEIGRMLDVSRERVRQ 372
Query: 544 LESRALYRLKQ 554
+E++AL +L+Q
Sbjct: 373 IEAKALQKLRQ 383
>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 = 199 bits (506), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 103/300 (34%), Positives = 180/300 (60%), Gaps = 9/300 (3%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+ P
Sbjct: 268 DYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGRDPT 327
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++ +GIT +++ + I++ P+S++ P+ ++D+ + D+ P + +
Sbjct: 328 PEEIGEEMGITADRVREIQKISQEPVSLETPIGEEEDSQLGDFIEDSSAVAPPEAASDSM 387
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+R+ + +L L +ER +++ RFG+EDG P++L EVG FG+++ER+RQ+ES+ L +L+
Sbjct: 388 LREQLEQVLDSLADRERKVIKFRFGLEDGHPRTLEEVGREFGVTRERIRQIESKTLAKLR 447
>gi|283456279|ref|YP_003360843.1| RNA polymerase principal sigma factor hrdB [Bifidobacterium dentium
Bd1]
gi|283102913|gb|ADB10019.1| RNA polymerase principal sigma factor hrdB [Bifidobacterium dentium
Bd1]
Length = 328
Score = 199 bits (506), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 87/238 (36%), Positives = 162/238 (68%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK + G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 78 RELKWAANDGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 137
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 138 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 197
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D+ F ++ DT P +V L+++
Sbjct: 198 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDSEFGDLIEDTDAIAPSDAVAFSLLQE 257
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 258 QFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLRH 315
>gi|256545301|ref|ZP_05472665.1| RNA polymerase sigma factor RpoD [Anaerococcus vaginalis ATCC
51170]
gi|256398982|gb|EEU12595.1| RNA polymerase sigma factor RpoD [Anaerococcus vaginalis ATCC
51170]
Length = 614
Score = 199 bits (506), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 98/275 (35%), Positives = 170/275 (61%), Gaps = 13/275 (4%)
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKS---ELHSGNSSREKLINANL 338
I+DL R K K+ + F + G D+K + N +++KL NL
Sbjct: 338 IKDLERFTKTKNLCKKIFEDQ----------GFDADDVKRLNRAIFDANRAKQKLAETNL 387
Query: 339 RLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIF 398
RLVV +AK+Y GRG+S DL+QEG+MGLMK+V+K+ G +F++YA WW+RQ I +AI
Sbjct: 388 RLVVSIAKKYVGRGMSFLDLIQEGNMGLMKAVDKYDYNRGFKFSTYATWWIRQAITRAIA 447
Query: 399 QHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMP 458
+RTIR+P ++ ++K++ +R +Q+ P E++A ++GI VEK++ + I + P
Sbjct: 448 DQARTIRIPVHMVETINKLVRIQRQLVQDLGRDPSNEEIAEQMGIEVEKVQEIRKIAQEP 507
Query: 459 LSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFG 518
+S++ P+ ++D+ + D PD + ++R + ++L+ L +E+ +++LRFG
Sbjct: 508 VSLETPIGEEEDSHLGDFIEDDTAINPDDAANYSMLRDQLNDVLSCLGAREKRVLQLRFG 567
Query: 519 IEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ DG P++L EVG F +++ER+RQ+E++AL +LK
Sbjct: 568 LIDGTPRTLEEVGKEFDVTRERIRQIEAKALRKLK 602
>gi|384451087|ref|YP_005663687.1| transcription initiation factor sigma 70 [Chlamydophila psittaci
6BC]
gi|328915181|gb|AEB56014.1| transcription initiation factor sigma 70 [Chlamydophila psittaci
6BC]
Length = 561
Score = 199 bits (506), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 109/308 (35%), Positives = 188/308 (61%), Gaps = 16/308 (5%)
Query: 273 DEEFELIAQIQDL-IRLEKEK---SKLQSQ----FGREP----TLIEWAKAIGLSCRDLK 320
D +L QI DL +R E+ K +KL + + RE TL E+ K + R L+
Sbjct: 243 DSFLQLEQQINDLKVRAERNKFAAAKLDAAKRRLYKREVAAGRTLEEFKKDV----RMLQ 298
Query: 321 SELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCR 380
+ ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+MGLMK+VEKF+ + G +
Sbjct: 299 RWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYK 358
Query: 381 FASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARR 440
F++YA WW+RQ + +AI +RTIR+P ++ ++KVL + + E P E+LA
Sbjct: 359 FSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTPEELAEE 418
Query: 441 VGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRN 500
+G+T +++ + I + P+S+Q V +++F + DTGVE P + +++ ++
Sbjct: 419 LGLTPDRVREIYKIAQHPISLQAEVGEGGESSFGDFLEDTGVESPAEATGYSMLKDKMKE 478
Query: 501 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 560
+L L +ER ++ RFG+ DGKPK+L EVG+ F +++ER+RQ+E++AL +++ + K
Sbjct: 479 VLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQ 538
Query: 561 SYGYADLL 568
+ DLL
Sbjct: 539 LRAFLDLL 546
>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 = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 111/303 (36%), Positives = 184/303 (60%), Gaps = 17/303 (5%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR-LYIQEGNHSP 432
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR L+ Q G +
Sbjct: 131 DYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREAT 190
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
D E+LA GI K+ L+ +R P+S+ PV +D++ + D+ + +V
Sbjct: 191 D-EELAEESGIPAAKIADLLDHSRDPVSLDMPVGSDEEAPLGDFIEDSEATSAESAVIAG 249
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
L+ VR++L L+ +E+ ++R R+G++DG+P++L ++G IFGLS+ERVRQ+E + +L
Sbjct: 250 LLHSDVRSVLATLDEREQQVIRFRYGLDDGQPRTLDQIGKIFGLSRERVRQIEREVMGKL 309
Query: 553 KQS 555
+Q
Sbjct: 310 RQG 312
>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 = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 103/307 (33%), Positives = 182/307 (59%), Gaps = 23/307 (7%)
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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+++VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q
Sbjct: 219 IRAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQ 278
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E P E++ + +G+ E++ + I++ P+S++ P+ ++D+ + D +P
Sbjct: 279 ELGREPSPEEIGKEMGLPAERVREIQKISQEPVSLETPIGEEEDSQLGDFIEDDAAVVPP 338
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+ ++++ + +L L +ER ++ LRFG+EDG P++L EVG FG+++ER+RQ+ES
Sbjct: 339 DAASFSMLQEQLSKVLDGLAERERKVIALRFGLEDGHPRTLEEVGREFGVTRERIRQIES 398
Query: 547 RALYRLK 553
+ L +L+
Sbjct: 399 KTLAKLR 405
>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 = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 113/286 (39%), Positives = 179/286 (62%), Gaps = 1/286 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++E++++ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYWW
Sbjct: 115 AKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 174
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + SRTIRLP +I +L+K+ + +R QE +P +LA V + E++
Sbjct: 175 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQEMGRTPTVSELAEFVELPEEEV 234
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ L+ R P+S++ V D D T E+P V+ M+ +R LL L
Sbjct: 235 KDLMCRARQPMSLEMKV-GDGDETELLELLAGEEELPSEKVEVDCMKGDLRTLLEKLPEL 293
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ ++R+R+GI+ G+P +L+ +G I +S++RVR LE L L+Q
Sbjct: 294 QGRVLRMRYGIDGGEPMNLTGIGRILDISRDRVRNLERHGLNGLRQ 339
>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 = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 123/343 (35%), Positives = 190/343 (55%), Gaps = 43/343 (12%)
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 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQ 391
++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++YAYWW+RQ
Sbjct: 139 RMIQANLRLVVAVAKKYQQRGMELLDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWWIRQ 198
Query: 392 TIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERL 451
I +AI SRTIRLP +I L+++ ++ E DLA+ +G++ + + +
Sbjct: 199 GITRAIATQSRTIRLPVHITEKLNRIKRVQQEIASEQGRLASVSDLAKELGVSEDTVRQT 258
Query: 452 IFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERC 511
+ +S++ V DQDT ++ D G P+ ++ + + + +LL LNP+E
Sbjct: 259 LARVPRSVSLETRVGKDQDTQLGDLLED-GHATPEQTLTRDALHDDLEHLLDELNPREAE 317
Query: 512 IVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++R RFG+ED P++L+E+G LS+ERVRQ+E+RAL +L+Q
Sbjct: 318 VIRSRFGLEDDTPRTLAEIGEAMALSRERVRQIETRALLKLRQ 360
>gi|323484891|ref|ZP_08090246.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163]
gi|323693741|ref|ZP_08107938.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673]
gi|355624161|ref|ZP_09047550.1| hypothetical protein HMPREF1020_01629 [Clostridium sp. 7_3_54FAA]
gi|323401772|gb|EGA94115.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14163]
gi|323502192|gb|EGB18057.1| RNA polymerase sigma factor [Clostridium symbiosum WAL-14673]
gi|354822100|gb|EHF06474.1| hypothetical protein HMPREF1020_01629 [Clostridium sp. 7_3_54FAA]
Length = 374
Score = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 106/313 (33%), Positives = 182/313 (58%), Gaps = 40/313 (12%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LL+ADEE +RL K K++
Sbjct: 96 LLEGIGTEDPVRMYLKEIGTVPLLSADEE----------LRLAKRKAE------------ 133
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
++++E+LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 134 ------------------GDDNAKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 175
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 176 IKGVEKFDYTKGYKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 235
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P +L+ + ++ +K+ ++ I R P S++ P+ + D+ + AD+ V P+
Sbjct: 236 ELGYEPSVAELSEALEMSEDKVMEIMQIAREPASLETPIGEEDDSNLGDFVADSNVVTPE 295
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 296 GNVESVMLREHIDALLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEA 355
Query: 547 RALYRLKQSLGGK 559
+AL +L+ + K
Sbjct: 356 KALRKLRNPVRSK 368
>gi|262202171|ref|YP_003273379.1| sigma-70 family RNA polymerase sigma factor [Gordonia bronchialis
DSM 43247]
gi|262085518|gb|ACY21486.1| RNA polymerase sigma factor, sigma-70 family [Gordonia bronchialis
DSM 43247]
Length = 337
Score = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 109/302 (36%), Positives = 178/302 (58%), Gaps = 15/302 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A++E EL QI+ + + L +
Sbjct: 39 DLVRVYLNGIGRTALLNAEQEVELAKQIE-------------AGLYAKHVLATKKRLSAA 85
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDL + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 86 KKRDLAIVVREGEAARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 145
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR-LYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR L+ Q G + D
Sbjct: 146 YAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATD 205
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI EK+ L+ +R P+S+ PV +D++ + D + +V L
Sbjct: 206 -EELANESGIPAEKIADLLDHSRDPVSLDMPVGSDEEAPLGDFIEDAEATSAESAVIAGL 264
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
M VR +L L+ +E+ ++R+R+G++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 265 MHTDVRAVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQIEREVMGKLR 324
Query: 554 QS 555
Q
Sbjct: 325 QG 326
>gi|452911225|ref|ZP_21959896.1| RNA polymerase sigma factor RpoD [Kocuria palustris PEL]
gi|452833651|gb|EME36461.1| RNA polymerase sigma factor RpoD [Kocuria palustris PEL]
Length = 544
Score = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 109/347 (31%), Positives = 201/347 (57%), Gaps = 19/347 (5%)
Query: 210 FSQPRFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKL 269
++P E SK KV ++N++ + A ++ +S G DP++ +L L
Sbjct: 203 IAKPTGKETESKSDKVRGFVLSNNDDDD---APAQQVVSAGA-TADPVKDYLKQIGKVAL 258
Query: 270 LTADEEFELIAQIQ-DLIRLEKEKSKLQSQFGREP-TLIEWAKAIGLSCRDLKSELHSGN 327
L A++E +L +I+ L K K + + +E + W +H G
Sbjct: 259 LNAEQEVDLALRIEAGLFAEHKYKGEEADKLSKEDRKALRWV-------------IHDGK 305
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF G +F++YA W
Sbjct: 306 RAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATW 365
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P E+LA+ + +T EK
Sbjct: 366 WIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEELAKELDMTPEK 425
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNP 507
+ + R P+S+ P+ D D+ F ++ D+ +P +V L+++ + ++L L+
Sbjct: 426 VVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSE 485
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 486 REAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRH 532
>gi|391228423|ref|ZP_10264629.1| RNA polymerase sigma factor, sigma-70 family [Opitutaceae bacterium
TAV1]
gi|391218084|gb|EIP96504.1| RNA polymerase sigma factor, sigma-70 family [Opitutaceae bacterium
TAV1]
Length = 595
Score = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 90/251 (35%), Positives = 162/251 (64%)
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
R + + ++ +++ ANLRLV+ +AK+Y RG+S DL+QEG+MGLMK+VEKF+
Sbjct: 317 VRKTNVHIREAHQAKTEMVEANLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEY 376
Query: 376 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
+ G +F++YA WW+RQ I ++I +RTIR+P ++ L+KV++ ++ +QE H P E
Sbjct: 377 RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETLNKVMQVQKQLLQEFGHEPTPE 436
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMR 495
++A + + VE++++++ + + P+S+Q PV DT+F + D E P L+R
Sbjct: 437 EVADEMNLPVERVQQIMKMAQQPISLQSPVGDGDDTSFGDFIEDKSAENPYDMTAYSLLR 496
Query: 496 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
+ + ++L L +ER ++ LRFG+ DG ++L EVG F +++ER+RQ+E++AL +++
Sbjct: 497 EKIIDVLDSLTERERKVLSLRFGLVDGYSRTLEEVGKQFKVTRERIRQIEAKALRKMRHP 556
Query: 556 LGGKASYGYAD 566
+ +G+ D
Sbjct: 557 TRIRQLHGFFD 567
>gi|62185569|ref|YP_220354.1| RNA polymerase sigma factor [Chlamydophila abortus S26/3]
gi|424825613|ref|ZP_18250600.1| RNA polymerase sigma factor [Chlamydophila abortus LLG]
gi|62148636|emb|CAH64409.1| major sigma factor [Chlamydophila abortus S26/3]
gi|333410712|gb|EGK69699.1| RNA polymerase sigma factor [Chlamydophila abortus LLG]
Length = 571
Score = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 109/308 (35%), Positives = 188/308 (61%), Gaps = 16/308 (5%)
Query: 273 DEEFELIAQIQDL-IRLEKEK---SKLQSQ----FGREP----TLIEWAKAIGLSCRDLK 320
D +L QI DL +R E+ K +KL + + RE TL E+ K + R L+
Sbjct: 253 DSFLQLEQQINDLKVRAERNKFAAAKLDAAKRRLYKREVAAGRTLEEFKKDV----RMLQ 308
Query: 321 SELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCR 380
+ ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+MGLMK+VEKF+ + G +
Sbjct: 309 RWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYK 368
Query: 381 FASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARR 440
F++YA WW+RQ + +AI +RTIR+P ++ ++KVL + + E P E+LA
Sbjct: 369 FSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTPEELAEE 428
Query: 441 VGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRN 500
+G+T +++ + I + P+S+Q V +++F + DTGVE P + +++ ++
Sbjct: 429 LGLTPDRVREIYKIAQHPISLQAEVGEGGESSFGDFLEDTGVESPAEATGYSMLKDKMKE 488
Query: 501 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 560
+L L +ER ++ RFG+ DGKPK+L EVG+ F +++ER+RQ+E++AL +++ + K
Sbjct: 489 VLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQ 548
Query: 561 SYGYADLL 568
+ DLL
Sbjct: 549 LRAFLDLL 556
>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 = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 109/302 (36%), Positives = 181/302 (59%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q+
Sbjct: 127 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQQLGREAT 186
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI VEK+ L+ +R P+S+ PV D++ + D + +V +L
Sbjct: 187 DEELAAESGIPVEKINDLLEHSRDPVSLDMPVGNDEEAPLGDFIEDAEAMSAENAVISEL 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 247 LHTDIRHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 306
Query: 554 QS 555
Sbjct: 307 NG 308
>gi|291563082|emb|CBL41898.1| RNA polymerase, sigma 70 subunit, RpoD [butyrate-producing
bacterium SS3/4]
Length = 374
Score = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 103/318 (32%), Positives = 184/318 (57%), Gaps = 40/318 (12%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
EG +DP+R++L LL+ DEE EL +I+ G E
Sbjct: 96 EGIGVDDPVRMYLKEIGKVPLLSPDEEIELAKKIE---------------LGDE------ 134
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
+++KL +NLRLVV +AK+Y GRG+ L DL+QEG++GL+K
Sbjct: 135 -------------------EAKKKLAESNLRLVVSIAKRYAGRGMQLLDLIQEGNLGLIK 175
Query: 369 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ +++++ +R +Q+
Sbjct: 176 AVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRLVRTQRQLVQKL 235
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDIS 488
E+LA+ + + VE++ ++ I++ P+S++ P+ ++D+ + D VE+P +
Sbjct: 236 GREATPEELAKELDMPVERVREIMKISQDPVSLETPIGEEEDSHLGDFIQDNNVEVPADA 295
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
L+ + + ++L+ L +E+ ++RLRFG++DG+P++L EVG F +++ER+RQ+E++A
Sbjct: 296 ATYTLLHEQLMDVLSTLTEREQKVLRLRFGLDDGRPRTLEEVGRQFNVTRERIRQIEAKA 355
Query: 549 LYRLKQSLGGKASYGYAD 566
L +L+ K Y D
Sbjct: 356 LRKLRHPSRSKILKDYLD 373
>gi|169824520|ref|YP_001692131.1| RNA polymerase sigma A factor [Finegoldia magna ATCC 29328]
gi|302380672|ref|ZP_07269137.1| RNA polymerase sigma factor RpoD [Finegoldia magna ACS-171-V-Col3]
gi|303233690|ref|ZP_07320344.1| RNA polymerase sigma factor RpoD [Finegoldia magna BVS033A4]
gi|417926538|ref|ZP_12569936.1| RNA polymerase sigma factor RpoD [Finegoldia magna
SY403409CC001050417]
gi|167831325|dbj|BAG08241.1| RNA polymerase sigma A factor [Finegoldia magna ATCC 29328]
gi|302311615|gb|EFK93631.1| RNA polymerase sigma factor RpoD [Finegoldia magna ACS-171-V-Col3]
gi|302495124|gb|EFL54876.1| RNA polymerase sigma factor RpoD [Finegoldia magna BVS033A4]
gi|341589053|gb|EGS32420.1| RNA polymerase sigma factor RpoD [Finegoldia magna
SY403409CC001050417]
Length = 388
Score = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 92/236 (38%), Positives = 158/236 (66%), Gaps = 1/236 (0%)
Query: 319 LKSELHSGNS-SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
L E+ +G+ +++KL ANLRLVV +AK+Y GRG+S DL+QEG++GLMK+V+KF
Sbjct: 140 LAQEMENGSKRAKKKLAEANLRLVVSIAKRYVGRGMSFLDLIQEGNLGLMKAVDKFDYTR 199
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ I +AI +RTIR+P ++ +++++ +R +Q+ P E++
Sbjct: 200 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRLVRIERQLLQDLGRDPTNEEI 259
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A+ +GI VEK+ + I + P+S++ P+ ++D+ + D PD + ++R+
Sbjct: 260 AKEMGIEVEKVREVRKIAQEPVSLETPIGEEEDSHLGDFIEDDTAIAPDEAANFTMLREE 319
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +L LN +ER ++ LRFG+ DG P++L EVG F +++ER+RQ+E++AL +LK
Sbjct: 320 LEGILNTLNERERKVLALRFGLVDGTPRTLEEVGKDFDVTRERIRQIEAKALRKLK 375
>gi|89897819|ref|YP_514929.1| RNA polymerase sigma factor [Chlamydophila felis Fe/C-56]
gi|89331191|dbj|BAE80784.1| DNA-directed RNA polymerase sigma 70 [Chlamydophila felis Fe/C-56]
Length = 570
Score = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 109/308 (35%), Positives = 188/308 (61%), Gaps = 16/308 (5%)
Query: 273 DEEFELIAQIQDL-IRLEKEK---SKLQSQ----FGREP----TLIEWAKAIGLSCRDLK 320
D +L QI DL +R E+ K +KL + + RE TL E+ K + R L+
Sbjct: 251 DSFLQLEQQINDLKVRAERNKFAAAKLDAAKRRLYKREVAAGRTLEEFKKDV----RMLQ 306
Query: 321 SELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCR 380
+ ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+MGLMK+VEKF+ + G +
Sbjct: 307 RWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYK 366
Query: 381 FASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARR 440
F++YA WW+RQ + +AI +RTIR+P ++ ++KVL + + E P E+LA
Sbjct: 367 FSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTPEELAEE 426
Query: 441 VGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRN 500
+G+T +++ + I + P+S+Q V +++F + DTGVE P + +++ ++
Sbjct: 427 LGLTPDRVREIYKIAQHPISLQAEVGEGGESSFGDFLEDTGVESPAEATGYSMLKDKMKE 486
Query: 501 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 560
+L L +ER ++ RFG+ DGKPK+L EVG+ F +++ER+RQ+E++AL +++ + K
Sbjct: 487 VLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQ 546
Query: 561 SYGYADLL 568
+ DLL
Sbjct: 547 LRAFLDLL 554
>gi|373850334|ref|ZP_09593135.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Opitutaceae
bacterium TAV5]
gi|372476499|gb|EHP36508.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Opitutaceae
bacterium TAV5]
Length = 595
Score = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 90/251 (35%), Positives = 162/251 (64%)
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
R + + ++ +++ ANLRLV+ +AK+Y RG+S DL+QEG+MGLMK+VEKF+
Sbjct: 317 VRKTNVHIREAHQAKTEMVEANLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEY 376
Query: 376 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
+ G +F++YA WW+RQ I ++I +RTIR+P ++ L+KV++ ++ +QE H P E
Sbjct: 377 RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETLNKVMQVQKQLLQEFGHEPTPE 436
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMR 495
++A + + VE++++++ + + P+S+Q PV DT+F + D E P L+R
Sbjct: 437 EVADEMNLPVERVQQIMKMAQQPISLQSPVGDGDDTSFGDFIEDKSAENPYDMTAYSLLR 496
Query: 496 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
+ + ++L L +ER ++ LRFG+ DG ++L EVG F +++ER+RQ+E++AL +++
Sbjct: 497 EKIIDVLDSLTERERKVLSLRFGLVDGYSRTLEEVGKQFKVTRERIRQIEAKALRKMRHP 556
Query: 556 LGGKASYGYAD 566
+ +G+ D
Sbjct: 557 TRIRQLHGFFD 567
>gi|392949005|ref|ZP_10314604.1| RNA polymerase sigma factor 42 RpoD [Lactobacillus pentosus KCA1]
gi|334880406|emb|CCB81137.1| RNA polymerase sigma factor [Lactobacillus pentosus MP-10]
gi|339638991|emb|CCC18197.1| RNA polymerase sigma factor [Lactobacillus pentosus IG1]
gi|392435824|gb|EIW13749.1| RNA polymerase sigma factor 42 RpoD [Lactobacillus pentosus KCA1]
Length = 368
Score = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 105/322 (32%), Positives = 179/322 (55%), Gaps = 45/322 (13%)
Query: 237 NSRKASVKKKLSE-----GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKE 291
S K KK+LS+ G NDP+R++L LLTADEE L +I+
Sbjct: 74 KSVKTVSKKELSDAGSASGIKINDPVRMYLKEIGRVDLLTADEEVALALRIE-------- 125
Query: 292 KSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGR 351
S++++L ANLRLVV +AK+Y GR
Sbjct: 126 --------------------------------QGDESAKQELAEANLRLVVSIAKRYVGR 153
Query: 352 GISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIY 411
G+ DL+QEG+MGLMK+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++
Sbjct: 154 GMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMV 213
Query: 412 TLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDT 471
++K++ +R +Q+ P E++ + + EK+ ++ I + P+S++ P+ + D+
Sbjct: 214 ETINKLIRIQRQLLQDLGREPTPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDS 273
Query: 472 TFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVG 531
+ D P + +L+++ + +L L +E ++RLRFG++DG+ ++L EVG
Sbjct: 274 HLGDFIEDQDATSPADAAAYELLKEQLEGVLDTLTDREENVLRLRFGLDDGRTRTLEEVG 333
Query: 532 NIFGLSKERVRQLESRALYRLK 553
+FG+++ER+RQ+E++AL +L+
Sbjct: 334 KVFGVTRERIRQIEAKALRKLR 355
>gi|329943340|ref|ZP_08292114.1| RNA polymerase sigma factor rpoD [Chlamydophila psittaci Cal10]
gi|332287916|ref|YP_004422817.1| RNA polymerase sigma factor [Chlamydophila psittaci 6BC]
gi|384452071|ref|YP_005664669.1| RNA polymerase sigma factor [Chlamydophila psittaci 01DC11]
gi|384453045|ref|YP_005665642.1| RNA polymerase sigma factor [Chlamydophila psittaci 08DC60]
gi|384454024|ref|YP_005666620.1| RNA polymerase sigma factor [Chlamydophila psittaci C19/98]
gi|384455003|ref|YP_005667598.1| RNA polymerase sigma factor [Chlamydophila psittaci 02DC15]
gi|392377146|ref|YP_004064924.1| major sigma factor [Chlamydophila psittaci RD1]
gi|406593954|ref|YP_006741133.1| RNA polymerase sigma factor rpoD [Chlamydia psittaci NJ1]
gi|407454584|ref|YP_006733692.1| RNA polymerase sigma factor rpoD [Chlamydia psittaci 84/55]
gi|407455844|ref|YP_006734735.1| RNA polymerase sigma factor rpoD [Chlamydia psittaci GR9]
gi|407457270|ref|YP_006735843.1| RNA polymerase sigma factor rpoD [Chlamydia psittaci VS225]
gi|407458582|ref|YP_006736887.1| RNA polymerase sigma factor rpoD [Chlamydia psittaci WS/RT/E30]
gi|407461198|ref|YP_006738973.1| RNA polymerase sigma factor rpoD [Chlamydia psittaci WC]
gi|449071648|ref|YP_007438728.1| RNA polymerase sigma factor [Chlamydophila psittaci Mat116]
gi|313848489|emb|CBY17493.1| major sigma factor [Chlamydophila psittaci RD1]
gi|325507028|gb|ADZ18666.1| RNA polymerase sigma factor [Chlamydophila psittaci 6BC]
gi|328814887|gb|EGF84877.1| RNA polymerase sigma factor rpoD [Chlamydophila psittaci Cal10]
gi|334692805|gb|AEG86024.1| RNA polymerase sigma factor [Chlamydophila psittaci C19/98]
gi|334693781|gb|AEG86999.1| RNA polymerase sigma factor [Chlamydophila psittaci 01DC11]
gi|334694760|gb|AEG87977.1| RNA polymerase sigma factor [Chlamydophila psittaci 02DC15]
gi|334695734|gb|AEG88950.1| RNA polymerase sigma factor [Chlamydophila psittaci 08DC60]
gi|405781343|gb|AFS20093.1| RNA polymerase sigma factor rpoD [Chlamydia psittaci 84/55]
gi|405782387|gb|AFS21136.1| RNA polymerase sigma factor rpoD [Chlamydia psittaci GR9]
gi|405784531|gb|AFS23278.1| RNA polymerase sigma factor rpoD [Chlamydia psittaci VS225]
gi|405785303|gb|AFS24049.1| RNA polymerase sigma factor rpoD [Chlamydia psittaci WS/RT/E30]
gi|405786770|gb|AFS25514.1| RNA polymerase sigma factor rpoD [Chlamydia psittaci WC]
gi|405789826|gb|AFS28568.1| RNA polymerase sigma factor rpoD [Chlamydia psittaci NJ1]
gi|449040156|gb|AGE75580.1| RNA polymerase sigma factor [Chlamydophila psittaci Mat116]
Length = 571
Score = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 109/308 (35%), Positives = 188/308 (61%), Gaps = 16/308 (5%)
Query: 273 DEEFELIAQIQDL-IRLEKEK---SKLQSQ----FGREP----TLIEWAKAIGLSCRDLK 320
D +L QI DL +R E+ K +KL + + RE TL E+ K + R L+
Sbjct: 253 DSFLQLEQQINDLKVRAERNKFAAAKLDAAKRRLYKREVAAGRTLEEFKKDV----RMLQ 308
Query: 321 SELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCR 380
+ ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+MGLMK+VEKF+ + G +
Sbjct: 309 RWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYK 368
Query: 381 FASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARR 440
F++YA WW+RQ + +AI +RTIR+P ++ ++KVL + + E P E+LA
Sbjct: 369 FSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTPEELAEE 428
Query: 441 VGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRN 500
+G+T +++ + I + P+S+Q V +++F + DTGVE P + +++ ++
Sbjct: 429 LGLTPDRVREIYKIAQHPISLQAEVGEGGESSFGDFLEDTGVESPAEATGYSMLKDKMKE 488
Query: 501 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 560
+L L +ER ++ RFG+ DGKPK+L EVG+ F +++ER+RQ+E++AL +++ + K
Sbjct: 489 VLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQ 548
Query: 561 SYGYADLL 568
+ DLL
Sbjct: 549 LRAFLDLL 556
>gi|116670178|ref|YP_831111.1| RNA polymerase subunit sigma 28 [Arthrobacter sp. FB24]
gi|116610287|gb|ABK03011.1| RNA polymerase, sigma 70 subunit, RpoD [Arthrobacter sp. FB24]
Length = 441
Score = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 105/315 (33%), Positives = 192/315 (60%), Gaps = 15/315 (4%)
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFG 300
A V++ +S G DP++ +L LL A++E +L +I+ + E+ K+ + G
Sbjct: 129 APVQQVMSAGA-TADPVKDYLKQIGKVALLNAEQEVDLALRIEAGLFAEE---KIAADDG 184
Query: 301 R-EPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLL 359
+P L R+L+ +H G ++ L+ ANLRLVV +AK+Y GRG+ DL+
Sbjct: 185 SMDPKL----------KRELEFVIHDGKRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLI 234
Query: 360 QEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLE 419
QEG++GL+++VEKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+
Sbjct: 235 QEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLAR 294
Query: 420 AKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITAD 479
+R +Q+ P E+LA + +T EK+ + R P+S+ P+ D D+ F ++ D
Sbjct: 295 VQRQMLQDLGREPTPEELALELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIED 354
Query: 480 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 539
+ +P +V L+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++E
Sbjct: 355 SEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTRE 414
Query: 540 RVRQLESRALYRLKQ 554
R+RQ+ES+ + +L+
Sbjct: 415 RIRQIESKTMSKLRH 429
>gi|291439801|ref|ZP_06579191.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672]
gi|291342696|gb|EFE69652.1| RNA polymerase sigma factor [Streptomyces ghanaensis ATCC 14672]
Length = 390
Score = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 103/298 (34%), Positives = 177/298 (59%), Gaps = 13/298 (4%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTA EE EL +++ + +EK +L DL + G
Sbjct: 106 LLTAAEEVELARRVEAGL-FAEEKLRLTPDLDSR------------LAHDLDRLVVMGRM 152
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA WW
Sbjct: 153 AKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWW 212
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE P E++A + + E++
Sbjct: 213 IRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGREPTPEEVAAHLDLPPERV 272
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
++ + + P+S+ PV + D ++ D P S L+R+H+ +L+ L +
Sbjct: 273 GEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREHLEAVLSTLGER 332
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+ GY D
Sbjct: 333 ERKVVQLRYGLVDGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 390
>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 = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 105/288 (36%), Positives = 187/288 (64%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 130 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 189
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP ++ L+K+ +A+R+ Q+ +P++++LA + ++ +
Sbjct: 190 WIRQAITRTIANDARTIRLPIHVVEKLNKLKKAQRVLKQKLQRNPNEKELADELEVSPSQ 249
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + ++R V +L+ +L
Sbjct: 250 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDQELQLPEELMNEGMLRYEVSAVLSDVLT 309
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG IF LS+ERVRQ++S+A+ +L++
Sbjct: 310 QREKDVISLRYGLCTAQPHTLEEVGGIFNLSRERVRQIQSKAMRKLRR 357
>gi|348027091|ref|YP_004766896.1| RNA polymerase sigma factor [Megasphaera elsdenii DSM 20460]
gi|341823145|emb|CCC74069.1| RNA polymerase sigma factor [Megasphaera elsdenii DSM 20460]
Length = 416
Score = 199 bits (505), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 101/312 (32%), Positives = 183/312 (58%), Gaps = 28/312 (8%)
Query: 242 SVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGR 301
+V + EG + +DP+R++L LL+A EE L I+ G
Sbjct: 121 NVDLSVPEGINIDDPVRMYLKEIGRVPLLSATEEITLAKAIEK---------------GN 165
Query: 302 EPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQE 361
P E ++ +G +++KL +ANLRLVV +AK+Y GRG+ DL+QE
Sbjct: 166 APDATE-------------EDIKAGTIAKKKLTDANLRLVVSIAKRYVGRGMLFLDLIQE 212
Query: 362 GSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAK 421
G++GL+K+V+KF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++
Sbjct: 213 GNLGLLKAVDKFDYSKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIS 272
Query: 422 RLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTG 481
R +Q+ P E++A ++ I VE++ ++ I + P+S++ P+ ++D+ + D+
Sbjct: 273 RQLLQDKGREPLPEEIAEKMDIPVERVREIMKIAQEPVSLETPIGEEEDSHLGDFIEDSE 332
Query: 482 VEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERV 541
PD + L+++ + ++ + L +ER ++ LRFG++DG+P++L EVG F +++ER+
Sbjct: 333 AVAPDDAASFILLKEQIEDVFSCLTDRERKVLYLRFGLKDGRPRTLEEVGQHFNVTRERI 392
Query: 542 RQLESRALYRLK 553
RQ+E +AL +L+
Sbjct: 393 RQIEGKALSKLR 404
>gi|308177806|ref|YP_003917212.1| RNA polymerase sigma factor RpoD [Arthrobacter arilaitensis Re117]
gi|307745269|emb|CBT76241.1| RNA polymerase sigma factor RpoD [Arthrobacter arilaitensis Re117]
Length = 403
Score = 199 bits (505), Expect = 5e-48, Method: Compositional matrix adjust.
Identities = 99/300 (33%), Positives = 181/300 (60%), Gaps = 12/300 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E +L +I+ + KL+ G + W
Sbjct: 104 DPVKDYLKQIGKVALLNAEQEVDLALRIEAGLFA---TDKLEKDDGSMDQRLRW------ 154
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
D + +H G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 155 ---DYEQIIHDGKIAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 211
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 212 YTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 271
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L+
Sbjct: 272 EELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLL 331
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 332 QEQLHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRH 391
>gi|121534199|ref|ZP_01666024.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermosinus
carboxydivorans Nor1]
gi|121307302|gb|EAX48219.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermosinus
carboxydivorans Nor1]
Length = 368
Score = 199 bits (505), Expect = 5e-48, Method: Compositional matrix adjust.
Identities = 105/323 (32%), Positives = 190/323 (58%), Gaps = 15/323 (4%)
Query: 233 HETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEK 292
+E +NS+ + ++ P L P+ ++ A EE ++ I + I ++
Sbjct: 48 YEVFNSKGIEIVDEI--------PDVETLEDPDITEIEAAPEEVDIDLSIPEGISIDDPV 99
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS-SREKLINANLRLVVHVAKQYQGR 351
+ GR P L+ + I L+ R + G+ ++ +L ANLRLVV +AK+Y GR
Sbjct: 100 RMYLKEIGRVP-LLTAEEEIQLAKR-----MEQGDEEAKRRLAEANLRLVVSIAKRYVGR 153
Query: 352 GISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIY 411
G+ DL+QEG++GL+K+VEKF G +F++YA WW+RQ I +AI +RTIR+P ++
Sbjct: 154 GMLFLDLIQEGNLGLIKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMV 213
Query: 412 TLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDT 471
++K++ R +QE P E++AR + I+VE++ ++ I + P+S++ P+ ++D+
Sbjct: 214 ETINKLIRVSRQLLQEKGREPTPEEIAREMDISVERVREIMKIAQEPVSLETPIGEEEDS 273
Query: 472 TFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVG 531
+ D P + L+++ + +L L P+E ++RLRFG++DG+ ++L EVG
Sbjct: 274 HLGDFIEDQDAPAPAEAASFMLLKEQLEEVLETLTPREEKVLRLRFGLDDGRARTLEEVG 333
Query: 532 NIFGLSKERVRQLESRALYRLKQ 554
FG+++ER+RQ+E++AL +L+
Sbjct: 334 QYFGVTRERIRQIEAKALRKLRH 356
>gi|270283843|ref|ZP_05965086.2| RNA polymerase principal sigma factor; sigma 70 [Bifidobacterium
gallicum DSM 20093]
gi|270277549|gb|EFA23403.1| RNA polymerase principal sigma factor; sigma 70 [Bifidobacterium
gallicum DSM 20093]
Length = 485
Score = 199 bits (505), Expect = 5e-48, Method: Compositional matrix adjust.
Identities = 87/237 (36%), Positives = 161/237 (67%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
R+LK + G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF +
Sbjct: 235 RELKWAANDGKKAKDHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDWK 294
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P ++
Sbjct: 295 KGFKFSTYATWWIRQAITRAMADQARTIRVPVHMVEVINKLSRVQRQMLQDLGREPTPDE 354
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LAR + + VEK++ + R P+S+ P+ D D F ++ DT P +V L+++
Sbjct: 355 LARELDMPVEKVQEVQKYGREPISLHTPLGEDGDPEFGDLIEDTDAIAPSDAVAFSLLQE 414
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +L L+P+E ++++R+G+EDG+PK+L ++G ++G+++ER+RQ+ES+ + +L+
Sbjct: 415 QFKQVLETLSPREAGVIKMRYGLEDGQPKTLDDIGRVYGVTRERIRQIESKTMSKLR 471
>gi|520418|gb|AAA50747.1| major sigma factor [Chlamydophila psittaci 6BC]
Length = 571
Score = 199 bits (505), Expect = 5e-48, Method: Compositional matrix adjust.
Identities = 109/308 (35%), Positives = 188/308 (61%), Gaps = 16/308 (5%)
Query: 273 DEEFELIAQIQDL-IRLEKEK---SKLQSQ----FGREP----TLIEWAKAIGLSCRDLK 320
D +L QI DL +R E+ K +KL + + RE TL E+ K + R L+
Sbjct: 253 DSFLQLEQQINDLKVRAERNKFAAAKLDAAKRRLYKREVAAGRTLEEFKKDV----RMLQ 308
Query: 321 SELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCR 380
+ ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+MGLMK+VEKF+ + G +
Sbjct: 309 RWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYK 368
Query: 381 FASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARR 440
F++YA WW+RQ + +AI +RTIR+P ++ ++KVL + + E P E+LA
Sbjct: 369 FSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTPEELAEE 428
Query: 441 VGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRN 500
+G+T +++ + I + P+S+Q V +++F + DTGVE P + +++ ++
Sbjct: 429 LGLTPDRVREIYKIAQHPISLQAEVGEGGESSFGDFLEDTGVESPAEATGYSMLKDKMKE 488
Query: 501 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 560
+L L +ER ++ RFG+ DGKPK+L EVG+ F +++ER+RQ+E++AL +++ + K
Sbjct: 489 VLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQ 548
Query: 561 SYGYADLL 568
+ DLL
Sbjct: 549 LRAFLDLL 556
>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 = 199 bits (505), Expect = 5e-48, Method: Compositional matrix adjust.
Identities = 112/314 (35%), Positives = 180/314 (57%), Gaps = 14/314 (4%)
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 FKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSP 432
F G +F++YA WW+RQ I +AI SRTIRLP ++ +S+V Q P
Sbjct: 193 FDYTKGHKFSTYATWWIRQAITRAIADQSRTIRLPVHMGEAISQVKRTSHKLQQTMQREP 252
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
E++A +GIT K+ R + + PLS++ PV + + + D V P +
Sbjct: 253 TPEEIAEAMGITASKVRRTLEASMHPLSLEMPVGQEGEGRMGDFIEDDRVSTPVDAAAMT 312
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
++R+ + +L L +ER I++LR+G++DG+ ++L EVG FG+++ER+RQ+E+ AL +L
Sbjct: 313 MLREQIEEVLQKLPERERKIIQLRYGLKDGRYRTLEEVGLEFGITRERIRQIEAVALRKL 372
Query: 553 KQSLGGKASYGYAD 566
+ GK GY D
Sbjct: 373 RHPHLGKKLRGYLD 386
>gi|157364824|ref|YP_001471591.1| RpoD family RNA polymerase sigma factor [Thermotoga lettingae TMO]
gi|157315428|gb|ABV34527.1| RNA polymerase, sigma 70 subunit, RpoD family [Thermotoga lettingae
TMO]
Length = 400
Score = 199 bits (505), Expect = 5e-48, Method: Compositional matrix adjust.
Identities = 95/239 (39%), Positives = 157/239 (65%), Gaps = 1/239 (0%)
Query: 317 RDLKSELHSGNS-SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
R+L GN ++EKLI +NLRLVV +AK+Y GRG+ DL+QEG++GL+K+VEKF
Sbjct: 144 RELARRAQIGNKRAKEKLIESNLRLVVSIAKRYIGRGLPFLDLIQEGNIGLLKAVEKFDW 203
Query: 376 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
+ G +F++YA WW+RQ I +AI +RTIR+P ++ ++K+ R Y Q+ P E
Sbjct: 204 KKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLNRITREYYQKHGEQPSLE 263
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMR 495
+LA+ + V+K+E ++ ++ +S++ PV D+D+T + AD + P + LMR
Sbjct: 264 ELAKLMDKPVDKVEEILQASKETVSLEAPVGEDEDSTVGDFVADENITSPKKEAMRMLMR 323
Query: 496 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ + +L LNP+E ++++R+G+ DGK K+L EVG F +++ER+RQ+E +AL +L+
Sbjct: 324 EELEKVLKTLNPREAMVLKMRYGLLDGKAKTLEEVGQYFNVTRERIRQIEVKALRKLRH 382
>gi|407459825|ref|YP_006737928.1| RNA polymerase sigma factor rpoD [Chlamydia psittaci M56]
gi|405785764|gb|AFS24509.1| RNA polymerase sigma factor rpoD [Chlamydia psittaci M56]
Length = 571
Score = 199 bits (505), Expect = 5e-48, Method: Compositional matrix adjust.
Identities = 109/308 (35%), Positives = 188/308 (61%), Gaps = 16/308 (5%)
Query: 273 DEEFELIAQIQDL-IRLEKEK---SKLQSQ----FGREP----TLIEWAKAIGLSCRDLK 320
D +L QI DL +R E+ K +KL + + RE TL E+ K + R L+
Sbjct: 253 DSFLQLEQQINDLKVRAERNKFAAAKLDAAKRRLYKREVAAGRTLEEFKKDV----RMLQ 308
Query: 321 SELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCR 380
+ ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+MGLMK+VEKF+ + G +
Sbjct: 309 RWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYK 368
Query: 381 FASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARR 440
F++YA WW+RQ + +AI +RTIR+P ++ ++KVL + + E P E+LA
Sbjct: 369 FSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTPEELAEE 428
Query: 441 VGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRN 500
+G+T +++ + I + P+S+Q V +++F + DTGVE P + +++ ++
Sbjct: 429 LGLTPDRVREIYKIAQHPISLQAEVGEGGESSFGDFLEDTGVESPAEATGYSMLKDKMKE 488
Query: 501 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 560
+L L +ER ++ RFG+ DGKPK+L EVG+ F +++ER+RQ+E++AL +++ + K
Sbjct: 489 VLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQ 548
Query: 561 SYGYADLL 568
+ DLL
Sbjct: 549 LRAFLDLL 556
>gi|88856913|ref|ZP_01131565.1| RNA polymerase sigma factor [marine actinobacterium PHSC20C1]
gi|88813881|gb|EAR23751.1| RNA polymerase sigma factor [marine actinobacterium PHSC20C1]
Length = 454
Score = 198 bits (504), Expect = 5e-48, Method: Compositional matrix adjust.
Identities = 102/304 (33%), Positives = 183/304 (60%), Gaps = 21/304 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKE-----KSKLQSQFGREPTLIEWA 309
DP++ +L LL A +E EL +I+ + E + S+++S GRE ++W
Sbjct: 154 DPVKDYLKQIGKVALLNAAQEVELAMRIEAGLFAEDKLAEMKPSEVRSTLGRE---LQWV 210
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++
Sbjct: 211 A-------------KDGQRAKSHLLGANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRA 257
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 258 VEKFDYTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLG 317
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E+L+R + +T EK+ + R P+S+ P+ D D+ F ++ DT +P +V
Sbjct: 318 REPTPEELSRELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDTEAVVPADAV 377
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
++++ + +LL L+ +E ++R+RFG+ DG PK+L ++G+ FG+++ER+RQ+ES+ +
Sbjct: 378 GFTMLQKQLESLLDSLSEREAGVIRMRFGLGDGMPKTLDQIGDTFGVTRERIRQIESKTM 437
Query: 550 YRLK 553
+L+
Sbjct: 438 AKLR 441
>gi|406592909|ref|YP_006740089.1| RNA polymerase sigma factor rpoD [Chlamydia psittaci CP3]
gi|406594705|ref|YP_006742168.1| RNA polymerase sigma factor rpoD [Chlamydia psittaci MN]
gi|410858929|ref|YP_006974869.1| major sigma factor [Chlamydia psittaci 01DC12]
gi|405783137|gb|AFS21885.1| RNA polymerase sigma factor rpoD [Chlamydia psittaci MN]
gi|405788781|gb|AFS27524.1| RNA polymerase sigma factor rpoD [Chlamydia psittaci CP3]
gi|410811824|emb|CCO02479.1| major sigma factor [Chlamydia psittaci 01DC12]
Length = 571
Score = 198 bits (504), Expect = 5e-48, Method: Compositional matrix adjust.
Identities = 109/308 (35%), Positives = 188/308 (61%), Gaps = 16/308 (5%)
Query: 273 DEEFELIAQIQDL-IRLEKEK---SKLQSQ----FGREP----TLIEWAKAIGLSCRDLK 320
D +L QI DL +R E+ K +KL + + RE TL E+ K + R L+
Sbjct: 253 DSFLQLEQQINDLKVRAERNKFAAAKLDAAKRRLYKREVAAGRTLEEFKKDV----RMLQ 308
Query: 321 SELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCR 380
+ ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+MGLMK+VEKF+ + G +
Sbjct: 309 RWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYK 368
Query: 381 FASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARR 440
F++YA WW+RQ + +AI +RTIR+P ++ ++KVL + + E P E+LA
Sbjct: 369 FSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTPEELAEE 428
Query: 441 VGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRN 500
+G+T +++ + I + P+S+Q V +++F + DTGVE P + +++ ++
Sbjct: 429 LGLTPDRVREIYKIAQHPISLQAEVGEGGESSFGDFLEDTGVESPAEATGYSMLKDKMKE 488
Query: 501 LLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 560
+L L +ER ++ RFG+ DGKPK+L EVG+ F +++ER+RQ+E++AL +++ + K
Sbjct: 489 VLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQ 548
Query: 561 SYGYADLL 568
+ DLL
Sbjct: 549 LRAFLDLL 556
>gi|29840756|ref|NP_829862.1| RNA polymerase sigma factor [Chlamydophila caviae GPIC]
gi|29835106|gb|AAP05740.1| RNA polymerase sigma factor, sigma-70 family [Chlamydophila caviae
GPIC]
Length = 572
Score = 198 bits (504), Expect = 5e-48, Method: Compositional matrix adjust.
Identities = 96/265 (36%), Positives = 169/265 (63%), Gaps = 4/265 (1%)
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
TL E+ K + R L+ + ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+
Sbjct: 296 TLEEFKKDV----RMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 351
Query: 364 MGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRL 423
MGLMK+VEKF+ + G +F++YA WW+RQ + +AI +RTIR+P ++ ++KVL +
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 411
Query: 424 YIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVE 483
+ E P E+LA +G+T +++ + I + P+S+Q V +++F + DTGVE
Sbjct: 412 LMMETGKEPTPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGGESSFGDFLEDTGVE 471
Query: 484 IPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 543
P + +++ ++ +L L +ER ++ RFG+ DGKPK+L EVG+ F +++ER+RQ
Sbjct: 472 SPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQ 531
Query: 544 LESRALYRLKQSLGGKASYGYADLL 568
+E++AL +++ + K + DLL
Sbjct: 532 IEAKALRKMRHPIRSKQLRAFLDLL 556
>gi|372325327|ref|ZP_09519916.1| RpoD-like RNA polymerase sigma factor [Oenococcus kitaharae DSM
17330]
gi|366984135|gb|EHN59534.1| RpoD-like RNA polymerase sigma factor [Oenococcus kitaharae DSM
17330]
Length = 451
Score = 198 bits (504), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 104/304 (34%), Positives = 171/304 (56%), Gaps = 37/304 (12%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL A +E E+ R+EK +
Sbjct: 171 GVKINDPVRMYLKEIGRVSLLNATQEVEIAK------RIEKGGA---------------- 208
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
G +R++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 209 ---------------DGQRARQELAEANLRLVVSIAKRYVGRGMHFLDLIQEGNMGLMKA 253
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R IQ+
Sbjct: 254 VEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRTLIQDLG 313
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + +T +K+ + I + P+S++ P+ + D+ + D E P S
Sbjct: 314 RDPMPEEIGAEMELTADKVREIQKIAQEPVSLETPIGEEDDSHLGDFIEDNEGESPIEST 373
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
Q+++ + +L L +E ++RLRFG+EDGK ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 374 SDQMLKDQLEEVLGTLTEREENVLRLRFGLEDGKTRTLEEVGRVFGVTRERIRQIEAKAL 433
Query: 550 YRLK 553
+L+
Sbjct: 434 RKLR 437
>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 = 198 bits (504), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 112/322 (34%), Positives = 185/322 (57%), Gaps = 15/322 (4%)
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 LHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLL 414
L DL+QEG++GL++++EKF G +F++YA WW+RQ I + + SRTIRLP ++ +
Sbjct: 129 LLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQV 188
Query: 415 SKVLEAKR-LYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
+K+ KR L+ Q G + D E LA GI EK+ L+ +R P+S+ PV +D++
Sbjct: 189 NKLARIKRELHQQLGREATDDE-LANESGIPAEKIADLLDHSRDPVSLDMPVGSDEEAPL 247
Query: 474 QEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNI 533
+ D + +V L+ VR++L+ L+ +E+ ++R+R+G++DG+P++L ++G +
Sbjct: 248 GDFIEDAEATSAENAVIAGLLHTDVRSVLSTLDEREQQVIRMRYGLDDGQPRTLDQIGRM 307
Query: 534 FGLSKERVRQLESRALYRLKQS 555
FGLS+ERVRQ+E + +L+Q
Sbjct: 308 FGLSRERVRQIEREVMGKLRQG 329
>gi|386386524|ref|ZP_10071665.1| RNA polymerase sigma factor [Streptomyces tsukubaensis NRRL18488]
gi|385666011|gb|EIF89613.1| RNA polymerase sigma factor [Streptomyces tsukubaensis NRRL18488]
Length = 409
Score = 198 bits (504), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 91/249 (36%), Positives = 161/249 (64%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 161 DLDRLVVLGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 220
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE P +++
Sbjct: 221 GYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQEHGQEPTADEV 280
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A ++ + E++ ++ + + P+S+ PV + D ++ D P S L+R+H
Sbjct: 281 AAQLDLPPERIGEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 340
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 557
+ +L+ L +ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+
Sbjct: 341 LEAVLSTLGERERKVVQLRYGLVDGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 400
Query: 558 GKASYGYAD 566
GY D
Sbjct: 401 ADQLRGYLD 409
>gi|433457599|ref|ZP_20415585.1| RNA polymerase subunit sigma 28 [Arthrobacter crystallopoietes
BAB-32]
gi|432194598|gb|ELK51206.1| RNA polymerase subunit sigma 28 [Arthrobacter crystallopoietes
BAB-32]
Length = 432
Score = 198 bits (504), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 102/300 (34%), Positives = 183/300 (61%), Gaps = 12/300 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E +L +I+ + E+ KL G T +
Sbjct: 133 DPVKDYLKQIGKVALLNAEQEVDLALRIEAGLFAEE---KLAKDDGSMDTRMR------- 182
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDL+ +H G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 183 --RDLEQIIHDGKRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 240
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 241 YTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPAP 300
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L+
Sbjct: 301 EELALELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLL 360
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 361 QEQLHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRH 420
>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 = 198 bits (504), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 124/348 (35%), Positives = 190/348 (54%), Gaps = 52/348 (14%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSK------------------- 294
D +RL+L LL DEE ++Q IRL + ++K
Sbjct: 56 TDLVRLYLQEIGRVHLLGRDEEVSEAQKVQRYIRLVELRAKAAKNGDEIMVPYEQLMAVQ 115
Query: 295 --LQSQFGREPTLIEWAKAIGLSCRDLKSEL----------------------HSGNSSR 330
L S+ G P+L WA + G+ +LK L GN ++
Sbjct: 116 ERLTSELGHRPSLERWATSAGIEVAELKPLLIKGKRRWAEITGLTVQELEQIQSEGNRAK 175
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVR 390
E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++V+KF P G RF++YAYWW+R
Sbjct: 176 EHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVDKFDPTKGYRFSTYAYWWIR 235
Query: 391 QTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLER 450
Q I +AI SRTIRLP +I L+K+ +A+R QE +P +D+A + +T ++
Sbjct: 236 QGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTPTIDDIAAELEMTPPQVRE 295
Query: 451 LIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ----HVRNLLTLLN 506
++ +S++ V ++DT E+ +E IS ++ LMR+ +++LL L
Sbjct: 296 VLLRVPRSVSLETKVGKEKDTELGEL-----LETDSISPEEVLMREALQRDLQHLLADLT 350
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ER ++ +RFG+ DG SL+E+G LS+ERVRQ+ES+AL +L+Q
Sbjct: 351 DRERDVILMRFGLGDGHSYSLAEIGRALDLSRERVRQIESKALQKLRQ 398
>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 = 198 bits (504), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 102/300 (34%), Positives = 181/300 (60%), Gaps = 9/300 (3%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+ P
Sbjct: 262 DYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDFGRDPT 321
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++ +G++ +++ + I++ P+S++ P+ ++D+ + D+ P + +
Sbjct: 322 PEEIGSEMGMSPDRVREIQKISQEPVSLETPIGEEEDSQLGDFIEDSTAVAPPDAASDSM 381
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+R+ + +L L +ER +++ RFG+EDG P++L EVG FG+++ER+RQ+ES+ L +L+
Sbjct: 382 LREQLEQVLDSLADRERKVIKFRFGLEDGHPRTLEEVGKEFGVTRERIRQIESKTLAKLR 441
>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 = 198 bits (504), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 108/302 (35%), Positives = 180/302 (59%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 127 DYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGRDAT 186
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI EK+ L+ +R P+S+ PV +D++ + D + +V +L
Sbjct: 187 DEELAEESGIPAEKIADLLSHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISEL 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 247 LHTDIRHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 306
Query: 554 QS 555
Sbjct: 307 NG 308
>gi|385799581|ref|YP_005835985.1| RpoD subfamily RNA polymerase sigma-70 subunit [Halanaerobium
praevalens DSM 2228]
gi|309388945|gb|ADO76825.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halanaerobium
praevalens DSM 2228]
Length = 364
Score = 198 bits (504), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 102/301 (33%), Positives = 176/301 (58%), Gaps = 40/301 (13%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+R++L LLTA+EE EL +++ Q + EWAK
Sbjct: 92 DDPVRMYLKEIGKVDLLTAEEEVELAKRME------------QGE--------EWAK--- 128
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
++L+ ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+V+KF
Sbjct: 129 -----------------QQLVQANLRLVVSIAKKYVGRGMLFLDLIQEGNMGLMKAVDKF 171
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I ++I +RTIR+P ++ ++K++ R +QE P
Sbjct: 172 DYTKGYKFSTYATWWIRQAITRSIADQARTIRVPVHMVETINKLIRVSRQLLQEKGREPK 231
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++ + I+ EK+ ++ I++ P+S++ P+ ++D+ + D P + L
Sbjct: 232 DEEIGAEMDISAEKVREIMKISQDPVSLETPIGEEEDSHLGDFIEDVDSPAPASAASYIL 291
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + ++L L +E+ ++ LRFGIEDG+P++L EVG FG+++ER+RQ+E++AL +L+
Sbjct: 292 LKEQLNDVLDTLTDREKRVLELRFGIEDGRPRTLEEVGKEFGVTRERIRQIEAKALRKLR 351
Query: 554 Q 554
Sbjct: 352 H 352
>gi|266625476|ref|ZP_06118411.1| RNA polymerase sigma factor RpoD [Clostridium hathewayi DSM 13479]
gi|288862622|gb|EFC94920.1| RNA polymerase sigma factor RpoD [Clostridium hathewayi DSM 13479]
Length = 381
Score = 198 bits (504), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 107/313 (34%), Positives = 178/313 (56%), Gaps = 40/313 (12%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LL+ADEE +RL K K+
Sbjct: 103 LLEGIGTEDPVRMYLKEIGTVPLLSADEE----------LRLAKRKA------------- 139
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
++E+LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 140 -----------------DGDEDAKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 182
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 183 IKGVEKFDYTKGYKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 242
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P +LA + ++ +K+ ++ I R P S++ P+ + D+ + AD V P+
Sbjct: 243 ELGYEPSVTELADALDMSEDKVMEIMQIAREPASLETPIGEEDDSNLGDFVADNNVVTPE 302
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 303 GNVESVMLREHIDALLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEA 362
Query: 547 RALYRLKQSLGGK 559
+AL +L+ + K
Sbjct: 363 KALRKLRNPVRSK 375
>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 = 198 bits (504), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 107/297 (36%), Positives = 187/297 (62%), Gaps = 1/297 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ L + + ++ L+ + G +PT A + ++ + L++ L+ G
Sbjct: 91 LLKPDEEVELARRVRFLEEVNEIQAALRQELGHQPTKASIAAHLQITEKQLENRLYQGRV 150
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F++YAYWW
Sbjct: 151 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 210
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIRLP +I L+K+ +A+R Q +P++ ++A + I ++L
Sbjct: 211 IRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQRLGRNPNEIEMAEALEIPPQQL 270
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNP 507
+L + R LS+ V ++DT ++ D + P+ + + +MRQ + +L +L P
Sbjct: 271 RQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNQSPEAKMNESMMRQEIWEVLGDVLTP 330
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ++S+A+ +L++ K G+
Sbjct: 331 REKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKGW 387
>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 = 198 bits (504), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 105/287 (36%), Positives = 186/287 (64%), Gaps = 1/287 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE +L +++ L+ ++ + LQ + R+PT E A A+ ++ R L+ L+ G
Sbjct: 75 LLKPDEEVDLARRVKFLVEIDHLHNSLQEKLDRKPTKAEVAAAVEMTERQLEGNLYRGRV 134
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYWW
Sbjct: 135 AKRKMIRSNLRLVVSIAKRYINRGVPFLDLIQEGALGLNRAAEKFDPDKGYKFSTYAYWW 194
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I + I +RTIRLP +I L+K+ +A+R Q+ +P++ +LA+ + I++ L
Sbjct: 195 IRQAITRTIANDARTIRLPIHIVEKLNKLKKAQRELKQKLQRNPNELELAQALEISLSHL 254
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLNP 507
+L+ + R LS+ V +DT ++ D + +P+ + + +MRQ + +L+ +L
Sbjct: 255 RQLLELRRRSLSLNHRVGKGEDTELMDLLEDNDLRLPEDKMNESMMRQEIWEVLSDVLTE 314
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++S+A+ +L++
Sbjct: 315 REKDVISLRYGLASSEPYTLEEVGGMFNLSRERVRQIQSKAMRKLRR 361
>gi|290967746|ref|ZP_06559301.1| RNA polymerase sigma factor RpoD [Megasphaera genomosp. type_1 str.
28L]
gi|335049249|ref|ZP_08542250.1| RNA polymerase sigma factor RpoD [Megasphaera sp. UPII 199-6]
gi|290782262|gb|EFD94835.1| RNA polymerase sigma factor RpoD [Megasphaera genomosp. type_1 str.
28L]
gi|333763615|gb|EGL41055.1| RNA polymerase sigma factor RpoD [Megasphaera sp. UPII 199-6]
Length = 423
Score = 198 bits (504), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 105/314 (33%), Positives = 182/314 (57%), Gaps = 32/314 (10%)
Query: 242 SVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGR 301
+V + EG + +DP+R++L LL+ADEE L
Sbjct: 128 TVDLSVPEGINIDDPVRMYLKEIGRVPLLSADEEITL----------------------- 164
Query: 302 EPTLIEWAKAI--GLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLL 359
AKAI G ++ +G +++KL +ANLRLVV +AK+Y GRG+ DL+
Sbjct: 165 -------AKAIEKGNDENATVADKKNGIDAKKKLTDANLRLVVSIAKRYVGRGMLFLDLI 217
Query: 360 QEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLE 419
QEG++GL+K+V+KF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++
Sbjct: 218 QEGNLGLLKAVDKFDYSKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR 277
Query: 420 AKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITAD 479
R IQE P E++A ++ I VE++ ++ I + P+S++ P+ ++D+ + D
Sbjct: 278 ISRQLIQEKGRDPLPEEIAEKMEIPVERVREIMKIAQEPVSLETPIGEEEDSHLGDFIED 337
Query: 480 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 539
PD + L+++ + + + L +ER ++ LRFG++DG+P++L EVG F +++E
Sbjct: 338 QEAVAPDDAASFILLKEQIEEVFSCLTDRERKVLYLRFGLKDGRPRTLEEVGQYFNVTRE 397
Query: 540 RVRQLESRALYRLK 553
R+RQ+E +AL +L+
Sbjct: 398 RIRQIEGKALGKLR 411
>gi|241896072|ref|ZP_04783368.1| DNA-directed RNA polymerase sigma subunit RpoD [Weissella
paramesenteroides ATCC 33313]
gi|241870672|gb|EER74423.1| DNA-directed RNA polymerase sigma subunit RpoD [Weissella
paramesenteroides ATCC 33313]
Length = 378
Score = 198 bits (504), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 99/304 (32%), Positives = 171/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLT DEE L +I+
Sbjct: 102 GMKINDPVRMYLKEIGRVSLLTGDEEVSLAERIE-------------------------- 135
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 136 --------------AGDETAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 181
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 182 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRNLLQDLG 241
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P S
Sbjct: 242 REPTPEEIGAEMDVATEKVRDILKIAQEPVSLETPIGEEDDSHLGDFIEDNEAVSPADSA 301
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
Q++++ + ++L L +E ++RLRFG+EDG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 302 AYQMLKEQLESVLDTLTDREENVLRLRFGLEDGRTRTLEEVGKVFGVTRERIRQIEAKAL 361
Query: 550 YRLK 553
+L+
Sbjct: 362 RKLR 365
>gi|347753174|ref|YP_004860739.1| RpoD subfamily RNA polymerase sigma-70 subunit [Bacillus coagulans
36D1]
gi|347585692|gb|AEP01959.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus
coagulans 36D1]
Length = 377
Score = 198 bits (504), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 99/305 (32%), Positives = 172/305 (56%), Gaps = 40/305 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+ADEE EL +I+
Sbjct: 101 GVKINDPVRMYLKEIGRVDLLSADEEIELAKRIE-------------------------- 134
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGL+K+
Sbjct: 135 --------------QGDEEAKRRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLIKA 180
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 181 VEKFDYKKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLG 240
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++A + I+ +K+ +I I + P+S++ P+ + D+ + D P
Sbjct: 241 REPTPEEIAEEMDISPDKVREIIKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHA 300
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 301 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 360
Query: 550 YRLKQ 554
+L+
Sbjct: 361 RKLRH 365
>gi|455652448|gb|EMF31078.1| RNA polymerase sigma factor [Streptomyces gancidicus BKS 13-15]
Length = 428
Score = 198 bits (504), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 102/298 (34%), Positives = 178/298 (59%), Gaps = 13/298 (4%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTA EE EL +++ + +EK +L DL + G
Sbjct: 144 LLTAAEEVELARRVEAGL-FAEEKLRLTPDLDSR------------LAHDLDRLVVLGRM 190
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA WW
Sbjct: 191 AKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGFKFSTYATWW 250
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P +++A + + E++
Sbjct: 251 IRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPQEVAAHLELPPERV 310
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
++ + + P+S+ PV + D ++ D P S L+RQH+ +L+ L +
Sbjct: 311 GEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLRQHLEAVLSTLGER 370
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYAD 566
ER +V+LR+G+ DG+P++L E+G +FG+++ER+RQ+ES+ L +L+ GY D
Sbjct: 371 ERKVVQLRYGLVDGRPRTLEEIGRLFGVTRERIRQIESKTLNKLRDHAYADQLRGYLD 428
>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 = 198 bits (504), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 108/302 (35%), Positives = 179/302 (59%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 127 DYSKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREAT 186
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI VEK+ L+ +R P+S+ PV +D++ + D + +V +L
Sbjct: 187 DEELAAESGIPVEKITDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISEL 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R +L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 247 LHTDIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 306
Query: 554 QS 555
Sbjct: 307 NG 308
>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 = 198 bits (504), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 107/312 (34%), Positives = 185/312 (59%), Gaps = 7/312 (2%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++VL +R +QE P
Sbjct: 198 YARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVLRVQRGLLQERGVEPTA 257
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++ + + E++ ++ + + P+S+ PV + D ++ D P S L+
Sbjct: 258 AEVGAVLQLPPERVREVLKLAQEPVSLHTPVGEEDDVALGDLIEDADAASPPESAAFLLL 317
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
R+H+ +L L +ER +V+LR+G++DG+P++L E+G++FG+++ER+RQ+E++ L +L+
Sbjct: 318 REHLEAVLATLGERERQVVQLRYGLDDGRPRTLEEIGHLFGVTRERIRQIEAKTLGKLRD 377
Query: 555 SLGGKASYGYAD 566
GY D
Sbjct: 378 HAFADQLRGYLD 389
>gi|373251740|ref|ZP_09539858.1| RNA polymerase sigma factor SigA [Nesterenkonia sp. F]
Length = 476
Score = 198 bits (503), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 87/238 (36%), Positives = 158/238 (66%)
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
RD++ + G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 227 RDMELVIADGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYT 286
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ PD E+
Sbjct: 287 KGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPDPEE 346
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L+++
Sbjct: 347 LAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPSDAVSFTLLQE 406
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ ++L L +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 407 QLHSVLDTLAEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRH 464
>gi|154249128|ref|YP_001409953.1| RpoD family RNA polymerase sigma factor [Fervidobacterium nodosum
Rt17-B1]
gi|154153064|gb|ABS60296.1| RNA polymerase, sigma 70 subunit, RpoD family [Fervidobacterium
nodosum Rt17-B1]
Length = 372
Score = 198 bits (503), Expect = 6e-48, Method: Compositional matrix adjust.
Identities = 93/226 (41%), Positives = 153/226 (67%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++E+LI +NLRLVV +AK+Y G+G+S DL+QEGS+GL+K+VEKF G +F++YA WW
Sbjct: 130 AKEELIISNLRLVVSMAKRYLGKGLSFLDLIQEGSLGLIKAVEKFDWSKGYKFSTYATWW 189
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIR+P ++ ++K+ + KR Y+QE P E +A +VG V+K+
Sbjct: 190 IRQAITRAIADQARTIRVPVHMVETINKIQKIKREYVQEHGEEPSIEYIAEQVGKPVDKI 249
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
E ++ LS++ PV + D++ + AD + P + LMR+ + LL LN +
Sbjct: 250 EEILQAAPETLSLETPVNEEDDSSMGDFIADESIGSPKKEAIRTLMREEIDKLLETLNDR 309
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
E+ ++++R+G+ +GKP +L EVG FG+++ER+RQ+E +AL +L+
Sbjct: 310 EKKVLKMRYGLYNGKPMTLEEVGQFFGVTRERIRQIEVKALRKLRH 355
>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 = 198 bits (503), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 108/302 (35%), Positives = 180/302 (59%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 127 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREAT 186
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI EK+ L+ +R P+S+ PV +D++ + D + +V +L
Sbjct: 187 DEELAEESGIPAEKIADLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVISEL 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 247 LHTDIRHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 306
Query: 554 QS 555
Sbjct: 307 NG 308
>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 = 198 bits (503), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 103/307 (33%), Positives = 180/307 (58%), Gaps = 23/307 (7%)
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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+++VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q
Sbjct: 255 IRAVEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQ 314
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
+ P E++ +G++ +++ + I++ P+S++ P+ ++D+ + D+ P
Sbjct: 315 DLGRDPTPEEIGAEMGMSPDRVREIQKISQEPVSLETPIGEEEDSQLGDFIEDSTAIAPP 374
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+ ++R+ + +L L +ER +++ RFG+EDG+P++L EVG FG+++ER+RQ+ES
Sbjct: 375 DAASDSMLREQLEQVLDGLADRERKVIKFRFGLEDGRPRTLEEVGREFGVTRERIRQIES 434
Query: 547 RALYRLK 553
+ L +L+
Sbjct: 435 KTLAKLR 441
>gi|297588502|ref|ZP_06947145.1| DNA-directed RNA polymerase sigma subunit RpoD [Finegoldia magna
ATCC 53516]
gi|297573875|gb|EFH92596.1| DNA-directed RNA polymerase sigma subunit RpoD [Finegoldia magna
ATCC 53516]
Length = 389
Score = 198 bits (503), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 92/237 (38%), Positives = 158/237 (66%), Gaps = 1/237 (0%)
Query: 319 LKSELHSGNS-SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
L E+ +G+ +++KL ANLRLVV +AK+Y GRG+S DL+QEG++GLMK+V+KF
Sbjct: 141 LAQEMENGSKRAKKKLAEANLRLVVSIAKRYVGRGMSFLDLIQEGNLGLMKAVDKFDYTR 200
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ I +AI +RTIR+P ++ +++++ +R +Q+ P E++
Sbjct: 201 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRLVRIERQLLQDLGRDPTNEEI 260
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A+ +GI VEK+ + I + P+S++ P+ ++D+ + D PD + ++R+
Sbjct: 261 AKEMGIEVEKVREVRKIAQEPVSLETPIGEEEDSHLGDFIEDDTAIAPDEAANFTMLREE 320
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ +L LN +ER ++ LRFG+ DG P++L EVG F +++ER+RQ+E++AL +LK
Sbjct: 321 LEGILNTLNERERKVLALRFGLVDGTPRTLEEVGKDFDVTRERIRQIEAKALRKLKH 377
>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 = 198 bits (503), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 112/301 (37%), Positives = 174/301 (57%), Gaps = 12/301 (3%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
Q G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q P
Sbjct: 148 YQKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRLKRELYQNLGREPSN 207
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA G+ EK+E L+ +R P+S+ PV AD++ + D ++SV L
Sbjct: 208 EELAGESGLPEEKVELLLRQSRDPVSLDMPVGADEEAPLGDFIEDAEAADAELSVVATLR 267
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ ++L L+ +E+ ++ LR+G+ DG P++L ++G FGLS+ERVRQ+E + +L++
Sbjct: 268 HDDIHDVLGSLDQREQDVITLRYGLNDGVPRTLDQIGRKFGLSRERVRQIEREVMKKLRE 327
Query: 555 S 555
Sbjct: 328 G 328
>gi|336114403|ref|YP_004569170.1| RpoD subfamily RNA polymerase sigma-70 subunit [Bacillus coagulans
2-6]
gi|335367833|gb|AEH53784.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Bacillus
coagulans 2-6]
Length = 377
Score = 198 bits (503), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 99/305 (32%), Positives = 172/305 (56%), Gaps = 40/305 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+ADEE EL +I+
Sbjct: 101 GVKINDPVRMYLKEIGRVDLLSADEEIELAKRIE-------------------------- 134
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGL+K+
Sbjct: 135 --------------QGDEEAKRRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLIKA 180
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 181 VEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLG 240
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++A + I+ +K+ +I I + P+S++ P+ + D+ + D P
Sbjct: 241 REPTPEEIAEEMDISPDKVREIIKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHA 300
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 301 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 360
Query: 550 YRLKQ 554
+L+
Sbjct: 361 RKLRH 365
>gi|405979920|ref|ZP_11038261.1| RNA polymerase principal sigma factor hrdB [Actinomyces turicensis
ACS-279-V-Col4]
gi|404391295|gb|EJZ86359.1| RNA polymerase principal sigma factor hrdB [Actinomyces turicensis
ACS-279-V-Col4]
Length = 619
Score = 198 bits (503), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 102/304 (33%), Positives = 183/304 (60%), Gaps = 22/304 (7%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLE-KEKSKLQSQFGREPTLIEWAKAIG 313
DP++ +L LL A++E +L +I+ + E K K++ S +E
Sbjct: 320 DPVKDYLKQIGKVSLLNAEQEVDLARRIEAGLYAEYKLKNEADSMTAKE----------- 368
Query: 314 LSCRDLKSELH----SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ ELH G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++
Sbjct: 369 ------RRELHFMASDGQLAKNHLLEANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRA 422
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 423 VEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLG 482
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V
Sbjct: 483 REPTPEELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAV 542
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
L+++ + N+L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ +
Sbjct: 543 SFTLLQEQLHNVLDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTM 602
Query: 550 YRLK 553
+L+
Sbjct: 603 SKLR 606
>gi|303233350|ref|ZP_07320019.1| RNA polymerase sigma factor RpoD [Atopobium vaginae PB189-T1-4]
gi|302480479|gb|EFL43570.1| RNA polymerase sigma factor RpoD [Atopobium vaginae PB189-T1-4]
Length = 441
Score = 198 bits (503), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 101/301 (33%), Positives = 182/301 (60%), Gaps = 11/301 (3%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGR-EPTLIEWAKAI 312
DP+R++L LLTAD+E L +I+ +K Q + E IE +++
Sbjct: 137 GDPVRMYLKEIGKVDLLTADDEVHLAMKIE-------AGNKATEQLEKAEKGEIELSRS- 188
Query: 313 GLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEK 372
R L E G +++ L +ANLRL V +AK+Y GRG+ DL+QEG++GL+++VEK
Sbjct: 189 --EMRRLMREEQVGLDAKQALTSANLRLTVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEK 246
Query: 373 FKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSP 432
F G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +QE P
Sbjct: 247 FDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLLQELGRDP 306
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
E++ + + ++ +K+ + I++ P+S++ P+ ++D++ + D+ P +
Sbjct: 307 SPEEIGKEMNMSPDKIREIQKISQEPVSLETPIGEEEDSSLGDFIEDSTAVAPPDAASDS 366
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
++R+ + +L L +ER +++ RFG+EDG P++L EVG FG+++ER+RQ+ES+ L +L
Sbjct: 367 MLREQLNQVLDSLADRERKVIKFRFGLEDGHPRTLEEVGREFGVTRERIRQIESKTLAKL 426
Query: 553 K 553
+
Sbjct: 427 R 427
>gi|425734704|ref|ZP_18853021.1| RNA polymerase principal sigma factor [Brevibacterium casei S18]
gi|425480640|gb|EKU47804.1| RNA polymerase principal sigma factor [Brevibacterium casei S18]
Length = 489
Score = 198 bits (503), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 101/300 (33%), Positives = 180/300 (60%), Gaps = 13/300 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A EE +L +I+ + E L+ +P L
Sbjct: 191 DPVKDYLKQIGKVALLNAAEEVDLAKRIEAGMYAEH---LLEEGEVSDPRL--------- 238
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
D K +H G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 239 -TMDYKWIIHDGRIAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 297
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 298 YTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPSP 357
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA+ + +T E++ + R P+S+ P+ D D+ F ++ D+ +P SV L+
Sbjct: 358 EELAKELDMTPERVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPSDSVSFTLL 417
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 418 QEQLHSVLDTLSEREAGVVSMRFGLNDGQPKTLDEIGKVYGVTRERIRQIESKTMAKLRH 477
>gi|1769413|dbj|BAA13122.1| RpoD2 sigma factor [Microcystis aeruginosa]
Length = 376
Score = 198 bits (503), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 112/288 (38%), Positives = 190/288 (65%), Gaps = 3/288 (1%)
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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
+++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 138 TAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 197
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP +I L+K+ +A+ L Q+ +P++ +LA R+ IT E+
Sbjct: 198 WIRQAITRTIANDARTIRLPIHIVEKLNKLKKAQILK-QDLQRNPNERELAERLEITPEQ 256
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + +MRQ + +L+ +L
Sbjct: 257 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDDDLQLPEDKMNEMMMRQEIFAVLSDVLT 316
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG +F LS+ERVRQ++++A+ +L++
Sbjct: 317 EREKDVISLRYGLATSQPYTLEEVGGMFNLSRERVRQIQTKAMRKLRR 364
>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 = 198 bits (503), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 110/317 (34%), Positives = 186/317 (58%), Gaps = 1/317 (0%)
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 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEG++GL + VEKF P G +F++YAYWW+RQ I +AI Q SRTIRLP ++ L+K
Sbjct: 125 DLIQEGALGLERGVEKFDPTLGYKFSTYAYWWIRQGITRAIAQQSRTIRLPIHMADKLNK 184
Query: 417 VLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEI 476
+ +R Q+ + ++A+ + + ++ + + R P+S+ + +QDT Q++
Sbjct: 185 IKCVQRELSQKLGYIAGVTEIAQALNLEPSQIREYLQLVRQPVSLDMRIGFEQDTQLQDL 244
Query: 477 TADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 536
D G+ P+ +++L+ Q + NLL L P+++ ++ LRFG+ G +L ++ G+
Sbjct: 245 LKDDGMS-PERYAERELLYQDIHNLLAKLTPQQKEVLILRFGLAGGCELTLVQISQRMGI 303
Query: 537 SKERVRQLESRALYRLK 553
S+ERVRQ+E +AL L+
Sbjct: 304 SRERVRQVEKQALTLLR 320
>gi|395772635|ref|ZP_10453150.1| RNA polymerase sigma factor [Streptomyces acidiscabies 84-104]
Length = 362
Score = 198 bits (503), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 91/249 (36%), Positives = 161/249 (64%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 114 DLDRLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 173
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++
Sbjct: 174 GYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPEEV 233
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A ++ + ++ ++ + + P+S+ PV + D ++ D P S L+R+H
Sbjct: 234 AAQLDLAPARVGEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 293
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 557
+ +L+ L +ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+
Sbjct: 294 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 353
Query: 558 GKASYGYAD 566
GY D
Sbjct: 354 ADQLRGYLD 362
>gi|18477825|emb|CAC83730.1| sigma factor [Rhodococcus fascians D188]
Length = 323
Score = 198 bits (503), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 109/303 (35%), Positives = 187/303 (61%), Gaps = 17/303 (5%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAI-G 313
D +R++L G LLTA+EE +L +I+ + ++ ++E K +
Sbjct: 25 DLVRVYLNGIGRTALLTAEEEVDLAKRIE------------AGLYAKQ--VLENTKRLSA 70
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ R+L + G+++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 71 VKKRNLAIIVRDGSAARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 130
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR-LYIQEGNHSP 432
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR L+ Q G +
Sbjct: 131 DYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREAT 190
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
D E+L+ GI VEK+ L+ +R P+S+ PV +D++ + D+ + +V
Sbjct: 191 D-EELSSESGIAVEKIADLLDHSRDPVSLDMPVGSDEEAPLGDFIEDSEATSAENAVIAG 249
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
L+ VR +L L+ +E+ ++RLR+G++DG+P++L ++G +FGLS+ERVRQ+E + +L
Sbjct: 250 LLHSDVRVVLGTLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMVKL 309
Query: 553 KQS 555
+Q
Sbjct: 310 RQG 312
>gi|332670669|ref|YP_004453677.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cellulomonas fimi
ATCC 484]
gi|332339707|gb|AEE46290.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulomonas fimi
ATCC 484]
Length = 538
Score = 198 bits (503), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 101/303 (33%), Positives = 181/303 (59%), Gaps = 19/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTL---IEWAKA 311
DP++ +L LL A++E EL +I+ + E+ +L + EP L +EW
Sbjct: 240 DPVKDYLKQIGKVALLNAEQEVELAKRIEAGLFAEE---RLNAGVAMEPKLRRELEWIAG 296
Query: 312 IGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VE
Sbjct: 297 -------------DGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVE 343
Query: 372 KFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHS 431
KF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 344 KFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGRE 403
Query: 432 PDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQK 491
P E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V
Sbjct: 404 PTPEELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSF 463
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
L+++ + +L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +
Sbjct: 464 TLLQEQLHQVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSK 523
Query: 552 LKQ 554
L+
Sbjct: 524 LRH 526
>gi|408411647|ref|ZP_11182785.1| RNA polymerase sigma factor [Lactobacillus sp. 66c]
gi|407874195|emb|CCK84591.1| RNA polymerase sigma factor [Lactobacillus sp. 66c]
Length = 389
Score = 198 bits (503), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 102/317 (32%), Positives = 177/317 (55%), Gaps = 40/317 (12%)
Query: 237 NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ 296
N KA ++ + G NDP+R +L LLT +EE EL +I+
Sbjct: 100 NVEKAELENLAAPGSRMNDPVRQYLKRIGRVNLLTGNEEVELAKRIE------------- 146
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
++E+L NANLRLVV +AK+Y GRG+S
Sbjct: 147 ---------------------------AGDEEAKEELTNANLRLVVSIAKRYVGRGMSFL 179
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEG+MGLMK+V+KF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K
Sbjct: 180 DLIQEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINK 239
Query: 417 VLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEI 476
++ +R +Q+ P E++A + + V+K+ ++ + + P+S++ P+ + D+ +
Sbjct: 240 LIRIQRQLLQDLGRDPQPEEIAAEMDLPVKKVREILKVAQEPVSLETPIGEEDDSHLGDF 299
Query: 477 TADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 536
D P+ +L++ + +L L +E ++RLRFG++D P++L EVG +FG+
Sbjct: 300 IEDKDATSPEQHAANELLKDQLAEVLDTLTDREENVLRLRFGLDDDNPRTLEEVGRVFGV 359
Query: 537 SKERVRQLESRALYRLK 553
++ER+RQ+E++AL +L+
Sbjct: 360 TRERIRQIEAKALRKLR 376
>gi|403380483|ref|ZP_10922540.1| RpoD subfamily RNA polymerase sigma-70 subunit [Paenibacillus sp.
JC66]
Length = 376
Score = 198 bits (503), Expect = 7e-48, Method: Compositional matrix adjust.
Identities = 100/304 (32%), Positives = 175/304 (57%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G + ND +R++L LL+ADEE EL +I
Sbjct: 100 GKNTNDSVRMYLKEIGRVGLLSADEEIELAQRI--------------------------- 132
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+ +++++L ANLRLVV +A++Y GRG+ L DL+QEG+MGL+K+
Sbjct: 133 -------------VEGDAAAKKRLAEANLRLVVSIARRYAGRGMLLLDLIQEGNMGLIKA 179
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I ++I +RTIR+P ++ ++K R +QE
Sbjct: 180 VEKFDYTKGFKFSTYATWWIRQAITRSIADQARTIRIPVHMVETMNKFTRVSRQLLQEMG 239
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++A+ + ++++K+ ++ I++ P+S++ PV + ++ + D V P S
Sbjct: 240 REPTPEEIAKEMELSLDKVREIMKISQEPVSLETPVGEESESKLGDFIEDHDVMAPSDSA 299
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
L+++ + ++L L +E ++RLRFG+EDG P++L EVG +FG+++ER+RQ+E++AL
Sbjct: 300 AYTLLKEQLEDVLDTLTDREENVLRLRFGLEDGNPRTLEEVGKVFGVTRERIRQIEAKAL 359
Query: 550 YRLK 553
+L+
Sbjct: 360 RKLR 363
>gi|418010946|ref|ZP_12650717.1| RNA polymerase sigma factor [Lactobacillus casei Lc-10]
gi|410553525|gb|EKQ27528.1| RNA polymerase sigma factor [Lactobacillus casei Lc-10]
Length = 422
Score = 198 bits (503), Expect = 8e-48, Method: Compositional matrix adjust.
Identities = 99/306 (32%), Positives = 172/306 (56%), Gaps = 40/306 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE L +I+
Sbjct: 146 GVKINDPVRMYLKEIGRVSLLTADEEVALALKIE-------------------------- 179
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 180 --------------QGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 225
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 226 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 285
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P+
Sbjct: 286 REPTPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPEDHA 345
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 346 SYELLKEQLESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 405
Query: 550 YRLKQS 555
+L+ S
Sbjct: 406 RKLRHS 411
>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 = 198 bits (503), Expect = 8e-48, Method: Compositional matrix adjust.
Identities = 112/301 (37%), Positives = 174/301 (57%), Gaps = 12/301 (3%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
Q G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q P
Sbjct: 138 YQKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRLKRELYQNLGREPSN 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA G+ EK+E L+ +R P+S+ PV AD++ + D ++SV L
Sbjct: 198 EELAGESGLPEEKVELLLRQSRDPVSLDMPVGADEEAPLGDFIEDAEAADAELSVVATLR 257
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ ++L L+ +E+ ++ LR+G+ DG P++L ++G FGLS+ERVRQ+E + +L++
Sbjct: 258 HDDIHDVLGSLDQREQDVITLRYGLNDGVPRTLDQIGRKFGLSRERVRQIEREVMKKLRE 317
Query: 555 S 555
Sbjct: 318 G 318
>gi|410582688|ref|ZP_11319794.1| RNA polymerase, sigma 70 subunit, RpoD [Thermaerobacter
subterraneus DSM 13965]
gi|410505508|gb|EKP95017.1| RNA polymerase, sigma 70 subunit, RpoD [Thermaerobacter
subterraneus DSM 13965]
Length = 432
Score = 198 bits (503), Expect = 8e-48, Method: Compositional matrix adjust.
Identities = 97/261 (37%), Positives = 165/261 (63%), Gaps = 15/261 (5%)
Query: 298 QFGREPTL-----IEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRG 352
+ GR P L IE AK I ++ KLI ANLRLVV +AK+Y GRG
Sbjct: 169 EIGRIPLLTPEQEIELAKRIE----------QGDEEAKRKLIQANLRLVVSIAKRYVGRG 218
Query: 353 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYT 412
+ DL+QEG++GL+K+ EKF + G +F++YA WW+RQ I +AI +RTIR+P ++
Sbjct: 219 MLFLDLIQEGNLGLIKAAEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVE 278
Query: 413 LLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTT 472
++K++ +R +QE P E++A+ +GI EK+ ++ I + P+S++ P+ ++D+
Sbjct: 279 TINKLIRVQRQLVQELGREPTPEEIAKEMGIEPEKVREIMKIAQEPVSLETPIGEEEDSH 338
Query: 473 FQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGN 532
+ D P + + L+R+ + ++L L +E+ ++RLRFG++DG+ ++L EVG
Sbjct: 339 LGDFIEDEDALAPAEAASQLLLREQLEDVLHTLTDREQKVLRLRFGLDDGRQRTLEEVGQ 398
Query: 533 IFGLSKERVRQLESRALYRLK 553
IFG+++ER+RQ+E++AL +L+
Sbjct: 399 IFGVTRERIRQIEAKALRKLR 419
>gi|375090808|ref|ZP_09737120.1| RNA polymerase sigma factor rpoD [Facklamia languida CCUG 37842]
gi|374564970|gb|EHR36249.1| RNA polymerase sigma factor rpoD [Facklamia languida CCUG 37842]
Length = 379
Score = 198 bits (503), Expect = 8e-48, Method: Compositional matrix adjust.
Identities = 105/319 (32%), Positives = 178/319 (55%), Gaps = 46/319 (14%)
Query: 235 TYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSK 294
T + R A+ K K++ DP+R++L LLTADEE EL +I
Sbjct: 94 TASQRAAASKIKVA------DPVRMYLKEIGRVDLLTADEEIELAKRI------------ 135
Query: 295 LQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGIS 354
L ++++L ANLRLVV +AK+Y GRG+S
Sbjct: 136 ----------------------------LEGDELAKQELAEANLRLVVSIAKRYVGRGMS 167
Query: 355 LHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLL 414
DL+QEG+MGLMK+VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ +
Sbjct: 168 FLDLIQEGNMGLMKAVEKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETI 227
Query: 415 SKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQ 474
+K++ +R +Q+ P E++ + + EK+ ++ I + P+S++ P+ + D+
Sbjct: 228 NKLVRVQRQLLQDLGREPTPEEIGAEMDLPTEKVRDILKIAQEPVSLETPIGEEDDSHLG 287
Query: 475 EITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIF 534
+ D G P+ L+R+ + ++L L +E ++RLRFG++DG ++L +VG +F
Sbjct: 288 DFIEDDGALSPEDFTASALLREQLEDVLDTLTDREENVLRLRFGLDDGNIRTLEQVGKVF 347
Query: 535 GLSKERVRQLESRALYRLK 553
G+++ER+RQ+E++AL +L+
Sbjct: 348 GVTRERIRQIEAKALRKLR 366
>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 = 197 bits (502), Expect = 8e-48, Method: Compositional matrix adjust.
Identities = 107/292 (36%), Positives = 184/292 (63%), Gaps = 2/292 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLT++EE L ++Q + L K +L + R+PTL EW+ L+ +L ++ G
Sbjct: 44 LLTSEEEINLAKKVQQRMSLLAIKEELSKKLQRQPTLQEWSDKAQLNDTELLEQIDRGQR 103
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
+++K+I ANLRLVV +AK+YQ R + DL+QEG++GL ++V+KF+P G +F++YAYWW
Sbjct: 104 AKQKMIAANLRLVVTIAKKYQKRNLDFLDLIQEGTLGLERAVDKFQPALGYKFSTYAYWW 163
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI Q SRTIRLP +I L+K+ +R Q+ +P ++A + + ++
Sbjct: 164 IRQGITRAISQQSRTIRLPIHITEKLNKIKRVQRELSQKLGRNPSVTEIAEVMEVKPSQI 223
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ + R P+S+ V +Q+T +++ D P+ V K+ + Q +++LL+ L+P+
Sbjct: 224 RDYLSLARKPMSLDVRVGEEQNTDLKDLLEDNSFS-PEDYVLKESLNQTIKDLLSKLSPQ 282
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 560
++ I+ LR+G+EDG+ +L++V G+S++RV QL+ +AL L Q G K+
Sbjct: 283 QQEILTLRYGLEDGQELTLNQVSQRMGISRQRVLQLQRQALAFL-QRYGKKS 333
>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 = 197 bits (502), Expect = 8e-48, Method: Compositional matrix adjust.
Identities = 99/300 (33%), Positives = 183/300 (61%), Gaps = 12/300 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ + +AI +RTIR+P ++ ++K++ +R +Q+ P
Sbjct: 200 DYTKGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPS 259
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++A+ + +T +K+ ++ +++ P+S++ P+ ++D+ + D +P + L
Sbjct: 260 PEEIAKEMDLTPDKVREILKVSQEPVSLETPIGEEEDSHLGDFIEDCDAVVPVDAASFIL 319
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + ++L L+ +E+ +++LRFG+ DG P++L EVG FG+++ER+RQ+ES+ L +L+
Sbjct: 320 LQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVTRERIRQIESKTLSKLR 379
>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 = 197 bits (502), Expect = 8e-48, Method: Compositional matrix adjust.
Identities = 124/345 (35%), Positives = 188/345 (54%), Gaps = 47/345 (13%)
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 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQ 391
++I ANLRLVV VAK+YQ RG+ L DL+QEG++GL ++VEKF P G RF++YAYWW+RQ
Sbjct: 127 RMIQANLRLVVTVAKKYQQRGLELLDLVQEGTLGLERAVEKFDPTRGFRFSTYAYWWIRQ 186
Query: 392 TIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERL 451
I +AI SRTIRLP ++ L+++ + ++ DL+R +GI+ E +
Sbjct: 187 GITRAIATQSRTIRLPVHVTEKLNRIKKVQQEIATNEGRIASISDLSRALGISEETVR-- 244
Query: 452 IFITRMP--LSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKE 509
+ + R+P +S++ V DQDT ++ D P+ ++ K + + LL L +E
Sbjct: 245 LTLMRVPRSVSLETRVGKDQDTQLGDLLEDCHA-TPEQTLTKNSLHSDLEELLGELTARE 303
Query: 510 RCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++R RFG+ED P +L+E+G GLS+ERVRQ+E+RAL +L+Q
Sbjct: 304 AEVIRRRFGLEDDTPLTLAEIGETMGLSRERVRQIETRALLKLRQ 348
>gi|291520418|emb|CBK75639.1| RNA polymerase, sigma 70 subunit, RpoD [Butyrivibrio fibrisolvens
16/4]
Length = 376
Score = 197 bits (502), Expect = 9e-48, Method: Compositional matrix adjust.
Identities = 111/337 (32%), Positives = 192/337 (56%), Gaps = 23/337 (6%)
Query: 221 KKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEF--EL 278
K K+ Q+ TY +K G D N F GP LL +D+E ++
Sbjct: 47 KDYKIDAKQMERILTYLDKK---------GIDVN-----FSSGPSDALLLASDDEDLEDI 92
Query: 279 IAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN-SSREKLINAN 337
+ D + +E + G+ P L + +L ++ G+ ++ KL AN
Sbjct: 93 DMSVPDSVSIEDPVRMYLKEIGKVPLLSAEEEV------ELAQKMEDGDQEAKNKLAEAN 146
Query: 338 LRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAI 397
LRLVV +AK+Y GRG+ DL+QEG++GLMK+VEKF G +F++YA WW+RQ I +AI
Sbjct: 147 LRLVVSIAKRYVGRGMLFLDLIQEGNLGLMKAVEKFDYHKGYKFSTYATWWIRQAITRAI 206
Query: 398 FQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRM 457
+RTIR+P ++ ++K++ R +QE P E++A +GITV+++ ++ I++
Sbjct: 207 ADQARTIRIPVHMVETINKLIRVSRQLLQEYGREPTPEEIAAAMGITVDRVHEILKISQE 266
Query: 458 PLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRF 517
P+S++ P+ ++D+ + D V +P + L+++ + +L L +E+ ++ LRF
Sbjct: 267 PVSLETPIGEEEDSHLGDFLPDENVPVPAEAATFTLLKEQLHEVLDTLTEREQRVLILRF 326
Query: 518 GIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
G+EDGK ++L EVG F +++ER+RQ+E++AL +L+
Sbjct: 327 GLEDGKARTLEEVGKEFNVTRERIRQIEAKALRKLRH 363
>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 = 197 bits (502), Expect = 9e-48, Method: Compositional matrix adjust.
Identities = 106/288 (36%), Positives = 189/288 (65%), Gaps = 2/288 (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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++ K+I +NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYW
Sbjct: 135 IAKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAIGLNRAAEKFDPNKGYKFSTYAYW 194
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I + I +RTIRLP ++ L+K+ +A+R+ Q+ +P++++LA + +T +
Sbjct: 195 WIRQAITRTIANDARTIRLPIHVVEKLNKLKKAQRVLKQKLQRNPNEKELADELEVTPPQ 254
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLN 506
L +L+ + R LS+ V +DT ++ D +++P+ + + +++ V +L+ +L
Sbjct: 255 LRQLLQLRRQSLSLNHRVGKGEDTELVDLLEDQDLQLPEELMNEGMLQYEVSAVLSDVLT 314
Query: 507 PKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ +P +L EVG IF LS+ERVRQ++S+A+ +L++
Sbjct: 315 QREKDVISLRYGLCTSQPHTLEEVGGIFNLSRERVRQIQSKAMRKLRR 362
>gi|359771709|ref|ZP_09275155.1| RNA polymerase sigma factor SigB [Gordonia effusa NBRC 100432]
gi|359311145|dbj|GAB17933.1| RNA polymerase sigma factor SigB [Gordonia effusa NBRC 100432]
Length = 329
Score = 197 bits (502), Expect = 9e-48, Method: Compositional matrix adjust.
Identities = 113/332 (34%), Positives = 186/332 (56%), Gaps = 15/332 (4%)
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 AKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTI 404
AK+Y GRG+ L DL+QEG++GL++++EKF G +F++YA WW+RQ I + + SRTI
Sbjct: 108 AKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTI 167
Query: 405 RLPENIYTLLSKVLEAKR-LYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQ 463
RLP ++ ++K+ KR L+ Q G + D E LA GI EK+ L+ +R P+S+
Sbjct: 168 RLPVHLVEQVNKLARIKRELHQQLGREATDDE-LAAESGIPAEKIADLLDHSRDPVSLDM 226
Query: 464 PVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGK 523
PV D++ + D + +V L+ VR +L L+ +E+ ++R+RFG++DG+
Sbjct: 227 PVGTDEEAPLGDFIEDAEATSAENAVIAGLLHSDVRTVLGTLDEREQQVIRMRFGLDDGQ 286
Query: 524 PKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 287 PRTLDQIGRLFGLSRERVRQIEREVMVKLRHG 318
>gi|148272828|ref|YP_001222389.1| RNA polymerase sigma factor [Clavibacter michiganensis subsp.
michiganensis NCPPB 382]
gi|147830758|emb|CAN01698.1| RNA polymerase principal sigma factor [Clavibacter michiganensis
subsp. michiganensis NCPPB 382]
Length = 492
Score = 197 bits (502), Expect = 9e-48, Method: Compositional matrix adjust.
Identities = 104/304 (34%), Positives = 182/304 (59%), Gaps = 21/304 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A EE EL +I+ + E + A G+
Sbjct: 194 DPVKDYLKQIGKVALLNAAEEVELAMRIEAGLFAEDK----------------LANTPGI 237
Query: 315 SCRDLKSELH----SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
S R+L+ EL G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 238 S-RELERELRWVARDGQRAKSHLLGANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAV 296
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 297 EKFDYTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGR 356
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P E+L+R + +T EK+ + R P+S+ P+ D D+ F ++ DT +P +V
Sbjct: 357 EPTPEELSRELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDTEAVVPADAVG 416
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
++++ + +LL L+ +E ++R+RFG+ DG PK+L ++G+ FG+++ER+RQ+ES+ +
Sbjct: 417 FTMLQKQLESLLDSLSEREAGVIRMRFGLGDGMPKTLDQIGDTFGVTRERIRQIESKTMA 476
Query: 551 RLKQ 554
+L+
Sbjct: 477 KLRH 480
>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 = 197 bits (502), Expect = 9e-48, Method: Compositional matrix adjust.
Identities = 102/308 (33%), Positives = 177/308 (57%), Gaps = 40/308 (12%)
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 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +Q
Sbjct: 168 IKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQ 227
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E P E++A + + VEK+ ++ I + P+S++ P+ ++D+ + D + P
Sbjct: 228 ELGRDPTPEEIAEEMELPVEKVREIMKIAQEPVSLETPIGEEEDSHLGDFIPDEEAQAPA 287
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+ +L+R+ + ++L L P+E ++RLRFG++DGKP++L EVG +FG+++ER+RQ+E+
Sbjct: 288 DAAAYRLLREQLEDVLETLTPREEKVLRLRFGLDDGKPRTLEEVGQVFGVTRERIRQIEA 347
Query: 547 RALYRLKQ 554
+AL +L+
Sbjct: 348 KALRKLRH 355
>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 = 197 bits (502), Expect = 9e-48, Method: Compositional matrix adjust.
Identities = 108/295 (36%), Positives = 178/295 (60%), Gaps = 23/295 (7%)
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 RFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLAR 439
RF++YAYWW+RQ I +AI SRTIRLP +I L+K+ +A+R QE H+P EDLA+
Sbjct: 228 RFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGHTPRIEDLAQ 287
Query: 440 RVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVR 499
+ +T ++ ++ +S++ V ++DT ++ +T P+ ++ ++ +++ ++
Sbjct: 288 ELDMTAGQIREVLLRVPRSVSLEIKVGKEKDTELGDLL-ETESASPEETLMRESLQKDLQ 346
Query: 500 NLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
LL+ L +ER ++++RFG KP SL+E+G LS+ERVRQ+E++AL +L+Q
Sbjct: 347 YLLSELTSREREVIQMRFGFGGEKPFSLAEIGRCLELSRERVRQIEAKALQKLRQ 401
>gi|315604554|ref|ZP_07879617.1| DNA-directed RNA polymerase sigma subunit RpoD [Actinomyces sp.
oral taxon 180 str. F0310]
gi|315313566|gb|EFU61620.1| DNA-directed RNA polymerase sigma subunit RpoD [Actinomyces sp.
oral taxon 180 str. F0310]
Length = 516
Score = 197 bits (502), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 102/304 (33%), Positives = 186/304 (61%), Gaps = 20/304 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E +L +I+ + E KL++Q A +
Sbjct: 217 DPVKDYLKQIGKVSLLNAEQEVDLARRIEAGLYAE---YKLKNQ------------ADEM 261
Query: 315 SCRDLKSELH----SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
+ R+ + ELH G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 262 TSRE-RRELHFLAQDGQQAKNHLLEANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAV 320
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 321 EKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGR 380
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V
Sbjct: 381 EPTPEELAKELDMTAEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVS 440
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ +
Sbjct: 441 FTLLQEQLHHVLDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMS 500
Query: 551 RLKQ 554
+L+
Sbjct: 501 KLRH 504
>gi|359776762|ref|ZP_09280065.1| RNA polymerase sigma factor SigA [Arthrobacter globiformis NBRC
12137]
gi|359305899|dbj|GAB13894.1| RNA polymerase sigma factor SigA [Arthrobacter globiformis NBRC
12137]
Length = 424
Score = 197 bits (502), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 101/318 (31%), Positives = 188/318 (59%), Gaps = 21/318 (6%)
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLI----RLEKEKSKLQ 296
A V++ +S G DP++ +L LL A++E +L +I+ + ++ + +
Sbjct: 112 APVQQVMSAGA-TADPVKDYLKQIGKVALLNAEQEVDLALRIEAGLFAEEKIAADDGSMD 170
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
++ RE I +H G ++ L+ ANLRLVV +AK+Y GRG+
Sbjct: 171 PKYKRELEFI----------------IHDGKRAKNHLLEANLRLVVSLAKRYTGRGMLFL 214
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEG++GL+++VEKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K
Sbjct: 215 DLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINK 274
Query: 417 VLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEI 476
+ +R +Q+ P E+LA + +T EK+ + R P+S+ P+ D D+ F ++
Sbjct: 275 LARVQRQMLQDLGREPTPEELALELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDL 334
Query: 477 TADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 536
D+ +P +V L+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+
Sbjct: 335 IEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGV 394
Query: 537 SKERVRQLESRALYRLKQ 554
++ER+RQ+ES+ + +L+
Sbjct: 395 TRERIRQIESKTMSKLRH 412
>gi|405981052|ref|ZP_11039381.1| RNA polymerase principal sigma factor hrdB [Actinomyces neuii
BVS029A5]
gi|404393071|gb|EJZ88128.1| RNA polymerase principal sigma factor hrdB [Actinomyces neuii
BVS029A5]
Length = 414
Score = 197 bits (502), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 101/301 (33%), Positives = 182/301 (60%), Gaps = 14/301 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLE-KEKSKLQSQFGREPTLIEWAKAIG 313
DP++ +L LL A+EE +L +I+ + + K K Q+ +E
Sbjct: 115 DPVKDYLKQIGKVPLLNAEEEVDLARRIEAGLYADYKMKQDAQTMTSKE----------- 163
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
RDL++ G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 164 --MRDLRAISIDGQHAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKF 221
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 222 DYAKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPT 281
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L
Sbjct: 282 PEELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTL 341
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + +L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 342 LQEQLHRVLDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLR 401
Query: 554 Q 554
Sbjct: 402 H 402
>gi|401679368|ref|ZP_10811299.1| RNA polymerase sigma factor RpoD [Veillonella sp. ACP1]
gi|400219589|gb|EJO50453.1| RNA polymerase sigma factor RpoD [Veillonella sp. ACP1]
Length = 388
Score = 197 bits (502), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 100/300 (33%), Positives = 174/300 (58%), Gaps = 28/300 (9%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+R++L LL+ADEE L QI+ G
Sbjct: 105 DDPVRMYLKEIGRVPLLSADEEIVLAKQIE----------------------------AG 136
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
E+ +++KL++ANLRLVV +AK+Y GRG+ DL+QEG++GL+K+V+KF
Sbjct: 137 AEEDATYKEIQLSKKAKKKLVDANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVDKF 196
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +Q+ P
Sbjct: 197 DYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRISRQLLQDKGREPT 256
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++A +GIT E++ + I + P+S++ P+ ++D+ + D PD + L
Sbjct: 257 PEEIAEGMGITAERVREIQKIAQEPVSLETPIGEEEDSHLGDFIEDQDAVAPDDAASYIL 316
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + ++ T L +E+ ++ LRFG++DGKP++L EVG F +++ER+RQ+E +AL +L+
Sbjct: 317 LQEQIEDVFTCLTDREQQVLILRFGLKDGKPRTLEEVGQHFNVTRERIRQIEGKALTKLR 376
>gi|452975086|gb|EME74905.1| RNA polymerase sigma factor RpoD [Bacillus sonorensis L12]
Length = 373
Score = 197 bits (502), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 104/298 (34%), Positives = 180/298 (60%), Gaps = 20/298 (6%)
Query: 264 PETRKLLTADEEFELI-------AQIQDLIRLE-KEKSKLQSQFGREPTLIEWAKAIGLS 315
P ++L A+EEF+L +I D +R+ KE ++ +E IE+AK I
Sbjct: 75 PNIQQLAKAEEEFDLNDLSVPPGVKINDPVRMYLKEIGRVNLLSAKEE--IEYAKKIE-- 130
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
S+ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+VEKF
Sbjct: 131 --------EGDEESKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDY 182
Query: 376 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
+ G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+ P E
Sbjct: 183 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPE 242
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMR 495
++A + +T EK+ ++ I + P+S++ P+ + D+ + D P +L++
Sbjct: 243 EIAEDMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYELLK 302
Query: 496 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL +L+
Sbjct: 303 EQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 360
>gi|254445278|ref|ZP_05058754.1| Sigma-70 region 3 family [Verrucomicrobiae bacterium DG1235]
gi|198259586|gb|EDY83894.1| Sigma-70 region 3 family [Verrucomicrobiae bacterium DG1235]
Length = 576
Score = 197 bits (502), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 89/247 (36%), Positives = 162/247 (65%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
+++ L + + ++ +++ ANLRLV+ +AK+Y RG+S DL+QEG+MGLMK+VEKF+ +
Sbjct: 305 EVRRHLKAAHKAKTEMVEANLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRR 364
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ I ++I +RTIR+P ++ L+KV++ ++ +QE H P E++
Sbjct: 365 GYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETLNKVMQVQKQLLQEYGHEPTPEEV 424
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A + + VE+++ ++ + + P+S+Q PV DT F + D E P L+R+
Sbjct: 425 AEEMALPVERVQTIMKMAQQPISLQSPVGDGDDTNFGDFIEDKSAENPYDQTAFSLLREK 484
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 557
+ ++L L +ER ++ LRFG+ DG ++L EVG F +++ER+RQ+E++AL +++
Sbjct: 485 IIDVLDSLTERERRVLSLRFGLVDGYSRTLEEVGKQFKVTRERIRQIEAKALRKMRHPTR 544
Query: 558 GKASYGY 564
+ +G+
Sbjct: 545 IRQLHGF 551
>gi|163119552|ref|YP_079858.2| RNA polymerase sigma factor RpoD [Bacillus licheniformis DSM 13 =
ATCC 14580]
gi|319644974|ref|ZP_07999207.1| RNA polymerase sigma factor rpoD [Bacillus sp. BT1B_CT2]
gi|404489950|ref|YP_006714056.1| RNA polymerase sigma factor RpoD [Bacillus licheniformis DSM 13 =
ATCC 14580]
gi|423683045|ref|ZP_17657884.1| RNA polymerase sigma factor RpoD [Bacillus licheniformis WX-02]
gi|52348949|gb|AAU41583.1| RNA polymerase sigma factor SigA [Bacillus licheniformis DSM 13 =
ATCC 14580]
gi|145903060|gb|AAU24220.2| RNA polymerase major sigma-43 factor (sigma-A) [Bacillus
licheniformis DSM 13 = ATCC 14580]
gi|317392783|gb|EFV73577.1| RNA polymerase sigma factor rpoD [Bacillus sp. BT1B_CT2]
gi|383439819|gb|EID47594.1| RNA polymerase sigma factor RpoD [Bacillus licheniformis WX-02]
Length = 373
Score = 197 bits (502), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 104/298 (34%), Positives = 180/298 (60%), Gaps = 20/298 (6%)
Query: 264 PETRKLLTADEEFELI-------AQIQDLIRLE-KEKSKLQSQFGREPTLIEWAKAIGLS 315
P ++L A+EEF+L +I D +R+ KE ++ +E IE+AK I
Sbjct: 75 PNIQQLAKAEEEFDLNDLSVPPGVKINDPVRMYLKEIGRVNLLSAKEE--IEYAKKIE-- 130
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
S+ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+VEKF
Sbjct: 131 --------EGDEESKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDY 182
Query: 376 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
+ G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+ P E
Sbjct: 183 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPE 242
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMR 495
++A + +T EK+ ++ I + P+S++ P+ + D+ + D P +L++
Sbjct: 243 EIAEDMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYELLK 302
Query: 496 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL +L+
Sbjct: 303 EQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 360
>gi|332638574|ref|ZP_08417437.1| RNA polymerase sigma factor [Weissella cibaria KACC 11862]
Length = 377
Score = 197 bits (502), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 99/304 (32%), Positives = 172/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLT DEE L +I+
Sbjct: 101 GMKINDPVRMYLKEIGRVSLLTGDEEVALAERIE-------------------------- 134
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 135 --------------QGDDTAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 180
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 181 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRNLLQDLG 240
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + I +K+ ++ I + P+S++ P+ + D+ + D P S
Sbjct: 241 REPTPEEIGAEMDIVTDKVRDILKIAQEPVSLETPIGEEDDSHLGDFIEDNEAISPADSA 300
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
Q++++ + ++L L +E ++RLRFG+EDG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 301 AYQMLKEQLESVLDTLTDREENVLRLRFGLEDGRTRTLEEVGKVFGVTRERIRQIEAKAL 360
Query: 550 YRLK 553
+L+
Sbjct: 361 RKLR 364
>gi|452995144|emb|CCQ93212.1| RNA polymerase major sigma-43 factor (sigma-A) [Clostridium
ultunense Esp]
Length = 360
Score = 197 bits (502), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 87/226 (38%), Positives = 157/226 (69%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++++L ANLRLVV +AK+Y GRG+SL DL+QEG++GL+K+VEKF G +F++YA WW
Sbjct: 122 AKKELAEANLRLVVSIAKKYIGRGMSLLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWW 181
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI RTIR+P ++ ++K++ +R +QE P E++A + + +EK+
Sbjct: 182 IRQAITRAIADQGRTIRIPVHMIENINKLVRIQRELVQELGREPYPEEIAEHMNMDLEKI 241
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ +I ++R P+S++ P+ ++D+ + D +E P ++R+ ++++L L P+
Sbjct: 242 KEIIKVSRKPISLETPIGEEEDSQLGDFIEDDQIETPVQVTTHTMLREELKDVLGSLTPR 301
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
E+ ++ LRFG+ DG+ ++L EVGN+F +++ER+RQ+E++AL +L+
Sbjct: 302 EQKVLELRFGLNDGRSRTLEEVGNVFDVTRERIRQIEAKALRKLRH 347
>gi|313893234|ref|ZP_07826811.1| RNA polymerase sigma factor RpoD [Veillonella sp. oral taxon 158
str. F0412]
gi|313442587|gb|EFR61002.1| RNA polymerase sigma factor RpoD [Veillonella sp. oral taxon 158
str. F0412]
Length = 386
Score = 197 bits (502), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 104/326 (31%), Positives = 184/326 (56%), Gaps = 28/326 (8%)
Query: 228 PQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIR 287
P+ E + + S+ + G + +DP+R++L LL+ADEE L QI
Sbjct: 77 PEEDAEEVVSEKSISIDLSVDSGVNIDDPVRMYLKEIGRVPLLSADEEIVLAKQI----- 131
Query: 288 LEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQ 347
E A + +D++ + ++ANLRLVV +AK+
Sbjct: 132 -------------------EAGAAEDATYKDIQLAKKAKKKL----VDANLRLVVSIAKR 168
Query: 348 YQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLP 407
Y GRG+ DL+QEG++GL+K+V+KF G +F++YA WW+RQ I +AI +RTIR+P
Sbjct: 169 YVGRGMLFLDLIQEGNLGLIKAVDKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIP 228
Query: 408 ENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWA 467
++ ++K++ R +Q+ P E++A +GITVE++ + I + P+S++ P+
Sbjct: 229 VHMVETINKLIRISRQLLQDKGREPLPEEIAEGMGITVERVREIQKIAQEPVSLETPIGE 288
Query: 468 DQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSL 527
++D+ + D PD + L+++ + ++ T L +E+ ++ LRFG++DGKP++L
Sbjct: 289 EEDSHLGDFIEDQDAIAPDDAASYILLQEQIEDVFTCLTDREQQVLILRFGLKDGKPRTL 348
Query: 528 SEVGNIFGLSKERVRQLESRALYRLK 553
EVG F +++ER+RQ+E +AL +L+
Sbjct: 349 EEVGQHFNVTRERIRQIEGKALTKLR 374
>gi|295839080|ref|ZP_06826013.1| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. SPB74]
gi|295827312|gb|EDY44634.2| RNA polymerase sigma (70) factor RpoD [Streptomyces sp. SPB74]
Length = 360
Score = 197 bits (502), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 91/249 (36%), Positives = 167/249 (67%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G +++ +LI +NLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 112 DLDRLVVLGRAAKRRLIESNLRLVVSVAKRYAGRGLTMLDLVQEGNLGLIRAVEKFDYTR 171
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ A+R +QE H P ++
Sbjct: 172 GFKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRARRTLLQERGHEPCDAEV 231
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A +G+T E++ ++ + + P+S+ PV + + ++ D P S L+R+H
Sbjct: 232 AAVLGLTPERVGEVLRLAQEPVSLHTPVGGEDEVALGDLIEDGDAPSPPESAALLLLRRH 291
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 557
+ ++L+ L +ER +V+LR+G++DG+P++L E+G +FG+++ER+RQ+E++ L +L+ +
Sbjct: 292 LEDVLSTLGERERQVVQLRYGLDDGRPRTLEEIGTLFGVTRERIRQIEAKTLAKLRSHVF 351
Query: 558 GKASYGYAD 566
GY D
Sbjct: 352 ADQLRGYLD 360
>gi|443673296|ref|ZP_21138364.1| RNA polymerase sigma factor [Rhodococcus sp. AW25M09]
gi|443414111|emb|CCQ16702.1| RNA polymerase sigma factor [Rhodococcus sp. AW25M09]
Length = 323
Score = 197 bits (502), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 110/303 (36%), Positives = 185/303 (61%), Gaps = 17/303 (5%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAI-G 313
D +R++L G LLTA EE +L +I+ + ++ ++E K +
Sbjct: 25 DLVRVYLNGIGRTALLTAAEEVDLAKRIE------------AGLYAKQ--VLENTKRLSA 70
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ R+L + G+S+R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 71 VKKRNLAIIVRDGSSARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 130
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR-LYIQEGNHSP 432
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR L+ Q G +
Sbjct: 131 DYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREAT 190
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
D E L+ GI VEK+ L+ +R P+S+ PV +D++ + D+ + +V
Sbjct: 191 DDE-LSSESGIAVEKIADLLDHSRDPVSLDMPVGSDEEAPLGDFIEDSEATSAENAVIAG 249
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
L+ VR +L L+ +E+ ++RLR+G++DG+P++L ++G +FGLS+ERVRQ+E + +L
Sbjct: 250 LLHSDVRVVLGTLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMVKL 309
Query: 553 KQS 555
+Q
Sbjct: 310 RQG 312
>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 = 197 bits (502), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 103/247 (41%), Positives = 159/247 (64%), Gaps = 1/247 (0%)
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
WA+ GL+ L+ G ++E +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL
Sbjct: 180 WAEIAGLTVEQLEQIQTQGVRAKEHMIQANLRLVVSVAKKYQNRGLELLDLVQEGTLGLE 239
Query: 368 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
++VEKF P G RF++YAYWW+RQ I +AI SRTIRLP +I L+K+ + +R QE
Sbjct: 240 RAVEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKVQRKIAQE 299
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDI 487
+P E++A + IT ++L ++ +S++ V D+DT ++ + D+
Sbjct: 300 KGRTPTIEEIAAELEITPKQLRDVLLRVPRSVSLETKVGKDKDTELGDLLETDTISPEDV 359
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
+++ L R ++ LLT L+ +ER ++ +RFG+ DG SL+E+G LS+ERVRQ+ES+
Sbjct: 360 LMRESLQR-DLQYLLTDLSDRERDVILMRFGLGDGHAYSLAEIGRALDLSRERVRQIESK 418
Query: 548 ALYRLKQ 554
AL +L+Q
Sbjct: 419 ALQKLRQ 425
>gi|377573537|ref|ZP_09802593.1| RNA polymerase sigma factor SigA [Mobilicoccus pelagius NBRC
104925]
gi|377537652|dbj|GAB47758.1| RNA polymerase sigma factor SigA [Mobilicoccus pelagius NBRC
104925]
Length = 590
Score = 197 bits (502), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 101/299 (33%), Positives = 182/299 (60%), Gaps = 13/299 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E EL +I+ + E S+L S + +
Sbjct: 292 DPVKDYLKQIGKVALLNAEQEVELAKRIEAGLYAE---SRLNSGDSFDSQM--------- 339
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDL G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 340 -KRDLWWIAQDGKNAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 398
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 399 YTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 458
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L+
Sbjct: 459 EELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLL 518
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 519 QEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLR 577
>gi|303229406|ref|ZP_07316196.1| RNA polymerase sigma factor RpoD [Veillonella atypica
ACS-134-V-Col7a]
gi|303230872|ref|ZP_07317619.1| RNA polymerase sigma factor RpoD [Veillonella atypica
ACS-049-V-Sch6]
gi|429760133|ref|ZP_19292623.1| RNA polymerase sigma factor RpoD [Veillonella atypica KON]
gi|302514632|gb|EFL56627.1| RNA polymerase sigma factor RpoD [Veillonella atypica
ACS-049-V-Sch6]
gi|302515942|gb|EFL57894.1| RNA polymerase sigma factor RpoD [Veillonella atypica
ACS-134-V-Col7a]
gi|429178538|gb|EKY19816.1| RNA polymerase sigma factor RpoD [Veillonella atypica KON]
Length = 388
Score = 197 bits (502), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 100/300 (33%), Positives = 174/300 (58%), Gaps = 28/300 (9%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
+DP+R++L LL+ADEE L QI+ G
Sbjct: 105 DDPVRMYLKEIGRVPLLSADEEIVLAKQIE----------------------------AG 136
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
E+ +++KL++ANLRLVV +AK+Y GRG+ DL+QEG++GL+K+V+KF
Sbjct: 137 AEEDATYKEIQLSKKAKKKLVDANLRLVVSIAKRYVGRGMLFLDLIQEGNLGLIKAVDKF 196
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +Q+ P
Sbjct: 197 DYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRISRQLLQDKGREPT 256
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++A +GIT E++ + I + P+S++ P+ ++D+ + D PD + L
Sbjct: 257 PEEIAEGMGITAERVREIQKIAQEPVSLETPIGEEEDSHLGDFIEDQDAVAPDDAASYIL 316
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + ++ T L +E+ ++ LRFG++DGKP++L EVG F +++ER+RQ+E +AL +L+
Sbjct: 317 LQEQIEDVFTCLTDREQQVLILRFGLKDGKPRTLEEVGQHFNVTRERIRQIEGKALTKLR 376
>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 = 197 bits (502), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 103/287 (35%), Positives = 171/287 (59%), Gaps = 1/287 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ ++I++NLRLVV +AK+Y RG+ DL+QEG++GL ++ EKF P G +F++YAYWW
Sbjct: 144 AKRRMISSNLRLVVSIAKRYLNRGVPFLDLIQEGALGLNRAAEKFDPDKGYKFSTYAYWW 203
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I + I RTIRLP ++ ++K+ R + N P+ ++A+ + I++ +L
Sbjct: 204 IRQGITRTIANQGRTIRLPVHVVEQINKLRRVYRDLRRSLNRIPNDTEIAQELEISLPQL 263
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT-LLNP 507
L I R LS+ + D++T + D P+ + +MRQ + +L +L+
Sbjct: 264 RNLQQIRRKTLSLNHRLGTDENTELLDFLEDNENSTPEAQMNDMMMRQDILEVLNHVLSN 323
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+E+ ++ LR+G+ G+P +L EV + LS+ERVRQ++++A+ +L++
Sbjct: 324 REQDVISLRYGLITGEPHTLDEVSRMINLSRERVRQIQAKAMRKLRR 370
>gi|317968274|ref|ZP_07969664.1| putative type II alternative RNA polymerase sigma factor
[Synechococcus sp. CB0205]
Length = 382
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 116/298 (38%), Positives = 177/298 (59%), Gaps = 27/298 (9%)
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 CRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLA 438
RF++YAYWW+RQ I +AI SRTIRLP ++ L+++ +A+R E DLA
Sbjct: 186 FRFSTYAYWWIRQGITRAIATQSRTIRLPVHVTEKLNRIKKAQRQIASEHGRLASVADLA 245
Query: 439 RRVGITVEKLERLIFITRMP--LSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
+ +G++ E++ RL + R+P +S+ V DQDT ++ D G P+ ++ K +
Sbjct: 246 KELGLS-EEVIRLTLM-RVPRSVSLDTRVGRDQDTELGDLLED-GHATPEQALTKTQLHD 302
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ LL L+ +E ++RLRFG+E+ P++LS++G LS+ERVRQ+E+RAL +L+Q
Sbjct: 303 DLEALLEELSGREAEVIRLRFGLENDTPQTLSQIGEDLHLSRERVRQIETRALLKLRQ 360
>gi|154509177|ref|ZP_02044819.1| hypothetical protein ACTODO_01698 [Actinomyces odontolyticus ATCC
17982]
gi|153798811|gb|EDN81231.1| RNA polymerase sigma factor RpoD [Actinomyces odontolyticus ATCC
17982]
Length = 561
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 102/304 (33%), Positives = 186/304 (61%), Gaps = 20/304 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E +L +I+ + E KL++Q A +
Sbjct: 262 DPVKDYLKQIGKVSLLNAEQEVDLARRIEAGLYAE---YKLKNQ------------ADEM 306
Query: 315 SCRDLKSELH----SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
+ R+ + ELH G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 307 TSRE-RRELHFLAQDGQQAKNHLLEANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAV 365
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 366 EKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGR 425
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V
Sbjct: 426 EPTPEELAKELDMTAEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVS 485
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ +
Sbjct: 486 FTLLQEQLHHVLDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMS 545
Query: 551 RLKQ 554
+L+
Sbjct: 546 KLRH 549
>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 = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 99/247 (40%), Positives = 163/247 (65%), Gaps = 1/247 (0%)
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
WA+ LS +LK G +++ +I ANLRLVV VAK+YQ RG+ L DL+QEG++GL
Sbjct: 147 WAELANLSVEELKQVQREGLQAKDHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLE 206
Query: 368 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
++VEKF P G RF++Y+YWW+RQ I +AI SRTIRLP +I L+K+ +A+R QE
Sbjct: 207 RAVEKFDPTRGYRFSTYSYWWIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQE 266
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDI 487
+ + +D+A + +T +++ ++ +S++ V D+DT ++ +T P+
Sbjct: 267 KSRTATIDDIATELKMTPDQIREVLLRVPRSVSLETKVGTDKDTELGDLL-ETEESTPEE 325
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
+ ++ + + ++NLL L+ KER ++++R+G+ DG P SL+E+G LS+ERVRQ+E++
Sbjct: 326 LLMRESLYRELQNLLADLSGKERAVIQMRYGLGDGHPYSLAEIGRALDLSRERVRQIEAK 385
Query: 548 ALYRLKQ 554
AL +L+Q
Sbjct: 386 ALQKLRQ 392
>gi|456390566|gb|EMF55961.1| hrdA protein [Streptomyces bottropensis ATCC 25435]
Length = 405
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 90/249 (36%), Positives = 160/249 (64%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 157 DLDKLVVMGRMAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 216
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P +++
Sbjct: 217 GYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPDEV 276
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A + + ++ ++ + + P+S+ PV + D ++ D P S L+R+H
Sbjct: 277 AAHLDLAPGRVSEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLREH 336
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLG 557
+ +L+ L +ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+
Sbjct: 337 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 396
Query: 558 GKASYGYAD 566
GY D
Sbjct: 397 ADQLRGYLD 405
>gi|390630647|ref|ZP_10258625.1| RNA polymerase sigma factor [Weissella confusa LBAE C39-2]
gi|390484114|emb|CCF30973.1| RNA polymerase sigma factor [Weissella confusa LBAE C39-2]
Length = 377
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 99/304 (32%), Positives = 171/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLT DEE L +I+
Sbjct: 101 GMKINDPVRMYLKEIGRVSLLTGDEEVALAERIE-------------------------- 134
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 135 --------------QGDETAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 180
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 181 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRNLLQDLG 240
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + I +K+ ++ I + P+S++ P+ + D+ + D P S
Sbjct: 241 REPTPEEIGAEMDIVTDKVRDILKIAQEPVSLETPIGEEDDSHLGDFIEDNEAISPADSA 300
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
Q++++ + ++L L +E ++RLRFG+EDG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 301 AYQMLKEQLESVLDTLTDREENVLRLRFGLEDGRTRTLEEVGKVFGVTRERIRQIEAKAL 360
Query: 550 YRLK 553
+L+
Sbjct: 361 RKLR 364
>gi|406880023|gb|EKD28466.1| hypothetical protein ACD_79C00291G0001 [uncultured bacterium]
Length = 568
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 89/236 (37%), Positives = 158/236 (66%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
+++++I +NLRLV+ +AK+Y RG+S DL+QEG++GLMK+V+KF+ Q G +F++YA WW
Sbjct: 319 AKQEMIESNLRLVISIAKKYTNRGLSFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWW 378
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I ++I +RTIR+P ++ ++K++ A + IQE EDLA + I VEK+
Sbjct: 379 IRQAITRSIADQARTIRIPVHMIETINKLVRASKKLIQEKGREATPEDLADGMKIPVEKI 438
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
++ + + P+S+Q P+ +D+ F + D G + P L+++ + ++L+ L P+
Sbjct: 439 RSILKMAQHPISLQAPIGEGEDSHFGDFIEDKGSDSPADLTGHSLLKEKMDDVLSTLTPR 498
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
E+ ++ LRFG+ DG P++L EVG F +++ERVRQ+E++AL +++ + K G+
Sbjct: 499 EKKVLMLRFGVGDGTPRTLEEVGKEFAVTRERVRQIEAKALRKMRHPIRSKKLKGF 554
>gi|418053337|ref|ZP_12691407.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mycobacterium
rhodesiae JS60]
gi|353178512|gb|EHB44091.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Mycobacterium
rhodesiae JS60]
Length = 319
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 108/302 (35%), Positives = 179/302 (59%), Gaps = 15/302 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LLTA++E EL +I+ F L+E K +
Sbjct: 21 DLVRVYLNGIGKTALLTAEDEVELAKRIE------------AGLFA--AHLLETRKRLSD 66
Query: 315 S-CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ RDL + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 67 NRKRDLAIIVRDGQAARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 126
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 127 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQSLGREAT 186
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
++LA GI VEK+ L+ +R P+S+ PV +D++ + D + +V +L
Sbjct: 187 DDELAEESGIPVEKINDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDAEAMSAENAVIAEL 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E+ ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 247 LHTDIRHVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMSKLR 306
Query: 554 QS 555
Sbjct: 307 NG 308
>gi|300768133|ref|ZP_07078038.1| RNA polymerase sigma factor rpoD [Lactobacillus plantarum subsp.
plantarum ATCC 14917]
gi|308180761|ref|YP_003924889.1| RNA polymerase sigma factor RpoD [Lactobacillus plantarum subsp.
plantarum ST-III]
gi|380032739|ref|YP_004889730.1| DNA-directed RNA polymerase, sigma factor 42 [Lactobacillus
plantarum WCFS1]
gi|418275500|ref|ZP_12890823.1| DNA-directed RNA polymerase, sigma factor 42 [Lactobacillus
plantarum subsp. plantarum NC8]
gi|448821467|ref|YP_007414629.1| RNA polymerase sigma factor [Lactobacillus plantarum ZJ316]
gi|300494197|gb|EFK29360.1| RNA polymerase sigma factor rpoD [Lactobacillus plantarum subsp.
plantarum ATCC 14917]
gi|308046252|gb|ADN98795.1| RNA polymerase sigma factor RpoD [Lactobacillus plantarum subsp.
plantarum ST-III]
gi|342241982|emb|CCC79216.1| DNA-directed RNA polymerase, sigma factor 42 [Lactobacillus
plantarum WCFS1]
gi|376009051|gb|EHS82380.1| DNA-directed RNA polymerase, sigma factor 42 [Lactobacillus
plantarum subsp. plantarum NC8]
gi|448274964|gb|AGE39483.1| RNA polymerase sigma factor [Lactobacillus plantarum ZJ316]
Length = 368
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 99/306 (32%), Positives = 172/306 (56%), Gaps = 40/306 (13%)
Query: 248 SEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIE 307
+ G NDP+R++L LLTADEE L +I+
Sbjct: 90 ASGIKINDPVRMYLKEIGRVDLLTADEEVALALRIE------------------------ 125
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
S++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLM
Sbjct: 126 ----------------QGDESAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLM 169
Query: 368 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
K+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 170 KAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQD 229
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDI 487
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 230 LGREPTPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAD 289
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
+ +L+++ + +L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++
Sbjct: 290 AAAYELLKEQLEGVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAK 349
Query: 548 ALYRLK 553
AL +L+
Sbjct: 350 ALRKLR 355
>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 = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 107/292 (36%), Positives = 174/292 (59%), Gaps = 23/292 (7%)
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 SYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVG 442
+YAYWW+RQ I +AI SR IRLP +I L+K+ +A+R Q +P E+LA V
Sbjct: 233 TYAYWWIRQGITRAIATQSRIIRLPVHITEKLNKIKKAQRKMAQIKGRTPTMEELAVEVD 292
Query: 443 ITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL 502
+T ++ ++ +S++ V ++DT ++ T P+ S+ + +RQ ++NLL
Sbjct: 293 MTAPQIREVLMRVPRSVSLEIKVGKEKDTELVDLLETTEAS-PEESLVNETLRQDLQNLL 351
Query: 503 TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
L +ER ++++R+G +DGK SL+++G LS+ERVRQ+E++A+ +L+Q
Sbjct: 352 ADLTTREREVIQMRYGFKDGKCYSLADIGRALQLSRERVRQIEAKAIQKLRQ 403
>gi|87311289|ref|ZP_01093411.1| transcription initiation factor sigma 70 [Blastopirellula marina
DSM 3645]
gi|87286029|gb|EAQ77941.1| transcription initiation factor sigma 70 [Blastopirellula marina
DSM 3645]
Length = 567
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 93/259 (35%), Positives = 165/259 (63%)
Query: 306 IEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMG 365
+E + + C + + + +L + NLRLVV +AK+Y+ RG+S DL+QEG+ G
Sbjct: 302 LESPRGLRQRCERYRRQFDEYEKVKRELSSGNLRLVVSIAKKYRNRGLSFLDLIQEGNTG 361
Query: 366 LMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYI 425
LM++V+K++ + G +F++YA WW+RQ I +AI +RTIR+P ++ +LSK+ ++ +
Sbjct: 362 LMRAVDKYEYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMIDVLSKLRNVQKRLL 421
Query: 426 QEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIP 485
QE P +++ARR I +E++ R++ I R P+S+ +P+ +D++F E D+ E P
Sbjct: 422 QELRREPTMDEIARRAEIDLEEVRRVMDIGRQPVSLDRPIGESEDSSFGEFIEDSHEETP 481
Query: 486 DISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 545
S Q++R ++ LL L +ER I++LR+G+ DG +L EVG IF +++ERVRQ+E
Sbjct: 482 IRSASNQILRDRIQGLLKTLTYREREIIKLRYGLGDGYTYTLEEVGRIFKVTRERVRQIE 541
Query: 546 SRALYRLKQSLGGKASYGY 564
++A+ +L+ + + G+
Sbjct: 542 AKAVRKLQHPVRSQQLEGF 560
>gi|317122932|ref|YP_004102935.1| RNA polymerase sigma-70 subunit RpoD [Thermaerobacter marianensis
DSM 12885]
gi|315592912|gb|ADU52208.1| RNA polymerase, sigma 70 subunit, RpoD [Thermaerobacter marianensis
DSM 12885]
Length = 433
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 96/261 (36%), Positives = 165/261 (63%), Gaps = 15/261 (5%)
Query: 298 QFGREPTL-----IEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRG 352
+ GR P L IE AK I ++ KLI ANLRLVV +AK+Y GRG
Sbjct: 170 EIGRIPLLTPEQEIELAKRIE----------QGDEEAKRKLIQANLRLVVSIAKRYVGRG 219
Query: 353 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYT 412
+ DL+QEG++GL+K+ EKF + G +F++YA WW+RQ I +AI +RTIR+P ++
Sbjct: 220 MLFLDLIQEGNLGLIKAAEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVE 279
Query: 413 LLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTT 472
++K++ +R +QE P E++A+ +GI EK+ ++ I + P+S++ P+ ++D+
Sbjct: 280 TINKLIRVQRQLVQELGREPTPEEIAKEMGIEPEKVREIMKIAQEPVSLETPIGEEEDSH 339
Query: 473 FQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGN 532
+ D P + + L+R+ + ++L L +E+ ++RLRFG++DG+ ++L EVG
Sbjct: 340 LGDFIEDEDALAPAEAASQLLLREQLEDVLHTLTDREQKVLRLRFGLDDGRQRTLEEVGQ 399
Query: 533 IFGLSKERVRQLESRALYRLK 553
+FG+++ER+RQ+E++AL +L+
Sbjct: 400 VFGVTRERIRQIEAKALRKLR 420
>gi|427390144|ref|ZP_18884550.1| RNA polymerase sigma factor RpoD [Actinobaculum massiliae
ACS-171-V-Col2]
gi|425733159|gb|EKU95965.1| RNA polymerase sigma factor RpoD [Actinobaculum massiliae
ACS-171-V-Col2]
Length = 585
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 89/238 (37%), Positives = 157/238 (65%)
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
R+L+ G S++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 335 MRELRIIARDGRSAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLVRAVEKFDY 394
Query: 376 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
G +F++YA WW+RQ I +A+ SRTIR+P ++ +++K+ +R +Q+ P E
Sbjct: 395 TKGYKFSTYATWWIRQAITRAMADQSRTIRIPVHMVEVINKLARVQRQMLQDLGREPTTE 454
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMR 495
+LA + +T EK+ + R P+S+ P+ D D+ F ++ D+ PD +V L++
Sbjct: 455 ELAHELDMTEEKVVEVQRYGREPISLHTPLGEDGDSEFGDLIEDSEAVHPDDAVGFTLLK 514
Query: 496 QHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ ++ +L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 515 EQLQQVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLR 572
>gi|260906542|ref|ZP_05914864.1| RNA polymerase principal sigma factor [Brevibacterium linens BL2]
Length = 473
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 87/237 (36%), Positives = 157/237 (66%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
D K +H G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 225 DYKWIIHDGRIAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYTK 284
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P E+L
Sbjct: 285 GFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPSPEEL 344
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A+ + +T E++ + R P+S+ P+ D D+ F ++ D+ +P SV L+++
Sbjct: 345 AKELDMTPERVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPSDSVSFTLLQEQ 404
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 405 LHSVLDTLSEREAGVVSMRFGLNDGQPKTLDEIGKVYGVTRERIRQIESKTMAKLRH 461
>gi|406968358|gb|EKD93222.1| hypothetical protein ACD_28C00201G0002 [uncultured bacterium]
Length = 386
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 92/238 (38%), Positives = 161/238 (67%), Gaps = 1/238 (0%)
Query: 318 DLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
+L + G+ S++ +L ANLRLVV +AK+Y GRG+S DL+QEG++GL ++VEKF P
Sbjct: 140 ELAKRIKKGDQSAKRQLAEANLRLVVSIAKKYIGRGLSFLDLIQEGNIGLFRAVEKFDPD 199
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +AI +RTIR+P ++ ++K+ +R +QE P E+
Sbjct: 200 RGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLTHTQRRLVQELGREPLIEE 259
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
LA +G+ ++K+ ++ I++ +S++ PV A++D+ + D P S ++L+R+
Sbjct: 260 LAAEMGMDIKKVRHILKISQDIVSLEAPVGAEEDSKLGDFIEDAESLSPSESTNRKLIRE 319
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ ++L L+ +ER I+ +RFG++DG P +L EVG FG+++ER+RQ+E++ L +LK+
Sbjct: 320 NIMDMLQYLSARERKIIEMRFGLKDGIPHTLEEVGKEFGVTRERIRQIEAKVLQKLKE 377
>gi|374710255|ref|ZP_09714689.1| RNA polymerase sigma factor RpoD [Sporolactobacillus inulinus CASD]
Length = 368
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 99/304 (32%), Positives = 172/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+ADEE L +I D
Sbjct: 92 GVKINDPVRMYLKEIGRVDLLSADEEISLAKRIND------------------------- 126
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
S++ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 127 ---------------GDESAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKA 171
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 172 VEKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQQLQDLG 231
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + + EK+ ++ I + P+S++ P+ + D+ + D + P +
Sbjct: 232 REPTPEEIGKEMELPPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDAKAPSDAA 291
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 292 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 351
Query: 550 YRLK 553
+L+
Sbjct: 352 RKLR 355
>gi|409351169|ref|ZP_11233997.1| RNA polymerase sigma factor [Lactobacillus equicursoris CIP 110162]
gi|407876928|emb|CCK86055.1| RNA polymerase sigma factor [Lactobacillus equicursoris CIP 110162]
Length = 373
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 101/314 (32%), Positives = 177/314 (56%), Gaps = 40/314 (12%)
Query: 240 KASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQF 299
KA ++ + G NDP+R +L LLT +EE EL +I+
Sbjct: 87 KAELENLAAPGSRMNDPVRQYLKRIGRVNLLTGNEEVELAKRIE---------------- 130
Query: 300 GREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLL 359
++E+L NANLRLVV +AK+Y GRG+S DL+
Sbjct: 131 ------------------------AGDEEAKEELTNANLRLVVSIAKRYVGRGMSFLDLI 166
Query: 360 QEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLE 419
QEG+MGLMK+V+KF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++
Sbjct: 167 QEGNMGLMKAVDKFDYRLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR 226
Query: 420 AKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITAD 479
+R +Q+ P+ E++A + + V+K+ ++ + + P+S++ P+ + D+ + D
Sbjct: 227 IQRQLLQDLGRDPEPEEIAAEMDLPVKKVREILKVAQEPVSLETPIGEEDDSHLGDFIED 286
Query: 480 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 539
P+ +L++ + +L L +E ++RLRFG++D P++L EVG +FG+++E
Sbjct: 287 KDATSPEQHAANELLKDQLAEVLDTLTDREENVLRLRFGLDDDNPRTLEEVGRVFGVTRE 346
Query: 540 RVRQLESRALYRLK 553
R+RQ+E++AL +L+
Sbjct: 347 RIRQIEAKALRKLR 360
>gi|296129901|ref|YP_003637151.1| RpoD subfamily RNA polymerase sigma-70 subunit [Cellulomonas
flavigena DSM 20109]
gi|296021716|gb|ADG74952.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Cellulomonas
flavigena DSM 20109]
Length = 495
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 100/304 (32%), Positives = 182/304 (59%), Gaps = 20/304 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLI----RLEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E EL +I+ + +L + + L+ + RE +EW
Sbjct: 196 DPVKDYLKQIGKVALLNAEQEVELAKRIEAGLFAEEKLAETRDSLEPKLRRE---LEWIA 252
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 253 -------------QDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 299
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 300 EKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGR 359
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V
Sbjct: 360 EPTPEELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVS 419
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + +L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ +
Sbjct: 420 FTLLQEQLHQVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 479
Query: 551 RLKQ 554
+L+
Sbjct: 480 KLRH 483
>gi|402816528|ref|ZP_10866118.1| RNA polymerase sigma factor rpoD [Paenibacillus alvei DSM 29]
gi|402505430|gb|EJW15955.1| RNA polymerase sigma factor rpoD [Paenibacillus alvei DSM 29]
Length = 298
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 89/238 (37%), Positives = 160/238 (67%), Gaps = 1/238 (0%)
Query: 318 DLKSELHSGNSSREKLIN-ANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
DL + G+ +K++ ANLRLVV +A++Y GRG+SL DL+QEG+MGL+K+V+KF
Sbjct: 49 DLAKRIAEGDEEAKKMLTEANLRLVVSIARRYAGRGMSLLDLIQEGNMGLIKAVDKFDYT 108
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +QE P+ E+
Sbjct: 109 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLVRVSRQLVQELGREPEVEE 168
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
+A+ + ++VEK+ ++ I++ P+S++ P+ + DT + D + P S + ++
Sbjct: 169 IAKEMELSVEKVREIMKISQDPISLETPIGEEHDTKLGDFIEDQDAQSPVESAAYESLKT 228
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL +L+
Sbjct: 229 QLGDVLDTLTEREENVLRLRFGLDDGRTRTLEEVGQVFGVTRERIRQIEAKALRKLRH 286
>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 = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 108/302 (35%), Positives = 179/302 (59%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 137 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREAT 196
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI VEK+ L+ +R P+S+ PV ++++ + D + +V +L
Sbjct: 197 DEELAAESGIPVEKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAEL 256
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 257 LHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLR 316
Query: 554 QS 555
Sbjct: 317 HG 318
>gi|293376344|ref|ZP_06622581.1| RNA polymerase sigma factor RpoD [Turicibacter sanguinis PC909]
gi|325843397|ref|ZP_08167955.1| RNA polymerase sigma factor RpoD [Turicibacter sp. HGF1]
gi|292645033|gb|EFF63106.1| RNA polymerase sigma factor RpoD [Turicibacter sanguinis PC909]
gi|325489319|gb|EGC91693.1| RNA polymerase sigma factor RpoD [Turicibacter sp. HGF1]
Length = 456
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 106/322 (32%), Positives = 194/322 (60%), Gaps = 18/322 (5%)
Query: 251 FDRNDPLRLFLWGPETRKLLTADEEFELIAQIQ------DLIRLEKEKSKLQSQF-GREP 303
F NDP+R++L +LL++ EE +I+ +++ + ++ L + R
Sbjct: 122 FKINDPVRMYLKEIGRVELLSSQEEINFAKKIERGDISSEILEIRRKNEPLPEELLERID 181
Query: 304 TLIEWAKA--------IG---LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRG 352
LI+ A IG LS + + + G ++++L+ ANLRLVV +AK++ GRG
Sbjct: 182 LLIQDAGEANDGNEFLIGVTELSDEEARRVIQEGEYAKKRLVEANLRLVVSIAKRHVGRG 241
Query: 353 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYT 412
+ DL+QEG+MGL+K+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++
Sbjct: 242 MLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVE 301
Query: 413 LLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTT 472
++K++ +R +QE P E+++ ++GI EK+ ++ I++ P+S++ PV + D+
Sbjct: 302 TINKLVRIQRQLVQELGREPLPEEISEKMGIAPEKVREILKISQEPVSLESPVGEEDDSH 361
Query: 473 FQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGN 532
+ D P +++++ + ++L L +E ++RLRFG+EDG+ ++L EVG
Sbjct: 362 LGDFIPDADALSPSEFASNEMLKKELDDVLETLTDREERVLRLRFGLEDGRTRTLEEVGK 421
Query: 533 IFGLSKERVRQLESRALYRLKQ 554
FG+++ER+RQ+E++AL +L+
Sbjct: 422 EFGVTRERIRQIEAKALRKLRH 443
>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 = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 111/287 (38%), Positives = 179/287 (62%), Gaps = 1/287 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++E++++ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYWW
Sbjct: 85 AKERMVSANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 144
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + SRTIRLP +I +L+K+ + +R QE +P +LA V + E++
Sbjct: 145 IRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQEMGRTPTVSELAEFVELPEEEV 204
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ L+ R P+S++ V D D T E+P V+ M+ +R LL L
Sbjct: 205 KDLMCRARQPMSLEMKV-GDGDETELLELLAGEEELPSEKVEVDCMKGDLRTLLEKLPEL 263
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
+ ++R+R+GI+ G+P +L+ + G+S++R R+LE L ++ S
Sbjct: 264 QGRVLRMRYGIDGGEPMNLTGIAKTLGMSRDRTRRLEREGLALMRTS 310
>gi|302386858|ref|YP_003822680.1| RpoD subfamily RNA polymerase sigma-70 subunit [Clostridium
saccharolyticum WM1]
gi|302197486|gb|ADL05057.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium
saccharolyticum WM1]
Length = 380
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 106/313 (33%), Positives = 178/313 (56%), Gaps = 40/313 (12%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LL A+EE +RL K K+
Sbjct: 102 LLEGIGTEDPVRMYLKEIGTVPLLNAEEE----------LRLAKRKA------------- 138
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
+ ++E+LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 139 -----------------DGDDDAKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 181
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 182 IKGVEKFDYTKGYKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 241
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P +LA + ++ +K+ ++ I R P S++ P+ + D+ + AD V P+
Sbjct: 242 ELGYEPSVSELAEALDMSEDKVMEIMQIAREPASLETPIGEEDDSNLGDFVADNNVVTPE 301
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 302 GNVESVMLREHIDALLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEA 361
Query: 547 RALYRLKQSLGGK 559
+AL +L+ + K
Sbjct: 362 KALRKLRNPVRSK 374
>gi|374338234|ref|YP_005094946.1| RNA polymerase sigma factor RpoD [Streptococcus macedonicus ACA-DC
198]
gi|372284346|emb|CCF02612.1| RNA polymerase sigma factor RpoD [Streptococcus macedonicus ACA-DC
198]
Length = 367
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 110/338 (32%), Positives = 188/338 (55%), Gaps = 53/338 (15%)
Query: 220 SKKRKVSKP---QVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEF 276
S K V +P ++T+ E S A V NDP+R++L LLT++EE
Sbjct: 67 STKYVVEEPKPEELTDEELLGSNSAKV----------NDPVRMYLKEIGVVPLLTSEEEK 116
Query: 277 ELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINA 336
EL A+ ++ DL++ +++L A
Sbjct: 117 EL--------------------------------AVAVAAGDLQA--------KQRLAEA 136
Query: 337 NLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKA 396
NLRLVV +AK+Y GRG+ DL+QEG+MGLMK+V+KF G +F++YA WW+RQ I +A
Sbjct: 137 NLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRA 196
Query: 397 IFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITR 456
I +RTIR+P ++ ++K++ +R +QE P E +A R+ IT +K+ ++ I +
Sbjct: 197 IADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDITPDKVREILKIAQ 256
Query: 457 MPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLR 516
P+S++ P+ + D+ + D +E P + ++R+ + +L L +E ++RLR
Sbjct: 257 EPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLR 316
Query: 517 FGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
FG++DGK ++L +VG +F +++ER+RQ+E++AL +L+
Sbjct: 317 FGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRH 354
>gi|225450015|ref|XP_002272444.1| PREDICTED: RNA polymerase sigma factor rpoD-like [Vitis vinifera]
Length = 426
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 107/294 (36%), Positives = 168/294 (57%)
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 ASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRV 441
++Y YWW+RQ I +AI SR IRLP +I +++K+ EA+ + + P +++A +
Sbjct: 242 STYVYWWIRQAIVRAIANKSRIIRLPGSICEMVAKIAEARTVLSRRLRRLPTYDEIAEFI 301
Query: 442 GITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNL 501
+ V + + +R P+S+ Q V + T QEI P V++QLM+Q V
Sbjct: 302 DVNVSTVRLVSERSRTPISVDQAVTSQGCMTLQEIIPGPDETTPQKMVKRQLMKQEVERA 361
Query: 502 LTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
L L +E I+RL FGI P S E+G + LS+ERVRQ+ S AL +L+Q+
Sbjct: 362 LNTLCEREAYILRLYFGINGETPLSFEEIGRLMKLSRERVRQINSIALSKLRQT 415
>gi|313123888|ref|YP_004034147.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp.
bulgaricus ND02]
gi|312280451|gb|ADQ61170.1| RNA polymerase sigma factor [Lactobacillus delbrueckii subsp.
bulgaricus ND02]
Length = 373
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 105/317 (33%), Positives = 179/317 (56%), Gaps = 40/317 (12%)
Query: 237 NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ 296
N KA ++ + G NDP+R +L LL+ DEE +L
Sbjct: 84 NVEKAELEHLSAPGSRMNDPVRQYLKRIGRVSLLSGDEEVQL------------------ 125
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
AK I ++ K EL S ANLRLVV +AK+Y GRG+S
Sbjct: 126 ------------AKRIEAGDQEAKDELTS----------ANLRLVVSIAKRYVGRGMSFL 163
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEG+MGLMK+V+KF Q G +F++YA WW+RQ I +AI +RTIR+P ++ ++K
Sbjct: 164 DLIQEGNMGLMKAVDKFDYQLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINK 223
Query: 417 VLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEI 476
++ +R +Q+ P+ E++A + + V+K+ ++ + + P+S++ P+ + D+ +
Sbjct: 224 LIRIQRQLLQDLGRDPEPEEIAAEMDLPVKKVREVLKVAQEPVSLETPIGEEDDSHLGDF 283
Query: 477 TADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 536
D P+ ++++ + +L L +E ++RLRFG++DG P++L EVG +FG+
Sbjct: 284 IEDKDATSPEQHAASEMLKDQLAEVLDTLTDREENVLRLRFGLDDGNPRTLEEVGRVFGV 343
Query: 537 SKERVRQLESRALYRLK 553
++ER+RQ+E++AL +L+
Sbjct: 344 TRERIRQIEAKALRKLR 360
>gi|182416400|ref|YP_001821466.1| RpoD family RNA polymerase sigma factor [Opitutus terrae PB90-1]
gi|177843614|gb|ACB77866.1| RNA polymerase, sigma 70 subunit, RpoD family [Opitutus terrae
PB90-1]
Length = 640
Score = 197 bits (501), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 89/244 (36%), Positives = 161/244 (65%)
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFA 382
+ + ++ +++ ANLRLV+ +AK+Y RG+S DL+QEG+MGLMK+VEKF+ + G +F+
Sbjct: 331 VREAHQAKTEMVEANLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFS 390
Query: 383 SYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVG 442
+YA WW+RQ I ++I +RTIR+P ++ L+KV++ ++ +QE H P E++A +
Sbjct: 391 TYATWWIRQAITRSIADQARTIRIPVHMIETLNKVMQVQKQLLQEYGHEPTPEEVADEMN 450
Query: 443 ITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL 502
+ VE++++++ + + P+S+Q PV DT+F + D E P L+R+ + ++L
Sbjct: 451 LPVERVQQIMKMAQQPISLQSPVGDGDDTSFGDFIEDKSAENPYDMTAFSLLREKIIDVL 510
Query: 503 TLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASY 562
L +ER ++ LRFG+ DG ++L EVG F +++ER+RQ+E++AL +++ + +
Sbjct: 511 DSLTERERRVLSLRFGLIDGYSRTLEEVGKQFKVTRERIRQIEAKALRKMRHPTRIRQLH 570
Query: 563 GYAD 566
G+ D
Sbjct: 571 GFFD 574
>gi|16752284|ref|NP_445653.1| RNA polymerase sigma factor [Chlamydophila pneumoniae AR39]
gi|7190028|gb|AAF38883.1| RNA polymerase sigma factor, sigma-70 family [Chlamydophila
pneumoniae AR39]
Length = 591
Score = 197 bits (500), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 95/265 (35%), Positives = 168/265 (63%), Gaps = 4/265 (1%)
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
TL E+ K + R L+ + ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+
Sbjct: 315 TLEEFKKDV----RMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 370
Query: 364 MGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRL 423
MGLMK+VEKF+ + G +F++YA WW+RQ + +AI +RTIR+P ++ ++KVL +
Sbjct: 371 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 430
Query: 424 YIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVE 483
+ E P E+LA +G+T +++ + I + P+S+Q V +++F + DT VE
Sbjct: 431 LMMETGKEPTPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGSESSFGDFLEDTAVE 490
Query: 484 IPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 543
P + +++ ++ +L L +ER ++ RFG+ DGKPK+L EVG+ F +++ER+RQ
Sbjct: 491 SPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQ 550
Query: 544 LESRALYRLKQSLGGKASYGYADLL 568
+E++AL +++ + K + DLL
Sbjct: 551 IEAKALRKMRHPIRSKQLRAFLDLL 575
>gi|389844090|ref|YP_006346170.1| sigma-70 family RNA polymerase sigma factor [Mesotoga prima
MesG1.Ag.4.2]
gi|387858836|gb|AFK06927.1| RNA polymerase sigma factor, sigma-70 family [Mesotoga prima
MesG1.Ag.4.2]
Length = 416
Score = 197 bits (500), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 88/226 (38%), Positives = 155/226 (68%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++E+LI ANLRLVV +AK+Y GRG++ DL+QEG++GL+K+VEKF + G +F++YA WW
Sbjct: 171 AKEELITANLRLVVSIAKRYIGRGLTFLDLIQEGNIGLIKAVEKFDWKKGYKFSTYATWW 230
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIR+P ++ ++K+ + R ++Q+ P E+L G T EK+
Sbjct: 231 IRQAITRAIADQARTIRVPVHMVETINKLNKVIREHLQDHGEYPTIEELGNLTGKTPEKI 290
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
E ++ ++ +S++ P+ D+++T + D +E P+ + K L+R+ + +L L+P+
Sbjct: 291 EEILAASKETVSLESPISGDEESTMGDFIHDDSMEQPEEAAMKMLLREQIDQILDTLSPR 350
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
E ++++R+G+ DGK K+L EVG F +++ER+RQ+E +AL +L+
Sbjct: 351 EAMVLKMRYGLLDGKTKTLEEVGQFFNVTRERIRQIEVKALRKLRH 396
>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 = 197 bits (500), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 109/326 (33%), Positives = 185/326 (56%), Gaps = 16/326 (4%)
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 FKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSP 432
F P+ G RF++YA WW++Q+I +AI RTIRLP +I+ ++ + + +R E
Sbjct: 121 FDPERGFRFSTYASWWIKQSIMRAIADQGRTIRLPVHIHDQINALRKVERELKAELGRDA 180
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWA-------------DQDTTFQEITAD 479
E++ + +T EK+E L +++ +SM+Q + D T ++ D
Sbjct: 181 RLEEITEKSTLTAEKIEFLNRVSQQDVSMEQELRTSKSKGSSAGLGGPDGGLTLGDVMGD 240
Query: 480 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 539
+ P Q+++ + L+ LN +E+ ++R+RFG++DGK K+L E+G F +++E
Sbjct: 241 PEAQ-PAEEASYQMLKDDISRLICTLNSREQAVIRMRFGLDDGKAKTLEEIGRRFSVTRE 299
Query: 540 RVRQLESRALYRLKQSLGGKASYGYA 565
R+RQ+ESRAL++L+Q A Y
Sbjct: 300 RIRQIESRALHKLRQPYRNHAVKCYV 325
>gi|169334166|ref|ZP_02861359.1| hypothetical protein ANASTE_00560 [Anaerofustis stercorihominis DSM
17244]
gi|169258883|gb|EDS72849.1| RNA polymerase sigma factor RpoD [Anaerofustis stercorihominis DSM
17244]
Length = 403
Score = 197 bits (500), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 91/238 (38%), Positives = 160/238 (67%), Gaps = 1/238 (0%)
Query: 318 DLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
DL ++ SG+ +R+KL ANLRLVV +AK+Y RG+S DL+QEG++GL+K+VEKF
Sbjct: 155 DLAQKIESGDVEARKKLCEANLRLVVSIAKRYVNRGMSFLDLIQEGNLGLLKAVEKFDYT 214
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I +AI +RTIR+P ++ ++K+ +R+ IQ+ P+ +
Sbjct: 215 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLKRVQRMLIQDLGRDPNSHE 274
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQ 496
+A+ +G+ EK+ ++ I++ P+S++ P+ ++D+ + D P+ + L+R
Sbjct: 275 IAKEMGLPEEKVRDIMKISQDPVSLETPIGEEEDSHLGDFIPDDDAVAPEEAASYMLLRT 334
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ +L L +E ++ LRFG+EDG+P++L EVG+IF +++ER+RQ+E++AL +L+
Sbjct: 335 QLFEVLKTLTDREAKVLILRFGLEDGRPRTLEEVGDIFCVTRERIRQIEAKALRKLRH 392
>gi|300812189|ref|ZP_07092631.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp.
bulgaricus PB2003/044-T3-4]
gi|300496825|gb|EFK31905.1| RNA polymerase sigma factor RpoD [Lactobacillus delbrueckii subsp.
bulgaricus PB2003/044-T3-4]
Length = 373
Score = 197 bits (500), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 105/317 (33%), Positives = 179/317 (56%), Gaps = 40/317 (12%)
Query: 237 NSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQ 296
N KA ++ + G NDP+R +L LL+ DEE +L
Sbjct: 84 NVEKAELEHLSAPGSRMNDPVRQYLKRIGRVSLLSGDEEVQL------------------ 125
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
AK I ++ K EL S ANLRLVV +AK+Y GRG+S
Sbjct: 126 ------------AKRIEAGDQEAKDELTS----------ANLRLVVSIAKRYVGRGMSFL 163
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEG+MGLMK+V+KF Q G +F++YA WW+RQ I +AI +RTIR+P ++ ++K
Sbjct: 164 DLIQEGNMGLMKAVDKFDYQLGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINK 223
Query: 417 VLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEI 476
++ +R +Q+ P+ E++A + + V+K+ ++ + + P+S++ P+ + D+ +
Sbjct: 224 LIRIQRQLLQDLGRDPEPEEIAAEMDLPVKKVREVLKVAQEPVSLETPIGEEDDSHLGDF 283
Query: 477 TADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 536
D P+ ++++ + +L L +E ++RLRFG++DG P++L EVG +FG+
Sbjct: 284 IEDKDATSPEQHAASEMLKDQLAEVLDTLTDREENVLRLRFGLDDGNPRTLEEVGRVFGV 343
Query: 537 SKERVRQLESRALYRLK 553
++ER+RQ+E++AL +L+
Sbjct: 344 TRERIRQIEAKALRKLR 360
>gi|366053198|ref|ZP_09450920.1| RNA polymerase sigma factor RpoD [Lactobacillus suebicus KCTC 3549]
Length = 381
Score = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 101/304 (33%), Positives = 173/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+ADEE L +R+EK
Sbjct: 105 GVKINDPVRMYLKEIGRVSLLSADEEVALA------LRIEK------------------- 139
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
S++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 140 ---------------GDESAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 184
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 185 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 244
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 245 REPTPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPADHA 304
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + N+L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 305 AYELLKEQLENVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 364
Query: 550 YRLK 553
+L+
Sbjct: 365 RKLR 368
>gi|258645217|ref|ZP_05732686.1| RNA polymerase sigma factor RpoD [Dialister invisus DSM 15470]
gi|260402567|gb|EEW96114.1| RNA polymerase sigma factor RpoD [Dialister invisus DSM 15470]
Length = 388
Score = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 103/308 (33%), Positives = 176/308 (57%), Gaps = 28/308 (9%)
Query: 248 SEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIE 307
S+ + +DP++++L KLLT +E EL + EK GR+
Sbjct: 102 SDSINIDDPVKMYLKEIGAIKLLTGSQEIELAKLV--------EKGSFDDATGRDKM--- 150
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
+ + +++ L +ANLRLVV +AK+Y GRG+ DL+QEG++GL+
Sbjct: 151 -----------------AADEAKKALSDANLRLVVSIAKKYLGRGLQFLDLIQEGNLGLL 193
Query: 368 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
K+V+KF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K+ R +QE
Sbjct: 194 KAVDKFDYTKGFKFSTYATWWIRQAITRAIADQARTIRVPVHMVETINKLNRISRQLLQE 253
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDI 487
E+LA+ +G++V K+ + I + P+S++ P+ +D+ + D PD
Sbjct: 254 KGREATNEELAKAMGVSVAKIREVKKIAQDPISLETPIGEKEDSHLGDFIEDHEAIAPDD 313
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
+ L+R+ + LL L +ER ++ LRFG++DG+P++L EVG F +++ER+RQ+E +
Sbjct: 314 AAGSILLREQIDELLRELTDRERQVLELRFGLKDGRPRTLEEVGKYFDVTRERIRQIEGK 373
Query: 548 ALYRLKQS 555
AL +LK+S
Sbjct: 374 ALTKLKKS 381
>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 = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 111/300 (37%), Positives = 175/300 (58%), Gaps = 1/300 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q +R IRLP +I L+K+ + +R Q+ +
Sbjct: 138 PTKGYKFSTYAYWWIRQAITRAIAQQARAIRLPIHITEKLNKIKKVQRELSQKFGRNATP 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++ + + + ++ + I R P+S+ V +QDT ++ D G + + Q+ L
Sbjct: 198 AEIGQELDLEPAQIREYLSIARQPVSLDVRVGDNQDTELSDLLEDDGQTPVNYTTQESL- 256
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
RQ + +LL L P++R ++ LRFG+EDG SL++VG LS+ERVRQLE +AL +L++
Sbjct: 257 RQDLDDLLAELTPQQREVLALRFGLEDGNELSLAKVGQRLNLSRERVRQLEHQALAQLRR 316
>gi|254556820|ref|YP_003063237.1| RNA polymerase sigma factor RpoD [Lactobacillus plantarum JDM1]
gi|254045747|gb|ACT62540.1| RNA polymerase sigma factor RpoD [Lactobacillus plantarum JDM1]
Length = 368
Score = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 99/306 (32%), Positives = 172/306 (56%), Gaps = 40/306 (13%)
Query: 248 SEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIE 307
+ G NDP+R++L LLTADEE L +I+
Sbjct: 90 ASGIKINDPVRMYLKEIGRVDLLTADEEVALALRIE------------------------ 125
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
S++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLM
Sbjct: 126 ----------------QGDESAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLM 169
Query: 368 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
K+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 170 KAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQD 229
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDI 487
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 230 LGREPTPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAD 289
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
+ +L+++ + +L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++
Sbjct: 290 AAAYELLKEQLEGVLDTLTNREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAK 349
Query: 548 ALYRLK 553
AL +L+
Sbjct: 350 ALRKLR 355
>gi|396584996|ref|ZP_10485432.1| RNA polymerase sigma factor RpoD [Actinomyces sp. ICM47]
gi|395547309|gb|EJG14781.1| RNA polymerase sigma factor RpoD [Actinomyces sp. ICM47]
Length = 491
Score = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 102/303 (33%), Positives = 186/303 (61%), Gaps = 20/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E +L +I+ + E KL++Q A +
Sbjct: 192 DPVKDYLKQIGKVSLLNAEQEVDLARRIEAGLYAE---YKLKNQ------------ADEM 236
Query: 315 SCRDLKSELH----SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
+ R+ + ELH G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 237 TSRE-RRELHFLAQDGQQAKNHLLEANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAV 295
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 296 EKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGR 355
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V
Sbjct: 356 EPTPEELAKELDMTAEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVS 415
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ +
Sbjct: 416 FTLLQEQLHHVLDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMS 475
Query: 551 RLK 553
+L+
Sbjct: 476 KLR 478
>gi|421074930|ref|ZP_15535949.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans JBW45]
gi|392526990|gb|EIW50097.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans JBW45]
Length = 377
Score = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 99/308 (32%), Positives = 175/308 (56%), Gaps = 40/308 (12%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
+ EG +DP+R++L LLTADEE +L ++++
Sbjct: 98 IPEGISIDDPVRMYLKEIGRVPLLTADEEIKLAQRMEE---------------------- 135
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
++ +L ANLRLVV +AK+Y GRG+ DL+QEG++GL
Sbjct: 136 ------------------GDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGL 177
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K+VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +Q
Sbjct: 178 IKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQ 237
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E P E++A+ + I+VE++ ++ I + P+S++ P+ ++D+ + D P
Sbjct: 238 ELGREPQPEEIAKEMDISVERVREIMKIAQEPVSLETPIGEEEDSHLGDFIEDQDAPAPA 297
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+ L+++ + +L L P+E ++RLRFG++DG+ ++L EVG FG+++ER+RQ+E+
Sbjct: 298 EAASFMLLKEQLEEVLETLTPREEKVLRLRFGLDDGRARTLEEVGQHFGVTRERIRQIEA 357
Query: 547 RALYRLKQ 554
+AL +L+
Sbjct: 358 KALRKLRH 365
>gi|399526850|ref|ZP_10766593.1| RNA polymerase sigma factor RpoD [Actinomyces sp. ICM39]
gi|398362584|gb|EJN46270.1| RNA polymerase sigma factor RpoD [Actinomyces sp. ICM39]
Length = 541
Score = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 102/303 (33%), Positives = 186/303 (61%), Gaps = 20/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E +L +I+ + E KL++Q A +
Sbjct: 242 DPVKDYLKQIGKVSLLNAEQEVDLARRIEAGLYAE---YKLKNQ------------ADEM 286
Query: 315 SCRDLKSELH----SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
+ R+ + ELH G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 287 TSRE-RRELHFLAQDGQQAKNHLLEANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAV 345
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 346 EKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGR 405
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V
Sbjct: 406 EPTPEELAKELDMTAEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVS 465
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ +
Sbjct: 466 FTLLQEQLHHVLDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMS 525
Query: 551 RLK 553
+L+
Sbjct: 526 KLR 528
>gi|293189827|ref|ZP_06608541.1| carbamoyl-phosphate synthase L chain, ATP-binding [Actinomyces
odontolyticus F0309]
gi|292821242|gb|EFF80187.1| carbamoyl-phosphate synthase L chain, ATP-binding [Actinomyces
odontolyticus F0309]
Length = 561
Score = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 102/304 (33%), Positives = 186/304 (61%), Gaps = 20/304 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E +L +I+ + E KL++Q A +
Sbjct: 262 DPVKDYLKQIGKVSLLNAEQEVDLARRIEAGLYAE---YKLKNQ------------ADEM 306
Query: 315 SCRDLKSELH----SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
+ R+ + ELH G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 307 TSRE-RRELHFLAQDGQQAKNHLLEANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAV 365
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 366 EKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGR 425
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V
Sbjct: 426 EPTPEELAKELDMTAEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVS 485
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ +
Sbjct: 486 FTLLQEQLHHVLDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMS 545
Query: 551 RLKQ 554
+L+
Sbjct: 546 KLRH 549
>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 = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 102/299 (34%), Positives = 179/299 (59%), Gaps = 1/299 (0%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G + ++YAYWW+ Q I +AI + SR +RLP ++ L+++ + +R Q
Sbjct: 127 PNRGYKLSTYAYWWISQAITRAIAEKSRAVRLPIHVNEKLNQIKKVQRELFQTLGRRATV 186
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
++A+++ I ++ + +S+ V +QDT E+ +D G+ P+ + ++++
Sbjct: 187 TEIAQKLDIQASQIREYLSAASATISLDLKVGDNQDTELSELLSDDGIS-PNEQITQEML 245
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
RQ + NLL L P +R ++ LRFG+ D + +SL+++G +S+ERVRQ++ +A+ L+
Sbjct: 246 RQDLDNLLASLKPVQREVLILRFGLLDNQERSLAQIGEKLNVSRERVRQIQQQAMNILR 304
>gi|220912379|ref|YP_002487688.1| RpoD subfamily RNA polymerase sigma-70 subunit [Arthrobacter
chlorophenolicus A6]
gi|219859257|gb|ACL39599.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Arthrobacter
chlorophenolicus A6]
Length = 433
Score = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 101/318 (31%), Positives = 189/318 (59%), Gaps = 21/318 (6%)
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLI----RLEKEKSKLQ 296
A V++ +S G DP++ +L LL A++E +L +I+ + ++ + ++
Sbjct: 121 APVQQVMSAGA-TADPVKDYLKQIGKVALLNAEQEVDLALRIEAGLFAEEKIAADDGSME 179
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
++ RE I +H G ++ L+ ANLRLVV +AK+Y GRG+
Sbjct: 180 PKYKRELEFI----------------IHDGKRAKNHLLEANLRLVVSLAKRYTGRGMLFL 223
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEG++GL+++VEKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K
Sbjct: 224 DLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINK 283
Query: 417 VLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEI 476
+ +R +Q+ P E+LA + +T EK+ + R P+S+ P+ D D+ F ++
Sbjct: 284 LARVQRQMLQDLGREPTPEELALELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDL 343
Query: 477 TADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 536
D+ +P +V L+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+
Sbjct: 344 IEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGV 403
Query: 537 SKERVRQLESRALYRLKQ 554
++ER+RQ+ES+ + +L+
Sbjct: 404 TRERIRQIESKTMSKLRH 421
>gi|15618665|ref|NP_224951.1| RNA polymerase sigma factor [Chlamydophila pneumoniae CWL029]
gi|15836289|ref|NP_300813.1| RNA polymerase sigma factor [Chlamydophila pneumoniae J138]
gi|33242115|ref|NP_877056.1| RNA polymerase sigma factor [Chlamydophila pneumoniae TW-183]
gi|6831651|sp|Q9Z7F0.1|RPOD_CHLPN RecName: Full=RNA polymerase sigma factor RpoD; Short=Sigma-A;
AltName: Full=Sigma-66; AltName: Full=Sigma-70
gi|4377063|gb|AAD18894.1| RNA Polymerase Sigma-66 [Chlamydophila pneumoniae CWL029]
gi|8979129|dbj|BAA98964.1| RNA polymerase sigma-66 [Chlamydophila pneumoniae J138]
gi|33236625|gb|AAP98713.1| sigma factor 70 [Chlamydophila pneumoniae TW-183]
Length = 572
Score = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 95/265 (35%), Positives = 168/265 (63%), Gaps = 4/265 (1%)
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
TL E+ K + R L+ + ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+
Sbjct: 296 TLEEFKKDV----RMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 351
Query: 364 MGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRL 423
MGLMK+VEKF+ + G +F++YA WW+RQ + +AI +RTIR+P ++ ++KVL +
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 411
Query: 424 YIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVE 483
+ E P E+LA +G+T +++ + I + P+S+Q V +++F + DT VE
Sbjct: 412 LMMETGKEPTPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGSESSFGDFLEDTAVE 471
Query: 484 IPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 543
P + +++ ++ +L L +ER ++ RFG+ DGKPK+L EVG+ F +++ER+RQ
Sbjct: 472 SPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQ 531
Query: 544 LESRALYRLKQSLGGKASYGYADLL 568
+E++AL +++ + K + DLL
Sbjct: 532 IEAKALRKMRHPIRSKQLRAFLDLL 556
>gi|365873407|ref|ZP_09412940.1| RNA polymerase sigma factor, sigma-70 family [Thermanaerovibrio
velox DSM 12556]
gi|363983494|gb|EHM09701.1| RNA polymerase sigma factor, sigma-70 family [Thermanaerovibrio
velox DSM 12556]
Length = 390
Score = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 96/262 (36%), Positives = 162/262 (61%), Gaps = 15/262 (5%)
Query: 298 QFGREPTL-----IEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRG 352
+ GR P L +E AK + + KS KL+ ANLRLVV +AK+Y GRG
Sbjct: 127 EIGRIPLLSPEEEVELAKGVEAGDEEAKS----------KLVEANLRLVVSIAKKYIGRG 176
Query: 353 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYT 412
+ DL+QEG+MGL+++VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++
Sbjct: 177 MLFLDLIQEGNMGLIRAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVE 236
Query: 413 LLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTT 472
++K++ R + P E++A +G+T +++E + I + P+S++ P+ ++D+
Sbjct: 237 TINKLIRVSRSLVMRLGREPSVEEIAAEMGVTADRVEEIQKIAQEPVSLETPIGEEEDSQ 296
Query: 473 FQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGN 532
+ D + PD + Q++R+ + +L L +ER ++RLRFG+EDG +L EVG
Sbjct: 297 LGDFLEDKDLPSPDEAAANQILREQLEEMLEDLTDREREVLRLRFGLEDGHSHTLEEVGK 356
Query: 533 IFGLSKERVRQLESRALYRLKQ 554
FG+++ER+RQ+E++AL +L+
Sbjct: 357 RFGVTRERIRQIEAKALRKLRH 378
>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 = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 114/292 (39%), Positives = 181/292 (61%), Gaps = 7/292 (2%)
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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYW
Sbjct: 78 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 137
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I +AI + SRTIRLP +I L+K+ + +R QE +P +LA V + E+
Sbjct: 138 WIRQGITRAIAEKSRTIRLPIHITETLNKLKKGQRELSQELGRTPTVTELAGYVELPEEE 197
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNP 507
++ L+ R P+S++ V +DT ++ A G E+P+ V + ++ +R LL L
Sbjct: 198 VKDLLCRARQPVSLETKVGDGEDTELLDLLAGDG-ELPEERVDGECLKGDLRALLEQLPE 256
Query: 508 KERCIVRLRFGI-----EDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ ++++R+GI E +P SL+ +G I G+S++RVR LE L L++
Sbjct: 257 LQGRVLKMRYGIDPQSAEMAEPMSLTGIGRILGISRDRVRNLERDGLAGLRR 308
>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 = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 106/302 (35%), Positives = 180/302 (59%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 127 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREAT 186
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI ++K+ L+ +R P+S+ PV ++++ + D + +V +L
Sbjct: 187 DEELAAESGIPIDKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAEL 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 247 LHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLR 306
Query: 554 QS 555
Sbjct: 307 NG 308
>gi|325962990|ref|YP_004240896.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase
sigma factor, sigma-70 family [Arthrobacter
phenanthrenivorans Sphe3]
gi|323469077|gb|ADX72762.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase
sigma factor, sigma-70 family [Arthrobacter
phenanthrenivorans Sphe3]
Length = 437
Score = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 101/318 (31%), Positives = 188/318 (59%), Gaps = 21/318 (6%)
Query: 241 ASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLI----RLEKEKSKLQ 296
A V++ +S G DP++ +L LL A++E +L +I+ + ++ + +
Sbjct: 125 APVQQVMSAGA-TADPVKDYLKQIGKVALLNAEQEVDLALRIEAGLFAEEKINADDGSMD 183
Query: 297 SQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLH 356
++ RE I +H G ++ L+ ANLRLVV +AK+Y GRG+
Sbjct: 184 PKYKRELEFI----------------IHDGKRAKNHLLEANLRLVVSLAKRYTGRGMLFL 227
Query: 357 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEG++GL+++VEKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K
Sbjct: 228 DLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINK 287
Query: 417 VLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEI 476
+ +R +Q+ P E+LA + +T EK+ + R P+S+ P+ D D+ F ++
Sbjct: 288 LARVQRQMLQDLGREPTPEELALELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDL 347
Query: 477 TADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGL 536
D+ +P +V L+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+
Sbjct: 348 IEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGV 407
Query: 537 SKERVRQLESRALYRLKQ 554
++ER+RQ+ES+ + +L+
Sbjct: 408 TRERIRQIESKTMSKLRH 425
>gi|167772125|ref|ZP_02444178.1| hypothetical protein ANACOL_03499 [Anaerotruncus colihominis DSM
17241]
gi|167665923|gb|EDS10053.1| RNA polymerase sigma factor RpoD [Anaerotruncus colihominis DSM
17241]
Length = 361
Score = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 99/307 (32%), Positives = 177/307 (57%), Gaps = 40/307 (13%)
Query: 248 SEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIE 307
+EG + +DP++++L LL+ADEE +L
Sbjct: 83 AEGINIDDPVKVYLKEIGRVPLLSADEEIDL----------------------------- 113
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
A+ ++ D+ +R++L ANLRLVV +AK+Y GRG+ DL+QEG++GL+
Sbjct: 114 ---AVRMAQGDI--------DARKRLSEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLI 162
Query: 368 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
K+VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++KV + L + +
Sbjct: 163 KAVEKFDHTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKVKKVSSLLLHK 222
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDI 487
H P E+++ + + V+K+ ++ + + P+S++ P+ ++D+ + D PD
Sbjct: 223 NGHEPTAEEISAELDMPVDKVREIMRVAQEPVSLETPIGEEEDSHLGDFIPDEDAPAPDT 282
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
+ L+R+ + +L L P+E ++RLRFG+EDG+ ++L EVG F +++ER+RQ+E++
Sbjct: 283 AASHTLLREQLSEVLQTLTPREEKVLRLRFGLEDGRSRTLEEVGREFNVTRERIRQIEAK 342
Query: 548 ALYRLKQ 554
AL +L+
Sbjct: 343 ALRKLRH 349
>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 = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 111/297 (37%), Positives = 186/297 (62%), Gaps = 1/297 (0%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL ADEE EL +++ L + ++ L+ + G +P+ E A L+ R L++ L+ G
Sbjct: 89 LLKADEEVELARRVRFLEEWREAQAALKEKSGNQPSKAEVAAEFSLTERQLENRLYQGRV 148
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F++YAYWW
Sbjct: 149 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRASEKFDPDKGYKFSTYAYWW 208
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIRLP +I L+K+ +A+R Q+ +P + +LA + I +L
Sbjct: 209 IRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQQLGRNPSEIELAESLEIPPSQL 268
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNP 507
+L + R LS+ V ++DT ++ D + P+ + + +MRQ + +L +L P
Sbjct: 269 RQLQQLRRQSLSLNHRVGKEEDTELMDLLEDEDNQSPEAKMNESMMRQEIWEVLGDVLTP 328
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ++S+A+ +L++ K G+
Sbjct: 329 REKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKGW 385
>gi|297571337|ref|YP_003697111.1| RpoD subfamily RNA polymerase sigma-70 subunit [Arcanobacterium
haemolyticum DSM 20595]
gi|296931684|gb|ADH92492.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Arcanobacterium
haemolyticum DSM 20595]
Length = 510
Score = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 102/300 (34%), Positives = 182/300 (60%), Gaps = 13/300 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A+EE EL +I+ + L +Q E T I+ +
Sbjct: 212 DPVKDYLKQIGKVALLNAEEEVELAKRIE---------AGLFAQHILETTTIDDPR---- 258
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
R+L+ G+ ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 259 KRRELEIISRDGHKAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLVRAVEKFD 318
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 319 YAKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTV 378
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L+
Sbjct: 379 EELAHELDMTEEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVGFTLL 438
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ + +L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 439 QEQLHQVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRH 498
>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 = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 109/334 (32%), Positives = 202/334 (60%), Gaps = 17/334 (5%)
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 VVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQH 400
VV +AK+Y GRG+ DL+QEG++GL+++VEKF G +F++YA WW+RQ I +AI
Sbjct: 168 VVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAIADQ 227
Query: 401 SRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLS 460
+RTIR+P ++ ++K++ +R +Q+ P E++A+ + +T +K+ ++ + + P+S
Sbjct: 228 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPLPEEIAKEMDLTPDKVREILKVAQEPVS 287
Query: 461 MQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIE 520
++ P+ ++D+ + D+ +P + L+++ + ++L L+ +E+ +++LRFG+
Sbjct: 288 LETPIGEEEDSHLGDFIEDSDAVVPVDAASFLLLQEQLDSVLHTLSDREKKVIQLRFGLT 347
Query: 521 DGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
DG P++L EVG FG+++ER+RQ+ES+ L +L+
Sbjct: 348 DGHPRTLEEVGREFGVTRERIRQIESKTLSKLRH 381
>gi|269125851|ref|YP_003299221.1| RpoD subfamily RNA polymerase sigma-70 subunit [Thermomonospora
curvata DSM 43183]
gi|268310809|gb|ACY97183.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermomonospora
curvata DSM 43183]
Length = 559
Score = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 99/301 (32%), Positives = 180/301 (59%), Gaps = 14/301 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTL-IEWAKAIG 313
DP++ +L LL A++E EL +I+ + E+ + + Q E +EW
Sbjct: 260 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAEERLATMGDQLSEEDKADLEWIA--- 316
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 317 ----------EDGRRAKAHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKF 366
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 367 DYTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPT 426
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L
Sbjct: 427 PEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVSFTL 486
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 487 LQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLR 546
Query: 554 Q 554
Sbjct: 547 H 547
>gi|260890619|ref|ZP_05901882.1| RNA polymerase sigma factor RpoD [Leptotrichia hofstadii F0254]
gi|260859664|gb|EEX74164.1| RNA polymerase sigma factor RpoD [Leptotrichia hofstadii F0254]
Length = 392
Score = 197 bits (500), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 93/256 (36%), Positives = 167/256 (65%), Gaps = 5/256 (1%)
Query: 298 QFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHD 357
+ G+ P L+ + + I + R L E +++KLI +NLRLVV +AK++ RG+ + D
Sbjct: 129 EIGQIP-LLSYEEEIDYAQRVLNGE----EEAKQKLIESNLRLVVSIAKKHTNRGLKMLD 183
Query: 358 LLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKV 417
L+QEG+MGLMK+VEKF+ + G +F++YA WW+RQ I +AI RTIR+P ++ ++K+
Sbjct: 184 LIQEGNMGLMKAVEKFEYEKGFKFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKI 243
Query: 418 LEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEIT 477
+ R+ +QE P E+LA ++ + VEK++ ++ + + P+S++ PV +++D+ +
Sbjct: 244 KKESRIILQETGKEPTAEELAEKLELPVEKVKSILEMNQDPISLETPVGSEEDSELGDFV 303
Query: 478 ADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 537
D P + + L+++ + +L LN +E ++R R+G++DG K+L EVG IF ++
Sbjct: 304 EDDKFANPYDATTRVLLKEQLDEVLKTLNEREEMVLRYRYGLDDGSQKTLEEVGKIFNVT 363
Query: 538 KERVRQLESRALYRLK 553
+ER+RQ+E +AL +L+
Sbjct: 364 RERIRQIEVKALRKLR 379
>gi|312143990|ref|YP_003995436.1| RpoD subfamily RNA polymerase sigma-70 subunit [Halanaerobium
hydrogeniformans]
gi|311904641|gb|ADQ15082.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Halanaerobium
hydrogeniformans]
Length = 360
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 105/304 (34%), Positives = 173/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G +DP+R++L LLTADEE L R+E+ EWA
Sbjct: 84 GVGIDDPVRMYLKEIGKVDLLTADEEVMLAK------RMEQGD--------------EWA 123
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
K ++L+ ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 124 K--------------------QQLVEANLRLVVSIAKKYVGRGMLFLDLIQEGNMGLMKA 163
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I ++I +RTIR+P ++ ++K++ R +QE
Sbjct: 164 VEKFDYTKGYKFSTYATWWIRQAITRSIADQARTIRVPVHMVETINKLIRVSRQLLQEKG 223
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + I+ EK+ ++ I + P+S++ P+ ++D+ + D P +
Sbjct: 224 REPKPEEIGEEMDISAEKVREIMKIAQEPVSLETPIGEEEDSHLGDFIEDEDSPAPASAA 283
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
L+++ + +L L +E+ ++ LRFGIEDG+P++L EVG FG+++ER+RQ+E++AL
Sbjct: 284 SYILLKEQLDGVLDTLTEREKRVLELRFGIEDGRPRTLEEVGKEFGVTRERIRQIEAKAL 343
Query: 550 YRLK 553
+L+
Sbjct: 344 RKLR 347
>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 = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 103/299 (34%), Positives = 185/299 (61%), Gaps = 9/299 (3%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LL A+EE EL +I+ + E+ ++ + G +P AIG+
Sbjct: 181 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLFAEQMINRW-VERGEKP-------AIGI 232
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RD+ GN ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+++VEKF
Sbjct: 233 R-RDMNWIARDGNRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFD 291
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 292 YTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTP 351
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA+ + IT EK+ + R P+S+ Q + + D+ + D+ + +V L+
Sbjct: 352 EELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLL 411
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 412 QDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLR 470
>gi|222152854|ref|YP_002562031.1| RNA polymerase sigma factor RpoD [Streptococcus uberis 0140J]
gi|222113667|emb|CAR41594.1| RNA polymerase sigma factor RpoD [Streptococcus uberis 0140J]
Length = 369
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 110/338 (32%), Positives = 187/338 (55%), Gaps = 53/338 (15%)
Query: 220 SKKRKVSKP---QVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEF 276
S K V +P ++T+ E S A V NDP+R++L LLT+DEE
Sbjct: 69 SSKYIVEEPKPEELTDEELIGSNSAKV----------NDPVRMYLKEIGVVPLLTSDEEK 118
Query: 277 ELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINA 336
EL AI ++ D+ ++++L A
Sbjct: 119 EL--------------------------------AIAVAAGDV--------DAKQRLAEA 138
Query: 337 NLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKA 396
NLRLVV +AK+Y GRG+ DL+QEG+MGLMK+V+KF G +F++YA WW+RQ I +A
Sbjct: 139 NLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRA 198
Query: 397 IFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITR 456
I +RTIR+P ++ ++K++ +R +QE P E +A R+ +T +K+ ++ I +
Sbjct: 199 IADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMEMTPDKVREILKIAQ 258
Query: 457 MPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLR 516
P+S++ P+ + D+ + D +E P + ++R+ + +L L +E ++RLR
Sbjct: 259 EPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLR 318
Query: 517 FGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
FG++DGK ++L +VG +F +++ER+RQ+E++AL +L+
Sbjct: 319 FGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRH 356
>gi|199598416|ref|ZP_03211835.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus HN001]
gi|258508506|ref|YP_003171257.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus GG]
gi|385828171|ref|YP_005865943.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus GG]
gi|199590735|gb|EDY98822.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus HN001]
gi|257148433|emb|CAR87406.1| RNA polymerase sigma factor [Lactobacillus rhamnosus GG]
gi|259649816|dbj|BAI41978.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus GG]
Length = 416
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 98/304 (32%), Positives = 171/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE L +I+
Sbjct: 140 GVKINDPVRMYLKEIGRVSLLTADEEVALALKIE-------------------------- 173
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 174 --------------QGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 219
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 220 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 279
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P+
Sbjct: 280 REPTPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPEDHA 339
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 340 SYELLKEQLESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 399
Query: 550 YRLK 553
+L+
Sbjct: 400 RKLR 403
>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 = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 95/253 (37%), Positives = 168/253 (66%), Gaps = 4/253 (1%)
Query: 318 DLKSELHSGN----SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
DL SE+ SG ++++KLINANLRLVV +AK+Y RG+ DL+QEG++GL+K+VEKF
Sbjct: 366 DLTSEIKSGQRMLKNAKDKLINANLRLVVSIAKKYINRGLQFFDLVQEGNIGLIKAVEKF 425
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
+ + G +F++YA WW+RQ I ++I +RTIR+P ++ ++KV R +Q+ P+
Sbjct: 426 EYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVNRESRQLMQKLGREPN 485
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+++A ++G ++EK++++ + R P+S++ P+ ++DT ++ D GVE P + L
Sbjct: 486 DDEIALQLGWSIEKVKQVKNVAREPISLETPIGEEEDTLLGDLIEDKGVENPSNRTELTL 545
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + +L+ L +E+ ++++RFGIE G P +L EVG F +++ER+RQ+E++ L RL+
Sbjct: 546 LQEQLEMVLSSLPEREQEVLKMRFGIEGGYPLTLEEVGLYFDVTRERIRQIEAKGLRRLR 605
Query: 554 QSLGGKASYGYAD 566
+ Y D
Sbjct: 606 HPKRSRKLKDYLD 618
>gi|254382896|ref|ZP_04998252.1| RNA polymerase sigma factor rpoD [Streptomyces sp. Mg1]
gi|194341797|gb|EDX22763.1| RNA polymerase sigma factor rpoD [Streptomyces sp. Mg1]
Length = 362
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 90/241 (37%), Positives = 159/241 (65%)
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
G ++ +LI +NLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA
Sbjct: 122 GRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 181
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++A + +T
Sbjct: 182 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTVEEVAVHLELTP 241
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
E++ ++ + + P+S+ PV + D ++ D P S L+R+H+ +L+ L
Sbjct: 242 ERVLEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFFLLREHLEAVLSTL 301
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYA 565
+ER +V+LR+G+ DG+P++L E+G IFG+++ER+RQ+ES+ L +L+ GY
Sbjct: 302 GERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYL 361
Query: 566 D 566
D
Sbjct: 362 D 362
>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 = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 102/287 (35%), Positives = 181/287 (63%), Gaps = 1/287 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYWW
Sbjct: 100 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 159
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + SR+IRLP +I +L+K+ + +R QE + +P ++L+ V + +
Sbjct: 160 IRQGITRAIAEKSRSIRLPIHITEMLNKLKKGQRELSQELSRTPTLKELSEYVELPETDV 219
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ L+ P+S++ + +DT ++ ++ +++P ++ M+ + LL L
Sbjct: 220 KDLMSRAGQPVSLETKIGDGEDTILLDLLSNE-IDMPSEQIESDCMKGDLETLLEQLPEL 278
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
+ ++R+R+GI+ P SL+ +G + G+S++RVR LE L L+++
Sbjct: 279 QNRVLRMRYGIDGDDPMSLTGIGRVLGISRDRVRNLERDGLRGLRKT 325
>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 = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 111/303 (36%), Positives = 182/303 (60%), Gaps = 17/303 (5%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR-LYIQEGNHSP 432
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR L+ Q G +
Sbjct: 131 DYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREAT 190
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
D E LA GI K+ L+ +R P+S+ PV D++ + D+ + +V
Sbjct: 191 DDE-LAEESGIPAHKIADLLDHSRDPVSLDMPVGNDEEAPLGDFIEDSEATSAENAVIAG 249
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
L+ VR++L L+ +E+ ++RLR+G++DG+P++L ++G +FGLS+ERVRQ+E + +L
Sbjct: 250 LLHSDVRSVLATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMGKL 309
Query: 553 KQS 555
+Q
Sbjct: 310 RQG 312
>gi|291522892|emb|CBK81185.1| RNA polymerase, sigma 70 subunit, RpoD [Coprococcus catus GD/7]
Length = 366
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 90/226 (39%), Positives = 150/226 (66%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
+++++I ANLRLVV +AK+Y GRGI DL+QEG+MGL+K+VEKF G +F++YA WW
Sbjct: 128 AKDRIIEANLRLVVSIAKKYVGRGIPFLDLIQEGNMGLIKAVEKFDYAKGFKFSTYATWW 187
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ+I + I +TIR+P ++ ++K L R +QE P E++A R+G T +K+
Sbjct: 188 IRQSITRGIADKGKTIRVPVHMVETINKTLRMSRNLLQELGREPTSEEIAERLGTTKQKV 247
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
E + I+R P+SM P+ ++D++ + D + P S Q++++ + N L L +
Sbjct: 248 EEALEISRDPVSMDSPIGEEEDSSLGDFIEDENMLSPSDSADYQMLKKELVNALDTLTDR 307
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
ER ++ LRFG+ DG+ ++L EVG F +++ER+RQ+E++AL +L+
Sbjct: 308 ERKVIELRFGLIDGQARTLEEVGKEFKVTRERIRQIEAKALRKLRH 353
>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 = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 112/295 (37%), Positives = 183/295 (62%), Gaps = 2/295 (0%)
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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYW
Sbjct: 85 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 144
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I +AI + SRTIRLP +I +L+K+ + +R QE +P +LA V + E+
Sbjct: 145 WIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTELAGFVELPEEE 204
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNP 507
++ L+ R P+S++ V DT E+ A G E+P+ V+ + ++ +R+LL L
Sbjct: 205 VKDLMCRARQPVSLEMKVGDGDDTELLELLAGDG-ELPEEQVEVECLKGDLRDLLEQLPD 263
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASY 562
+R ++R+R+G++ +P SL+ + +S++R R+LE L L++ G +Y
Sbjct: 264 LQRRVLRMRYGMDGEEPMSLTGIAKSLRMSRDRTRRLEREGLEMLRRFDGQLEAY 318
>gi|421059039|ref|ZP_15521671.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans B3]
gi|421067092|ref|ZP_15528606.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans A12]
gi|421072461|ref|ZP_15533570.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pelosinus
fermentans A11]
gi|392445661|gb|EIW22972.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Pelosinus
fermentans A11]
gi|392450830|gb|EIW27839.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans A12]
gi|392459720|gb|EIW36105.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans B3]
Length = 377
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 99/308 (32%), Positives = 175/308 (56%), Gaps = 40/308 (12%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
+ EG +DP+R++L LLTADEE +L ++++
Sbjct: 98 IPEGISIDDPVRMYLKEIGRVPLLTADEEIKLAQRMEE---------------------- 135
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
++ +L ANLRLVV +AK+Y GRG+ DL+QEG++GL
Sbjct: 136 ------------------GDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGL 177
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K+VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +Q
Sbjct: 178 IKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQ 237
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E P E++A+ + I+VE++ ++ I + P+S++ P+ ++D+ + D P
Sbjct: 238 ELGREPQPEEIAKEMDISVERVREIMKIAQEPVSLETPIGEEEDSHLGDFIEDQDAPAPA 297
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+ L+++ + +L L P+E ++RLRFG++DG+ ++L EVG FG+++ER+RQ+E+
Sbjct: 298 EAASFMLLKEQLEEVLETLTPREEKVLRLRFGLDDGRARTLEEVGQHFGVTRERIRQIEA 357
Query: 547 RALYRLKQ 554
+AL +L+
Sbjct: 358 KALRKLRH 365
>gi|421768689|ref|ZP_16205399.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus LRHMDP2]
gi|421771160|ref|ZP_16207821.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus LRHMDP3]
gi|411185538|gb|EKS52665.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus LRHMDP2]
gi|411186595|gb|EKS53719.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus LRHMDP3]
Length = 416
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 98/304 (32%), Positives = 171/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE L +I+
Sbjct: 140 GVKINDPVRMYLKEIGRVSLLTADEEVALALKIE-------------------------- 173
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 174 --------------QGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 219
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 220 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 279
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P+
Sbjct: 280 REPTPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPEDHA 339
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 340 SYELLKEQLESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 399
Query: 550 YRLK 553
+L+
Sbjct: 400 RKLR 403
>gi|410666950|ref|YP_006919321.1| RNA polymerase sigma factor RpoD [Thermacetogenium phaeum DSM
12270]
gi|409104697|gb|AFV10822.1| RNA polymerase sigma factor RpoD [Thermacetogenium phaeum DSM
12270]
Length = 361
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 104/314 (33%), Positives = 178/314 (56%), Gaps = 40/314 (12%)
Query: 240 KASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQF 299
+A V + EG +DP+R++L LLTA+EE EL +I+
Sbjct: 75 EADVDLSIPEGIAIDDPVRMYLKEIGRIPLLTAEEEVELAKRIE---------------- 118
Query: 300 GREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLL 359
++ +L ANLRLVV +AK+Y GRG+ DL+
Sbjct: 119 ------------------------QGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLI 154
Query: 360 QEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLE 419
QEG++GL+K+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++
Sbjct: 155 QEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVR 214
Query: 420 AKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITAD 479
+R +QE P E++A+ + I VE++ ++ I + P+S++ P+ ++D+ + D
Sbjct: 215 VQRQLLQELGRDPMPEEIAKEMDIPVERVREIMKIAQEPVSLETPIGEEEDSHLGDFIED 274
Query: 480 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 539
P + L+++ + +L L P+ER ++RLRFG+EDGK ++L EVG F +++E
Sbjct: 275 EDALAPAEAASFILLKEQLEEVLETLTPRERDVLRLRFGLEDGKARTLEEVGQKFKVTRE 334
Query: 540 RVRQLESRALYRLK 553
R+RQ+E++AL +L+
Sbjct: 335 RIRQIEAKALRKLR 348
>gi|229552308|ref|ZP_04441033.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
rhamnosus LMS2-1]
gi|385835366|ref|YP_005873140.1| RNA polymerase sigma factor rpoD [Lactobacillus rhamnosus ATCC
8530]
gi|229314290|gb|EEN80263.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
rhamnosus LMS2-1]
gi|355394857|gb|AER64287.1| RNA polymerase sigma factor rpoD [Lactobacillus rhamnosus ATCC
8530]
Length = 416
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 98/304 (32%), Positives = 171/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE L +I+
Sbjct: 140 GVKINDPVRMYLKEIGRVSLLTADEEVALALKIE-------------------------- 173
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 174 --------------QGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 219
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 220 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 279
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P+
Sbjct: 280 REPTPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPEDHA 339
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 340 SYELLKEQLESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 399
Query: 550 YRLK 553
+L+
Sbjct: 400 RKLR 403
>gi|256390959|ref|YP_003112523.1| RNA polymerase sigma factor [Catenulispora acidiphila DSM 44928]
gi|256357185|gb|ACU70682.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Catenulispora
acidiphila DSM 44928]
Length = 559
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 101/300 (33%), Positives = 183/300 (61%), Gaps = 13/300 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E EL +I+ + E+ KL EP E+ + + +
Sbjct: 261 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAEE---KLNDG---EPLTPEFRRELDI 314
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
D G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 315 IAED-------GRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 367
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 368 YTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 427
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L+
Sbjct: 428 EELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLL 487
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 488 QEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRH 547
>gi|194467797|ref|ZP_03073783.1| RNA polymerase, sigma 70 subunit, RpoD family [Lactobacillus
reuteri 100-23]
gi|194452650|gb|EDX41548.1| RNA polymerase, sigma 70 subunit, RpoD family [Lactobacillus
reuteri 100-23]
Length = 380
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 101/304 (33%), Positives = 173/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE +L +R+EK
Sbjct: 104 GVKINDPVRMYLKEIGRVNLLTADEEVQLA------LRIEK------------------- 138
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 139 ---------------GDEVAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 183
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 184 VEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 243
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 244 REPLPEEIGAEMDMPTEKVRNILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPADHA 303
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
++M++ + N+L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 304 AYEMMKKQLENVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 363
Query: 550 YRLK 553
+L+
Sbjct: 364 RKLR 367
>gi|418070721|ref|ZP_12707996.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus R0011]
gi|423078927|ref|ZP_17067603.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus ATCC
21052]
gi|357540141|gb|EHJ24158.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus R0011]
gi|357548830|gb|EHJ30689.1| RNA polymerase sigma factor RpoD [Lactobacillus rhamnosus ATCC
21052]
Length = 416
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 98/304 (32%), Positives = 171/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE L +I+
Sbjct: 140 GVKINDPVRMYLKEIGRVSLLTADEEVALALKIE-------------------------- 173
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 174 --------------QGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 219
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 220 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 279
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P+
Sbjct: 280 REPTPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPEDHA 339
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 340 SYELLKEQLESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 399
Query: 550 YRLK 553
+L+
Sbjct: 400 RKLR 403
>gi|423332763|ref|ZP_17310545.1| RNA polymerase sigma-43 factor RpoD [Lactobacillus reuteri ATCC
53608]
gi|337727881|emb|CCC02969.1| RNA polymerase sigma-43 factor RpoD [Lactobacillus reuteri ATCC
53608]
Length = 380
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 101/304 (33%), Positives = 173/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE +L +R+EK
Sbjct: 104 GVKINDPVRMYLKEIGRVNLLTADEEVQLA------LRIEK------------------- 138
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 139 ---------------GDEVAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 183
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 184 VEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 243
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 244 REPLPEEIGAEMDMPTEKVRNILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPADHA 303
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
++M++ + N+L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 304 AYEMMKKQLENVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 363
Query: 550 YRLK 553
+L+
Sbjct: 364 RKLR 367
>gi|301301338|ref|ZP_07207482.1| RNA polymerase sigma factor RpoD [Lactobacillus salivarius
ACS-116-V-Col5a]
gi|300851066|gb|EFK78806.1| RNA polymerase sigma factor RpoD [Lactobacillus salivarius
ACS-116-V-Col5a]
Length = 372
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 104/321 (32%), Positives = 179/321 (55%), Gaps = 42/321 (13%)
Query: 235 TYNSRKASVKKKLS--EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEK 292
T + KA K +S G NDP+R++L LLTADEE L +I++
Sbjct: 79 TKEAEKAENDKDVSAPSGVKINDPVRMYLKEIGRVNLLTADEEVALALKIEE-------- 130
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRG 352
++++L ANLRLVV +AK+Y GRG
Sbjct: 131 --------------------------------GDQEAKQRLAEANLRLVVSIAKRYVGRG 158
Query: 353 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYT 412
+S DL+QEG+MGLMK+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++
Sbjct: 159 MSFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVE 218
Query: 413 LLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTT 472
++K++ +R +Q+ P E++ + + EK+ ++ I + P+S++ P+ + D+
Sbjct: 219 TINKLIRIQRQMLQDLGREPMPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDSH 278
Query: 473 FQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGN 532
+ D P +L+++ + ++L L +E ++RLRFG++DG+ ++L EVG
Sbjct: 279 LGDFIEDQDATSPAEHAAYELLKEQLESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGK 338
Query: 533 IFGLSKERVRQLESRALYRLK 553
+FG+++ER+RQ+E++AL +L+
Sbjct: 339 VFGVTRERIRQIEAKALRKLR 359
>gi|116494985|ref|YP_806719.1| RNA polymerase sigma factor RpoD [Lactobacillus casei ATCC 334]
gi|191638497|ref|YP_001987663.1| RNA polymerase sigma factor RpoD [Lactobacillus casei BL23]
gi|227535009|ref|ZP_03965058.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
paracasei subsp. paracasei ATCC 25302]
gi|301066553|ref|YP_003788576.1| DNA-directed RNA polymerase sigma70/sigma32 subunit [Lactobacillus
casei str. Zhang]
gi|385820205|ref|YP_005856592.1| RNA polymerase sigma-70 subunit RpoD [Lactobacillus casei LC2W]
gi|385823402|ref|YP_005859744.1| RNA polymerase sigma-70 subunit RpoD [Lactobacillus casei BD-II]
gi|417980791|ref|ZP_12621470.1| RNA polymerase sigma factor [Lactobacillus casei 12A]
gi|417993010|ref|ZP_12633361.1| RNA polymerase sigma factor [Lactobacillus casei CRF28]
gi|417996364|ref|ZP_12636645.1| RNA polymerase sigma factor [Lactobacillus casei M36]
gi|417999242|ref|ZP_12639453.1| RNA polymerase sigma factor [Lactobacillus casei T71499]
gi|418002184|ref|ZP_12642307.1| RNA polymerase sigma factor [Lactobacillus casei UCD174]
gi|418008091|ref|ZP_12647961.1| RNA polymerase sigma factor [Lactobacillus casei UW4]
gi|418015186|ref|ZP_12654763.1| RNA polymerase sigma factor [Lactobacillus casei Lpc-37]
gi|116105135|gb|ABJ70277.1| RNA polymerase, sigma 70 subunit, RpoD [Lactobacillus casei ATCC
334]
gi|190712799|emb|CAQ66805.1| RNA polymerase sigma factor [Lactobacillus casei BL23]
gi|227187324|gb|EEI67391.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
paracasei subsp. paracasei ATCC 25302]
gi|300438960|gb|ADK18726.1| DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32)
[Lactobacillus casei str. Zhang]
gi|327382532|gb|AEA54008.1| RNA polymerase, sigma 70 subunit, RpoD [Lactobacillus casei LC2W]
gi|327385729|gb|AEA57203.1| RNA polymerase, sigma 70 subunit, RpoD [Lactobacillus casei BD-II]
gi|410524302|gb|EKP99214.1| RNA polymerase sigma factor [Lactobacillus casei 12A]
gi|410532419|gb|EKQ07127.1| RNA polymerase sigma factor [Lactobacillus casei CRF28]
gi|410535675|gb|EKQ10292.1| RNA polymerase sigma factor [Lactobacillus casei M36]
gi|410539518|gb|EKQ14046.1| RNA polymerase sigma factor [Lactobacillus casei T71499]
gi|410544727|gb|EKQ19046.1| RNA polymerase sigma factor [Lactobacillus casei UCD174]
gi|410547571|gb|EKQ21802.1| RNA polymerase sigma factor [Lactobacillus casei UW4]
gi|410552010|gb|EKQ26049.1| RNA polymerase sigma factor [Lactobacillus casei Lpc-37]
Length = 422
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 98/304 (32%), Positives = 171/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE L +I+
Sbjct: 146 GVKINDPVRMYLKEIGRVSLLTADEEVALALKIE-------------------------- 179
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 180 --------------QGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 225
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 226 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 285
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P+
Sbjct: 286 REPTPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPEDHA 345
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 346 SYELLKEQLESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 405
Query: 550 YRLK 553
+L+
Sbjct: 406 RKLR 409
>gi|354582249|ref|ZP_09001151.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Paenibacillus
lactis 154]
gi|353199648|gb|EHB65110.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Paenibacillus
lactis 154]
Length = 376
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 105/333 (31%), Positives = 185/333 (55%), Gaps = 42/333 (12%)
Query: 224 KVSKPQVTNHETYNSRKASVKKKLS--EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQ 281
+VS +HE++++ LS G NDP+R++L LL+AD+E EL +
Sbjct: 72 EVSHRASEDHESHDNEDFGFDDDLSLPPGIKINDPVRMYLKEIGRVPLLSADDEIELANR 131
Query: 282 IQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLV 341
I+ ++ +L ANLRLV
Sbjct: 132 IE----------------------------------------QGDEEAKRRLAEANLRLV 151
Query: 342 VHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 401
V +AK+Y GRG+ DL+QEG+MGL+K+VEKF + G +F++YA WW+RQ I +AI +
Sbjct: 152 VSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYKKGFKFSTYATWWIRQAITRAIADQA 211
Query: 402 RTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSM 461
RTIR+P ++ ++K++ R +QE P E++A + ++VEK+ ++ I + P+S+
Sbjct: 212 RTIRIPVHMVETINKLIRVSRQLLQELGREPSPEEIAAEMELSVEKVREIMKIAQEPVSL 271
Query: 462 QQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIED 521
+ P+ + D+ + D P + +L+++ + ++L L +E ++RLRFG++D
Sbjct: 272 ETPIGEEDDSHLGDFIEDQEALAPADAAAYELLKEQLEDVLDTLTEREENVLRLRFGLDD 331
Query: 522 GKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
G+ ++L EVG +FG+++ER+RQ+E++AL +L+
Sbjct: 332 GRTRTLEEVGKVFGVTRERIRQIEAKALRKLRH 364
>gi|266623970|ref|ZP_06116905.1| RNA polymerase sigma factor RpoD [Clostridium hathewayi DSM 13479]
gi|288864209|gb|EFC96507.1| RNA polymerase sigma factor RpoD [Clostridium hathewayi DSM 13479]
Length = 345
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 104/318 (32%), Positives = 181/318 (56%), Gaps = 40/318 (12%)
Query: 249 EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEW 308
EG DP+R++L LL++D+E EL +I+
Sbjct: 67 EGISVEDPVRMYLKEIGKVPLLSSDDEIELAKKIE------------------------- 101
Query: 309 AKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
L EL ++EKL ANLRLVV +AK+Y GRG+ DL+QEG++GL+K
Sbjct: 102 ----------LGDEL-----AKEKLTEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLIK 146
Query: 369 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ +++++ R +QE
Sbjct: 147 AVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINRLVRVSRQLLQEL 206
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDIS 488
P E++A RV + VE++ ++ +++ P+S++ P+ ++D+ + D V +P +
Sbjct: 207 GREPSPEEVASRVDMPVERVREIMKVSQEPVSLETPIGEEEDSHLGDFIQDDQVAVPADA 266
Query: 489 VQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRA 548
++ + + +L L +E+ ++RLRFG++DG+P++L EVG F +++ER+RQ+E++A
Sbjct: 267 ATFTMLHEQLMEVLDTLTEREQKVLRLRFGLDDGRPRTLEEVGREFNVTRERIRQIEAKA 326
Query: 549 LYRLKQSLGGKASYGYAD 566
L +L+ K Y D
Sbjct: 327 LRKLRHPSRSKKLKDYLD 344
>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 = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 111/303 (36%), Positives = 181/303 (59%), Gaps = 17/303 (5%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR-LYIQEGNHSP 432
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR L+ Q G +
Sbjct: 131 DYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREAT 190
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
D E LA GI K+ L+ +R P+S+ PV D++ + D+ + +V
Sbjct: 191 DDE-LAEESGIPAHKIADLLDHSRDPVSLDMPVGNDEEAPLGDFIEDSEATSAENAVIAG 249
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
L+ VR +L L+ +E+ ++RLR+G++DG+P++L ++G +FGLS+ERVRQ+E + +L
Sbjct: 250 LLHSDVRTVLATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMGKL 309
Query: 553 KQS 555
+Q
Sbjct: 310 RQG 312
>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 = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 108/288 (37%), Positives = 179/288 (62%), Gaps = 2/288 (0%)
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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYW
Sbjct: 85 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 144
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I +AI + SRTIRLP +I +L+K+ + +R Q+ +P +LA V + ++
Sbjct: 145 WIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQDLGRTPSVTELAAFVELPEDE 204
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNP 507
++ L+ R P+S++ V DT ++ A G E+P V+ + ++ +R+LL L
Sbjct: 205 VKELMCRARQPVSLEMKVGDGDDTELLDLLAGDG-ELPSEQVEGECLKGDLRDLLGQLPE 263
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
+ ++R+R+G++ P SL+ + +S++R R+LE L L+Q+
Sbjct: 264 LQERVLRMRYGMDGEDPMSLTGIAKTLKMSRDRTRRLEREGLESLRQA 311
>gi|417989747|ref|ZP_12630248.1| RNA polymerase sigma factor [Lactobacillus casei A2-362]
gi|410537492|gb|EKQ12066.1| RNA polymerase sigma factor [Lactobacillus casei A2-362]
Length = 422
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 98/304 (32%), Positives = 171/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE L +I+
Sbjct: 146 GVKINDPVRMYLKEIGRVSLLTADEEVALALKIE-------------------------- 179
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 180 --------------QGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 225
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 226 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 285
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P+
Sbjct: 286 REPTPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPEDHA 345
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 346 SYELLKEQLESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 405
Query: 550 YRLK 553
+L+
Sbjct: 406 RKLR 409
>gi|227890913|ref|ZP_04008718.1| RNA polymerase sigma factor RpoD [Lactobacillus salivarius ATCC
11741]
gi|227867322|gb|EEJ74743.1| RNA polymerase sigma factor RpoD [Lactobacillus salivarius ATCC
11741]
Length = 372
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 104/322 (32%), Positives = 179/322 (55%), Gaps = 42/322 (13%)
Query: 235 TYNSRKASVKKKLS--EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEK 292
T + KA K +S G NDP+R++L LLTADEE L +I++
Sbjct: 79 TKEAEKAENDKDVSAPSGVKINDPVRMYLKEIGRVNLLTADEEVALALKIEE-------- 130
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRG 352
++++L ANLRLVV +AK+Y GRG
Sbjct: 131 --------------------------------GDQEAKQRLAEANLRLVVSIAKRYVGRG 158
Query: 353 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYT 412
+S DL+QEG+MGLMK+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++
Sbjct: 159 MSFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVE 218
Query: 413 LLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTT 472
++K++ +R +Q+ P E++ + + EK+ ++ I + P+S++ P+ + D+
Sbjct: 219 TINKLIRIQRQMLQDLGREPMPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDSH 278
Query: 473 FQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGN 532
+ D P +L+++ + ++L L +E ++RLRFG++DG+ ++L EVG
Sbjct: 279 LGDFIEDQDATSPAEHAAYELLKEQLESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGK 338
Query: 533 IFGLSKERVRQLESRALYRLKQ 554
+FG+++ER+RQ+E++AL +L+
Sbjct: 339 VFGVTRERIRQIEAKALRKLRH 360
>gi|335357397|ref|ZP_08549267.1| RNA polymerase sigma factor RpoD [Lactobacillus animalis KCTC 3501]
Length = 323
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 99/305 (32%), Positives = 172/305 (56%), Gaps = 40/305 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE L +I++
Sbjct: 47 GVKINDPVRMYLKEIGRVNLLTADEEVALALRIEE------------------------- 81
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+S DL+QEG+MGLMK+
Sbjct: 82 ---------------GDEEAKQRLAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKA 126
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 127 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQMLQDLG 186
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 187 REPIPEEIGAEMNMPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAEHA 246
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 247 AYELLKEQIESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 306
Query: 550 YRLKQ 554
+L+
Sbjct: 307 RKLRH 311
>gi|333991092|ref|YP_004523706.1| RNA polymerase sigma factor SigB [Mycobacterium sp. JDM601]
gi|333487060|gb|AEF36452.1| RNA polymerase sigma factor SigB [Mycobacterium sp. JDM601]
Length = 321
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 107/302 (35%), Positives = 183/302 (60%), Gaps = 15/302 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A +E EL +I+ + K + + +FG +
Sbjct: 23 DLVRVYLNGIGKTALLNAADEVELAKRIEAGL-YAKHLLETRKRFGEKRK---------- 71
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
R+L + + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 72 --RELATVVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 129
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR-LYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR ++ Q G + D
Sbjct: 130 YAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQQLGREATD 189
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI EK+ L+ +R P+S+ PV +D++ + D+ + +V +L
Sbjct: 190 -EELAAESGIPAEKINDLLEHSRDPVSLDMPVGSDEEAPLGDFIEDSEAMSAENAVISEL 248
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 249 LHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLR 308
Query: 554 QS 555
Sbjct: 309 HG 310
>gi|384450074|ref|YP_005662676.1| RNA polymerase sigma factor RpoD [Chlamydophila pneumoniae LPCoLN]
gi|269302545|gb|ACZ32645.1| RNA polymerase sigma factor RpoD [Chlamydophila pneumoniae LPCoLN]
Length = 570
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 95/265 (35%), Positives = 168/265 (63%), Gaps = 4/265 (1%)
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
TL E+ K + R L+ + ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+
Sbjct: 294 TLEEFKKDV----RMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 349
Query: 364 MGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRL 423
MGLMK+VEKF+ + G +F++YA WW+RQ + +AI +RTIR+P ++ ++KVL +
Sbjct: 350 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 409
Query: 424 YIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVE 483
+ E P E+LA +G+T +++ + I + P+S+Q V +++F + DT VE
Sbjct: 410 LMMETGKEPTPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGGESSFGDFLEDTAVE 469
Query: 484 IPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 543
P + +++ ++ +L L +ER ++ RFG+ DGKPK+L EVG+ F +++ER+RQ
Sbjct: 470 SPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQ 529
Query: 544 LESRALYRLKQSLGGKASYGYADLL 568
+E++AL +++ + K + DLL
Sbjct: 530 IEAKALRKMRHPIRSKQLRAFLDLL 554
>gi|366085904|ref|ZP_09452389.1| RNA polymerase sigma factor RpoD [Lactobacillus zeae KCTC 3804]
Length = 416
Score = 196 bits (499), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 98/304 (32%), Positives = 171/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE L +I+
Sbjct: 140 GVKINDPVRMYLKEIGRVSLLTADEEVALALKIE-------------------------- 173
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 174 --------------QGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 219
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 220 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 279
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P+
Sbjct: 280 REPTPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPEDHA 339
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 340 SYELLKEQLESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 399
Query: 550 YRLK 553
+L+
Sbjct: 400 RKLR 403
>gi|399525366|ref|ZP_10765810.1| RNA polymerase sigma factor RpoD [Atopobium sp. ICM58]
gi|398373259|gb|EJN51219.1| RNA polymerase sigma factor RpoD [Atopobium sp. ICM58]
Length = 488
Score = 196 bits (498), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 102/304 (33%), Positives = 186/304 (61%), Gaps = 20/304 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E +L +I+ + E KL++Q A +
Sbjct: 189 DPVKDYLKQIGKVSLLNAEQEVDLARRIEAGLYAE---FKLKNQ------------ADEM 233
Query: 315 SCRDLKSELH----SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
+ R+ + ELH G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 234 TSRE-RRELHFLAQDGQQAKNHLLEANLRLVVSLAKRYTGRGMQFLDLIQEGNLGLIRAV 292
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 293 EKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGR 352
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V
Sbjct: 353 EPTPEELAKELDMTAEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAIVPADAVS 412
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ +
Sbjct: 413 FTLLQEQLHHVLDTLSEREAGVVSMRFGLGDGQPKTLDEIGKVYGVTRERIRQIESKTMS 472
Query: 551 RLKQ 554
+L+
Sbjct: 473 KLRH 476
>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 = 196 bits (498), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 108/297 (36%), Positives = 187/297 (62%), Gaps = 7/297 (2%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL DEE EL +++ + + + ++ LQ+ G + A + ++ + L+S L+ G
Sbjct: 79 LLKPDEEVELARRVRFIEEVRELQASLQATKG------QVAAELDMTEKQLESRLYQGRV 132
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ K+I +NLRLVV +AK+Y RG+ DL+QEG+MGL ++ EKF P G +F++YAYWW
Sbjct: 133 AKRKMIRSNLRLVVSIAKRYLNRGVPFLDLIQEGAMGLNRATEKFDPDKGYKFSTYAYWW 192
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIRLP +I L+K+ +A+R Q+ +P + ++A + ITV++L
Sbjct: 193 IRQAITRAIANDARTIRLPIHIVEKLNKLKKAQRELKQKLARNPSEAEMAEALEITVQQL 252
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLL-TLLNP 507
+L + R LS+ V ++DT ++ D + P+ + + +MRQ + +L +L P
Sbjct: 253 RQLQQLRRQALSLNHRVGKEEDTELMDLLEDEDNQSPEAKMNENMMRQEIWEVLGDVLTP 312
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGY 564
+E+ ++ LR+G+ +P +L EVGN+F LS+ERVRQ++S+A+ +L++ K G+
Sbjct: 313 REKDVISLRYGLTTSEPCTLEEVGNMFNLSRERVRQIQSKAMRKLRRPHIAKRLKGW 369
>gi|40353297|gb|AAR84412.1| essential primary sigma 70 factor [Frankia sp. EaI-12]
Length = 409
Score = 196 bits (498), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 100/316 (31%), Positives = 192/316 (60%), Gaps = 12/316 (3%)
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 LLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKV 417
L+QEG++GL+++VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K+
Sbjct: 201 LIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKL 260
Query: 418 LEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEIT 477
+ +R +Q+ P E++A+ + +T +K+ ++ +++ P+S++ P+ ++D+ +
Sbjct: 261 IRIQRQLLQDLGREPSPEEIAKEMDLTPDKVREILKVSQEPVSLETPIGEEEDSHLGDFI 320
Query: 478 ADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 537
D +P + L+++ + ++L L+ +E+ +++LRFG+ DG P++L EVG FG++
Sbjct: 321 EDCDAVVPVDAASFILLQEQLDSVLHTLSDREKKVIQLRFGLTDGHPRTLEEVGREFGVT 380
Query: 538 KERVRQLESRALYRLK 553
+ER+RQ+ES+ L +L+
Sbjct: 381 RERIRQIESKTLSKLR 396
>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 = 196 bits (498), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 103/306 (33%), Positives = 185/306 (60%), Gaps = 23/306 (7%)
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 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
++VEKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 274 RAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQD 333
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDI 487
P E+LA+ + IT EK+ + R P+S+ Q + + D+ + D+ +
Sbjct: 334 LGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVD 393
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
+V L++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+
Sbjct: 394 AVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESK 453
Query: 548 ALYRLK 553
+ +L+
Sbjct: 454 TMSKLR 459
>gi|385840490|ref|YP_005863814.1| RNA polymerase sigma factor [Lactobacillus salivarius CECT 5713]
gi|417788402|ref|ZP_12436085.1| RNA polymerase sigma factor RpoD [Lactobacillus salivarius NIAS840]
gi|417810215|ref|ZP_12456894.1| RNA polymerase sigma factor [Lactobacillus salivarius GJ-24]
gi|418961440|ref|ZP_13513326.1| RNA polymerase sigma factor RpoD [Lactobacillus salivarius SMXD51]
gi|300214611|gb|ADJ79027.1| RNA polymerase sigma factor [Lactobacillus salivarius CECT 5713]
gi|334308579|gb|EGL99565.1| RNA polymerase sigma factor RpoD [Lactobacillus salivarius NIAS840]
gi|335349011|gb|EGM50511.1| RNA polymerase sigma factor [Lactobacillus salivarius GJ-24]
gi|380343972|gb|EIA32319.1| RNA polymerase sigma factor RpoD [Lactobacillus salivarius SMXD51]
Length = 372
Score = 196 bits (498), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 104/321 (32%), Positives = 179/321 (55%), Gaps = 42/321 (13%)
Query: 235 TYNSRKASVKKKLS--EGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEK 292
T + KA K +S G NDP+R++L LLTADEE L +I++
Sbjct: 79 TKEAEKAENDKDVSAPSGVKINDPVRMYLKEIGRVNLLTADEEVALALKIEE-------- 130
Query: 293 SKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRG 352
++++L ANLRLVV +AK+Y GRG
Sbjct: 131 --------------------------------GDQEAKQRLAEANLRLVVSIAKRYVGRG 158
Query: 353 ISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYT 412
+S DL+QEG+MGLMK+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++
Sbjct: 159 MSFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVE 218
Query: 413 LLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTT 472
++K++ +R +Q+ P E++ + + EK+ ++ I + P+S++ P+ + D+
Sbjct: 219 TINKLIRIQRQMLQDLGREPMPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDSH 278
Query: 473 FQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGN 532
+ D P +L+++ + ++L L +E ++RLRFG++DG+ ++L EVG
Sbjct: 279 LGDFIEDQDATSPAEHAAYELLKEQLESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGK 338
Query: 533 IFGLSKERVRQLESRALYRLK 553
+FG+++ER+RQ+E++AL +L+
Sbjct: 339 VFGVTRERIRQIEAKALRKLR 359
>gi|257126628|ref|YP_003164742.1| RpoD subfamily RNA polymerase sigma-70 subunit [Leptotrichia
buccalis C-1013-b]
gi|257050567|gb|ACV39751.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Leptotrichia
buccalis C-1013-b]
Length = 392
Score = 196 bits (498), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 93/256 (36%), Positives = 167/256 (65%), Gaps = 5/256 (1%)
Query: 298 QFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHD 357
+ G+ P L+ + + I + R L E +++KLI +NLRLVV +AK++ RG+ + D
Sbjct: 129 EIGQIP-LLSYEEEIDYAQRVLDGE----EEAKQKLIESNLRLVVSIAKKHTNRGLKMLD 183
Query: 358 LLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKV 417
L+QEG+MGLMK+VEKF+ + G +F++YA WW+RQ I +AI RTIR+P ++ ++K+
Sbjct: 184 LIQEGNMGLMKAVEKFEYEKGFKFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKI 243
Query: 418 LEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEIT 477
+ R+ +QE P E+LA ++ + VEK++ ++ + + P+S++ PV +++D+ +
Sbjct: 244 KKESRIILQETGKEPTAEELAEKLELPVEKVKSILEMNQDPISLETPVGSEEDSELGDFV 303
Query: 478 ADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 537
D P + + L+++ + +L LN +E ++R R+G++DG K+L EVG IF ++
Sbjct: 304 EDDKFANPYDATTRILLKEQLDEVLKTLNEREEMVLRYRYGLDDGSQKTLEEVGKIFNVT 363
Query: 538 KERVRQLESRALYRLK 553
+ER+RQ+E +AL +L+
Sbjct: 364 RERIRQIEVKALRKLR 379
>gi|220932077|ref|YP_002508985.1| RpoD subfamily RNA polymerase sigma-70 subunit [Halothermothrix
orenii H 168]
gi|219993387|gb|ACL69990.1| RNA polymerase, sigma 70 subunit, RpoD family [Halothermothrix
orenii H 168]
Length = 358
Score = 196 bits (498), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 101/308 (32%), Positives = 175/308 (56%), Gaps = 40/308 (12%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
+ EG +DP+R++L LLTA+EE +L +I+
Sbjct: 79 IPEGVGIDDPVRMYLKEIGKVPLLTAEEEVDLAKRIE----------------------- 115
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
++ +L+ ANLRLVV +AK+Y GRG+S DL+QEG+MGL
Sbjct: 116 -----------------QGDEQAKRELVEANLRLVVSIAKKYVGRGMSFLDLIQEGNMGL 158
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +Q
Sbjct: 159 IKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQ 218
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E P E++ +G+ EK+ ++ I + P+S++ P+ ++D+ + D P
Sbjct: 219 EKGREPTPEEIGEEMGMPAEKVREILKIAQEPVSLETPIGEEEDSHLGDFIEDEDAPAPA 278
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+ L+R+ + ++L L +E+ ++ LRFG+EDG+P++L EVG FG+++ER+RQ+E+
Sbjct: 279 SAASFTLLREQLDDVLDTLTDREKRVLELRFGLEDGRPRTLEEVGKEFGVTRERIRQIEA 338
Query: 547 RALYRLKQ 554
+AL +L+
Sbjct: 339 KALRKLRH 346
>gi|148543974|ref|YP_001271344.1| RNA polymerase sigma factor RpoD [Lactobacillus reuteri DSM 20016]
gi|184153369|ref|YP_001841710.1| RNA polymerase sigma factor RpoD [Lactobacillus reuteri JCM 1112]
gi|227364887|ref|ZP_03848933.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
reuteri MM2-3]
gi|325682488|ref|ZP_08162005.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
reuteri MM4-1A]
gi|148531008|gb|ABQ83007.1| RNA polymerase, sigma 70 subunit, RpoD [Lactobacillus reuteri DSM
20016]
gi|183224713|dbj|BAG25230.1| RNA polymerase sigma-43 factor RpoD [Lactobacillus reuteri JCM
1112]
gi|227070091|gb|EEI08468.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
reuteri MM2-3]
gi|324978327|gb|EGC15277.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
reuteri MM4-1A]
Length = 380
Score = 196 bits (498), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 101/304 (33%), Positives = 173/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE +L +R+EK
Sbjct: 104 GVKINDPVRMYLKEIGRVNLLTADEEVQLA------LRIEK------------------- 138
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 139 ---------------GDEVAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 183
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 184 VEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 243
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 244 REPLPEEIGAEMDMPTEKVRNILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPADHA 303
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
++M++ + N+L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 304 AYEMMKKQLENVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 363
Query: 550 YRLK 553
+L+
Sbjct: 364 RKLR 367
>gi|403512655|ref|YP_006644293.1| RNA polymerase sigma factor, sigma-70 family protein [Nocardiopsis
alba ATCC BAA-2165]
gi|402798576|gb|AFR05986.1| RNA polymerase sigma factor, sigma-70 family protein [Nocardiopsis
alba ATCC BAA-2165]
Length = 470
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 106/301 (35%), Positives = 173/301 (57%), Gaps = 7/301 (2%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D + +L R+LLTA++E +L +++ + E + G + E
Sbjct: 165 GDSVHTYLKAIGRRQLLTAEQEVDLAKRVEAGLYAEY-------RLGLHGEIDESVPMAD 217
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+ +L+ G ++ ++ ANLRLVV VAK+Y RG+SL D++QEG++GL+++VEKF
Sbjct: 218 VEREELEWVAEDGRKAKSHMLEANLRLVVSVAKKYSDRGMSLLDVVQEGNLGLIRAVEKF 277
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I++ +RTIRLP ++ LLSKV +R Q P
Sbjct: 278 DYTKGFKFSTYAMWWIRQAIQRGFADSARTIRLPVHVLELLSKVSRLERDMHQALGREPT 337
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA + T ++E L+ +TR P+S+ + D +T ++ D V +QL
Sbjct: 338 PEELALELDKTPAQIEELLRVTRQPISLDSTIGEDGETRIGDLIEDVDASEASEVVDRQL 397
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
M +RN L+ L P+E I+ LRFG+ DG+P++L E+G GL++ER+RQLE ++L +L+
Sbjct: 398 MADQLRNALSDLEPREATIMSLRFGLMDGRPRTLDEIGKHLGLTRERIRQLEKQSLSKLR 457
Query: 554 Q 554
Sbjct: 458 H 458
>gi|384247274|gb|EIE20761.1| RNA polymerase sigma factor, cyanobacterial RpoD-like family
[Coccomyxa subellipsoidea C-169]
Length = 329
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 108/290 (37%), Positives = 165/290 (56%), Gaps = 4/290 (1%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLS-CRDLKSELHSGN 327
LLTA EE L +Q LI +E ++++ + GR T EWA G S + + G
Sbjct: 9 LLTAAEEKVLSKAVQRLIAMEAKQTEATQRLGRPITEREWAAECGQSSIHAFRKAVKVGQ 68
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
+R +++ +N RLV HVA++Y RG+ DLL EG GL + VEKF G +F++YA+W
Sbjct: 69 EARTRMMKSNERLVFHVARRYMNRGLDFQDLLAEGMSGLWRGVEKFDADRGFKFSTYAHW 128
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
WVRQ I +AI + R +RLP +++ L++KV + Y E E LA VGI+ EK
Sbjct: 129 WVRQAITRAISEQGRVVRLPVHLHELMAKVTKVDLEYQSEHGRRAGNEKLAELVGISQEK 188
Query: 448 LERLIFITRMPLSMQQPVWADQD---TTFQEITADTGVEIPDISVQKQLMRQHVRNLLTL 504
L L + P S PV D T E AD P+ + + Q + N+L
Sbjct: 189 LAMLSKVYMAPTSFNAPVGGSMDPGADTVGETIADDNEASPEEVAVRLNLHQDMDNVLAT 248
Query: 505 LNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
L+ +E I+R R+G++DG+ ++L EVG IF +++ER+RQ+E++A+ +L+Q
Sbjct: 249 LSERESGILRCRYGLDDGRQRTLEEVGQIFKVTRERIRQIEAKAILKLRQ 298
>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 = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 103/280 (36%), Positives = 172/280 (61%)
Query: 274 EEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKL 333
EE EL +IQ + +++ + + + Q+G++P+ E A A+ + L+S + G ++ KL
Sbjct: 69 EEIELSRKIQQKLLIDQARREWRQQWGQDPSDEELAAALQIPVSTLRSRIRQGEQAQRKL 128
Query: 334 INANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTI 393
INANLRLVV VAK+Y RG+ DL+QEG+MGL+++ EKF + G RF++YA+WW+RQ I
Sbjct: 129 INANLRLVVSVAKKYLNRGVPFLDLIQEGNMGLIRATEKFNAERGFRFSTYAHWWIRQGI 188
Query: 394 RKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIF 453
+ I +RTIRLP ++ + + R ++ P + +LA +GI V+KL +
Sbjct: 189 TRCIANQARTIRLPVHMVDKVRLLKRTNRELMKARGRRPTEAELAEALGIKVKKLRMIQQ 248
Query: 454 ITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIV 513
+PLS+ PV + ++ ++ D E P + Q +RQ VR+ + L P ER ++
Sbjct: 249 AAALPLSLDVPVGQEGESRLGDLLPDERQEQPFEEILVQSLRQDVRSAMQALKPIERQVL 308
Query: 514 RLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
LR+G++ + ++L EVG+ F L++ER+RQ+E AL +L+
Sbjct: 309 ELRYGLDGQRARTLREVGDHFNLTRERIRQIERDALRKLR 348
>gi|3062909|dbj|BAA25730.1| SigA [Bacillus sp.]
Length = 372
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 99/304 (32%), Positives = 172/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTA+EE EL +I+
Sbjct: 96 GVKINDPVRMYLKEIGRVPLLTAEEEIELATRIE-------------------------- 129
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGL+K+
Sbjct: 130 --------------QGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKA 175
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 176 VEKFDYNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDVG 235
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++A + +T EK+ ++ I + P+S++ P+ + D+ + D P +
Sbjct: 236 REPSPEEVAEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDALAPSDAA 295
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 296 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 355
Query: 550 YRLK 553
+L+
Sbjct: 356 RKLR 359
>gi|262038195|ref|ZP_06011589.1| RNA polymerase sigma factor RpoD [Leptotrichia goodfellowii F0264]
gi|261747776|gb|EEY35221.1| RNA polymerase sigma factor RpoD [Leptotrichia goodfellowii F0264]
Length = 393
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 92/256 (35%), Positives = 169/256 (66%), Gaps = 5/256 (1%)
Query: 298 QFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHD 357
+ G+ P L+ + + I + R LK + +++KLI +NLRLVV +AK++ RG+ + D
Sbjct: 130 EIGQIP-LLSYEEEIDYAQRVLKGD----EEAKQKLIESNLRLVVSIAKKHTNRGLKMLD 184
Query: 358 LLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKV 417
L+QEG+MGLMK+VEKF+ + G +F++YA WW+RQ I +AI RTIR+P ++ ++K+
Sbjct: 185 LIQEGNMGLMKAVEKFEYEKGFKFSTYATWWIRQAITRAIADQGRTIRIPVHMIETINKI 244
Query: 418 LEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEIT 477
+ R+ +QE P E+L++++ I V+K++ ++ + + P+S++ PV +++D+ +
Sbjct: 245 KKESRIILQETGKEPTAEELSKKLEIPVDKVKNILEMNQDPISLETPVGSEEDSELGDFV 304
Query: 478 ADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLS 537
D P + + L+++ + +L LN +E ++R R+G++DG K+L EVG IF ++
Sbjct: 305 EDDKFLNPYDATTRVLLKEQLDEILKTLNEREEMVLRYRYGLDDGSQKTLEEVGKIFNVT 364
Query: 538 KERVRQLESRALYRLK 553
+ER+RQ+E +AL +L+
Sbjct: 365 RERIRQIEVKALRKLR 380
>gi|433603602|ref|YP_007035971.1| RNA polymerase sigma factor SigB [Saccharothrix espanaensis DSM
44229]
gi|407881455|emb|CCH29098.1| RNA polymerase sigma factor SigB [Saccharothrix espanaensis DSM
44229]
Length = 330
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 112/332 (33%), Positives = 191/332 (57%), Gaps = 14/332 (4%)
Query: 225 VSKPQVTNHETYNSR-KASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQ 283
++ P+V + E N S + L D +R++L G LLTA EE EL +I+
Sbjct: 1 MTVPRVLDREVGNDTITTSAELDLDAQGPAADLVRVYLNGIGKTALLTAAEEVELAKRIE 60
Query: 284 DLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVH 343
+ + L++ G T E +L++ + G+ ++ L+ ANLRLVV
Sbjct: 61 AGV---FAQHMLETGSGPASTRRE----------ELRALVRDGHVAKNHLLEANLRLVVS 107
Query: 344 VAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 403
+AK+Y GRG+ L DL+QEG++GL+++VEKF G +F++YA WW+RQ I + + RT
Sbjct: 108 LAKRYTGRGMPLLDLIQEGNLGLIRAVEKFDYTKGFKFSTYATWWIRQAITRGMADQGRT 167
Query: 404 IRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQ 463
IRLP ++ ++K+ KR Q+ ++LA+ G+T K+ L+ R P+S+
Sbjct: 168 IRLPVHLVEQVNKLARIKRDLHQQLGREATTDELAKESGLTPAKVSDLLDHARDPVSLDM 227
Query: 464 PVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGK 523
PV A++D + D+ + +V L++ +R +L L+ +E+ ++RLR+G+EDG+
Sbjct: 228 PVGAEEDAPLGDFIEDSDATDAESAVISGLLQDDLRRVLATLDQREQSVIRLRYGLEDGQ 287
Query: 524 PKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
P++L ++G +FGLS+ERVRQ+E + +L+Q
Sbjct: 288 PRTLDQIGKLFGLSRERVRQIEREVMSKLRQG 319
>gi|260893571|ref|YP_003239668.1| RpoD subfamily RNA polymerase sigma-70 subunit [Ammonifex degensii
KC4]
gi|260865712|gb|ACX52818.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Ammonifex
degensii KC4]
Length = 369
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 99/307 (32%), Positives = 176/307 (57%), Gaps = 40/307 (13%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
+ EG + +DP+R++L LLT +EE EL +++
Sbjct: 90 IPEGVEIDDPVRMYLKEIGRIPLLTPEEEIELAKRME----------------------- 126
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
++ +LI ANLRLVV +AK+Y GRG+ DL+QEG++GL
Sbjct: 127 -----------------QGDEEAKRRLIEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGL 169
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +Q
Sbjct: 170 IKAVEKFDWRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVSRQLVQ 229
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E P E++A ++GI+ EK+ ++ + + P+S++ P+ ++D+ + D + P
Sbjct: 230 ELGREPTPEEIAEKMGISPEKVREIMKVAQEPVSLETPIGEEEDSHLGDFIEDQEAQAPA 289
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
L+R+ + +L L P+E+ ++RLRFG++DG+ ++L EVG FG+++ER+RQ+E+
Sbjct: 290 EEASYALLREQLNEVLQSLTPREQKVLRLRFGLDDGRARTLEEVGQKFGVTRERIRQIEA 349
Query: 547 RALYRLK 553
+ L +L+
Sbjct: 350 KTLRKLR 356
>gi|227544906|ref|ZP_03974955.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
reuteri CF48-3A]
gi|338204350|ref|YP_004650495.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
reuteri SD2112]
gi|227185118|gb|EEI65189.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
reuteri CF48-3A]
gi|336449590|gb|AEI58205.1| DNA-directed RNA polymerase sigma subunit RpoD [Lactobacillus
reuteri SD2112]
Length = 380
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 101/304 (33%), Positives = 173/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE +L +R+EK
Sbjct: 104 GVKINDPVRMYLKEIGRVNLLTADEEVQLA------LRIEK------------------- 138
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 139 ---------------GDEVAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 183
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 184 VEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 243
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 244 REPLPEEIGAEMDMPTEKVRNILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPADHA 303
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
++M++ + N+L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 304 AYEMMKKQLENVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 363
Query: 550 YRLK 553
+L+
Sbjct: 364 RKLR 367
>gi|402776782|ref|YP_006630726.1| RNA polymerase major sigma-43 factor (sigma-A) [Bacillus subtilis
QB928]
gi|402481962|gb|AFQ58471.1| RNA polymerase major sigma-43 factor (sigma-A) [Bacillus subtilis
QB928]
Length = 400
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 101/309 (32%), Positives = 173/309 (55%), Gaps = 40/309 (12%)
Query: 246 KLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTL 305
K E FD NDP+R++L LL+A EE +I++
Sbjct: 120 KAEEEFDLNDPVRMYLKEIGRVNLLSAKEEIAYAQKIEE--------------------- 158
Query: 306 IEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMG 365
S+ +L ANLRLVV +AK+Y GRG+ DL+QEG+MG
Sbjct: 159 -------------------GDEESKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMG 199
Query: 366 LMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYI 425
LMK+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +
Sbjct: 200 LMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLL 259
Query: 426 QEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIP 485
Q+ P E++A + +T EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 260 QDLGREPTPEEIAEDMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSP 319
Query: 486 DISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLE 545
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E
Sbjct: 320 SDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 379
Query: 546 SRALYRLKQ 554
++AL +L+
Sbjct: 380 AKALRKLRH 388
>gi|326803636|ref|YP_004321454.1| RNA polymerase sigma factor RpoD [Aerococcus urinae
ACS-120-V-Col10a]
gi|326651510|gb|AEA01693.1| RNA polymerase sigma factor RpoD [Aerococcus urinae
ACS-120-V-Col10a]
Length = 401
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 101/300 (33%), Positives = 172/300 (57%), Gaps = 40/300 (13%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
NDP+R++L LLTADEE L +I+ +P
Sbjct: 128 NDPVRMYLKEIGRVDLLTADEEVALAKRIE----------------AGDPV--------- 162
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
++++L ANLRLVV +AK+Y GRG+S DL+QEG+MGLMK+VEKF
Sbjct: 163 ---------------AKQELAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKAVEKF 207
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I ++I +RTIR+P ++ ++K++ +R +QE P
Sbjct: 208 DYTKGFKFSTYATWWIRQAITRSIADQARTIRIPVHMVETINKLVRIQRQLLQELGREPT 267
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++ + + EK+ ++ I++ P+S++ P+ + D+ + D PD ++L
Sbjct: 268 PEEIGAEMDLPTEKVRNIMKISQEPVSLETPIGEEDDSHLGDFIEDNDAMQPDEYTNQEL 327
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + +L L +E ++RLRFG+EDG+ K+L +VG FG+++ER+RQ+E++AL +L+
Sbjct: 328 LKEQLNEVLDTLTDREENVLRLRFGLEDGQTKTLEQVGQQFGVTRERIRQIEAKALRKLR 387
>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 = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 110/318 (34%), Positives = 186/318 (58%), Gaps = 15/318 (4%)
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 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEG++GL++++EKF G +F++YA WW+RQ I + + SRTIRLP ++ ++K
Sbjct: 129 DLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNK 188
Query: 417 VLEAKR-LYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE 475
+ KR L+ Q G + D E+LA GI EK+ L+ +R P+S+ PV +D++ +
Sbjct: 189 LARIKRELHQQLGREATD-EELANESGIPAEKIADLLDHSRDPVSLDMPVGSDEEAPLGD 247
Query: 476 ITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFG 535
D + +V L+ +R +L L+ +E+ ++R+R+G++DG+P++L ++G +FG
Sbjct: 248 FIEDAEATSAENAVIAGLLHSDIRAVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFG 307
Query: 536 LSKERVRQLESRALYRLK 553
LS+ERVRQ+E + +L+
Sbjct: 308 LSRERVRQIEREVMGKLR 325
>gi|330444010|ref|YP_004376996.1| sigma-70 family RNA polymerase sigma factor [Chlamydophila pecorum
E58]
gi|328807120|gb|AEB41293.1| RNA polymerase sigma factor, sigma-70 family [Chlamydophila pecorum
E58]
Length = 562
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 95/265 (35%), Positives = 167/265 (63%), Gaps = 4/265 (1%)
Query: 304 TLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
TL E+ K + R L+ + ++++++ +NLRLV+ +AK+Y RG+S DL+QEG+
Sbjct: 286 TLEEFKKDV----RMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 341
Query: 364 MGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRL 423
MGLMK+VEKF+ + G +F++YA WW+RQ + +AI +RTIR+P ++ ++KVL +
Sbjct: 342 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 401
Query: 424 YIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVE 483
+ E P E+LA +G+T +++ + I + P+S+Q V ++ F + DT VE
Sbjct: 402 LMMETGKEPSPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGGESAFGDFLEDTAVE 461
Query: 484 IPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 543
P + +++ ++ +L L +ER ++ RFG+ DGKPK+L EVG+ F +++ER+RQ
Sbjct: 462 SPAEATGYSMLKDKMKEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQ 521
Query: 544 LESRALYRLKQSLGGKASYGYADLL 568
+E++AL +++ + K + DLL
Sbjct: 522 IEAKALRKMRHPIRSKQLRAFLDLL 546
>gi|345462092|ref|YP_003652995.2| RpoD subfamily RNA polymerase sigma-70 [Thermobispora bispora DSM
43833]
Length = 572
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 102/303 (33%), Positives = 181/303 (59%), Gaps = 20/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLI----RLEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E EL +I+ + +L KE KL E +EW
Sbjct: 273 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAEEQLAKEGDKLPPDVKAE---LEWIA 329
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 330 -------------EDGKRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 376
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 377 EKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGR 436
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P E+LAR + +T EK+ + R P+S+ P+ + D+ F ++ D+ +P +V
Sbjct: 437 EPTPEELARELDMTPEKVIEVQKYGREPISLHTPLGEEGDSEFGDLIEDSEAVVPADAVS 496
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ +
Sbjct: 497 FTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 556
Query: 551 RLK 553
+L+
Sbjct: 557 KLR 559
>gi|157737257|ref|YP_001489940.1| RNA polymerase sigma factor RpoD [Arcobacter butzleri RM4018]
gi|384155669|ref|YP_005538484.1| RNA polymerase sigma factor RpoD [Arcobacter butzleri ED-1]
gi|157699111|gb|ABV67271.1| RNA polymerase sigma 70 factor [Arcobacter butzleri RM4018]
gi|345469223|dbj|BAK70674.1| RNA polymerase sigma factor RpoD [Arcobacter butzleri ED-1]
Length = 626
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 89/241 (36%), Positives = 161/241 (66%), Gaps = 1/241 (0%)
Query: 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAY 386
++S+ ++ +NLRLVV +AK+Y RG+ DL+QEG++GLMK+V+KF+ + G +F++YA
Sbjct: 385 DTSKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKGYKFSTYAT 444
Query: 387 WWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVE 446
WW+RQ I +AI +RTIR+P ++ ++++ + R +QE PD E++A+ VG+ V+
Sbjct: 445 WWIRQAISRAIADQARTIRIPIHMIETINRINKIIRKGVQENGKEPDIEEIAKEVGLPVD 504
Query: 447 KLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLN 506
K++++I IT+ P+S++ P+ +D+D F + D P ++ K+ ++ + +L+ LN
Sbjct: 505 KVKQVIKITKEPVSLEAPIGSDEDGKFGDFVPDEKAPTPIDNIMKEDLQGQIDQILSQLN 564
Query: 507 PKERCIVRLRFGI-EDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYA 565
+E+ ++R+RFG+ ED ++L E+G +++ERVRQ+ES A+ +LK GK Y
Sbjct: 565 EREQAVIRMRFGLMEDASDRTLEEIGKELNVTRERVRQIESSAIKKLKHPKVGKNLKNYV 624
Query: 566 D 566
+
Sbjct: 625 E 625
>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 = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 107/302 (35%), Positives = 179/302 (59%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 127 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREAT 186
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI V+K+ L+ +R P+S+ PV ++++ + D + +V +L
Sbjct: 187 DEELAAESGIPVDKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAEL 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 247 LHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLR 306
Query: 554 QS 555
Sbjct: 307 NG 308
>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 = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 102/300 (34%), Positives = 182/300 (60%), Gaps = 9/300 (3%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
+ G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+ P
Sbjct: 254 DYEKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGRDPT 313
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++ + ++ +++ + I++ P+S++ P+ ++D+ + D +P + +
Sbjct: 314 PEEIGAEMDMSADRVREIQKISQEPVSLETPIGEEEDSQLGDFIEDAQAVVPADAASFSM 373
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + +L L +ER ++ LRFG+EDG P++L EVG FG+++ER+RQ+ES+ L +L+
Sbjct: 374 LQEQLTQVLDGLAERERKVIELRFGLEDGHPRTLEEVGREFGVTRERIRQIESKTLAKLR 433
>gi|406837892|ref|ZP_11097486.1| RNA polymerase sigma factor RpoD [Lactobacillus vini DSM 20605]
Length = 375
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 104/331 (31%), Positives = 182/331 (54%), Gaps = 40/331 (12%)
Query: 224 KVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQ 283
K S V N ++++ + G NDP+R++L LLTADEE L
Sbjct: 73 KYSLQAVANQNQDDAKEVEREAGAPSGVKINDPVRMYLKEIGRVNLLTADEEVALA---- 128
Query: 284 DLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVH 343
+R+EK ++++L ANLRLVV
Sbjct: 129 --LRIEK----------------------------------GDEEAKQRLAEANLRLVVS 152
Query: 344 VAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRT 403
+AK+Y GRG+S DL+QEG+MGLMK+VEKF + G +F++YA WW+RQ I +AI +RT
Sbjct: 153 IAKRYVGRGMSFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQART 212
Query: 404 IRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQ 463
IR+P ++ ++K++ +R +Q+ P E++ + + +K+ ++ I + P+S++
Sbjct: 213 IRIPVHMVETINKLIRIQRQMLQDLGREPTPEEIGAEMDMPTDKVREILKIAQEPVSLET 272
Query: 464 PVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGK 523
P+ + D+ + D P +L+++ + ++L L +E ++RLRFG++DG+
Sbjct: 273 PIGEEDDSHLGDFIEDHDATSPADHAAYELLKEQLESVLETLTDREENVLRLRFGLDDGR 332
Query: 524 PKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++L EVG +FG+++ER+RQ+E++AL +L+
Sbjct: 333 TRTLEEVGKVFGVTRERIRQIEAKALRKLRH 363
>gi|392961840|ref|ZP_10327294.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans DSM 17108]
gi|421055753|ref|ZP_15518715.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans B4]
gi|392439518|gb|EIW17229.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans B4]
gi|392453407|gb|EIW30288.1| RNA polymerase sigma factor RpoD [Pelosinus fermentans DSM 17108]
Length = 371
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 99/308 (32%), Positives = 175/308 (56%), Gaps = 40/308 (12%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
+ EG +DP+R++L LLTADEE +L ++++
Sbjct: 92 IPEGISIDDPVRMYLKEIGRVPLLTADEEIKLAQRMEE---------------------- 129
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
++ +L ANLRLVV +AK+Y GRG+ DL+QEG++GL
Sbjct: 130 ------------------GDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGL 171
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K+VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +Q
Sbjct: 172 IKAVEKFDYNKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQ 231
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E P E++A+ + I+VE++ ++ I + P+S++ P+ ++D+ + D P
Sbjct: 232 ELGREPQPEEIAKEMDISVERVREIMKIAQEPVSLETPIGEEEDSHLGDFIEDQDAPAPA 291
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+ L+++ + +L L P+E ++RLRFG++DG+ ++L EVG FG+++ER+RQ+E+
Sbjct: 292 EAASFMLLKEQLEEVLETLTPREEKVLRLRFGLDDGRARTLEEVGQHFGVTRERIRQIEA 351
Query: 547 RALYRLKQ 554
+AL +L+
Sbjct: 352 KALRKLRH 359
>gi|329940007|ref|ZP_08289289.1| RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045]
gi|329300833|gb|EGG44729.1| RNA polymerase sigma factor [Streptomyces griseoaurantiacus M045]
Length = 512
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 102/299 (34%), Positives = 181/299 (60%), Gaps = 13/299 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E EL +I+ + E KL S P L
Sbjct: 214 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAE---DKLASADKLAPKL--------- 261
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
R+L+ G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 262 -KRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 320
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 321 YTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 380
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L+
Sbjct: 381 EELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLL 440
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 441 QEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLR 499
>gi|315636974|ref|ZP_07892198.1| DNA-directed RNA polymerase sigma subunit RpoD [Arcobacter butzleri
JV22]
gi|315478804|gb|EFU69513.1| DNA-directed RNA polymerase sigma subunit RpoD [Arcobacter butzleri
JV22]
Length = 626
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 89/241 (36%), Positives = 161/241 (66%), Gaps = 1/241 (0%)
Query: 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAY 386
++S+ ++ +NLRLVV +AK+Y RG+ DL+QEG++GLMK+V+KF+ + G +F++YA
Sbjct: 385 DTSKTRMAKSNLRLVVSIAKRYTNRGLPFLDLIQEGNIGLMKAVDKFEYKKGYKFSTYAT 444
Query: 387 WWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVE 446
WW+RQ I +AI +RTIR+P ++ ++++ + R +QE PD E++A+ VG+ V+
Sbjct: 445 WWIRQAISRAIADQARTIRIPIHMIETINRINKIIRKGVQENGKEPDIEEIAKEVGLPVD 504
Query: 447 KLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLN 506
K++++I IT+ P+S++ P+ +D+D F + D P ++ K+ ++ + +L+ LN
Sbjct: 505 KVKQVIKITKEPVSLEAPIGSDEDGKFGDFVPDEKAPTPIDNIMKEDLQGQIDQILSQLN 564
Query: 507 PKERCIVRLRFGI-EDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYA 565
+E+ ++R+RFG+ ED ++L E+G +++ERVRQ+ES A+ +LK GK Y
Sbjct: 565 EREQAVIRMRFGLMEDASDRTLEEIGKELNVTRERVRQIESSAIKKLKHPKVGKNLKNYV 624
Query: 566 D 566
+
Sbjct: 625 E 625
>gi|294782673|ref|ZP_06747999.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. 1_1_41FAA]
gi|294481314|gb|EFG29089.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. 1_1_41FAA]
Length = 500
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 88/224 (39%), Positives = 151/224 (67%)
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVR 390
+KLI +NLRLVV +AK++ RG+ L DL+QEG++GLMK+VEKF+ G +F++YA WW+R
Sbjct: 264 QKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWWIR 323
Query: 391 QTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLER 450
Q I +AI RTIR+P ++ ++K+ + R+Y+QE E LA R+G+ VEK++
Sbjct: 324 QAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVEKIKA 383
Query: 451 LIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKER 510
+ + + P+S++ PV +++D+ + D P + + ++R+ + +L L+P+E
Sbjct: 384 IQEMNQEPISLETPVGSEEDSELGDFVEDQKTTSPYEATNRAILREELDGVLKTLSPREE 443
Query: 511 CIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++R R+G++D PK+L EVG IF +++ER+RQ+E +AL +L+
Sbjct: 444 KVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRH 487
>gi|315640587|ref|ZP_07895693.1| RNA polymerase sigma factor rpoD [Enterococcus italicus DSM 15952]
gi|315483615|gb|EFU74105.1| RNA polymerase sigma factor rpoD [Enterococcus italicus DSM 15952]
Length = 368
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 99/304 (32%), Positives = 172/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTA EE EL +I++
Sbjct: 92 GVKINDPVRMYLKEIGRVPLLTAAEEVELALKIEE------------------------- 126
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 127 ---------------GDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 171
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 172 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 231
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + ++ EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 232 REPTPEEIGAEMDLSTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAEHA 291
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFGI+DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 292 AYELLKEQLEDVLDTLTDREENVLRLRFGIDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 351
Query: 550 YRLK 553
+L+
Sbjct: 352 RKLR 355
>gi|288905580|ref|YP_003430802.1| RNA polymerase major sigma factor [Streptococcus gallolyticus
UCN34]
gi|306831670|ref|ZP_07464827.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
gallolyticus subsp. gallolyticus TX20005]
gi|325978609|ref|YP_004288325.1| RNA polymerase sigma factor rpoD [Streptococcus gallolyticus subsp.
gallolyticus ATCC BAA-2069]
gi|386338028|ref|YP_006034197.1| RNA polymerase primary sigma factor [Streptococcus gallolyticus
subsp. gallolyticus ATCC 43143]
gi|288732306|emb|CBI13876.1| RNA polymerase major sigma factor [Streptococcus gallolyticus
UCN34]
gi|304426095|gb|EFM29210.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus
gallolyticus subsp. gallolyticus TX20005]
gi|325178537|emb|CBZ48581.1| RNA polymerase sigma factor rpoD [Streptococcus gallolyticus subsp.
gallolyticus ATCC BAA-2069]
gi|334280664|dbj|BAK28238.1| RNA polymerase primary sigma factor [Streptococcus gallolyticus
subsp. gallolyticus ATCC 43143]
Length = 369
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 109/338 (32%), Positives = 188/338 (55%), Gaps = 53/338 (15%)
Query: 220 SKKRKVSKP---QVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEF 276
S K V +P ++T+ E S A V NDP+R++L LLT++EE
Sbjct: 69 STKYVVEEPKPEELTDEELLGSNSAKV----------NDPVRMYLKEIGVVPLLTSEEEK 118
Query: 277 ELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINA 336
EL A+ ++ DL++ +++L A
Sbjct: 119 EL--------------------------------AVAVAAGDLQA--------KQRLAEA 138
Query: 337 NLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKA 396
NLRLVV +AK+Y GRG+ DL+QEG+MGLMK+V+KF G +F++YA WW+RQ I +A
Sbjct: 139 NLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRA 198
Query: 397 IFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITR 456
I +RTIR+P ++ ++K++ +R +QE P E +A R+ +T +K+ ++ I +
Sbjct: 199 IADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQ 258
Query: 457 MPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLR 516
P+S++ P+ + D+ + D +E P + ++R+ + +L L +E ++RLR
Sbjct: 259 EPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLR 318
Query: 517 FGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
FG++DGK ++L +VG +F +++ER+RQ+E++AL +L+
Sbjct: 319 FGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRH 356
>gi|227503480|ref|ZP_03933529.1| RNA polymerase major sigma subunit [Corynebacterium accolens ATCC
49725]
gi|227075983|gb|EEI13946.1| RNA polymerase major sigma subunit [Corynebacterium accolens ATCC
49725]
Length = 493
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 103/302 (34%), Positives = 182/302 (60%), Gaps = 9/302 (2%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LL A++E L +I+ + + ++ E E KA L
Sbjct: 185 DSVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYAQHRMDEM------EKARAEGDKAAKL 238
Query: 315 S---CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
S RDL+S G ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+++VE
Sbjct: 239 SPMEKRDLRSIARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVE 298
Query: 372 KFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHS 431
KF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 299 KFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGRE 358
Query: 432 PDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQK 491
P ++LA+ + IT EK+ + R P+S+ Q + + D+ + D+ I +V
Sbjct: 359 PTPQELAKEMDITEEKVMEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVIAVDAVSF 418
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
L++ ++++LT L+ +E +VRLRFG+ DG P++L E+G ++G+++ER+RQ+ES+ + +
Sbjct: 419 TLLQDQLQDVLTTLSEREAGVVRLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSK 478
Query: 552 LK 553
L+
Sbjct: 479 LR 480
>gi|15613939|ref|NP_242242.1| RNA polymerase sigma factor RpoD [Bacillus halodurans C-125]
gi|12643264|sp|O66381.2|RPOD_BACHD RecName: Full=RNA polymerase sigma factor RpoD; AltName:
Full=Sigma-43; AltName: Full=Sigma-A
gi|10173992|dbj|BAB05095.1| RNA polymerase major sigma factor [Bacillus halodurans C-125]
Length = 372
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 99/304 (32%), Positives = 172/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTA+EE EL +I+
Sbjct: 96 GVKINDPVRMYLKEIGRVPLLTAEEEIELATRIE-------------------------- 129
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGL+K+
Sbjct: 130 --------------QGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKA 175
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 176 VEKFDYNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLG 235
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++A + +T EK+ ++ I + P+S++ P+ + D+ + D P +
Sbjct: 236 REPSPEEVAEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDALAPSDAA 295
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 296 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 355
Query: 550 YRLK 553
+L+
Sbjct: 356 RKLR 359
>gi|333991084|ref|YP_004523698.1| RNA polymerase sigma factor SigB [Mycobacterium sp. JDM601]
gi|333487052|gb|AEF36444.1| RNA polymerase sigma factor SigB [Mycobacterium sp. JDM601]
Length = 512
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 101/299 (33%), Positives = 183/299 (61%), Gaps = 9/299 (3%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LL A+EE EL +I+ + +K ++ G E + + + +
Sbjct: 210 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGL-FATQKMAEHAEKG-EKLAVAYRRDMAW 267
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
CRD G+ ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+++VEKF
Sbjct: 268 ICRD-------GDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFD 320
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 321 YTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTP 380
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LAR + IT EK+ + R P+S+ Q + + D+ + D+ + +V L+
Sbjct: 381 EELAREMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLL 440
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 441 QDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLR 499
>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 = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 122/359 (33%), Positives = 204/359 (56%), Gaps = 48/359 (13%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G RF++YAYWW+RQ I +AI SRTIRLP +I L+++ +A+R +
Sbjct: 177 PTRGFRFSTYAYWWIRQGITRAIATQSRTIRLPVHITEKLNRIKKAQRDIASRLGRTATL 236
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
+DL++ + ++ E + + + +S+ V D DT ++ D G+ P+ + ++ +
Sbjct: 237 KDLSQELQLSEEVVRQTLMRVPRSVSLDTRVGRDMDTELGDLLED-GMPTPEQRLTREKL 295
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ LL L+ +E ++RLRFG++D P++L+E+G LS+ERVRQ+ESRAL++L+
Sbjct: 296 HDDLLVLLNELSGREARVIRLRFGLDDDTPQTLAEIGKTLDLSRERVRQIESRALHKLR 354
>gi|336320563|ref|YP_004600531.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [[Cellvibrio]
gilvus ATCC 13127]
gi|336104144|gb|AEI11963.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [[Cellvibrio]
gilvus ATCC 13127]
Length = 541
Score = 196 bits (498), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 101/300 (33%), Positives = 182/300 (60%), Gaps = 13/300 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E EL +I+ + E+ +L S EP +
Sbjct: 243 DPVKDYLKQIGKVALLNAEQEVELAKRIEAGLFAEE---RLGSGATMEPKI--------- 290
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
R+L+ G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 291 -RRELEWIAQDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 349
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 350 YTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 409
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L+
Sbjct: 410 EELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLL 469
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ + +L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 470 QEQLHQVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRH 529
>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 = 196 bits (497), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 110/312 (35%), Positives = 184/312 (58%), Gaps = 3/312 (0%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
P G +F++YAYWW+RQ I +AI + SR IRLP +I +L+K+ + +R Q+ + +P
Sbjct: 145 DPARGYKFSTYAYWWIRQGITRAIAEKSRAIRLPIHITEMLNKLKKGQRDLSQQLSRTPS 204
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+LA + ++ E+++ L+ P+S++ V DT ++ + T + P ++
Sbjct: 205 VAELAEYIDVSEEEVKDLMLKASQPVSLEMKVGDKDDTVLLDLLS-TDNDSPQQQIELDC 263
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
M+ + LL L + ++R+R+GI+ +P SL+ +G + G+S++RVR LE L L+
Sbjct: 264 MKGDLEILLEKLPELQYRVLRMRYGIDGEEPMSLTGIGRVLGISRDRVRNLERSGLRGLR 323
Query: 554 QSLGGKASYGYA 565
G+A Y
Sbjct: 324 SK--GEAVEAYV 333
>gi|306836272|ref|ZP_07469254.1| RNA polymerase sigma factor rpoD [Corynebacterium accolens ATCC
49726]
gi|304567864|gb|EFM43447.1| RNA polymerase sigma factor rpoD [Corynebacterium accolens ATCC
49726]
Length = 492
Score = 196 bits (497), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 103/302 (34%), Positives = 182/302 (60%), Gaps = 9/302 (2%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LL A++E L +I+ + + ++ E E KA L
Sbjct: 184 DSVRAYLKQIGKVALLNAEQEVSLAKRIEAGLYAQHRMDEM------EKARAEGDKAAKL 237
Query: 315 S---CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
S RDL+S G ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+++VE
Sbjct: 238 SPMEKRDLRSIARDGRKAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVE 297
Query: 372 KFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHS 431
KF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 298 KFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGRE 357
Query: 432 PDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQK 491
P ++LA+ + IT EK+ + R P+S+ Q + + D+ + D+ I +V
Sbjct: 358 PTPQELAKEMDITEEKVMEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVIAVDAVSF 417
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
L++ ++++LT L+ +E +VRLRFG+ DG P++L E+G ++G+++ER+RQ+ES+ + +
Sbjct: 418 TLLQDQLQDVLTTLSEREAGVVRLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSK 477
Query: 552 LK 553
L+
Sbjct: 478 LR 479
>gi|383823557|ref|ZP_09978747.1| RNA polymerase sigma factor [Mycobacterium xenopi RIVM700367]
gi|383338836|gb|EID17195.1| RNA polymerase sigma factor [Mycobacterium xenopi RIVM700367]
Length = 527
Score = 196 bits (497), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 120/405 (29%), Positives = 230/405 (56%), Gaps = 21/405 (5%)
Query: 153 EESVDAEPFD-AVALARKALSASKEAASLAENPKLNGAEFTDISL---TSSLGYPLEEVK 208
E D EP D + A +L ++ A+ + L+ A+ D+ + T ++ ++E +
Sbjct: 127 EPDADIEPEDLDIDAADLSLDDLEDVAAEGADVDLDQADTDDVDVAAPTMAVDDTVDEDE 186
Query: 209 QFSQPRFLERRSKKRKVSKPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRK 268
+ ++P S+K K S V + + + + + +K +E D +R +L
Sbjct: 187 EIAEP------SEKDKASGDFVWDEDESEALRQA--RKDAELTASADSVRAYLKQIGKVA 238
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LL A+EE EL +I+ + + ++ + + PT + + + CRD G+
Sbjct: 239 LLNAEEEVELAKRIEAGLYASQLLAETAERGEKLPTALR--RDMMWICRD-------GDR 289
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+++VEKF G +F++YA WW
Sbjct: 290 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 349
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P E+LA+ + IT EK+
Sbjct: 350 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 409
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ R P+S+ Q + + D+ + D+ + +V L++ ++++L L+ +
Sbjct: 410 LEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSER 469
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 470 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLR 514
>gi|184201082|ref|YP_001855289.1| RNA polymerase sigma factor SigA [Kocuria rhizophila DC2201]
gi|183581312|dbj|BAG29783.1| RNA polymerase sigma factor SigA [Kocuria rhizophila DC2201]
Length = 572
Score = 196 bits (497), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 98/299 (32%), Positives = 181/299 (60%), Gaps = 12/299 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E +L +I+ + E +F E ++
Sbjct: 273 DPVKDYLKQIGKVALLNAEQEVDLALRIEAGLYAEH-------KFADEADSMD-----AN 320
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
+ R + +H G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 321 TRRAYRWVIHDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 380
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 381 YTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 440
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L+
Sbjct: 441 EELANELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLL 500
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 501 QEQLHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLR 559
>gi|229916320|ref|YP_002884966.1| RpoD subfamily RNA polymerase sigma-70 subunit [Exiguobacterium sp.
AT1b]
gi|229467749|gb|ACQ69521.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Exiguobacterium
sp. AT1b]
Length = 364
Score = 196 bits (497), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 92/254 (36%), Positives = 165/254 (64%), Gaps = 8/254 (3%)
Query: 308 WAKAIG----LSCRD---LKSELHSGNS-SREKLINANLRLVVHVAKQYQGRGISLHDLL 359
+ K IG LS +D L + G+ ++++L ANLRLVV +AK+Y GRG+ DL+
Sbjct: 98 YLKEIGRVDLLSAKDETELAKRIEQGDEEAKKRLAEANLRLVVSIAKRYVGRGMLFLDLI 157
Query: 360 QEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLE 419
QEG+MGL+K+VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++
Sbjct: 158 QEGNMGLIKAVEKFDYMKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIR 217
Query: 420 AKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITAD 479
+R +Q+ P E++A+ + +T EK+ ++ I + P+S++ P+ + D+ + D
Sbjct: 218 VQRQLLQDLGREPSPEEIAKEMELTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIED 277
Query: 480 TGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKE 539
P + +L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++E
Sbjct: 278 QDAMAPQDAAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRE 337
Query: 540 RVRQLESRALYRLK 553
R+RQ+E++AL +L+
Sbjct: 338 RIRQIEAKALRKLR 351
>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 = 196 bits (497), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 106/302 (35%), Positives = 178/302 (58%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 153 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREAT 212
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI ++K+ L+ +R P+S+ PV ++++ + D + +V +L
Sbjct: 213 DEELAAESGIPIDKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAEL 272
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 273 LHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLR 332
Query: 554 QS 555
Sbjct: 333 HG 334
>gi|417003308|ref|ZP_11942379.1| RNA polymerase sigma factor RpoD [Anaerococcus prevotii
ACS-065-V-Col13]
gi|325478784|gb|EGC81895.1| RNA polymerase sigma factor RpoD [Anaerococcus prevotii
ACS-065-V-Col13]
Length = 604
Score = 196 bits (497), Expect = 3e-47, Method: Compositional matrix adjust.
Identities = 90/237 (37%), Positives = 162/237 (68%), Gaps = 2/237 (0%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
+LK + ++++KL NLRLVV +AK+Y GRG+S DL+QEG+MGLMK+V+K+
Sbjct: 357 ELKKAVFISKAAKQKLAETNLRLVVSIAKKYVGRGMSFLDLIQEGNMGLMKAVDKYDYNR 416
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+ P E++
Sbjct: 417 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRIQRQLVQDLGRDPSNEEI 476
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE-ITADTGVEIPDISVQKQLMRQ 496
A ++GI VEK++ + I++ P+S++ P+ + D+ + I DT ++ P + ++R+
Sbjct: 477 AEQMGIEVEKVQEIRKISQEPVSLETPIGEEDDSHLGDFIEDDTAID-PGEAANYTMLRE 535
Query: 497 HVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ ++L+ L +E+ +++LRFG+ DG P++L EVG F +++ER+RQ+E++AL +LK
Sbjct: 536 QLNDVLSCLGAREKRVLQLRFGLIDGTPRTLEEVGKEFDVTRERIRQIEAKALRKLK 592
>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 = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 110/288 (38%), Positives = 177/288 (61%), Gaps = 2/288 (0%)
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 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYW
Sbjct: 85 RAKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYW 144
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I +AI + SRTIRLP +I +L+K+ + +R QE +P +LA V + E+
Sbjct: 145 WIRQGITRAIAEKSRTIRLPIHITEMLNKLKKGQRELSQELGRTPTVTELAEFVELPEEE 204
Query: 448 LERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNP 507
++ L+ R P+S++ V DT E+ + G E+P V+ + ++ +R+LL L
Sbjct: 205 VKDLMCRARQPVSLEMKVGDGDDTELLELLSGDG-ELPSEQVESECLKGDLRDLLEQLPE 263
Query: 508 KERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
+R ++R+R+G+ P SL+ + +S++R R+LE L L+
Sbjct: 264 LQRKVLRMRYGMNGEDPMSLTGIAKTLKMSRDRTRRLEREGLEMLRNG 311
>gi|357402165|ref|YP_004914090.1| RNA polymerase principal sigma factor hrdB [Streptomyces cattleya
NRRL 8057 = DSM 46488]
gi|337768574|emb|CCB77287.1| RNA polymerase principal sigma factor hrdB [Streptomyces cattleya
NRRL 8057 = DSM 46488]
Length = 517
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 102/299 (34%), Positives = 181/299 (60%), Gaps = 13/299 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E EL +I+ + E KL S P L
Sbjct: 219 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAE---DKLSSADKLAPKL--------- 266
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
R+L+ G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 267 -QRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 325
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 326 YTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 385
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L+
Sbjct: 386 EELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLL 445
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 446 QEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLR 504
>gi|384915839|ref|ZP_10016044.1| RNA polymerase sigma factor rpoD [Methylacidiphilum fumariolicum
SolV]
gi|384526701|emb|CCG91915.1| RNA polymerase sigma factor rpoD [Methylacidiphilum fumariolicum
SolV]
Length = 625
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 100/290 (34%), Positives = 174/290 (60%), Gaps = 20/290 (6%)
Query: 283 QDLIRLEKEKSKLQSQFGREPTLIE-WAKAIGLSCRDLKSELH----------------- 324
Q++++LEKEK L+ G +P E K + L L+ ++H
Sbjct: 319 QEVLKLEKEKEVLEKS-GLDPEAKEKEGKQLSLKVEQLEHQIHLPLDLFKKKHEELKQWL 377
Query: 325 -SGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAS 383
++ ++ ANLRLV+ +AK+Y RG+S DL+QEG+MGLMK+VEKF+ + G +F++
Sbjct: 378 NEALKAKSCMVEANLRLVISIAKKYSNRGLSFLDLIQEGNMGLMKAVEKFEYRRGYKFST 437
Query: 384 YAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGI 443
YA WW+RQ I ++I +RTIR+P ++ ++K++ ++ IQE P E++A +
Sbjct: 438 YATWWIRQAITRSIADQARTIRIPVHMIETINKLMRVQKQLIQELGREPTPEEIAEETQM 497
Query: 444 TVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT 503
+V+++ +I + + P+S+Q V +DTTF + D E P L+R+ +R++L
Sbjct: 498 SVDRIRAIIKMAQHPISLQAQVGESEDTTFGDFIEDKAAENPSEMTGYSLLREKIRDVLH 557
Query: 504 LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
L +ER ++ RFG+ DG P++L EVG F +++ER+RQ+E++AL +++
Sbjct: 558 TLTERERTVIEQRFGLLDGYPRTLEEVGKQFRVTRERIRQIEAKALRKMR 607
>gi|169829158|ref|YP_001699316.1| RNA polymerase sigma factor rpoD [Lysinibacillus sphaericus C3-41]
gi|168993646|gb|ACA41186.1| RNA polymerase sigma factor rpoD (Sigma-A) (Sigma-43)
[Lysinibacillus sphaericus C3-41]
Length = 375
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 101/324 (31%), Positives = 181/324 (55%), Gaps = 44/324 (13%)
Query: 231 TNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEK 290
N ET++ SV G NDP+R++L LL+A++E +L +I+
Sbjct: 84 ANEETFDLNDLSVPP----GVKINDPVRMYLKEIGRVDLLSAEQEIKLAERIE------- 132
Query: 291 EKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQG 350
+R++L ANLRLVV +AK+Y G
Sbjct: 133 ---------------------------------QGDEEARKRLAEANLRLVVSIAKRYVG 159
Query: 351 RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENI 410
RG+ DL+QEG+MGL+K+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++
Sbjct: 160 RGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 219
Query: 411 YTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQD 470
++K++ +R +Q+ P E++ + +T EK+ ++ I + P+S++ P+ + D
Sbjct: 220 VETINKLIRVQRQLLQDLGREPSPEEIGEEMDLTPEKVREILKIAQEPVSLETPIGEEDD 279
Query: 471 TTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEV 530
+ + D+ + P +L+++ + ++L L +E ++RLRFG++DG+ ++L EV
Sbjct: 280 SHLGDFIEDSEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 339
Query: 531 GNIFGLSKERVRQLESRALYRLKQ 554
G +FG+++ER+RQ+E++AL +L+
Sbjct: 340 GKVFGVTRERIRQIEAKALRKLRH 363
>gi|283795510|ref|ZP_06344663.1| RNA polymerase sigma factor RpoD [Clostridium sp. M62/1]
gi|291077175|gb|EFE14539.1| RNA polymerase sigma factor RpoD [Clostridium sp. M62/1]
Length = 377
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 106/313 (33%), Positives = 180/313 (57%), Gaps = 40/313 (12%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L EG DP+R++L T LL+A+EE +RL K K++
Sbjct: 99 LLEGIGTEDPVRMYLKEIGTVPLLSAEEE----------LRLAKRKAE------------ 136
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
S++E+LI ANLRLVV +AK+Y GRG+S DL+QEG++GL
Sbjct: 137 ------------------GDVSAKERLIEANLRLVVSIAKRYTGRGMSFLDLVQEGNLGL 178
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K VEKF G + ++YA WW+RQ++ +A+ +RTIR+P ++ ++K+ + +R
Sbjct: 179 IKGVEKFDYTKGYKLSTYATWWIRQSVTRALADQARTIRVPVHMVETINKMSKMQRKLTL 238
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E + P +L+ + ++ +K+ ++ I R P S++ P+ + D+ + AD V P+
Sbjct: 239 ELGYEPSVAELSAALDMSEDKVMEIMQIAREPASLETPIGEEDDSNLGDFVADGNVVTPE 298
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+V+ ++R+H+ LL L +ER ++ LRFG+EDG P++L EVG F +++ER+RQ+E+
Sbjct: 299 GNVESVMLREHIDALLGDLKERERQVIVLRFGLEDGHPRTLEEVGKEFNVTRERIRQIEA 358
Query: 547 RALYRLKQSLGGK 559
+AL +L+ + K
Sbjct: 359 KALRKLRNPVRSK 371
>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 = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 106/302 (35%), Positives = 179/302 (59%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 140 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREAT 199
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI ++K+ L+ +R P+S+ PV ++++ + D + +V +L
Sbjct: 200 DEELAAESGIPIDKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAEL 259
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 260 LHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLR 319
Query: 554 QS 555
Sbjct: 320 NG 321
>gi|366089209|ref|ZP_09455682.1| RNA polymerase sigma factor RpoD [Lactobacillus acidipiscis KCTC
13900]
Length = 373
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 100/305 (32%), Positives = 171/305 (56%), Gaps = 40/305 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE L +I+
Sbjct: 97 GVKINDPVRMYLKEIGRVDLLTADEEIALALRIE-------------------------- 130
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
S+++L ANLRLVV +AK+Y GRG+S DL+QEG+MGLMK+
Sbjct: 131 --------------QGDEYSKQRLAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKA 176
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 177 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 236
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 237 REPIPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDAEATSPADHA 296
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 297 AYELLKKQLESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKAL 356
Query: 550 YRLKQ 554
+L+
Sbjct: 357 RKLRH 361
>gi|289706929|ref|ZP_06503266.1| RNA polymerase sigma factor RpoD [Micrococcus luteus SK58]
gi|289556364|gb|EFD49718.1| RNA polymerase sigma factor RpoD [Micrococcus luteus SK58]
Length = 509
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 99/299 (33%), Positives = 180/299 (60%), Gaps = 13/299 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E +L +I+ + E S RE
Sbjct: 211 DPVKDYLKQIGKVALLNAEQEVDLAMRIEAGLYAEHVVQHEASDDYRE------------ 258
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RD++ + G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 259 -RRDIQLIIADGRKAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 317
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 318 YTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 377
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L+
Sbjct: 378 EELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLL 437
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 438 QEQLHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLR 496
>gi|29376087|ref|NP_815241.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis V583]
gi|227518714|ref|ZP_03948763.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0104]
gi|227553323|ref|ZP_03983372.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis HH22]
gi|229545861|ref|ZP_04434586.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1322]
gi|229550053|ref|ZP_04438778.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ATCC 29200]
gi|255975889|ref|ZP_05426475.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis T2]
gi|256619027|ref|ZP_05475873.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ATCC 4200]
gi|256762453|ref|ZP_05503033.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis T3]
gi|256853088|ref|ZP_05558458.1| RNA polymerase sigma-43 factor [Enterococcus faecalis T8]
gi|256958944|ref|ZP_05563115.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis DS5]
gi|256961963|ref|ZP_05566134.1| sigma 42 [Enterococcus faecalis Merz96]
gi|256965161|ref|ZP_05569332.1| sigma 42 [Enterococcus faecalis HIP11704]
gi|257078975|ref|ZP_05573336.1| sigma 42 [Enterococcus faecalis JH1]
gi|257082587|ref|ZP_05576948.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis E1Sol]
gi|257085220|ref|ZP_05579581.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis Fly1]
gi|257086781|ref|ZP_05581142.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis D6]
gi|257089848|ref|ZP_05584209.1| RNA polymerase sigma factor rpoD [Enterococcus faecalis CH188]
gi|257416057|ref|ZP_05593051.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ARO1/DG]
gi|257419260|ref|ZP_05596254.1| RNA polymerase sigma factor rpoD [Enterococcus faecalis T11]
gi|257422656|ref|ZP_05599646.1| RNA polymerase sigma-43 factor [Enterococcus faecalis X98]
gi|293383032|ref|ZP_06628950.1| RNA polymerase sigma-43 factor [Enterococcus faecalis R712]
gi|293389479|ref|ZP_06633936.1| RNA polymerase sigma-43 factor [Enterococcus faecalis S613]
gi|294779115|ref|ZP_06744526.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis PC1.1]
gi|300860473|ref|ZP_07106560.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TUSoD Ef11]
gi|307271055|ref|ZP_07552338.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX4248]
gi|307273262|ref|ZP_07554508.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0855]
gi|307274998|ref|ZP_07556161.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX2134]
gi|307278111|ref|ZP_07559195.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0860]
gi|307289068|ref|ZP_07569024.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0109]
gi|307292033|ref|ZP_07571902.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0411]
gi|312900723|ref|ZP_07760020.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0470]
gi|312903270|ref|ZP_07762450.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0635]
gi|312907497|ref|ZP_07766488.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis DAPTO 512]
gi|312910115|ref|ZP_07768962.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis DAPTO 516]
gi|312951455|ref|ZP_07770352.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0102]
gi|384513206|ref|YP_005708299.1| RNA polymerase sigma factor rpoD [Enterococcus faecalis OG1RF]
gi|421512418|ref|ZP_15959225.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ATCC 29212]
gi|422689405|ref|ZP_16747517.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0630]
gi|422693062|ref|ZP_16751077.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0031]
gi|422694944|ref|ZP_16752932.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX4244]
gi|422699260|ref|ZP_16757133.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1346]
gi|422701717|ref|ZP_16759557.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1342]
gi|422704436|ref|ZP_16762246.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1302]
gi|422706710|ref|ZP_16764408.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0043]
gi|422708433|ref|ZP_16765961.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0027]
gi|422714660|ref|ZP_16771386.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0309A]
gi|422715918|ref|ZP_16772634.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0309B]
gi|422718883|ref|ZP_16775534.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0017]
gi|422722558|ref|ZP_16779108.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX2137]
gi|422727009|ref|ZP_16783452.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0312]
gi|422728944|ref|ZP_16785350.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0012]
gi|422733618|ref|ZP_16789920.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0645]
gi|422734351|ref|ZP_16790645.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1341]
gi|422739714|ref|ZP_16794887.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX2141]
gi|422869407|ref|ZP_16915927.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1467]
gi|424673258|ref|ZP_18110201.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis 599]
gi|424676801|ref|ZP_18113672.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV103]
gi|424681381|ref|ZP_18118168.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV116]
gi|424683570|ref|ZP_18120320.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV129]
gi|424686525|ref|ZP_18123193.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV25]
gi|424690202|ref|ZP_18126737.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV31]
gi|424695296|ref|ZP_18131679.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV37]
gi|424696965|ref|ZP_18133306.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV41]
gi|424699649|ref|ZP_18135860.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV62]
gi|424703338|ref|ZP_18139472.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV63]
gi|424706029|ref|ZP_18142042.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV65]
gi|424717174|ref|ZP_18146472.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV68]
gi|424720753|ref|ZP_18149854.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV72]
gi|424724303|ref|ZP_18153252.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV73]
gi|424733890|ref|ZP_18162445.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV81]
gi|424743807|ref|ZP_18172112.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV85]
gi|424749506|ref|ZP_18177609.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV93]
gi|424761355|ref|ZP_18188937.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis R508]
gi|428766960|ref|YP_007153071.1| RNA polymerase sigma factor [Enterococcus faecalis str. Symbioflor
1]
gi|430360376|ref|ZP_19426223.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis OG1X]
gi|430368205|ref|ZP_19428077.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis M7]
gi|30179886|sp|P52329.2|RPOD_ENTFA RecName: Full=RNA polymerase sigma factor RpoD; AltName:
Full=Sigma-42
gi|29343549|gb|AAO81311.1| RNA polymerase sigma-43 factor [Enterococcus faecalis V583]
gi|227073834|gb|EEI11797.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0104]
gi|227177552|gb|EEI58524.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis HH22]
gi|229304757|gb|EEN70753.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ATCC 29200]
gi|229309016|gb|EEN75003.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1322]
gi|255968761|gb|EET99383.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis T2]
gi|256598554|gb|EEU17730.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ATCC 4200]
gi|256683704|gb|EEU23399.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis T3]
gi|256711547|gb|EEU26585.1| RNA polymerase sigma-43 factor [Enterococcus faecalis T8]
gi|256949440|gb|EEU66072.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis DS5]
gi|256952459|gb|EEU69091.1| sigma 42 [Enterococcus faecalis Merz96]
gi|256955657|gb|EEU72289.1| sigma 42 [Enterococcus faecalis HIP11704]
gi|256987005|gb|EEU74307.1| sigma 42 [Enterococcus faecalis JH1]
gi|256990617|gb|EEU77919.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis E1Sol]
gi|256993250|gb|EEU80552.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis Fly1]
gi|256994811|gb|EEU82113.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis D6]
gi|256998660|gb|EEU85180.1| RNA polymerase sigma factor rpoD [Enterococcus faecalis CH188]
gi|257157885|gb|EEU87845.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ARO1/DG]
gi|257161088|gb|EEU91048.1| RNA polymerase sigma factor rpoD [Enterococcus faecalis T11]
gi|257164480|gb|EEU94440.1| RNA polymerase sigma-43 factor [Enterococcus faecalis X98]
gi|291079697|gb|EFE17061.1| RNA polymerase sigma-43 factor [Enterococcus faecalis R712]
gi|291081096|gb|EFE18059.1| RNA polymerase sigma-43 factor [Enterococcus faecalis S613]
gi|294453840|gb|EFG22231.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis PC1.1]
gi|295112959|emb|CBL31596.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase
sigma factor, sigma-70 family [Enterococcus sp. 7L76]
gi|300849512|gb|EFK77262.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TUSoD Ef11]
gi|306497031|gb|EFM66579.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0411]
gi|306499777|gb|EFM69138.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0109]
gi|306505508|gb|EFM74694.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0860]
gi|306508446|gb|EFM77553.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX2134]
gi|306510247|gb|EFM79271.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0855]
gi|306512553|gb|EFM81202.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX4248]
gi|310626525|gb|EFQ09808.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis DAPTO 512]
gi|310630611|gb|EFQ13894.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0102]
gi|310633146|gb|EFQ16429.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0635]
gi|311289388|gb|EFQ67944.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis DAPTO 516]
gi|311292204|gb|EFQ70760.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0470]
gi|315027303|gb|EFT39235.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX2137]
gi|315033932|gb|EFT45864.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0017]
gi|315036941|gb|EFT48873.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0027]
gi|315144454|gb|EFT88470.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX2141]
gi|315147227|gb|EFT91243.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX4244]
gi|315150574|gb|EFT94590.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0012]
gi|315152521|gb|EFT96537.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0031]
gi|315155799|gb|EFT99815.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0043]
gi|315158034|gb|EFU02051.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0312]
gi|315160483|gb|EFU04500.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0645]
gi|315163977|gb|EFU07994.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1302]
gi|315169073|gb|EFU13090.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1341]
gi|315169690|gb|EFU13707.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1342]
gi|315172348|gb|EFU16365.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1346]
gi|315575904|gb|EFU88095.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0309B]
gi|315577570|gb|EFU89761.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0630]
gi|315580556|gb|EFU92747.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX0309A]
gi|327535095|gb|AEA93929.1| RNA polymerase sigma factor rpoD [Enterococcus faecalis OG1RF]
gi|329571347|gb|EGG53034.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis TX1467]
gi|401674531|gb|EJS80882.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ATCC 29212]
gi|402351088|gb|EJU85980.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV116]
gi|402353068|gb|EJU87904.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis 599]
gi|402356421|gb|EJU91155.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV103]
gi|402364568|gb|EJU99003.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV129]
gi|402364889|gb|EJU99320.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV31]
gi|402367379|gb|EJV01720.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV25]
gi|402368473|gb|EJV02786.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV37]
gi|402375578|gb|EJV09558.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV62]
gi|402377294|gb|EJV11205.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV41]
gi|402385343|gb|EJV18883.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV63]
gi|402386522|gb|EJV20028.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV68]
gi|402388672|gb|EJV22100.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV65]
gi|402390900|gb|EJV24220.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV81]
gi|402393224|gb|EJV26454.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV72]
gi|402395444|gb|EJV28550.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV73]
gi|402399936|gb|EJV32790.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV85]
gi|402402339|gb|EJV35060.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis R508]
gi|402407757|gb|EJV40262.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis ERV93]
gi|427185133|emb|CCO72357.1| RNA polymerase sigma factor [Enterococcus faecalis str. Symbioflor
1]
gi|429512852|gb|ELA02447.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis OG1X]
gi|429516367|gb|ELA05859.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis M7]
Length = 368
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 98/304 (32%), Positives = 172/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L +LLTA EE EL +I++
Sbjct: 92 GVKINDPVRMYLKEIGRVQLLTAAEEVELALKIEE------------------------- 126
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 127 ---------------GDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 171
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 172 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 231
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 232 REPTPEEIGAEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAEHA 291
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 292 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 351
Query: 550 YRLK 553
+L+
Sbjct: 352 RKLR 355
>gi|374585825|ref|ZP_09658917.1| RNA polymerase, sigma 70 subunit, RpoD [Leptonema illini DSM 21528]
gi|373874686|gb|EHQ06680.1| RNA polymerase, sigma 70 subunit, RpoD [Leptonema illini DSM 21528]
Length = 586
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 97/262 (37%), Positives = 166/262 (63%), Gaps = 7/262 (2%)
Query: 305 LIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSM 364
+++W +AI K E + RE LI +NLRLVV +AK+Y RG+ DL+QEG++
Sbjct: 331 ILQWGEAI------TKGEREIAQAKRE-LIKSNLRLVVSIAKKYANRGMQFFDLIQEGNI 383
Query: 365 GLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLY 424
GL+K+V+KF+ + G +F++YA WW+RQ I +AI +RTIR+P ++ ++KV R+Y
Sbjct: 384 GLIKAVDKFEYRKGFKFSTYATWWIRQAITRAISDQARTIRVPVHMIEQINKVTRESRMY 443
Query: 425 IQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEI 484
+QE P E+LA R+G V++++ + + + P+S++ PV +++D+ + D VE
Sbjct: 444 MQEHGREPTIEELAERLGWPVQRVKAVKSVAKEPISLEVPVGSEEDSELGDFIEDKVVES 503
Query: 485 PDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQL 544
P +L+ +R++L L +E+ ++++RFG+EDG +L EVG +F +++ER+RQ+
Sbjct: 504 PLNQTANKLLADQIRSVLNTLPAREQKVLKMRFGLEDGYTHTLEEVGYVFQVTRERIRQI 563
Query: 545 ESRALYRLKQSLGGKASYGYAD 566
E++AL RL+ K Y D
Sbjct: 564 EAKALRRLRHPSRSKKLKDYLD 585
>gi|312869100|ref|ZP_07729274.1| RNA polymerase sigma factor RpoD [Lactobacillus oris PB013-T2-3]
gi|311095346|gb|EFQ53616.1| RNA polymerase sigma factor RpoD [Lactobacillus oris PB013-T2-3]
Length = 380
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 99/304 (32%), Positives = 171/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE +L +I+
Sbjct: 104 GVKINDPVRMYLKEIGRVNLLTADEEVKLALRIE-------------------------- 137
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 138 --------------QGDEVAKQQLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 183
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 184 VEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 243
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 244 REPLPEEIGAEMDMPTEKIRNILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPADHA 303
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
++M++ + N+L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 304 AYEMMKKQLENVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 363
Query: 550 YRLK 553
+L+
Sbjct: 364 RKLR 367
>gi|408356485|ref|YP_006845016.1| RNA polymerase sigma factor SigA [Amphibacillus xylanus NBRC 15112]
gi|407727256|dbj|BAM47254.1| RNA polymerase sigma factor SigA [Amphibacillus xylanus NBRC 15112]
Length = 372
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 102/304 (33%), Positives = 176/304 (57%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTA+EE EL +I+ E++K+Q
Sbjct: 96 GIKINDPVRMYLKEIGRVDLLTAEEEVELAKRIEQ----NDEEAKMQ------------- 138
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
L ANLRLVV +AK+Y GRG+ DL+QEG+MGL+K+
Sbjct: 139 -----------------------LAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKA 175
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 176 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 235
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + +T EK+ ++ I + P+S++ P+ + D+ + D V P
Sbjct: 236 REPTPEEIGKEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEVTSPSDHA 295
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 296 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 355
Query: 550 YRLK 553
+L+
Sbjct: 356 RKLR 359
>gi|309800318|ref|ZP_07694490.1| RNA polymerase sigma factor RpoD [Streptococcus infantis SK1302]
gi|385261367|ref|ZP_10039492.1| RNA polymerase sigma factor RpoD [Streptococcus sp. SK140]
gi|308116065|gb|EFO53569.1| RNA polymerase sigma factor RpoD [Streptococcus infantis SK1302]
gi|385188369|gb|EIF35855.1| RNA polymerase sigma factor RpoD [Streptococcus sp. SK140]
Length = 369
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 105/328 (32%), Positives = 184/328 (56%), Gaps = 50/328 (15%)
Query: 227 KPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLI 286
+P++T+ + S A V NDP+R++L LLT +EE EL
Sbjct: 79 EPELTDEDLIGSTSAKV----------NDPVRMYLKEIGVVPLLTNEEEKEL-------- 120
Query: 287 RLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAK 346
A+ + D+++ +++L ANLRLVV +AK
Sbjct: 121 ------------------------ALAVEAGDIEA--------KQRLAEANLRLVVSIAK 148
Query: 347 QYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRL 406
+Y GRG+ DL+QEG+MGLMK+V+KF G +F++YA WW+RQ I +AI +RTIR+
Sbjct: 149 RYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRI 208
Query: 407 PENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVW 466
P ++ ++K++ +R +QE P E +A R+ +T +K+ ++ I + P+S++ P+
Sbjct: 209 PVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIG 268
Query: 467 ADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKS 526
+ D+ + D +E P + ++R+ + +L L +E ++RLRFG++DGK ++
Sbjct: 269 EEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRT 328
Query: 527 LSEVGNIFGLSKERVRQLESRALYRLKQ 554
L +VG +F +++ER+RQ+E++AL +L+Q
Sbjct: 329 LEDVGKVFNVTRERIRQIEAKALRKLRQ 356
>gi|402300277|ref|ZP_10819798.1| RNA polymerase sigma factor RpoD [Bacillus alcalophilus ATCC 27647]
gi|401724574|gb|EJS97923.1| RNA polymerase sigma factor RpoD [Bacillus alcalophilus ATCC 27647]
Length = 372
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 99/304 (32%), Positives = 172/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+ADEE EL +I+
Sbjct: 96 GIKINDPVRMYLKEIGRVPLLSADEEIELAKRIE-------------------------- 129
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGL+K+
Sbjct: 130 --------------QGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKA 175
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 176 VEKFDYDKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDFG 235
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++A + +T EK+ ++ I + P+S++ P+ + D+ + D P +
Sbjct: 236 REPTPEEVAEEMELTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDALAPSDAA 295
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 296 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 355
Query: 550 YRLK 553
+L+
Sbjct: 356 RKLR 359
>gi|291531112|emb|CBK96697.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase
sigma factor, sigma-70 family [Eubacterium siraeum 70/3]
Length = 358
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 101/307 (32%), Positives = 176/307 (57%), Gaps = 40/307 (13%)
Query: 248 SEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIE 307
SEG +DP++++L LLTA+EE EL ++
Sbjct: 80 SEGIAIDDPVKIYLKEIGRVPLLTAEEEIELATRMA------------------------ 115
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
+R++L ANLRLVV +AK+Y GRG+ DL+QEG++GL+
Sbjct: 116 ----------------QGDKYARKRLSEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLI 159
Query: 368 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
K+VEKF G +F++YA WW+RQ I ++I +RTIR+P ++ ++KV + + E
Sbjct: 160 KAVEKFDYTKGYKFSTYATWWIRQAITRSIADQARTIRIPVHMVETITKVKKVSSQLLHE 219
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDI 487
H P +++A R+GITV+++ ++ I++ P+S++ P+ ++D+ + D P
Sbjct: 220 NGHEPTPQEIADRLGITVDRVREILRISQDPVSLETPIGEEEDSHLGDFIPDEDAPAPAE 279
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
+ + L+++ + +L L P+E ++RLRFG+EDG+P++L EVG F +++ER+RQ+E++
Sbjct: 280 AASRTLLKEQLSEILGTLTPREEKVLRLRFGLEDGRPRTLEEVGKEFDVTRERIRQIEAK 339
Query: 548 ALYRLKQ 554
AL +L+
Sbjct: 340 ALRKLRH 346
>gi|449128429|ref|ZP_21764675.1| RNA polymerase sigma factor RpoD [Treponema denticola SP33]
gi|448940837|gb|EMB21741.1| RNA polymerase sigma factor RpoD [Treponema denticola SP33]
Length = 619
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 94/253 (37%), Positives = 168/253 (66%), Gaps = 4/253 (1%)
Query: 318 DLKSELHSGN----SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
DL SE+ +G ++++KLINANLRLVV +AK+Y RG+ DL+QEG++GL+K+VEKF
Sbjct: 366 DLTSEIKNGQRMLKNAKDKLINANLRLVVSIAKKYINRGLQFFDLVQEGNIGLIKAVEKF 425
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
+ + G +F++YA WW+RQ I ++I +RTIR+P ++ ++KV R +Q+ P+
Sbjct: 426 EYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVNRESRQLMQKLGREPN 485
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+++A ++G ++EK++++ + R P+S++ P+ ++DT ++ D GVE P + L
Sbjct: 486 DDEIALQLGWSIEKVKQVKNVAREPISLETPIGEEEDTLLGDLIEDKGVENPSNRTELTL 545
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + +L+ L +E+ ++++RFGIE G P +L EVG F +++ER+RQ+E++ L RL+
Sbjct: 546 LQEQLEMVLSSLPEREQEVLKMRFGIEGGYPLTLEEVGLYFDVTRERIRQIEAKGLRRLR 605
Query: 554 QSLGGKASYGYAD 566
+ Y D
Sbjct: 606 HPKRSRKLKDYLD 618
>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 = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 110/318 (34%), Positives = 185/318 (58%), Gaps = 15/318 (4%)
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 DLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSK 416
DL+QEG++GL++++EKF G +F++YA WW+RQ I + + SRTIRLP ++ ++K
Sbjct: 129 DLIQEGNLGLIRAMEKFDYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNK 188
Query: 417 VLEAKR-LYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQE 475
+ KR L+ Q G + D E LA GI EK+ L+ +R P+S+ PV +D++ +
Sbjct: 189 LARIKRELHQQLGREATDDE-LASESGIPAEKIADLLDHSRDPVSLDMPVGSDEEAPLGD 247
Query: 476 ITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFG 535
D + +V L+ +R +L L+ +E+ ++R+R+G++DG+P++L ++G +FG
Sbjct: 248 FIEDAEATSAENAVIAGLLHSDIRAVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFG 307
Query: 536 LSKERVRQLESRALYRLK 553
LS+ERVRQ+E + +L+
Sbjct: 308 LSRERVRQIEREVMGKLR 325
>gi|306833811|ref|ZP_07466936.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus bovis
ATCC 700338]
gi|336064578|ref|YP_004559437.1| RNA polymerase primary sigma factor [Streptococcus pasteurianus
ATCC 43144]
gi|304424005|gb|EFM27146.1| DNA-directed RNA polymerase sigma subunit RpoD [Streptococcus bovis
ATCC 700338]
gi|334282778|dbj|BAK30351.1| RNA polymerase primary sigma factor [Streptococcus pasteurianus
ATCC 43144]
Length = 369
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 109/338 (32%), Positives = 188/338 (55%), Gaps = 53/338 (15%)
Query: 220 SKKRKVSKP---QVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEF 276
S K V +P ++T+ E S A V NDP+R++L LLT++EE
Sbjct: 69 STKYIVEEPKPEELTDEELLGSNSAKV----------NDPVRMYLKEIGVVPLLTSEEEK 118
Query: 277 ELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINA 336
EL A+ ++ DL++ +++L A
Sbjct: 119 EL--------------------------------AVAVATGDLQA--------KQRLAEA 138
Query: 337 NLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKA 396
NLRLVV +AK+Y GRG+ DL+QEG+MGLMK+V+KF G +F++YA WW+RQ I +A
Sbjct: 139 NLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRA 198
Query: 397 IFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITR 456
I +RTIR+P ++ ++K++ +R +QE P E +A R+ +T +K+ ++ I +
Sbjct: 199 IADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQ 258
Query: 457 MPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLR 516
P+S++ P+ + D+ + D +E P + ++R+ + +L L +E ++RLR
Sbjct: 259 EPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLR 318
Query: 517 FGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
FG++DGK ++L +VG +F +++ER+RQ+E++AL +L+
Sbjct: 319 FGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRH 356
>gi|221633686|ref|YP_002522912.1| RNA polymerase sigma 70 subunit, RpoD [Thermomicrobium roseum DSM
5159]
gi|221156620|gb|ACM05747.1| RNA polymerase sigma 70 subunit, RpoD [Thermomicrobium roseum DSM
5159]
Length = 509
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 94/237 (39%), Positives = 154/237 (64%)
Query: 324 HSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFAS 383
G ++R KL ANLRLVV +AK+Y GRG++L DL+QEG++GLM++V+KF+ G +F++
Sbjct: 267 RDGEAARRKLTEANLRLVVSIAKRYTGRGLTLLDLIQEGNLGLMRAVDKFQTHKGFKFST 326
Query: 384 YAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGI 443
YA WW+RQ I +A+ H+RTIRLP ++ L++V R QE P +LA V +
Sbjct: 327 YATWWIRQAITRALADHARTIRLPVHLVETLNRVSRVARQLTQELGREPTTSELAAAVNM 386
Query: 444 TVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLT 503
+++L L+ + P+S++ PV ++++T + D P + L+R+ V++LL
Sbjct: 387 PLDRLRELLQAAQDPVSLEAPVGQEEESTLGDFLEDERAVAPLDAAALSLLREQVQSLLA 446
Query: 504 LLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKA 560
L +ER ++ +RFG+EDG+ +L EVG FG+++ERVRQ+E++AL +L+ +A
Sbjct: 447 TLTERERRVLAMRFGLEDGQTYTLEEVGRAFGVTRERVRQIEAKALRKLRHPQRARA 503
>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 = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 106/302 (35%), Positives = 178/302 (58%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 141 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREAT 200
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI ++K+ L+ +R P+S+ PV ++++ + D + +V +L
Sbjct: 201 DEELAAESGIPIDKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAEL 260
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 261 LHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLR 320
Query: 554 QS 555
Sbjct: 321 HG 322
>gi|1710683|sp|P52328.1|RPSD2_BACSP RecName: Full=RNA polymerase sigma factor RpoD; Short=Sigma-A
gi|149623|gb|AAA25264.1| RNA polymerase sigma-subunit [Leptospira borgpetersenii]
Length = 377
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 100/308 (32%), Positives = 174/308 (56%), Gaps = 40/308 (12%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
L G NDP+R++L LL+AD+E EL +I
Sbjct: 98 LPPGIKINDPVRMYLKEIGRVPLLSADDEVELAKRI------------------------ 133
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
++ ++ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGL
Sbjct: 134 ----------------MNGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGL 177
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K+VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +Q
Sbjct: 178 IKAVEKFDHNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQ 237
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E P E++A + ++VEK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 238 ELGREPTPEEIAAEMELSVEKVREIMKIAQEPVSLETPIGEEDDSHLGDFIEDQEALTPA 297
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+ +L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E+
Sbjct: 298 DAAAYELLKEQLEDVLDTLTEREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEA 357
Query: 547 RALYRLKQ 554
+AL +L+
Sbjct: 358 KALRKLRH 365
>gi|167750934|ref|ZP_02423061.1| hypothetical protein EUBSIR_01919 [Eubacterium siraeum DSM 15702]
gi|167656113|gb|EDS00243.1| RNA polymerase sigma factor RpoD [Eubacterium siraeum DSM 15702]
gi|291557421|emb|CBL34538.1| RNA polymerase sigma factor RpoD, C-terminal domain/RNA polymerase
sigma factor, sigma-70 family [Eubacterium siraeum
V10Sc8a]
Length = 358
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 101/307 (32%), Positives = 176/307 (57%), Gaps = 40/307 (13%)
Query: 248 SEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIE 307
SEG +DP++++L LLTA+EE EL ++
Sbjct: 80 SEGIAIDDPVKIYLKEIGRVPLLTAEEEIELATRMA------------------------ 115
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
+R++L ANLRLVV +AK+Y GRG+ DL+QEG++GL+
Sbjct: 116 ----------------QGDKYARKRLSEANLRLVVSIAKRYVGRGMQFLDLIQEGNLGLI 159
Query: 368 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
K+VEKF G +F++YA WW+RQ I ++I +RTIR+P ++ ++KV + + E
Sbjct: 160 KAVEKFDYTKGYKFSTYATWWIRQAITRSIADQARTIRIPVHMVETITKVKKVSSQLLHE 219
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDI 487
H P +++A R+GITV+++ ++ I++ P+S++ P+ ++D+ + D P
Sbjct: 220 NGHEPTPQEIADRLGITVDRVREILRISQDPVSLETPIGEEEDSHLGDFIPDEDAPAPAE 279
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
+ + L+++ + +L L P+E ++RLRFG+EDG+P++L EVG F +++ER+RQ+E++
Sbjct: 280 AASRTLLKEQLSEILGTLTPREEKVLRLRFGLEDGRPRTLEEVGKEFDVTRERIRQIEAK 339
Query: 548 ALYRLKQ 554
AL +L+
Sbjct: 340 ALRKLRH 346
>gi|406573932|ref|ZP_11049673.1| RNA polymerase sigma factor [Janibacter hoylei PVAS-1]
gi|404556712|gb|EKA62173.1| RNA polymerase sigma factor [Janibacter hoylei PVAS-1]
Length = 492
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 103/303 (33%), Positives = 184/303 (60%), Gaps = 19/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQ-DLIRLEKEKS--KLQSQFGREPTLIEWAKA 311
DP++ +L LL A++E EL +I+ L EK S K++ +F RE + W
Sbjct: 194 DPVKDYLKQIGKVALLNAEQEVELAKRIEAGLFAEEKLASGEKIEMKFKRE---LWWIA- 249
Query: 312 IGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VE
Sbjct: 250 ------------QDGKNAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVE 297
Query: 372 KFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHS 431
KF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 298 KFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGRE 357
Query: 432 PDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQK 491
P E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V
Sbjct: 358 PTPEELAKELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSF 417
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
L+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +
Sbjct: 418 TLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSK 477
Query: 552 LKQ 554
L+
Sbjct: 478 LRH 480
>gi|421873893|ref|ZP_16305502.1| RNA polymerase sigma factor rpoD [Brevibacillus laterosporus GI-9]
gi|372457004|emb|CCF15051.1| RNA polymerase sigma factor rpoD [Brevibacillus laterosporus GI-9]
Length = 374
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 99/304 (32%), Positives = 173/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+A+EE +L +I+
Sbjct: 98 GIKINDPVRMYLKEIGRVPLLSAEEEIKLAQRIE-------------------------- 131
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGL+K+
Sbjct: 132 --------------QGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKA 177
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF Q G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +QE
Sbjct: 178 VEKFDYQKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELG 237
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++A ++ +T EK+ ++ I + P+S++ P+ + D+ + D P +
Sbjct: 238 REPAPEEIAEKMDLTPEKVREIMKIAQEPVSLETPIGEEDDSHLGDFIEDQEALAPSDAA 297
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 298 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 357
Query: 550 YRLK 553
+L+
Sbjct: 358 RKLR 361
>gi|393201582|ref|YP_006463424.1| DNA-directed RNA polymerase, sigma subunit [Solibacillus silvestris
StLB046]
gi|406664445|ref|ZP_11072220.1| Sigma-A [Bacillus isronensis B3W22]
gi|327440913|dbj|BAK17278.1| DNA-directed RNA polymerase, sigma subunit [Solibacillus silvestris
StLB046]
gi|405387293|gb|EKB46717.1| Sigma-A [Bacillus isronensis B3W22]
Length = 375
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 97/305 (31%), Positives = 173/305 (56%), Gaps = 40/305 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+AD+E L +I+
Sbjct: 99 GVKINDPVRMYLKEIGRVDLLSADQEIRLAERIE-------------------------- 132
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
+R++L ANLRLVV +AK+Y GRG+ DL+QEG+MGL+K+
Sbjct: 133 --------------QGDEEARKRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKA 178
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 179 VEKFDHRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLG 238
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + +T EK+ ++ I + P+S++ P+ + D+ + D+ + P
Sbjct: 239 REPSPEEIGEEMDLTPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDSEAQSPSDHA 298
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 299 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 358
Query: 550 YRLKQ 554
+L+
Sbjct: 359 RKLRH 363
>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 = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 106/301 (35%), Positives = 189/301 (62%), Gaps = 17/301 (5%)
Query: 270 LTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN-- 327
++A+E ++ QIQ L R + K++ F E T+ E DL SE+ +G
Sbjct: 331 ISANEVKDIYTQIQVLTR---KIRKIEYDF--EATVDEVI--------DLTSEIKNGQRM 377
Query: 328 --SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
++++KLINANLRLVV +AK+Y RG+ DL+QEG++GL+K+VEKF+ + G +F++YA
Sbjct: 378 LKNAKDKLINANLRLVVSIAKKYINRGLQFFDLVQEGNIGLIKAVEKFEYRKGYKFSTYA 437
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ I ++I +RTIR+P ++ ++KV R +Q+ P+ +++A ++G ++
Sbjct: 438 TWWIRQAITRSISDQARTIRVPVHMIEQINKVNRESRQLMQKLGREPNDDEIALQLGWSI 497
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
EK++++ + R P+S++ P+ ++DT ++ D GVE P + L+++ + +L+ L
Sbjct: 498 EKVKQVKNVAREPISLETPIGEEEDTLLGDLIEDKGVENPSNRTELTLLQEQLEMVLSSL 557
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYA 565
+E+ ++++RFGIE G P +L EVG F +++ER+RQ+E++ L RL+ + Y
Sbjct: 558 PEREQEVLKMRFGIEGGYPLTLEEVGLYFDVTRERIRQIEAKGLRRLRHPKRSRKLKDYL 617
Query: 566 D 566
D
Sbjct: 618 D 618
>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 = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 106/301 (35%), Positives = 189/301 (62%), Gaps = 17/301 (5%)
Query: 270 LTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGN-- 327
++A+E ++ QIQ L R + K++ F E T+ E DL SE+ +G
Sbjct: 331 ISANEVKDIYTQIQVLTR---KIRKIEYDF--EATVDEVI--------DLTSEIKNGQRM 377
Query: 328 --SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
++++KLINANLRLVV +AK+Y RG+ DL+QEG++GL+K+VEKF+ + G +F++YA
Sbjct: 378 LKNAKDKLINANLRLVVSIAKKYINRGLQFFDLVQEGNIGLIKAVEKFEYRKGYKFSTYA 437
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ I ++I +RTIR+P ++ ++KV R +Q+ P+ +++A ++G ++
Sbjct: 438 TWWIRQAITRSISDQARTIRVPVHMIEQINKVNRESRQLMQKLGREPNDDEIALQLGWSI 497
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
EK++++ + R P+S++ P+ ++DT ++ D GVE P + L+++ + +L+ L
Sbjct: 498 EKVKQVKNVAREPISLETPIGEEEDTLLGDLIEDKGVENPSNRTELTLLQEQLEMVLSSL 557
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYA 565
+E+ ++++RFGIE G P +L EVG F +++ER+RQ+E++ L RL+ + Y
Sbjct: 558 PEREQEVLKMRFGIEGGYPLTLEEVGLYFDVTRERIRQIEAKGLRRLRHPKRSRKLKDYL 617
Query: 566 D 566
D
Sbjct: 618 D 618
>gi|407275570|ref|ZP_11104040.1| RNA polymerase sigma factor SigB [Rhodococcus sp. P14]
gi|452960741|gb|EME66056.1| RNA polymerase sigma factor SigB [Rhodococcus ruber BKS 20-38]
Length = 320
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 111/303 (36%), Positives = 183/303 (60%), Gaps = 17/303 (5%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAI-G 313
D +R++L G LL+A +E EL +I+ + L +Q L+E K +
Sbjct: 22 DLVRVYLNGIGRTALLSAADEVELAKRIE---------AGLYAQH-----LLETKKRLTA 67
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
RDL + G ++R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 68 AKKRDLAILVRDGQAARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKF 127
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR-LYIQEGNHSP 432
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR L+ Q G +
Sbjct: 128 DYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREAT 187
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
D E L+ GI VEK+ L+ +R P+S+ PV D++ + D + +V
Sbjct: 188 DDE-LSAESGIPVEKIGDLLDHSRDPVSLDMPVGNDEEAPLGDFIEDAEATSAENAVIAG 246
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
L+ VR++L L+ +E+ ++RLR+G++DG+P++L ++G +FGLS+ERVRQ+E + +L
Sbjct: 247 LLHSDVRSVLATLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMGKL 306
Query: 553 KQS 555
++
Sbjct: 307 REG 309
>gi|255972833|ref|ZP_05423419.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis T1]
gi|255963851|gb|EET96327.1| RNA polymerase sigma factor RpoD [Enterococcus faecalis T1]
Length = 368
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 98/304 (32%), Positives = 172/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L +LLTA EE EL +I++
Sbjct: 92 GVKINDPVRMYLKEIGRVQLLTAAEEVELALKIEE------------------------- 126
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 127 ---------------GDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 171
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 172 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 231
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 232 REPTPEEIGAEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAEHA 291
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 292 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 351
Query: 550 YRLK 553
+L+
Sbjct: 352 RKLR 355
>gi|339010526|ref|ZP_08643096.1| RNA polymerase sigma factor RpoD [Brevibacillus laterosporus LMG
15441]
gi|338772681|gb|EGP32214.1| RNA polymerase sigma factor RpoD [Brevibacillus laterosporus LMG
15441]
Length = 374
Score = 196 bits (497), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 99/304 (32%), Positives = 173/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+A+EE +L +I+
Sbjct: 98 GIKINDPVRMYLKEIGRVPLLSAEEEIKLAQRIE-------------------------- 131
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGL+K+
Sbjct: 132 --------------QGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKA 177
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF Q G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +QE
Sbjct: 178 VEKFDYQKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELG 237
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++A ++ +T EK+ ++ I + P+S++ P+ + D+ + D P +
Sbjct: 238 REPAPEEIAEKMDLTPEKVREIMKIAQEPVSLETPIGEEDDSHLGDFIEDQEALAPSDAA 297
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 298 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 357
Query: 550 YRLK 553
+L+
Sbjct: 358 RKLR 361
>gi|418474803|ref|ZP_13044260.1| RNA polymerase principal sigma factor [Streptomyces coelicoflavus
ZG0656]
gi|371544573|gb|EHN73276.1| RNA polymerase principal sigma factor [Streptomyces coelicoflavus
ZG0656]
Length = 390
Score = 195 bits (496), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 89/241 (36%), Positives = 158/241 (65%)
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA
Sbjct: 150 GRLAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 209
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P ++A + +
Sbjct: 210 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTPREVAAHLDLPA 269
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
E++ ++ + + P+S+ PV ++D ++ D P S L+RQH+ +L+ L
Sbjct: 270 ERVGEVLRLAQEPVSLYTPVGEEEDVALGDLIEDGDAASPVESAAFLLLRQHLEAVLSTL 329
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYA 565
+ER +V+LR+G+ DG+P++L E+G +FG+++ER+RQ+ES+ L +L+ GY
Sbjct: 330 GERERKVVQLRYGLVDGRPRTLEEIGRLFGVTRERIRQIESKTLNKLRDHAYADQLRGYL 389
Query: 566 D 566
D
Sbjct: 390 D 390
>gi|358467947|ref|ZP_09177606.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. oral taxon 370
str. F0437]
gi|357066209|gb|EHI76365.1| RNA polymerase sigma factor RpoD [Fusobacterium sp. oral taxon 370
str. F0437]
Length = 466
Score = 195 bits (496), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 88/224 (39%), Positives = 151/224 (67%)
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVR 390
+KLI +NLRLVV +AK++ RG+ L DL+QEG++GLMK+VEKF+ G +F++YA WW+R
Sbjct: 230 QKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWWIR 289
Query: 391 QTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLER 450
Q I +AI RTIR+P ++ ++K+ + R+Y+QE E LA R+G+ VEK++
Sbjct: 290 QAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVEKIKA 349
Query: 451 LIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKER 510
+ + + P+S++ PV +++D+ + D P + + ++R+ + +L L+P+E
Sbjct: 350 IQEMNQEPISLETPVGSEEDSELGDFVEDQKTTSPYEATNRAILREELDGVLKTLSPREE 409
Query: 511 CIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++R R+G++D PK+L EVG IF +++ER+RQ+E +AL +L+
Sbjct: 410 KVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRH 453
>gi|375092093|ref|ZP_09738378.1| RNA polymerase sigma factor rpoD [Helcococcus kunzii ATCC 51366]
gi|374561859|gb|EHR33196.1| RNA polymerase sigma factor rpoD [Helcococcus kunzii ATCC 51366]
Length = 675
Score = 195 bits (496), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 93/255 (36%), Positives = 164/255 (64%), Gaps = 3/255 (1%)
Query: 313 GLSCRD---LKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
GL D LK + G +++ KL NLRLVV +AK+Y GRG+S DL+QEG++GLMK+
Sbjct: 417 GLEDEDIKYLKKKYRIGKAAKGKLAETNLRLVVSIAKRYVGRGMSFLDLIQEGNLGLMKA 476
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +QE
Sbjct: 477 VEKFDYKRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLVQELG 536
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
+P E++A+ + I V+K+ + I + P+S++ P+ + D+ + D PD +
Sbjct: 537 RTPTNEEIAKEMNIDVDKVREVRKIAQEPVSLEAPIGEEDDSHLGDFIEDERALAPDEAA 596
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+ ++++ + ++L+ L+ +E+ ++ LRFG+ DG PK+L +VG F +++ER+RQ+E++A+
Sbjct: 597 NQTMLKEQLEDILSSLSEREKRVIELRFGLIDGVPKTLEDVGKEFDVTRERIRQIEAKAI 656
Query: 550 YRLKQSLGGKASYGY 564
+LK+ G Y
Sbjct: 657 RKLKRPGKGDKIRDY 671
>gi|343522741|ref|ZP_08759707.1| RNA polymerase sigma factor RpoD [Actinomyces sp. oral taxon 175
str. F0384]
gi|343402150|gb|EGV14656.1| RNA polymerase sigma factor RpoD [Actinomyces sp. oral taxon 175
str. F0384]
Length = 572
Score = 195 bits (496), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 101/304 (33%), Positives = 181/304 (59%), Gaps = 20/304 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLI----RLEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E EL +I+ + RL +E + L ++ RE + W
Sbjct: 273 DPVKDYLKQIGKVALLNAEQEVELAKRIEAGLYAEHRLAEEGNDLPAKLRRE---LHWVA 329
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 330 -------------QDGQRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 376
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 377 EKFDYTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGR 436
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P E+LA + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V
Sbjct: 437 EPTPEELAVELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVS 496
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + +L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ +
Sbjct: 497 FTLLQEQLHAVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 556
Query: 551 RLKQ 554
+L+
Sbjct: 557 KLRH 560
>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 = 195 bits (496), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 102/287 (35%), Positives = 181/287 (63%), Gaps = 1/287 (0%)
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 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++E+++ ANLRLVV VAK+Y R + L DL+QEG++GL++ VEKF P G +F++YAYWW
Sbjct: 100 AKERMVAANLRLVVSVAKKYTKRNMELLDLIQEGTIGLVRGVEKFDPTRGYKFSTYAYWW 159
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI + SR+IRLP +I +L+K+ + +R QE + +P ++L+ V + +
Sbjct: 160 IRQGITRAIAEKSRSIRLPIHITEMLNKLKKGQRELSQELSRTPTLKELSEYVELPETDV 219
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+ L+ P+S++ + +DT ++ ++ +++P ++ M+ + LL L
Sbjct: 220 KDLMSRAGQPVSLETKIGDGEDTILLDLLSNE-IDMPSEQIESDCMKGDLETLLEQLPEL 278
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
+ ++R+R+G++ P SL+ +G + G+S++RVR LE L L+++
Sbjct: 279 QNRVLRMRYGMDGDDPMSLTGIGRVLGISRDRVRNLERDGLRGLRKT 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 = 195 bits (496), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 106/302 (35%), Positives = 178/302 (58%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 146 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREAT 205
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI ++K+ L+ +R P+S+ PV ++++ + D + +V +L
Sbjct: 206 DEELAAESGIPIDKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAEL 265
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 266 LHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLR 325
Query: 554 QS 555
Sbjct: 326 HG 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 = 195 bits (496), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 106/302 (35%), Positives = 178/302 (58%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 131 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQHLGREAT 190
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI ++K+ L+ +R P+S+ PV ++++ + D + +V +L
Sbjct: 191 DEELAAESGIPIDKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAEL 250
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 251 LHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLR 310
Query: 554 QS 555
Sbjct: 311 HG 312
>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 = 195 bits (496), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 106/301 (35%), Positives = 189/301 (62%), Gaps = 17/301 (5%)
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 --SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
++++KLINANLRLVV +AK+Y RG+ DL+QEG++GL+K+VEKF+ + G +F++YA
Sbjct: 378 LKNAKDKLINANLRLVVSIAKKYINRGLQFFDLVQEGNIGLIKAVEKFEYRKGYKFSTYA 437
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ I ++I +RTIR+P ++ ++KV R +Q+ P+ +++A ++G ++
Sbjct: 438 TWWIRQAITRSISDQARTIRVPVHMIEQINKVNRESRQLMQKLGREPNDDEIALQLGWSI 497
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
EK++++ + R P+S++ P+ ++DT ++ D GVE P + L+++ + +L+ L
Sbjct: 498 EKVKQVKNVAREPISLETPIGEEEDTLLGDLIEDKGVENPSNRTELTLLQEQLEMVLSSL 557
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYA 565
+E+ ++++RFGIE G P +L EVG F +++ER+RQ+E++ L RL+ + Y
Sbjct: 558 PEREQEVLKMRFGIEGGYPLTLEEVGLYFDVTRERIRQIEAKGLRRLRHPKRSRKLKDYL 617
Query: 566 D 566
D
Sbjct: 618 D 618
>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 = 195 bits (496), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 106/302 (35%), Positives = 179/302 (59%), Gaps = 15/302 (4%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 127 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREAT 186
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI ++K+ L+ +R P+S+ PV ++++ + D + +V +L
Sbjct: 187 DEELAAESGIPIDKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAEL 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 247 LHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLR 306
Query: 554 QS 555
Sbjct: 307 NG 308
>gi|383808262|ref|ZP_09963813.1| RNA polymerase sigma factor RpoD [Rothia aeria F0474]
gi|383448918|gb|EID51864.1| RNA polymerase sigma factor RpoD [Rothia aeria F0474]
Length = 491
Score = 195 bits (496), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 98/300 (32%), Positives = 180/300 (60%), Gaps = 13/300 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A +E +L +I+ + E KL +P L
Sbjct: 193 DPVKDYLKQIGKVSLLNAQQEVDLAMRIEAGLYAEH---KLADNPDMDPKL--------- 240
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
++L+ +H G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 241 -KKELRWVIHDGKRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 299
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 300 YSKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 359
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+L + + + EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L+
Sbjct: 360 EELGKELDMAPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLL 419
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 420 QEQLHSVLDTLSEREAGVVAMRFGMTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRH 479
>gi|347525279|ref|YP_004832027.1| RNA polymerase sigma factor RpoD [Lactobacillus ruminis ATCC 27782]
gi|345284238|gb|AEN78091.1| RNA polymerase sigma factor RpoD [Lactobacillus ruminis ATCC 27782]
Length = 373
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 98/304 (32%), Positives = 173/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTA+EE +L +I++
Sbjct: 97 GVKINDPVRMYLKEIGRVNLLTAEEEKQLALRIEE------------------------- 131
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+S DL+QEG+MGLMK+
Sbjct: 132 ---------------GDEEAKQRLAEANLRLVVSIAKRYVGRGMSFLDLIQEGNMGLMKA 176
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 177 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQMLQDLG 236
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 237 REPIPEEIGAEMNLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDHAATSPADHA 296
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 297 AYELLKEQIESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 356
Query: 550 YRLK 553
+L+
Sbjct: 357 RKLR 360
>gi|357237237|ref|ZP_09124580.1| RNA polymerase sigma factor RpoD [Streptococcus criceti HS-6]
gi|356885219|gb|EHI75419.1| RNA polymerase sigma factor RpoD [Streptococcus criceti HS-6]
Length = 369
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 107/326 (32%), Positives = 181/326 (55%), Gaps = 50/326 (15%)
Query: 229 QVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRL 288
++T+ E S A V NDP+R++L LLT DEE EL
Sbjct: 81 ELTDEELIGSNSAKV----------NDPVRMYLKEIGVVPLLTNDEEKEL---------- 120
Query: 289 EKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQY 348
AI + DL ++++L ANLRLVV +AK+Y
Sbjct: 121 ----------------------AIAAAEGDL--------MAKQRLAEANLRLVVSIAKRY 150
Query: 349 QGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPE 408
GRG+ DL+QEG+MGLMK+V+KF G +F++YA WW+RQ I +AI +RTIR+P
Sbjct: 151 VGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPV 210
Query: 409 NIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWAD 468
++ ++K++ +R +QE P E +A R+ +T +K+ ++ I + P+S++ P+ +
Sbjct: 211 HMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEE 270
Query: 469 QDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLS 528
D+ + D +E P + ++R+ + ++L L +E ++RLRFG++DGK ++L
Sbjct: 271 DDSHLGDFIEDEVIENPVDYTTRIVLREQLNDVLDTLTDREENVLRLRFGLDDGKMRTLE 330
Query: 529 EVGNIFGLSKERVRQLESRALYRLKQ 554
+VG +F +++ER+RQ+E++AL +L+
Sbjct: 331 DVGKVFNVTRERIRQIEAKALRKLRH 356
>gi|296093150|gb|ADG89102.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Thermobispora
bispora DSM 43833]
Length = 555
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 102/303 (33%), Positives = 181/303 (59%), Gaps = 20/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLI----RLEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E EL +I+ + +L KE KL E +EW
Sbjct: 256 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAEEQLAKEGDKLPPDVKAE---LEWIA 312
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 313 -------------EDGKRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 359
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 360 EKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGR 419
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P E+LAR + +T EK+ + R P+S+ P+ + D+ F ++ D+ +P +V
Sbjct: 420 EPTPEELARELDMTPEKVIEVQKYGREPISLHTPLGEEGDSEFGDLIEDSEAVVPADAVS 479
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ +
Sbjct: 480 FTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 539
Query: 551 RLK 553
+L+
Sbjct: 540 KLR 542
>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 = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 98/304 (32%), Positives = 173/304 (56%), Gaps = 40/304 (13%)
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 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 173 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 232
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 233 REPTPEEIGAEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPAEHA 292
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 293 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 352
Query: 550 YRLK 553
+L+
Sbjct: 353 RKLR 356
>gi|289570879|ref|ZP_06451106.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis T17]
gi|289544633|gb|EFD48281.1| RNA polymerase sigma factor sigA [Mycobacterium tuberculosis T17]
Length = 528
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 99/300 (33%), Positives = 182/300 (60%), Gaps = 9/300 (3%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R +L LL A+EE EL +I+ + + ++L + + P G+
Sbjct: 226 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKLP---------GI 276
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RD+ G+ ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+++VEKF
Sbjct: 277 HHRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFD 336
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 337 YTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTP 396
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA+ + IT EK+ + R P+S+ Q + + D+ + D+ + +V L+
Sbjct: 397 EELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFTLL 456
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 457 QDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRH 516
>gi|254386999|ref|ZP_05002279.1| RNA polymerase sigma factor [Streptomyces sp. Mg1]
gi|194345824|gb|EDX26790.1| RNA polymerase sigma factor [Streptomyces sp. Mg1]
Length = 520
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 101/299 (33%), Positives = 181/299 (60%), Gaps = 13/299 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E EL +I+ + E KL + P L
Sbjct: 222 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAE---DKLANSDKLAPKL--------- 269
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
R+L+ G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 270 -KRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 328
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 329 YTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 388
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L+
Sbjct: 389 EELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLL 448
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 449 QEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLR 507
>gi|417885525|ref|ZP_12529679.1| RNA polymerase sigma factor RpoD [Lactobacillus oris F0423]
gi|341595447|gb|EGS38096.1| RNA polymerase sigma factor RpoD [Lactobacillus oris F0423]
Length = 380
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 99/304 (32%), Positives = 171/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE +L +I+
Sbjct: 104 GVKINDPVRMYLKEIGRVNLLTADEEVKLALRIE-------------------------- 137
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 138 --------------QGDEVAKQQLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 183
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 184 VEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 243
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 244 REPLPEEIGAEMDMPTEKVRNILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPADHA 303
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
++M++ + N+L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 304 AYEMMKKQLENVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 363
Query: 550 YRLK 553
+L+
Sbjct: 364 RKLR 367
>gi|239631415|ref|ZP_04674446.1| DNA-directed RNA polymerase [Lactobacillus paracasei subsp.
paracasei 8700:2]
gi|409997357|ref|YP_006751758.1| RNA polymerase sigma factor rpoD [Lactobacillus casei W56]
gi|417983523|ref|ZP_12624159.1| RNA polymerase sigma factor [Lactobacillus casei 21/1]
gi|417986865|ref|ZP_12627430.1| RNA polymerase sigma factor [Lactobacillus casei 32G]
gi|418005214|ref|ZP_12645210.1| RNA polymerase sigma factor [Lactobacillus casei UW1]
gi|239525880|gb|EEQ64881.1| DNA-directed RNA polymerase [Lactobacillus paracasei subsp.
paracasei 8700:2]
gi|406358369|emb|CCK22639.1| RNA polymerase sigma factor rpoD [Lactobacillus casei W56]
gi|410524599|gb|EKP99507.1| RNA polymerase sigma factor [Lactobacillus casei 32G]
gi|410527792|gb|EKQ02654.1| RNA polymerase sigma factor [Lactobacillus casei 21/1]
gi|410547467|gb|EKQ21700.1| RNA polymerase sigma factor [Lactobacillus casei UW1]
Length = 352
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 98/304 (32%), Positives = 171/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE L +I+
Sbjct: 76 GVKINDPVRMYLKEIGRVSLLTADEEVALALKIE-------------------------- 109
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 110 --------------QGDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 155
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 156 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 215
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P+
Sbjct: 216 REPTPEEIGAEMDMPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPEDHA 275
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 276 SYELLKEQLESVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 335
Query: 550 YRLK 553
+L+
Sbjct: 336 RKLR 339
>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 = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 110/301 (36%), Positives = 181/301 (60%), Gaps = 17/301 (5%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR-LYIQEGNHSP 432
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR L+ Q G +
Sbjct: 129 DYAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREAT 188
Query: 433 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQ 492
D E LA GI EK+ L+ +R P+S+ PV +D++ + DT + V
Sbjct: 189 DDE-LAAESGIPAEKIADLLDHSRDPVSLDMPVGSDEEAPLGDFIEDTEATSAENVVIAG 247
Query: 493 LMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRL 552
L+ +R++L L+ +E+ ++R+R+G++DG+P++L ++G FGLS+ERVRQ+E + +L
Sbjct: 248 LLHSDIRSVLATLDDREQQVIRMRYGLDDGQPRTLDQIGRAFGLSRERVRQIEREVMVKL 307
Query: 553 K 553
+
Sbjct: 308 R 308
>gi|299535819|ref|ZP_07049140.1| RNA polymerase sigma factor [Lysinibacillus fusiformis ZC1]
gi|424735380|ref|ZP_18163844.1| RNA polymerase sigma factor [Lysinibacillus fusiformis ZB2]
gi|298729019|gb|EFI69573.1| RNA polymerase sigma factor [Lysinibacillus fusiformis ZC1]
gi|422950582|gb|EKU44950.1| RNA polymerase sigma factor [Lysinibacillus fusiformis ZB2]
Length = 375
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 101/324 (31%), Positives = 180/324 (55%), Gaps = 44/324 (13%)
Query: 231 TNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEK 290
N ET++ SV G NDP+R++L LL+A++E L +I+
Sbjct: 84 ANEETFDLNDLSVPP----GVKINDPVRMYLKEIGRVDLLSAEQEIALAERIE------- 132
Query: 291 EKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQG 350
+R++L ANLRLVV +AK+Y G
Sbjct: 133 ---------------------------------QGDEEARKRLAEANLRLVVSIAKRYVG 159
Query: 351 RGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENI 410
RG+ DL+QEG+MGL+K+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++
Sbjct: 160 RGMLFLDLIQEGNMGLIKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHM 219
Query: 411 YTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQD 470
++K++ +R +Q+ P E++ + +T EK+ ++ I + P+S++ P+ + D
Sbjct: 220 VETINKLIRVQRQLLQDLGREPSPEEIGEEMDLTPEKVREILKIAQEPVSLETPIGEEDD 279
Query: 471 TTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEV 530
+ + D+ + P +L+++ + ++L L +E ++RLRFG++DG+ ++L EV
Sbjct: 280 SHLGDFIEDSEAQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEV 339
Query: 531 GNIFGLSKERVRQLESRALYRLKQ 554
G +FG+++ER+RQ+E++AL +L+
Sbjct: 340 GKVFGVTRERIRQIEAKALRKLRH 363
>gi|441151865|ref|ZP_20965883.1| RNA polymerase sigma factor [Streptomyces rimosus subsp. rimosus
ATCC 10970]
gi|440618851|gb|ELQ81912.1| RNA polymerase sigma factor [Streptomyces rimosus subsp. rimosus
ATCC 10970]
Length = 362
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 103/301 (34%), Positives = 183/301 (60%), Gaps = 16/301 (5%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQ-DLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP++ +L LL A++E EL +++ L EK + EPT G
Sbjct: 65 DPVKDYLKLIGKVPLLNAEQEVELAKRVEAGLFAQEKLDTG-------EPT--------G 109
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
R+L+ + G ++E L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 110 RLRRELEILVADGARAKEHLVEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKF 169
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++KV +R +Q+ P
Sbjct: 170 DYVKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEIINKVARIQRQMLQDTGREPT 229
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA+ + +T EK+ + R P+S+ P+ + D+ F ++ DT +P +V
Sbjct: 230 PEELAKELDMTPEKVMEVQKYGREPISLHTPLGDEGDSEFGDLIEDTEAVVPAEAVGFSF 289
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++Q +R +L L +E +V +R+G++DG+PK+L E+G ++G+++ER+RQ+E++ + +L+
Sbjct: 290 LQQQLRAILDTLADREAGVVSMRYGLKDGQPKTLDEIGKVYGVTRERIRQIENKTMSKLR 349
Query: 554 Q 554
Sbjct: 350 H 350
>gi|395770929|ref|ZP_10451444.1| RNA polymerase sigma factor [Streptomyces acidiscabies 84-104]
Length = 513
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 101/302 (33%), Positives = 181/302 (59%), Gaps = 19/302 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKS---KLQSQFGREPTLIEWAKA 311
DP++ +L LL A++E EL +I+ + E + S KL + RE +I
Sbjct: 215 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAEDKLSNADKLAPKLKRELEII----- 269
Query: 312 IGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VE
Sbjct: 270 -----------AEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVE 318
Query: 372 KFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHS 431
KF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 319 KFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGRE 378
Query: 432 PDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQK 491
P E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V
Sbjct: 379 PTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSF 438
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
L+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +
Sbjct: 439 TLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSK 498
Query: 552 LK 553
L+
Sbjct: 499 LR 500
>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 = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 102/296 (34%), Positives = 187/296 (63%), Gaps = 13/296 (4%)
Query: 270 LTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPT-LIEWAKAIGLSCRDLKSELHSGNS 328
++ADE E+ QIQ +++++ +L+ +F + + ++ AK I R +K
Sbjct: 312 MSADEIREVYTQIQ---KIDRKLRRLEYEFENDVSEILSMAKEIDRGRRMMKE------- 361
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ +LINANLRLVV +AK+Y RG+ DL+QEG++GL+K+VEKF+ + G +F++YA WW
Sbjct: 362 AKNRLINANLRLVVSIAKKYTNRGLQFFDLVQEGNIGLIKAVEKFEYRKGYKFSTYATWW 421
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I ++I +RTIR+P ++ ++KV+ R +Q P E++A ++G V ++
Sbjct: 422 IRQAITRSISDQARTIRVPVHMIEQINKVVRESRQLMQRFGREPTDEEIAAQLGWPVNRV 481
Query: 449 ERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPK 508
+++ + R P+S++ P+ ++D+ + D VE P +++ H+R++L L P+
Sbjct: 482 KQVKSVAREPISLETPIGEEEDSLLGDFIEDKEVENPAAKTAYTMLQDHLRSILATLPPR 541
Query: 509 ERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK--QSLGGKASY 562
E+ ++++RFG++DG +L EVG F +++ER+RQ+E++AL RL+ + GG Y
Sbjct: 542 EQEVLKMRFGLDDGFSLTLEEVGLYFNVTRERIRQIEAKALRRLRHPRRSGGLRDY 597
>gi|357588815|ref|ZP_09127481.1| RNA polymerase sigma factor SigB [Corynebacterium nuruki S6-4]
Length = 421
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 105/301 (34%), Positives = 173/301 (57%), Gaps = 13/301 (4%)
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 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q+
Sbjct: 230 YAKGYKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQQLGREATN 289
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA GI K+E L+ +R P+S+ PV +D++ + D+ + +V L
Sbjct: 290 EELADESGIDESKIEMLLKQSRDPVSLDMPVGSDEEAPLGDFIEDSEATDAEAAVVASLR 349
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
VR +L L+ +E+ ++++R+G++DG P++L ++G FGLS+ERVRQ+E + +L++
Sbjct: 350 HSDVRAVLDTLDEREQDVIKMRYGLDDGMPRTLDQIGRSFGLSRERVRQIEREVMAKLRE 409
Query: 555 S 555
Sbjct: 410 G 410
>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 = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 106/314 (33%), Positives = 180/314 (57%), Gaps = 40/314 (12%)
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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
+ G RF++YA WW+RQ I +AI RTIRLP ++ +++ QE P
Sbjct: 147 DWRRGYRFSTYATWWIRQAITRAIADQGRTIRLPVHMTDSITRYHRTTTQLAQELGRQPT 206
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++A + + EK+ +++ + +S+ QP+ + +T+ ++ AD + P+ ++ L
Sbjct: 207 PEEIAEAMSVQPEKIAQIVRAAQRAVSLDQPLSEEDETSLGDLIADELAQSPEELAEESL 266
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
MR+ + +L +L P+ER +++LR+G+ DG+P++L+EVG++ G+S+ERVRQ+E+ AL +L+
Sbjct: 267 MRRDIAEILEMLTPRERLVLQLRYGLSDGEPRTLAEVGDLLGISRERVRQIENEALRKLR 326
Query: 554 QSLGGKASYGYADL 567
+ + + YA +
Sbjct: 327 RIARERLAEYYAGI 340
>gi|341820065|emb|CCC56296.1| DNA-directed RNA polymerase sigma subunit RpoD [Weissella
thailandensis fsh4-2]
Length = 378
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 87/236 (36%), Positives = 157/236 (66%), Gaps = 1/236 (0%)
Query: 319 LKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
L + SG+ +++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+VEKF +
Sbjct: 130 LAERIESGDETAKQELAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRK 189
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+ P E++
Sbjct: 190 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRNLLQDLGREPTPEEI 249
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
+ + +K+ ++ I + P+S++ P+ + D+ + D P S Q++++
Sbjct: 250 GAEMDVATDKVRDILKIAQEPVSLETPIGEEDDSHLGDFIEDNEAVSPADSAAYQMLKEQ 309
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ ++L L +E ++RLRFG+EDG+ ++L EVG +FG+++ER+RQ+E++AL +L+
Sbjct: 310 LESVLDTLTDREENVLRLRFGLEDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 365
>gi|357392296|ref|YP_004907137.1| putative RNA polymerase major sigma factor [Kitasatospora setae
KM-6054]
gi|311898773|dbj|BAJ31181.1| putative RNA polymerase major sigma factor [Kitasatospora setae
KM-6054]
Length = 541
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 101/302 (33%), Positives = 181/302 (59%), Gaps = 19/302 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKS---KLQSQFGREPTLIEWAKA 311
DP++ +L LL A++E EL +I+ + E + S KL + RE +I
Sbjct: 243 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAEDKLSQADKLAPKLKRELEIIA---- 298
Query: 312 IGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VE
Sbjct: 299 ------------EDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVE 346
Query: 372 KFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHS 431
KF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 347 KFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGRE 406
Query: 432 PDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQK 491
P E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V
Sbjct: 407 PTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSF 466
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
L+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +
Sbjct: 467 TLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSK 526
Query: 552 LK 553
L+
Sbjct: 527 LR 528
>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 = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 105/306 (34%), Positives = 184/306 (60%), Gaps = 23/306 (7%)
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 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
++VEKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 268 RAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQD 327
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDI 487
P E+LA+ + IT EK+ + R P+S+ Q + + D+ + D+ +
Sbjct: 328 LGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVD 387
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
+V L++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+
Sbjct: 388 AVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESK 447
Query: 548 ALYRLK 553
+ +L+
Sbjct: 448 TMSKLR 453
>gi|46445811|ref|YP_007176.1| RNA polymerase sigma factor [Candidatus Protochlamydia amoebophila
UWE25]
gi|46399452|emb|CAF22901.1| probable transcription initiation factor sigma 70 [Candidatus
Protochlamydia amoebophila UWE25]
Length = 554
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 95/265 (35%), Positives = 164/265 (61%), Gaps = 7/265 (2%)
Query: 311 AIGLSCRDLKSE-------LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGS 363
A G S D K + + ++ +++ +NLRLV+ +AK+Y RG+S DL+QEG+
Sbjct: 287 AAGRSLDDFKKDVKMLQRWMDKSQEAKREMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 346
Query: 364 MGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRL 423
MGLMK+VEKF+ + G +F++YA WW+RQ + +AI +RTIR+P ++ ++KVL +
Sbjct: 347 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 406
Query: 424 YIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVE 483
+ E P E+LA+ +GIT E++ + I + P+S+Q V ++ F + DTG +
Sbjct: 407 LMMETGREPSPEELAKELGITAERVREIYKIAQHPISLQAEVGDGGESQFGDFLEDTGAD 466
Query: 484 IPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQ 543
P + +++ + +L+ L+ +ER ++ RFG+ DGKPK+L EVG F +++ER+RQ
Sbjct: 467 SPAEATGYSILKDKMGEVLSTLSDRERKVLIQRFGLLDGKPKTLEEVGVEFNVTRERIRQ 526
Query: 544 LESRALYRLKQSLGGKASYGYADLL 568
+E++AL +++ + K + DLL
Sbjct: 527 IEAKALRKMRHPIRSKQLKAFLDLL 551
>gi|259503187|ref|ZP_05746089.1| RNA polymerase sigma factor [Lactobacillus antri DSM 16041]
gi|259168844|gb|EEW53339.1| RNA polymerase sigma factor [Lactobacillus antri DSM 16041]
Length = 380
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 99/304 (32%), Positives = 171/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE +L +I+
Sbjct: 104 GVKINDPVRMYLKEIGRVNLLTADEEVKLALRIE-------------------------- 137
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 138 --------------QGDEVAKQQLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 183
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 184 VEKFDYRRGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 243
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 244 REPLPEEIGAEMDMPTEKVRNILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPADHA 303
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
++M++ + N+L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 304 AYEMMKKQLENVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 363
Query: 550 YRLK 553
+L+
Sbjct: 364 RKLR 367
>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 = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 103/306 (33%), Positives = 183/306 (59%), Gaps = 23/306 (7%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQI-------QDLIRLEKEKSKLQSQFGREPTLIE 307
D +R +L LL A+EE EL +I Q + ++ KL +Q R+ +
Sbjct: 179 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLFATQKMAEFAEKGEKLTTQVRRD---YQ 235
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
W CRD G+ ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+
Sbjct: 236 WI------CRD-------GDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLI 282
Query: 368 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
++VEKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 283 RAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQD 342
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDI 487
P E+LA+ + IT EK+ + R P+S+ Q + + D+ + D+ +
Sbjct: 343 LGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVD 402
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
+V L++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+
Sbjct: 403 AVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESK 462
Query: 548 ALYRLK 553
+ +L+
Sbjct: 463 TMSKLR 468
>gi|311111671|ref|YP_003982893.1| DNA-directed RNA polymerase sigma subunit RpoD [Rothia dentocariosa
ATCC 17931]
gi|310943165|gb|ADP39459.1| DNA-directed RNA polymerase sigma subunit RpoD [Rothia dentocariosa
ATCC 17931]
Length = 468
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 98/300 (32%), Positives = 180/300 (60%), Gaps = 13/300 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A +E +L +I+ + E KL +P L
Sbjct: 170 DPVKDYLKQIGKVSLLNAQQEVDLAMRIEAGLYAEH---KLADNPDMDPKL--------- 217
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
++L+ +H G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 218 -KKELRWVIHDGKRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 276
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 277 YSKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 336
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+L + + + EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L+
Sbjct: 337 EELGKELDMAPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLL 396
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 397 QEQLHSVLDTLSEREAGVVAMRFGMTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRH 456
>gi|377561657|ref|ZP_09791100.1| RNA polymerase sigma factor SigB [Gordonia otitidis NBRC 100426]
gi|377521219|dbj|GAB36265.1| RNA polymerase sigma factor SigB [Gordonia otitidis NBRC 100426]
Length = 337
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 108/302 (35%), Positives = 176/302 (58%), Gaps = 15/302 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A++E EL QI+ + + L +
Sbjct: 39 DLVRVYLNGIGRTALLNAEQEVELAKQIE-------------AGLYAKHVLENRKRLTAA 85
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDL + G +R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 86 KKRDLAIVVREGEIARAHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 145
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKR-LYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR L+ Q G + D
Sbjct: 146 YAKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLGREATD 205
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E LA GI EK+ L+ +R P+S+ PV +D++ + D + +V L
Sbjct: 206 DE-LANESGIPAEKIADLLDHSRDPVSLDMPVGSDEEAPLGDFIEDAEATSAESAVIAGL 264
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ VR +L L+ +E+ ++R+R+G++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 265 LHSDVRAVLATLDEREQQVIRMRYGLDDGQPRTLDQIGRMFGLSRERVRQIEREVMGKLR 324
Query: 554 QS 555
Q
Sbjct: 325 QG 326
>gi|400291844|ref|ZP_10793831.1| RNA polymerase sigma factor RpoD [Actinomyces naeslundii str.
Howell 279]
gi|399903052|gb|EJN85820.1| RNA polymerase sigma factor RpoD [Actinomyces naeslundii str.
Howell 279]
Length = 555
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 101/304 (33%), Positives = 181/304 (59%), Gaps = 20/304 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLI----RLEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E EL +I+ + RL +E + L ++ RE + W
Sbjct: 256 DPVKDYLKQIGKVALLNAEQEVELAKRIEAGLYAEHRLAEEGNDLPAKLRRE---LHWVA 312
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 313 -------------QDGQRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 359
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 360 EKFDYTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGR 419
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P E+LA + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V
Sbjct: 420 EPTPEELAVELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVS 479
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + +L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ +
Sbjct: 480 FTLLQEQLHAVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 539
Query: 551 RLKQ 554
+L+
Sbjct: 540 KLRH 543
>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 = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 108/298 (36%), Positives = 172/298 (57%), Gaps = 23/298 (7%)
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 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G RF++YAYWW+RQ + +AI SR IRLP +I L+K+ +A+R Q + E++
Sbjct: 245 GYRFSTYAYWWIRQGMTRAIATQSRMIRLPVHITEKLNKIKKAQRKISQMRGRTATVEEI 304
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQH 497
A+ + +T E + ++ +S++ V ++DT ++ V + V + L R
Sbjct: 305 AQELALTPEAVREVLMTVPRSVSLEIKVGKEKDTELLDLLETEAVSSENHLVYESLQRD- 363
Query: 498 VRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
+R LL L +ER ++ LR+G DGK SL+++G LS+ERVRQ+E +AL +L+QS
Sbjct: 364 IRELLADLTTRERQVIELRYGFLDGKSHSLADIGRTLALSRERVRQIELKALQKLRQS 421
>gi|400536819|ref|ZP_10800353.1| RNA polymerase sigma factor SigB [Mycobacterium colombiense CECT
3035]
gi|400329832|gb|EJO87331.1| RNA polymerase sigma factor SigB [Mycobacterium colombiense CECT
3035]
Length = 319
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 107/302 (35%), Positives = 178/302 (58%), Gaps = 15/302 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A E EL +I+ + E L+ K +G
Sbjct: 21 DLVRVYLNGIGKTALLNAAGEVELAKRIEAGLYAEH--------------LLATRKRLGE 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 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q
Sbjct: 127 DYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKREMHQNLGREAT 186
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E+LA GI VEK+ L+ +R P+S+ PV ++++ + D + +V +L
Sbjct: 187 DEELAAESGIPVEKINDLLEHSRDPVSLDMPVGSEEEAPLGDFIEDAEAMSAENAVIAEL 246
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+ +R++L L+ +E ++RLRFG++DG+P++L ++G +FGLS+ERVRQ+E + +L+
Sbjct: 247 LHTDIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLR 306
Query: 554 QS 555
Sbjct: 307 NG 308
>gi|297736323|emb|CBI24961.3| unnamed protein product [Vitis vinifera]
Length = 319
Score = 195 bits (496), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 107/294 (36%), Positives = 168/294 (57%)
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 ASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRV 441
++Y YWW+RQ I +AI SR IRLP +I +++K+ EA+ + + P +++A +
Sbjct: 135 STYVYWWIRQAIVRAIANKSRIIRLPGSICEMVAKIAEARTVLSRRLRRLPTYDEIAEFI 194
Query: 442 GITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNL 501
+ V + + +R P+S+ Q V + T QEI P V++QLM+Q V
Sbjct: 195 DVNVSTVRLVSERSRTPISVDQAVTSQGCMTLQEIIPGPDETTPQKMVKRQLMKQEVERA 254
Query: 502 LTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQS 555
L L +E I+RL FGI P S E+G + LS+ERVRQ+ S AL +L+Q+
Sbjct: 255 LNTLCEREAYILRLYFGINGETPLSFEEIGRLMKLSRERVRQINSIALSKLRQT 308
>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 = 195 bits (495), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 105/306 (34%), Positives = 184/306 (60%), Gaps = 23/306 (7%)
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 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
++VEKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 282 RAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQD 341
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDI 487
P E+LA+ + IT EK+ + R P+S+ Q + + D+ + D+ +
Sbjct: 342 LGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVD 401
Query: 488 SVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESR 547
+V L++ ++++L L+ +E +VRLRFG+ DG+P++L E+G ++G+++ER+RQ+ES+
Sbjct: 402 AVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESK 461
Query: 548 ALYRLK 553
+ +L+
Sbjct: 462 TMSKLR 467
>gi|379056856|ref|ZP_09847382.1| RNA polymerase sigma-70 subunit RpoD [Serinicoccus profundi MCCC
1A05965]
Length = 545
Score = 195 bits (495), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 102/303 (33%), Positives = 184/303 (60%), Gaps = 19/303 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQ-DLIRLEKEKS--KLQSQFGREPTLIEWAKA 311
DP++ +L LL A++E EL +I+ L EK S K++++ RE + W
Sbjct: 247 DPVKDYLKQIGKVALLNAEQEVELAKRIEAGLFAEEKLNSGEKIEAKLKRE---LWWIS- 302
Query: 312 IGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVE 371
+ G +++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VE
Sbjct: 303 ------------NDGKNAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVE 350
Query: 372 KFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHS 431
KF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 351 KFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGRE 410
Query: 432 PDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQK 491
P E+LA + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V
Sbjct: 411 PTPEELAAELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSF 470
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
L+++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +
Sbjct: 471 TLLQEQLHSVLDTLSEREAGVVSMRFGLSDGQPKTLDEIGKVYGVTRERIRQIESKTMSK 530
Query: 552 LKQ 554
L+
Sbjct: 531 LRH 533
>gi|21220928|ref|NP_626707.1| RNA polymerase principal sigma factor [Streptomyces coelicolor
A3(2)]
gi|289771799|ref|ZP_06531177.1| RNA polymerase principal sigma factor hrdA [Streptomyces lividans
TK24]
gi|19856645|sp|P18182.2|HRDA_STRCO RecName: Full=RNA polymerase principal sigma factor HrdA
gi|6759560|emb|CAB69753.1| RNA polymerase principal sigma factor [Streptomyces coelicolor
A3(2)]
gi|289701998|gb|EFD69427.1| RNA polymerase principal sigma factor hrdA [Streptomyces lividans
TK24]
Length = 396
Score = 195 bits (495), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 89/241 (36%), Positives = 157/241 (65%)
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYA 385
G ++ +LI ANLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF G +F++YA
Sbjct: 156 GRLAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 215
Query: 386 YWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITV 445
WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE P +++A + +
Sbjct: 216 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGCEPTPQEVAAHLDLAP 275
Query: 446 EKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLL 505
E++ ++ + + P+S+ PV + D ++ D P S L+RQH+ +L+ L
Sbjct: 276 ERVGEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLLLRQHLEAVLSTL 335
Query: 506 NPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQSLGGKASYGYA 565
+ER +V+LR+G+ DG+P++L E+G +FG+++ER+RQ+ES+ L +L+ GY
Sbjct: 336 GERERKVVQLRYGLADGRPRTLEEIGRLFGVTRERIRQIESKTLSKLRDHAYADQLRGYL 395
Query: 566 D 566
D
Sbjct: 396 D 396
>gi|125973412|ref|YP_001037322.1| RNA polymerase sigma factor RpoD [Clostridium thermocellum ATCC
27405]
gi|125713637|gb|ABN52129.1| RNA polymerase, sigma 70 subunit, RpoD subfamily [Clostridium
thermocellum ATCC 27405]
Length = 358
Score = 195 bits (495), Expect = 6e-47, Method: Compositional matrix adjust.
Identities = 102/320 (31%), Positives = 178/320 (55%), Gaps = 40/320 (12%)
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
+ EG +DP+R++L LLTA+EE EL +I+
Sbjct: 79 IPEGISIDDPVRMYLKEIGKVPLLTAEEEIELAHRIE----------------------- 115
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
++ +L ANLRLVV +AK+Y GRG+ DL+QEG++GL
Sbjct: 116 -----------------QGDAEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNLGL 158
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
+K+VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +Q
Sbjct: 159 IKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQ 218
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPD 486
E P E++A+ + + VEK+ ++ I++ P+S++ P+ ++D+ + D P
Sbjct: 219 ELGREPHPEEIAKEMNMPVEKVREIMKISQEPVSLETPIGEEEDSHLGDFIPDDDAPAPS 278
Query: 487 ISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLES 546
+ L+++ + ++L L P+E ++RLRFG++DG+ ++L EVG F +++ER+RQ+E+
Sbjct: 279 EAAAFTLLKEQLVDVLDTLTPREEKVLRLRFGLDDGRARTLEEVGKEFNVTRERIRQIEA 338
Query: 547 RALYRLKQSLGGKASYGYAD 566
+AL +L+ K Y D
Sbjct: 339 KALRKLRHPSRSKKLKDYLD 358
>gi|262068176|ref|ZP_06027788.1| RNA polymerase sigma factor RpoD [Fusobacterium periodonticum ATCC
33693]
gi|291378119|gb|EFE85637.1| RNA polymerase sigma factor RpoD [Fusobacterium periodonticum ATCC
33693]
Length = 502
Score = 195 bits (495), Expect = 6e-47, Method: Compositional matrix adjust.
Identities = 88/224 (39%), Positives = 151/224 (67%)
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVR 390
+KLI +NLRLVV +AK++ RG+ L DL+QEG++GLMK+VEKF+ G +F++YA WW+R
Sbjct: 266 QKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWWIR 325
Query: 391 QTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLER 450
Q I +AI RTIR+P ++ ++K+ + R+Y+QE E LA R+G+ VEK++
Sbjct: 326 QAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVEKIKA 385
Query: 451 LIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKER 510
+ + + P+S++ PV +++D+ + D P + + ++R+ + +L L+P+E
Sbjct: 386 IQEMNQEPISLETPVGSEEDSELGDFVEDQKTTSPYEATNRAILREELDGVLKTLSPREE 445
Query: 511 CIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++R R+G++D PK+L EVG IF +++ER+RQ+E +AL +L+
Sbjct: 446 KVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRH 489
>gi|769798|emb|CAA60113.1| sigma 42 [Enterococcus faecalis]
Length = 368
Score = 195 bits (495), Expect = 6e-47, Method: Compositional matrix adjust.
Identities = 98/304 (32%), Positives = 172/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L +LLTA EE EL +I++
Sbjct: 92 GVKINDPVRMYLKEIGRVQLLTAAEEVELALKIEE------------------------- 126
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 127 ---------------GDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKA 171
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 172 VEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRMQRNLLQDLG 231
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 232 REPTPEEIGAEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAEHA 291
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFG++DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 292 AYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKAL 351
Query: 550 YRLK 553
+L+
Sbjct: 352 RKLR 355
>gi|302335781|ref|YP_003800988.1| RNA polymerase sigma-70 subunit RpoD [Olsenella uli DSM 7084]
gi|301319621|gb|ADK68108.1| RNA polymerase, sigma 70 subunit, RpoD [Olsenella uli DSM 7084]
Length = 453
Score = 195 bits (495), Expect = 6e-47, Method: Compositional matrix adjust.
Identities = 101/300 (33%), Positives = 181/300 (60%), Gaps = 9/300 (3%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
DP+R++L LLTA EE L +I+ + +L++ E IE +A
Sbjct: 149 GDPVRMYLKEIGKVDLLTASEEVHLAMKIEAGT---EATERLEAADRGE---IELTRA-- 200
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
R L G +++ LI+ANLRL V +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 201 -EQRRLMRIEQVGLEAKQALISANLRLTVSIAKRYVGRGMLFLDLIQEGNLGLIRAVEKF 259
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+ P
Sbjct: 260 DYTKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVRVQRQLLQDLGRDPT 319
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
E++ +GI+ +++ + I++ P+S++ P+ ++D++ + D+ P + +
Sbjct: 320 PEEIGAEMGISADRVREIQKISQEPVSLETPIGEEEDSSLGDFIEDSSAVAPPEAASDSM 379
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+R+ + +L L +ER +++ RFG+EDG P++L EVG FG+++ER+RQ+ES+ L +L+
Sbjct: 380 LREQLEQVLDSLADRERKVIKFRFGLEDGHPRTLEEVGREFGVTRERIRQIESKTLAKLR 439
>gi|340752448|ref|ZP_08689247.1| RNA polymerase sigma factor rpoD [Fusobacterium sp. 2_1_31]
gi|422316821|ref|ZP_16398197.1| RNA polymerase sigma factor RpoD [Fusobacterium periodonticum D10]
gi|340567285|gb|EEO37295.2| RNA polymerase sigma factor rpoD [Fusobacterium sp. 2_1_31]
gi|404590588|gb|EKA92953.1| RNA polymerase sigma factor RpoD [Fusobacterium periodonticum D10]
Length = 462
Score = 195 bits (495), Expect = 6e-47, Method: Compositional matrix adjust.
Identities = 88/224 (39%), Positives = 151/224 (67%)
Query: 331 EKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVR 390
+KLI +NLRLVV +AK++ RG+ L DL+QEG++GLMK+VEKF+ G +F++YA WW+R
Sbjct: 226 QKLIESNLRLVVSIAKKHTNRGLKLLDLIQEGNIGLMKAVEKFEYTKGYKFSTYATWWIR 285
Query: 391 QTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLER 450
Q I +AI RTIR+P ++ ++K+ + R+Y+QE E LA R+G+ VEK++
Sbjct: 286 QAITRAIADQGRTIRIPVHMIETINKIKKESRIYLQETGKDASPEILAERLGMEVEKIKA 345
Query: 451 LIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKER 510
+ + + P+S++ PV +++D+ + D P + + ++R+ + +L L+P+E
Sbjct: 346 IQEMNQEPISLETPVGSEEDSELGDFVEDQKTTSPYEATNRAILREELDGVLKTLSPREE 405
Query: 511 CIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLKQ 554
++R R+G++D PK+L EVG IF +++ER+RQ+E +AL +L+
Sbjct: 406 KVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRH 449
>gi|271965471|ref|YP_003339667.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like
protein [Streptosporangium roseum DSM 43021]
gi|270508646|gb|ACZ86924.1| DNA-directed RNA polymerase sigma subunit (sigma70/sigma32)-like
protein [Streptosporangium roseum DSM 43021]
Length = 452
Score = 195 bits (495), Expect = 6e-47, Method: Compositional matrix adjust.
Identities = 113/303 (37%), Positives = 182/303 (60%), Gaps = 17/303 (5%)
Query: 254 NDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIG 313
D + +L R LLTA +E EL +I+ + E SKL++ EP L A+
Sbjct: 153 GDSVHTYLKSIGRRTLLTAAQEVELAKRIEAGLYAE---SKLEA----EPGLSAAAR--- 202
Query: 314 LSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
DL+ G +++ ++ ANLRLVV VAK+Y RG++L D++QEG++GL+++VEKF
Sbjct: 203 ---DDLEWVAEDGRRAKDHMLEANLRLVVSVAKKYTDRGMALLDVVQEGNLGLIRAVEKF 259
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
G +F++YA WW+RQ I++ +RTIRLP ++ +LSK+ +R Q P
Sbjct: 260 DYTKGYKFSTYAMWWIRQAIQRGFADSARTIRLPVHVLEMLSKLSRVERDMHQRLGREPT 319
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDIS--VQK 491
E+LA + T +++E L+ +R P+S+ + D +TT ++ D V+ P+ S V +
Sbjct: 320 PEELAVELDKTPDQIEELLRTSRQPISLNATIGEDGETTIGDLIED--VDSPEASEVVDR 377
Query: 492 QLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYR 551
QL+ + +R +L L+P+E I+ LRFG+ DGKP +L E+G GL++ER+RQLE +L +
Sbjct: 378 QLLGEQLRGVLGNLSPREAKIMALRFGLVDGKPHTLDEIGKHLGLTRERIRQLEKESLSK 437
Query: 552 LKQ 554
L+
Sbjct: 438 LRH 440
>gi|365828279|ref|ZP_09370103.1| hypothetical protein HMPREF0975_01886 [Actinomyces sp. oral taxon
849 str. F0330]
gi|365263774|gb|EHM93597.1| hypothetical protein HMPREF0975_01886 [Actinomyces sp. oral taxon
849 str. F0330]
Length = 550
Score = 195 bits (495), Expect = 6e-47, Method: Compositional matrix adjust.
Identities = 101/304 (33%), Positives = 181/304 (59%), Gaps = 20/304 (6%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLI----RLEKEKSKLQSQFGREPTLIEWAK 310
DP++ +L LL A++E EL +I+ + RL +E + L ++ RE + W
Sbjct: 251 DPVKDYLKQIGKVALLNAEQEVELAKRIEAGLYAEHRLAEEGNDLPAKLRRE---LHWVA 307
Query: 311 AIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++V
Sbjct: 308 -------------QDGQRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAV 354
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
EKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 355 EKFDYTKGFKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGR 414
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQ 490
P E+LA + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V
Sbjct: 415 EPTPEELAVELDMTPEKVVEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVS 474
Query: 491 KQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALY 550
L+++ + +L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ +
Sbjct: 475 FTLLQEQLHAVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 534
Query: 551 RLKQ 554
+L+
Sbjct: 535 KLRH 538
>gi|322373396|ref|ZP_08047932.1| RNA polymerase sigma factor RpoD [Streptococcus sp. C150]
gi|321278438|gb|EFX55507.1| RNA polymerase sigma factor RpoD [Streptococcus sp. C150]
Length = 369
Score = 195 bits (495), Expect = 6e-47, Method: Compositional matrix adjust.
Identities = 108/329 (32%), Positives = 184/329 (55%), Gaps = 51/329 (15%)
Query: 227 KPQ-VTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDL 285
KP+ +T+ E S A V NDP+R++L LL+ +EE EL
Sbjct: 78 KPEELTDEELLGSNSAKV----------NDPVRMYLKEIGVVPLLSNEEEKEL------- 120
Query: 286 IRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVA 345
AI + DL++ +++L ANLRLVV +A
Sbjct: 121 -------------------------AIAVENGDLEA--------KQRLAEANLRLVVSIA 147
Query: 346 KQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIR 405
K+Y GRG+ DL+QEG+MGLMK+V+KF G +F++YA WW+RQ I +AI +RTIR
Sbjct: 148 KRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIR 207
Query: 406 LPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPV 465
+P ++ ++K++ +R +QE P E +A R+G+T +K+ ++ I + P+S++ P+
Sbjct: 208 IPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMGMTPDKVREILKIAQEPVSLETPI 267
Query: 466 WADQDTTFQEITADTGVEIPDISVQKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPK 525
+ D+ + D +E P + ++R+ + +L L +E ++RLRFG++DGK +
Sbjct: 268 GEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMR 327
Query: 526 SLSEVGNIFGLSKERVRQLESRALYRLKQ 554
+L +VG +F +++ER+RQ+E++AL +L+
Sbjct: 328 TLEDVGKVFNVTRERIRQIEAKALRKLRH 356
>gi|386358237|ref|YP_006056483.1| RNA polymerase sigma factor [Streptomyces cattleya NRRL 8057 = DSM
46488]
gi|365808745|gb|AEW96961.1| RNA polymerase sigma factor [Streptomyces cattleya NRRL 8057 = DSM
46488]
Length = 498
Score = 195 bits (495), Expect = 6e-47, Method: Compositional matrix adjust.
Identities = 102/299 (34%), Positives = 181/299 (60%), Gaps = 13/299 (4%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E EL +I+ + E KL S P L
Sbjct: 200 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAE---DKLSSADKLAPKL--------- 247
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
R+L+ G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 248 -QRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 306
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 307 YTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 366
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQLM 494
E+LA+ + +T EK+ + R P+S+ P+ D D+ F ++ D+ +P +V L+
Sbjct: 367 EELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLL 426
Query: 495 RQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
++ + ++L L+ +E +V +RFG+ DG+PK+L E+G ++G+++ER+RQ+ES+ + +L+
Sbjct: 427 QEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLR 485
>gi|42526854|ref|NP_971952.1| RNA polymerase sigma factor RpoD [Treponema denticola ATCC 35405]
gi|449112083|ref|ZP_21748638.1| RNA polymerase sigma factor RpoD [Treponema denticola ATCC 33521]
gi|449113113|ref|ZP_21749628.1| RNA polymerase sigma factor RpoD [Treponema denticola ATCC 35404]
gi|449126086|ref|ZP_21762380.1| RNA polymerase sigma factor RpoD [Treponema denticola OTK]
gi|41817169|gb|AAS11863.1| RNA polymerase sigma-70 factor family protein [Treponema denticola
ATCC 35405]
gi|448938800|gb|EMB19727.1| RNA polymerase sigma factor RpoD [Treponema denticola OTK]
gi|448956364|gb|EMB37125.1| RNA polymerase sigma factor RpoD [Treponema denticola ATCC 33521]
gi|448960693|gb|EMB41402.1| RNA polymerase sigma factor RpoD [Treponema denticola ATCC 35404]
Length = 619
Score = 195 bits (495), Expect = 6e-47, Method: Compositional matrix adjust.
Identities = 94/253 (37%), Positives = 168/253 (66%), Gaps = 4/253 (1%)
Query: 318 DLKSELHSGN----SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
DL SE+ +G ++++KLINANLRLVV +AK+Y RG+ DL+QEG++GL+K+VEKF
Sbjct: 366 DLTSEIKNGQRMLKNAKDKLINANLRLVVSIAKKYINRGLQFFDLVQEGNIGLIKAVEKF 425
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
+ + G +F++YA WW+RQ I ++I +RTIR+P ++ ++KV R +Q+ P+
Sbjct: 426 EYRKGYKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVNRESRQLMQKLGREPN 485
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISVQKQL 493
+++A ++G ++EK++++ + R P+S++ P+ ++DT ++ D GVE P + L
Sbjct: 486 DDEIALQLGWSIEKVKQVKNVAREPISLETPIGEEEDTLLGDLIEDKGVENPSNRTELTL 545
Query: 494 MRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRALYRLK 553
+++ + +L+ L +E+ ++++RFGIE G P +L EVG F +++ER+RQ+E++ L RL+
Sbjct: 546 LQEQLEMVLSSLPEREQEVLKMRFGIEGGYPLTLEEVGLYFDVTRERIRQIEAKGLRRLR 605
Query: 554 QSLGGKASYGYAD 566
+ Y D
Sbjct: 606 HPKRSRKLKDYLD 618
>gi|352518192|ref|YP_004887509.1| RNA polymerase sigma factor RpoD [Tetragenococcus halophilus NBRC
12172]
gi|348602299|dbj|BAK95345.1| RNA polymerase sigma factor RpoD [Tetragenococcus halophilus NBRC
12172]
Length = 368
Score = 195 bits (495), Expect = 6e-47, Method: Compositional matrix adjust.
Identities = 98/304 (32%), Positives = 172/304 (56%), Gaps = 40/304 (13%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTA+EE +L +I++
Sbjct: 92 GVKINDPVRMYLKEIGRVSLLTAEEEVDLALKIEE------------------------- 126
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++++L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+
Sbjct: 127 ---------------GDQEAKQRLAEANLRLVVSIAKRYIGRGMQFLDLIQEGNMGLMKA 171
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF + G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 172 VEKFDHRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLG 231
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQEITADTGVEIPDISV 489
P E++ + + EK+ ++ I + P+S++ P+ + D+ + D P
Sbjct: 232 REPTPEEIGAEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHA 291
Query: 490 QKQLMRQHVRNLLTLLNPKERCIVRLRFGIEDGKPKSLSEVGNIFGLSKERVRQLESRAL 549
+L+++ + ++L L +E ++RLRFGI+DG+ ++L EVG +FG+++ER+RQ+E++AL
Sbjct: 292 AYELLKEQLEDVLDTLTDREENVLRLRFGIDDGRTRTLEEVGRVFGVTRERIRQIEAKAL 351
Query: 550 YRLK 553
+L+
Sbjct: 352 RKLR 355
Database: nr
Posted date: Mar 3, 2013 10:45 PM
Number of letters in database: 999,999,864
Number of sequences in database: 2,912,245
Database: /local_scratch/syshi//blastdatabase/nr.01
Posted date: Mar 3, 2013 10:52 PM
Number of letters in database: 999,999,666
Number of sequences in database: 2,912,720
Database: /local_scratch/syshi//blastdatabase/nr.02
Posted date: Mar 3, 2013 10:58 PM
Number of letters in database: 999,999,938
Number of sequences in database: 3,014,250
Database: /local_scratch/syshi//blastdatabase/nr.03
Posted date: Mar 3, 2013 11:03 PM
Number of letters in database: 999,999,780
Number of sequences in database: 2,805,020
Database: /local_scratch/syshi//blastdatabase/nr.04
Posted date: Mar 3, 2013 11:08 PM
Number of letters in database: 999,999,551
Number of sequences in database: 2,816,253
Database: /local_scratch/syshi//blastdatabase/nr.05
Posted date: Mar 3, 2013 11:13 PM
Number of letters in database: 999,999,897
Number of sequences in database: 2,981,387
Database: /local_scratch/syshi//blastdatabase/nr.06
Posted date: Mar 3, 2013 11:18 PM
Number of letters in database: 999,999,649
Number of sequences in database: 2,911,476
Database: /local_scratch/syshi//blastdatabase/nr.07
Posted date: Mar 3, 2013 11:24 PM
Number of letters in database: 999,999,452
Number of sequences in database: 2,920,260
Database: /local_scratch/syshi//blastdatabase/nr.08
Posted date: Mar 3, 2013 11:25 PM
Number of letters in database: 64,230,274
Number of sequences in database: 189,558
Lambda K H
0.315 0.130 0.365
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,190,939,587
Number of Sequences: 23463169
Number of extensions: 325198872
Number of successful extensions: 1475768
Number of sequences better than 100.0: 1000
Number of HSP's better than 100.0 without gapping: 10952
Number of HSP's successfully gapped in prelim test: 1941
Number of HSP's that attempted gapping in prelim test: 1448273
Number of HSP's gapped (non-prelim): 20417
length of query: 569
length of database: 8,064,228,071
effective HSP length: 148
effective length of query: 421
effective length of database: 8,886,646,355
effective search space: 3741278115455
effective search space used: 3741278115455
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 80 (35.4 bits)