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= 011454
(485 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|O24629|SIGA_ARATH RNA polymerase sigma factor sigA OS=Arabidopsis thaliana GN=SIGA
PE=1 SV=1
Length = 502
Score = 688 bits (1775), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 355/519 (68%), Positives = 411/519 (79%), Gaps = 52/519 (10%)
Query: 2 MATAAVIGLSAGKRLLSSSFYYSDISEKFSYINDLGSANSQVGSTKNVVAAKKSSNYNPS 61
MATAAVIGL+ GKRLLSSSFY+SD++EKF +ND S+ + STK+ + AKK+SNY+PS
Sbjct: 1 MATAAVIGLNTGKRLLSSSFYHSDVTEKFLSVNDHCSSQYHIASTKSGITAKKASNYSPS 60
Query: 62 FPSSNRQTQPIKALKEHVDTNFASTAEPWAEPPNSIEEESSE--------LDYSVEALLL 113
FPSSNR TQ KALKE VD AST +PW PN ++E E + +SVEA+LL
Sbjct: 61 FPSSNRHTQSAKALKESVDV--ASTEKPWL--PNGTDKELEEECYDDDDLISHSVEAILL 116
Query: 114 LQKSMLEKQWNLSFERTVLTDSPSKKT--HKKVPV-TCSGVSARQRRLNSKKKI-LSQNK 169
LQKSMLEK WNLSFE+ V ++ P K T KK+PV TCSG+SARQRR+ +KKK ++ K
Sbjct: 117 LQKSMLEKSWNLSFEKAVSSEYPGKGTIRKKKIPVITCSGISARQRRIGAKKKTNMTHVK 176
Query: 170 SILQQNGSKQLRSMISPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKL 229
++ + KQ+R GYVKGV+SE++L+H EVVRLSKKIK+GL LDDHK
Sbjct: 177 AVSDVSSGKQVR-------------GYVKGVISEDVLSHVEVVRLSKKIKSGLRLDDHKS 223
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGA 289
RLK+RLGCEPS EQLA SL+ISR ELQ+ LMEC LAREKL MSNVRLVMSIAQRYDN+GA
Sbjct: 224 RLKDRLGCEPSDEQLAVSLKISRAELQAWLMECHLAREKLAMSNVRLVMSIAQRYDNLGA 283
Query: 290 DMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHER 349
+M+DLVQGGLIGLLRGIEKFDSSKGF+ISTYVYWWIRQGVSRALV+NSRTLRLP HLHER
Sbjct: 284 EMSDLVQGGLIGLLRGIEKFDSSKGFRISTYVYWWIRQGVSRALVDNSRTLRLPTHLHER 343
Query: 350 LGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEVL------------------- 390
LGLIRNAKLRL+EKG+TPS+DRIAE LNMSQKKVRNATE +
Sbjct: 344 LGLIRNAKLRLQEKGITPSIDRIAESLNMSQKKVRNATEAVSKVFSLDRDAFPSLNGLPG 403
Query: 391 ----AYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDKECLTWED 446
+YIAD R+ENNPWHG DD ALK+EV+KLI TLGERE+EIIRLYYGLDKECLTWED
Sbjct: 404 ETHHSYIADTRLENNPWHGYDDLALKEEVSKLISATLGEREKEIIRLYYGLDKECLTWED 463
Query: 447 ISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLVKH 485
ISKRIGLSRERVRQVGLVALEKLKHAARK+KMEAM++K+
Sbjct: 464 ISKRIGLSRERVRQVGLVALEKLKHAARKRKMEAMILKN 502
>sp|P26683|RPOD_NOSS1 RNA polymerase sigma factor RpoD OS=Nostoc sp. (strain PCC 7120 /
UTEX 2576) GN=rpoD PE=3 SV=1
Length = 390
Score = 167 bits (422), Expect = 2e-40, Method: Compositional matrix adjust.
Identities = 105/304 (34%), Positives = 174/304 (57%), Gaps = 20/304 (6%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L++KI L L+ + RL E+L +P + A +++
Sbjct: 79 EDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRERLSEKLERDPRDSEWAEAVQ 138
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
+ P + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 139 LPLPAFRYRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 198
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 199 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 258
Query: 369 VDRIAEYLNMSQKKVR----------NATEVLAYIADNRVEN-------NPWHGVDDWAL 411
+ IA + M+ +K+R + + D+R+ + P V L
Sbjct: 259 EEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIESDGETPEDQVSKNLL 318
Query: 412 KDEVNKLIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLK 470
++++ K ++ +L RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL+
Sbjct: 319 REDLEK-VLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 377
Query: 471 HAAR 474
H R
Sbjct: 378 HPNR 381
>sp|Q31ME3|RPOD2_SYNE7 RNA polymerase sigma factor rpoD2 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD2 PE=1 SV=1
Length = 320
Score = 164 bits (416), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 99/311 (31%), Positives = 181/311 (58%), Gaps = 28/311 (9%)
Query: 185 SPELIQNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQL 244
SP+L+ + Y++ + LLT E + ++++ + L D + L++RLG EPS E+
Sbjct: 9 SPDLV----RAYLQEIGRVRLLTAEEELCFGRQVQRLMMLLDAQTELRDRLGHEPSKEEW 64
Query: 245 AASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLR 304
AA++ ++ +L + + A+ K++ +N+RLV+SIA++Y + DL+Q G +GL R
Sbjct: 65 AAAVDLNLEDLDRQIEQGQRAKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQEGTLGLER 124
Query: 305 GIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK- 363
G+EKFD SKG+K STY YWWIRQ ++RA+ + SRT+RLP H+ E+L ++ + L ++
Sbjct: 125 GVEKFDPSKGYKFSTYAYWWIRQAITRAIAQQSRTIRLPIHITEKLNKLKKTQRELSQQL 184
Query: 364 GVTPSVDRIAEYLNMSQKKVR-------------------NATEVLAYIADNRVENNPWH 404
G + + +AE L + ++VR TE+ + D +++P
Sbjct: 185 GRSATASELAEVLELPLEQVREYIQMNRQPVSLDVKVGDSQDTELQELLEDE--QSSPSD 242
Query: 405 GVDDWALKDEVNKLIIVTLGEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGL 463
V+ +L+ ++ L + L +++ +I L YGLD+ + L+ + +R+ +SRERVR++
Sbjct: 243 YVEQESLRRDLRNL-MAELTPQQQAVIALRYGLDEGDSLSLAKVGERLNISRERVRKLER 301
Query: 464 VALEKLKHAAR 474
A++ L+ +R
Sbjct: 302 QAMDHLRRRSR 312
>sp|O22056|SIGB_ARATH RNA polymerase sigma factor sigB OS=Arabidopsis thaliana GN=SIGB
PE=2 SV=2
Length = 572
Score = 163 bits (412), Expect = 3e-39, Method: Compositional matrix adjust.
Identities = 113/352 (32%), Positives = 193/352 (54%), Gaps = 25/352 (7%)
Query: 154 RQRRLNSKKKILSQNKSILQQNGSKQLRSMISPELIQNRLKGYVKGVVSE-ELLTHAEVV 212
+ RR +K S S+ + K+ R +++ E+ N Y++ S +LLT E
Sbjct: 221 KARRAKGLEKTASGIPSVKTGSSPKKKR-LVAQEVDHNDPLRYLRMTTSSSKLLTVREEH 279
Query: 213 RLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMS 272
LS I+ L L+ + L ER G +P+ Q A++ + + L+ + +L ++K++ S
Sbjct: 280 ELSAGIQDLLKLERLQTELTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKS 339
Query: 273 NVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRA 332
N+RLV+SIA+ Y G ++ DLVQ G GL+RG EKFD++KGFK STY +WWI+Q V ++
Sbjct: 340 NIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKS 399
Query: 333 LVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKV-------- 383
L + SR +RLP H+ E ++ A+ +L E G P + IAE +S K++
Sbjct: 400 LSDQSRMIRLPFHMVEATYRVKEARKQLYSETGKHPKNEEIAEATGLSMKRLMAVLLSPK 459
Query: 384 --RNATEVLAY---------IADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIR 432
R+ + + IAD + + ++ ++ +++K ++ +LG RE+++IR
Sbjct: 460 PPRSLDQKIGMNQNLKPSEVIADPEAVTSEDILIKEF-MRQDLDK-VLDSLGTREKQVIR 517
Query: 433 LYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAMLV 483
+G+ D T ++I + +G+SRERVRQ+ A KLK+ R ++ LV
Sbjct: 518 WRFGMEDGRMKTLQEIGEMMGVSRERVRQIESSAFRKLKNKKRNNHLQQYLV 569
>sp|Q03065|RPSB_NOSS1 RNA polymerase sigma-B factor OS=Nostoc sp. (strain PCC 7120 / UTEX
2576) GN=sigB PE=3 SV=1
Length = 332
Score = 162 bits (411), Expect = 4e-39, Method: Compositional matrix adjust.
Identities = 94/294 (31%), Positives = 170/294 (57%), Gaps = 20/294 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ + LL+H + + +++++ + + K L E+L EP++++ A +++ L
Sbjct: 28 YLHKIGRVPLLSHEQEIFFAQQVQQMMVMFTAKEELAEKLQREPTLQEWADKMQLKEDVL 87
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
L + +A++K++ +N+RLV+SIA++Y + DL+Q G +GL RG+EKFD + G+
Sbjct: 88 LQQLSQGQIAKQKMIQANLRLVVSIAKKYQKRNLEFLDLIQEGALGLERGVEKFDPTLGY 147
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY YWWIRQG++RA+ + SRT+RLP H+ ++L I+ + L +K G V IA+
Sbjct: 148 KFSTYAYWWIRQGITRAIAQQSRTIRLPIHMADKLNKIKCVQRELSQKLGYIAGVTEIAQ 207
Query: 375 YLNMSQKKVRNATEV----------LAYIADNRVEN-------NPWHGVDDWALKDEVNK 417
LN+ ++R ++ + + D ++++ +P + L +++
Sbjct: 208 ALNLEPSQIREYLQLVRQPVSLDMRIGFEQDTQLQDLLKDDGMSPERYAERELLYQDIHN 267
Query: 418 LIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLK 470
L + L +++E++ L +GL C LT IS+R+G+SRERVRQV AL L+
Sbjct: 268 L-LAKLTPQQKEVLILRFGLAGGCELTLVQISQRMGISRERVRQVEKQALTLLR 320
>sp|P38023|RPOD1_SYNE7 RNA polymerase sigma factor rpoD1 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD1 PE=3 SV=2
Length = 399
Score = 162 bits (409), Expect = 6e-39, Method: Compositional matrix adjust.
Identities = 107/305 (35%), Positives = 172/305 (56%), Gaps = 22/305 (7%)
Query: 190 QNRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLR 249
++ ++ Y++ + LL E + L+++I L+L+ + L E+L PS + AA++
Sbjct: 88 EDSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAAAVD 147
Query: 250 ISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKF 309
E + L A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKF
Sbjct: 148 SPLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 207
Query: 310 DSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPS 368
D KG+K STY WWIRQ ++RA+ + SRT+RLP HL+E + I + KL +E G P+
Sbjct: 208 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPT 267
Query: 369 VDRIAEYLNMSQKKVR----------NATEVLAYIADNRVENNPWHGVDDWALKDEVNK- 417
+ IA + M+ +K+R + + D+R+ + + D +DEV K
Sbjct: 268 EEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGD--FIEADGETPEDEVAKN 325
Query: 418 -------LIIVTLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKL 469
++ TL RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL
Sbjct: 326 LLREDLEGVLSTLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERIRQIEAKALRKL 385
Query: 470 KHAAR 474
+H R
Sbjct: 386 RHPNR 390
>sp|P27785|RPOD_STRAU RNA polymerase sigma factor RpoD OS=Streptomyces aureofaciens
GN=rpoD PE=3 SV=1
Length = 317
Score = 161 bits (407), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 105/313 (33%), Positives = 175/313 (55%), Gaps = 40/313 (12%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSME-QLAASLRIS 251
+ Y++ + LLT AE V L+++++ GL + E+LG ++ QLA
Sbjct: 21 FRQYLREIGRIPLLTAAEEVDLARRVEAGLFAE-------EKLGGAADLDSQLAV----- 68
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
+L +++ +A+ +L+ SN+RLV+S+A+RY G M DLVQ G +GL+R +EKFD
Sbjct: 69 --DLDRLVVMGRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDY 126
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVD 370
++G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+ +
Sbjct: 127 ARGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTAE 186
Query: 371 RIAEYLNMSQKKVRNATEVLAYIADNRVENNPWHGVDDWALKDEVN-------------- 416
+A +L ++ ++V EVL + + P DD AL D +
Sbjct: 187 EVAVHLELTPERV---LEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFF 243
Query: 417 ------KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 469
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL
Sbjct: 244 LRCEHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKL 303
Query: 470 KHAARKKKMEAML 482
+ A ++ L
Sbjct: 304 RDHAFADQLRGYL 316
>sp|O33662|RPOD_STRMU RNA polymerase sigma factor RpoD OS=Streptococcus mutans serotype c
(strain ATCC 700610 / UA159) GN=rpoD PE=3 SV=1
Length = 371
Score = 159 bits (401), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 85/234 (36%), Positives = 142/234 (60%), Gaps = 21/234 (8%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 133 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 192
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 193 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 252
Query: 384 RNATEV------------------LAYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGE 425
R ++ L ++ V NP L++++++ ++ TL +
Sbjct: 253 REILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLDE-VLDTLTD 311
Query: 426 REREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 478
RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+H +R K++
Sbjct: 312 REENVLRLRFGLDDGKMRTLEDVGKVFDVTRERIRQIEAKALRKLRHPSRSKQL 365
>sp|Q31QG5|RPOD3_SYNE7 RNA polymerase sigma factor rpoD3 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD3 PE=3 SV=1
Length = 320
Score = 158 bits (400), Expect = 7e-38, Method: Compositional matrix adjust.
Identities = 101/300 (33%), Positives = 174/300 (58%), Gaps = 21/300 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGC-EPSMEQLAASLRIS 251
++ Y++ + LLTH E V L K+++ + L + + L+ G +PS + AA+ +S
Sbjct: 12 VRTYLREIGRVPLLTHEEEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLEWAAAAGLS 71
Query: 252 RPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDS 311
EL+ A+ K++ +N+RLV+S+A++Y D+ DL+Q G IG+ RG+EKFD
Sbjct: 72 IEELRQQQHLGEQAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQRGVEKFDP 131
Query: 312 SKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVD 370
+KG++ STY YWWIRQ ++RA+ E +RT+RLP H+ E+L I+ + +L ++ G T ++
Sbjct: 132 TKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKMQRQLSQQLGRTATLP 191
Query: 371 RIAEYLNMSQKKVRNATEVLAYI--ADNRVENN---------------PWHGVDDWALKD 413
+A L+++ +VR+ E + D RV +N P +++
Sbjct: 192 ELAAALDLTPAQVRDYLEKARHPLSLDLRVGDNQDTELGDLLETDCTTPEEFTLQASMRR 251
Query: 414 EVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHA 472
++++L + L E++R++I L YGL D + +T I R+ +SRERVRQ+ AL L+ A
Sbjct: 252 DIDRL-LDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLEREALHTLRQA 310
>sp|P18182|HRDA_STRCO RNA polymerase principal sigma factor HrdA OS=Streptomyces
coelicolor (strain ATCC BAA-471 / A3(2) / M145) GN=hrdA
PE=3 SV=2
Length = 396
Score = 157 bits (398), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 103/312 (33%), Positives = 174/312 (55%), Gaps = 38/312 (12%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+ Y++ + LL+ AE V L+++++ GL + E+L C P ++ A
Sbjct: 100 FRQYLREIGRIPLLSAAEEVDLARRVEAGLFAE-------EKLRCSPGLDDRLAL----- 147
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
+L +++ LA+ +L+ +N+RLV+S+A+RY G M DLVQ G +GL+R +EKFD +
Sbjct: 148 -DLDRLVVLGRLAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYA 206
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
+G+K STY WWIRQ +SRAL + +RT+R+P H+ E + ++R + L+E+G P+
Sbjct: 207 RGYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGCEPTPQE 266
Query: 372 IAEYLNMSQKKVRNATEVLAYIADNRVENNPWHGVDDWALKDEVN--------------- 416
+A +L+++ ++V EVL + + P DD AL D +
Sbjct: 267 VAAHLDLAPERV---GEVLRLAQEPVSLHAPVGEEDDVALGDLIEDGDAASPVESAAFLL 323
Query: 417 -----KLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLK 470
+ ++ TLGERER++++L YGL D T E+I + G++RER+RQ+ L KL+
Sbjct: 324 LRQHLEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRLFGVTRERIRQIESKTLSKLR 383
Query: 471 HAARKKKMEAML 482
A ++ L
Sbjct: 384 DHAYADQLRGYL 395
>sp|P0A4J0|RPOD_STRR6 RNA polymerase sigma factor RpoD OS=Streptococcus pneumoniae
(strain ATCC BAA-255 / R6) GN=rpoD PE=3 SV=1
Length = 369
Score = 156 bits (395), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 85/234 (36%), Positives = 140/234 (59%), Gaps = 21/234 (8%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEV------------------LAYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGE 425
R ++ L ++ V NP L++++++ I+ TL +
Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE-ILDTLTD 309
Query: 426 REREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 478
RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K +
Sbjct: 310 REENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSKPL 363
>sp|P0A4I9|RPOD_STRPN RNA polymerase sigma factor RpoD OS=Streptococcus pneumoniae
serotype 4 (strain ATCC BAA-334 / TIGR4) GN=rpoD PE=3
SV=1
Length = 369
Score = 156 bits (395), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 85/234 (36%), Positives = 140/234 (59%), Gaps = 21/234 (8%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD SKGFK STY WW
Sbjct: 131 AKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWW 190
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L+R + L+E G P+ ++IAE ++M+ KV
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDKV 250
Query: 384 RNATEV------------------LAYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGE 425
R ++ L ++ V NP L++++++ I+ TL +
Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDE-ILDTLTD 309
Query: 426 REREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 478
RE ++RL +GLD + T ED+ K ++RER+RQ+ AL KL+ +R K +
Sbjct: 310 REENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSKPL 363
>sp|Q03066|RPSC_NOSS1 RNA polymerase sigma-C factor OS=Nostoc sp. (strain PCC 7120 / UTEX
2576) GN=sigC PE=3 SV=2
Length = 416
Score = 156 bits (394), Expect = 4e-37, Method: Compositional matrix adjust.
Identities = 99/289 (34%), Positives = 162/289 (56%), Gaps = 46/289 (15%)
Query: 230 RLKERLGCEPSMEQLAASLRISRPELQSILMECS----------------------LARE 267
RL LG PS+E+ AA+ I+ +L+ IL E ++E
Sbjct: 120 RLASELGHRPSLERWAATAGINLCDLKPILSEGKRRWAEIAKMTVEELEKMQSQGLQSKE 179
Query: 268 KLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQ 327
++ +N+RLV+S+A++Y N G ++ DLVQ G +GL R +EKFD +KG++ STY YWWIRQ
Sbjct: 180 HMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQ 239
Query: 328 GVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKVRNA 386
G++RA+ +SRT+RLP H+ E+L I+ A+ ++ +EKG TP+++ +A L+M+ +VR
Sbjct: 240 GITRAIATSSRTIRLPVHITEKLNKIKKAQRKIAQEKGRTPTLEDLAIELDMTPTQVREV 299
Query: 387 -------------------TEVLAYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGERE 427
TE+ + + V P + +L+ ++ L + L RE
Sbjct: 300 LLRVPRSVSLETKVGKDKDTELGELLETDGV--TPEEMLMRESLQRDLQHL-LADLTSRE 356
Query: 428 REIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARK 475
R++I + +GL D + +I + + LSRERVRQ+ AL+KL+ R+
Sbjct: 357 RDVILMRFGLADGHPYSLAEIGRALDLSRERVRQIESKALQKLRQPKRR 405
>sp|Q59996|RPSC_SYNY3 Probable RNA polymerase sigma-C factor OS=Synechocystis sp. (strain
PCC 6803 / Kazusa) GN=sigC PE=3 SV=1
Length = 404
Score = 155 bits (392), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 91/237 (38%), Positives = 143/237 (60%), Gaps = 24/237 (10%)
Query: 254 ELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSK 313
EL++I + A+ ++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD +K
Sbjct: 154 ELENIEKQGITAKAHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLERAVEKFDPTK 213
Query: 314 GFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRI 372
G++ STY YWWIRQG++RA+ SR +RLP H+ E+L I+ A+ ++ +EKG TP +D +
Sbjct: 214 GYRFSTYSYWWIRQGITRAIATQSRMIRLPVHITEKLNKIKRAQRKISQEKGHTPKIDEV 273
Query: 373 AEYLNMSQKKVRNATEVLAYIA-----------DNRVENNPWHGVDDWALKDEV------ 415
AE L M+ ++VR EVL + D E D + +DE+
Sbjct: 274 AEELGMTPEQVR---EVLTQVPRSVSLELKVGQDKDTELMDLLETDTQSPEDELMREALQ 330
Query: 416 NKL--IIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKL 469
N + I++ L RE+E+I L +G D + +I + + LSRERVRQ+ AL+KL
Sbjct: 331 NDMQEILLDLTPREQEVIALRFGFQDGVAHSLSEIGRILNLSRERVRQIEAKALQKL 387
>sp|Q9LD95|SIGF_ARATH RNA polymerase sigma factor sigF, chloroplastic OS=Arabidopsis
thaliana GN=SIGF PE=1 SV=1
Length = 547
Score = 155 bits (392), Expect = 7e-37, Method: Compositional matrix adjust.
Identities = 99/300 (33%), Positives = 168/300 (56%), Gaps = 23/300 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
L+ ++ G +++LLT E L I+ L L+ K +L+ + GCEP++ + A ++ IS
Sbjct: 235 LQLFLWGPETKQLLTAKEEAELISHIQHLLKLEKVKTKLESQNGCEPTIGEWAEAMGISS 294
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
P L+S + +REKL+ +N+RLV+ IA++Y N G + DL+Q G +GL++ +EKF
Sbjct: 295 PVLKSDIHRGRSSREKLITANLRLVVHIAKQYQNRGLNFQDLLQEGSMGLMKSVEKFKPQ 354
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNA-KLRLEEKGVTPSVDR 371
G + +TY YWWIRQ + +++ +NSRT+RLP +++ LG + A K ++E PS +
Sbjct: 355 SGCRFATYAYWWIRQSIRKSIFQNSRTIRLPENVYMLLGKVSEARKTCVQEGNYRPSKEE 414
Query: 372 IAEYLNMSQKKV-------------------RNATEVLAYIADNRVENNPWHGVDDWALK 412
+A ++ +S +K+ T D+ +E P V ++
Sbjct: 415 LAGHVGVSTEKLDKLLYNTRTPLSMQQPIWSDQDTTFQEITPDSGIE-TPTMSVGKQLMR 473
Query: 413 DEVNKLIIVTLGEREREIIRLYYGLD-KECLTWEDISKRIGLSRERVRQVGLVALEKLKH 471
+ V L+ V L +ER II+L +G+D + + +I + GLS+ERVRQ+ AL +LK
Sbjct: 474 NHVRNLLNV-LSPKERRIIKLRFGIDGGKQRSLSEIGEIYGLSKERVRQLESRALYRLKQ 532
>sp|Q8CP24|RPOD_STAES RNA polymerase sigma factor RpoD OS=Staphylococcus epidermidis
(strain ATCC 12228) GN=rpoD PE=3 SV=1
Length = 368
Score = 152 bits (384), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 84/240 (35%), Positives = 139/240 (57%), Gaps = 23/240 (9%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 130 IAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 383 VRNATEVLA-------------------YIADNRVENNPWHGVDDWALKDEVNKLIIVTL 423
VR ++ +I D ++ H + L E + ++ TL
Sbjct: 250 VREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAA--YELLKEQLEDVLDTL 307
Query: 424 GEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 482
+RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ +
Sbjct: 308 TDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFM 367
>sp|Q5HNY7|RPOD_STAEQ RNA polymerase sigma factor RpoD OS=Staphylococcus epidermidis
(strain ATCC 35984 / RP62A) GN=rpoD PE=3 SV=1
Length = 368
Score = 152 bits (384), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 84/240 (35%), Positives = 139/240 (57%), Gaps = 23/240 (9%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD SKGFK STY W
Sbjct: 130 IAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEK 249
Query: 383 VRNATEVLA-------------------YIADNRVENNPWHGVDDWALKDEVNKLIIVTL 423
VR ++ +I D ++ H + L E + ++ TL
Sbjct: 250 VREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAA--YELLKEQLEDVLDTL 307
Query: 424 GEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 482
+RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ +
Sbjct: 308 TDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFM 367
>sp|Q04506|RPOD_LACLA RNA polymerase sigma factor RpoD OS=Lactococcus lactis subsp.
lactis (strain IL1403) GN=rpoD PE=3 SV=2
Length = 386
Score = 152 bits (384), Expect = 6e-36, Method: Compositional matrix adjust.
Identities = 83/242 (34%), Positives = 143/242 (59%), Gaps = 23/242 (9%)
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 147 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYA 206
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 380
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G PS + I + L+M+
Sbjct: 207 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAP 266
Query: 381 KKVRNATEVLA-------------------YIADNRVENNPWHGVDDWALKDEVNKLIIV 421
KVR ++ +I D+ +E +P + L++++++ ++
Sbjct: 267 DKVREVLKIAQEPVSLETPIGEEDDSHLGDFIEDDVIE-SPVDYTNRILLREQLDE-VMD 324
Query: 422 TLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEA 480
TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H R K +
Sbjct: 325 TLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPLRD 384
Query: 481 ML 482
+
Sbjct: 385 FM 386
>sp|P59117|RPOD_LEPIN RNA polymerase sigma factor RpoD OS=Leptospira interrogans
serogroup Icterohaemorrhagiae serovar Lai (strain 56601)
GN=rpoD PE=3 SV=1
Length = 585
Score = 152 bits (383), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 86/239 (35%), Positives = 144/239 (60%), Gaps = 23/239 (9%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E S A+++LV +N+RLV+SIA+RY N G DL+Q G IGL++ ++KF+ KG+K STY
Sbjct: 343 EISQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTY 402
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++RA+ + +RT+R+P H+ E++ +IR +L ++E G P+ + IAE L
Sbjct: 403 ATWWIRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWP 462
Query: 380 QKKVR-------------------NATEVLAYIADNRVENNPWHGVDDWALKDEVNKLII 420
+KV+ +E+ +I D VE P + L +++ + ++
Sbjct: 463 VQKVKMVKNVAREPISLEIPVGSEEDSELGDFIPDTEVE-TPVNAAASSILAEQIRQ-VL 520
Query: 421 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 478
TL RE+++IR+ +GLD T E++ + ++RER+RQ+ AL +L+H +R KK+
Sbjct: 521 HTLPAREQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKL 579
>sp|P61540|RPOD_LEPIC RNA polymerase sigma factor RpoD OS=Leptospira interrogans
serogroup Icterohaemorrhagiae serovar copenhageni
(strain Fiocruz L1-130) GN=rpoD PE=3 SV=1
Length = 585
Score = 152 bits (383), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 86/239 (35%), Positives = 144/239 (60%), Gaps = 23/239 (9%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E S A+++LV +N+RLV+SIA+RY N G DL+Q G IGL++ ++KF+ KG+K STY
Sbjct: 343 EISQAKKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTY 402
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++RA+ + +RT+R+P H+ E++ +IR +L ++E G P+ + IAE L
Sbjct: 403 ATWWIRQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWP 462
Query: 380 QKKVR-------------------NATEVLAYIADNRVENNPWHGVDDWALKDEVNKLII 420
+KV+ +E+ +I D VE P + L +++ + ++
Sbjct: 463 VQKVKMVKNVAREPISLEIPVGSEEDSELGDFIPDTEVE-TPVNAAASSILAEQIRQ-VL 520
Query: 421 VTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKM 478
TL RE+++IR+ +GLD T E++ + ++RER+RQ+ AL +L+H +R KK+
Sbjct: 521 HTLPAREQKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKL 579
>sp|P58290|RPOD_LACLC RNA polymerase sigma factor RpoD (Fragment) OS=Lactococcus lactis
subsp. cremoris GN=rpoD PE=3 SV=1
Length = 364
Score = 151 bits (382), Expect = 8e-36, Method: Compositional matrix adjust.
Identities = 83/242 (34%), Positives = 143/242 (59%), Gaps = 23/242 (9%)
Query: 262 CSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYV 321
A++ L +N+RLV+SIA+RY G DL+Q G +GL++ ++KFD +KGFK STY
Sbjct: 125 AEFAKQMLAEANLRLVVSIAKRYSGRGMQFLDLIQEGNMGLMKAVDKFDQTKGFKFSTYA 184
Query: 322 YWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQ 380
WWIRQ ++RA+ + +RT+R+P H+ E + LIR + L+E G PS + I + L+M+
Sbjct: 185 TWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRNLLQELGRDPSPEEIGKELHMAP 244
Query: 381 KKVRNATEVLA-------------------YIADNRVENNPWHGVDDWALKDEVNKLIIV 421
KVR ++ +I D+ +E +P + L++++++ ++
Sbjct: 245 DKVREVLKIAQEPVSLETPIGEEDDSHLGDFIEDDVIE-SPVDYTNRILLREQLDE-VMD 302
Query: 422 TLGEREREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEA 480
TL +RE ++R+ +GLD + T ED+ K+ ++RER+RQ+ A++KL+H R K +
Sbjct: 303 TLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPLRD 362
Query: 481 ML 482
+
Sbjct: 363 FM 364
>sp|O66381|RPOD_BACHD RNA polymerase sigma factor RpoD OS=Bacillus halodurans (strain
ATCC BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125)
GN=sigA PE=3 SV=2
Length = 372
Score = 151 bits (382), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 87/240 (36%), Positives = 139/240 (57%), Gaps = 25/240 (10%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 135 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYNKGFKFSTYATWW 194
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G PS + +AE ++++ +KV
Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEVAEEMDLTPEKV 254
Query: 384 RNATEVLAYIADNRVENNPWHGVDDWALKDEVN--------------------KLIIVTL 423
R E+L + P DD L D + + ++ TL
Sbjct: 255 R---EILKIAQEPVSLETPIGEEDDSHLGDFIEDQDALAPSDAAAYELLKEQLEDVLDTL 311
Query: 424 GEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 482
+RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 312 TDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFL 371
>sp|Q99TT5|RPOD_STAAN RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
N315) GN=rpoD PE=1 SV=1
Length = 368
Score = 151 bits (381), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 83/240 (34%), Positives = 139/240 (57%), Gaps = 23/240 (9%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 383 VRNATEVLA-------------------YIADNRVENNPWHGVDDWALKDEVNKLIIVTL 423
VR ++ +I D ++ H + L E + ++ TL
Sbjct: 250 VREVLKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAA--YELLKEQLEDVLDTL 307
Query: 424 GEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 482
+RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ +
Sbjct: 308 TDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFM 367
>sp|P74565|RPOD_SYNY3 RNA polymerase sigma factor RpoD OS=Synechocystis sp. (strain PCC
6803 / Kazusa) GN=rpoD PE=3 SV=1
Length = 425
Score = 151 bits (381), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 90/230 (39%), Positives = 136/230 (59%), Gaps = 22/230 (9%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++K+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K STY WW
Sbjct: 189 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 248
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + SRT+RLP HL+E + I + KL +E P+ + IAE + M+ +K+
Sbjct: 249 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMRRKPTEEEIAEKMEMTIEKL 308
Query: 384 R----------NATEVLAYIADNRVENNPWHGVDDWALKDEVNK--------LIIVTLGE 425
R + + D+R+ + D +DEV+K ++ TL
Sbjct: 309 RFIAKSAQLPISLETPIGKEEDSRL--GDFIEADGETPEDEVSKNLLREDLENVLDTLSP 366
Query: 426 REREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAAR 474
RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL+H R
Sbjct: 367 RERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNR 416
>sp|P52328|RPSD2_BACSP RNA polymerase sigma factor RpoD OS=Bacillus sp. GN=sigA PE=3 SV=1
Length = 377
Score = 150 bits (380), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 88/240 (36%), Positives = 138/240 (57%), Gaps = 25/240 (10%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WW
Sbjct: 140 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDHNKGFKFSTYATWW 199
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ L+E G P+ + IA + +S +KV
Sbjct: 200 IRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPTPEEIAAEMELSVEKV 259
Query: 384 RNATEVLAYIADNRVENNPWHGVDDWALKDEVN--------------------KLIIVTL 423
R E++ + P DD L D + + ++ TL
Sbjct: 260 R---EIMKIAQEPVSLETPIGEEDDSHLGDFIEDQEALTPADAAAYELLKEQLEDVLDTL 316
Query: 424 GEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 482
ERE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 317 TEREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFL 376
>sp|P0A0I9|RPOD_STAAW RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MW2) GN=rpoD PE=3 SV=1
Length = 368
Score = 150 bits (380), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 83/240 (34%), Positives = 139/240 (57%), Gaps = 23/240 (9%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 383 VRNATEVLA-------------------YIADNRVENNPWHGVDDWALKDEVNKLIIVTL 423
VR ++ +I D ++ H + L E + ++ TL
Sbjct: 250 VREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAA--YELLKEQLEDVLDTL 307
Query: 424 GEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 482
+RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ +
Sbjct: 308 TDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFM 367
>sp|Q6G905|RPOD_STAAS RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MSSA476) GN=rpoD PE=3 SV=1
Length = 368
Score = 150 bits (380), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 83/240 (34%), Positives = 139/240 (57%), Gaps = 23/240 (9%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 383 VRNATEVLA-------------------YIADNRVENNPWHGVDDWALKDEVNKLIIVTL 423
VR ++ +I D ++ H + L E + ++ TL
Sbjct: 250 VREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAA--YELLKEQLEDVLDTL 307
Query: 424 GEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 482
+RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ +
Sbjct: 308 TDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFM 367
>sp|Q6GGD8|RPOD_STAAR RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MRSA252) GN=rpoD PE=3 SV=1
Length = 368
Score = 150 bits (380), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 83/240 (34%), Positives = 139/240 (57%), Gaps = 23/240 (9%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 383 VRNATEVLA-------------------YIADNRVENNPWHGVDDWALKDEVNKLIIVTL 423
VR ++ +I D ++ H + L E + ++ TL
Sbjct: 250 VREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAA--YELLKEQLEDVLDTL 307
Query: 424 GEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 482
+RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ +
Sbjct: 308 TDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFM 367
>sp|P0A0I8|RPOD_STAAM RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
Mu50 / ATCC 700699) GN=rpoD PE=1 SV=1
Length = 368
Score = 150 bits (380), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 83/240 (34%), Positives = 139/240 (57%), Gaps = 23/240 (9%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 383 VRNATEVLA-------------------YIADNRVENNPWHGVDDWALKDEVNKLIIVTL 423
VR ++ +I D ++ H + L E + ++ TL
Sbjct: 250 VREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAA--YELLKEQLEDVLDTL 307
Query: 424 GEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 482
+RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ +
Sbjct: 308 TDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFM 367
>sp|Q5HFJ9|RPOD_STAAC RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
COL) GN=rpoD PE=3 SV=1
Length = 368
Score = 150 bits (380), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 83/240 (34%), Positives = 139/240 (57%), Gaps = 23/240 (9%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 383 VRNATEVLA-------------------YIADNRVENNPWHGVDDWALKDEVNKLIIVTL 423
VR ++ +I D ++ H + L E + ++ TL
Sbjct: 250 VREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAA--YELLKEQLEDVLDTL 307
Query: 424 GEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 482
+RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ +
Sbjct: 308 TDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFM 367
>sp|P0A0J0|RPOD_STAA8 RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
NCTC 8325) GN=rpoD PE=3 SV=1
Length = 368
Score = 150 bits (380), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 83/240 (34%), Positives = 139/240 (57%), Gaps = 23/240 (9%)
Query: 264 LAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYW 323
+A+ +L +N+RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY W
Sbjct: 130 VAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATW 189
Query: 324 WIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKK 382
WIRQ ++RA+ + +RT+R+P H+ E + LIR + L++ G P+ + I E +++ +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEK 249
Query: 383 VRNATEVLA-------------------YIADNRVENNPWHGVDDWALKDEVNKLIIVTL 423
VR ++ +I D ++ H + L E + ++ TL
Sbjct: 250 VREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAA--YELLKEQLEDVLDTL 307
Query: 424 GEREREIIRLYYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 482
+RE ++RL +GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ +
Sbjct: 308 TDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFM 367
>sp|P52329|RPOD_ENTFA RNA polymerase sigma factor RpoD OS=Enterococcus faecalis (strain
ATCC 700802 / V583) GN=rpoD PE=3 SV=2
Length = 368
Score = 150 bits (379), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 93/287 (32%), Positives = 159/287 (55%), Gaps = 34/287 (11%)
Query: 220 TGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRL 276
TG+ ++D ++ LKE R+ + E++ +L+I + + A+++L +N+RL
Sbjct: 91 TGVKINDPVRMYLKEIGRVQLLTAAEEVELALKIEEGDQE--------AKQRLAEANLRL 142
Query: 277 VMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVEN 336
V+SIA+RY G DL+Q G +GL++ +EKFD KGFK STY WWIRQ ++RA+ +
Sbjct: 143 VVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQ 202
Query: 337 SRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEVLA---- 391
+RT+R+P H+ E + LIR + L++ G P+ + I +++ +KVR ++
Sbjct: 203 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKVREILKIAQEPVS 262
Query: 392 ---------------YIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYG 436
+I D + H + L E + ++ TL +RE ++RL +G
Sbjct: 263 LETPIGEEDDSHLGDFIEDQDATSPAEHAA--YELLKEQLEDVLDTLTDREENVLRLRFG 320
Query: 437 LDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 482
LD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 321 LDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 367
>sp|P52331|RPOD_LISMO RNA polymerase sigma factor RpoD OS=Listeria monocytogenes serovar
1/2a (strain ATCC BAA-679 / EGD-e) GN=rpoD PE=3 SV=1
Length = 374
Score = 149 bits (376), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 96/290 (33%), Positives = 161/290 (55%), Gaps = 36/290 (12%)
Query: 218 IKTGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNV 274
+ G+ ++D ++ LKE R+ + E++A + RI +++ A+ +L +N+
Sbjct: 95 VPPGVKINDPVRMYLKEIGRVDLLTADEEIALAKRIEAGDIE--------AKGRLAEANL 146
Query: 275 RLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALV 334
RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WWIRQ ++RA+
Sbjct: 147 RLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIA 206
Query: 335 ENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEVLAYI 393
+ +RT+R+P H+ E + LIR + L++ G PS + I E +++ +KVR E+L
Sbjct: 207 DQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPEEIGEEMDLPTEKVR---EILKIA 263
Query: 394 ADNRVENNPWHGVDDWALKDEVN--------------------KLIIVTLGEREREIIRL 433
+ P DD L D + + ++ TL +RE ++RL
Sbjct: 264 QEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELLKEQLEDVLDTLTDREENVLRL 323
Query: 434 YYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 482
+GLD T E++ + G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 324 RFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 373
>sp|Q92BQ6|RPOD_LISIN RNA polymerase sigma factor RpoD OS=Listeria innocua serovar 6a
(strain CLIP 11262) GN=rpoD PE=3 SV=1
Length = 374
Score = 149 bits (376), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 96/290 (33%), Positives = 161/290 (55%), Gaps = 36/290 (12%)
Query: 218 IKTGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNV 274
+ G+ ++D ++ LKE R+ + E++A + RI +++ A+ +L +N+
Sbjct: 95 VPPGVKINDPVRMYLKEIGRVDLLTADEEIALAKRIEAGDIE--------AKGRLAEANL 146
Query: 275 RLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALV 334
RLV+SIA+RY G DL+Q G +GL++ +EKFD +KGFK STY WWIRQ ++RA+
Sbjct: 147 RLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAITRAIA 206
Query: 335 ENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEVLAYI 393
+ +RT+R+P H+ E + LIR + L++ G PS + I E +++ +KVR E+L
Sbjct: 207 DQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPEEIGEEMDLPTEKVR---EILKIA 263
Query: 394 ADNRVENNPWHGVDDWALKDEVN--------------------KLIIVTLGEREREIIRL 433
+ P DD L D + + ++ TL +RE ++RL
Sbjct: 264 QEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELLKEQLEDVLDTLTDREENVLRL 323
Query: 434 YYGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 482
+GLD T E++ + G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 324 RFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFL 373
>sp|P52322|RPOD_MICAE RNA polymerase sigma factor rpoD1 OS=Microcystis aeruginosa
GN=rpoD1 PE=3 SV=1
Length = 416
Score = 148 bits (374), Expect = 8e-35, Method: Compositional matrix adjust.
Identities = 89/230 (38%), Positives = 136/230 (59%), Gaps = 22/230 (9%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+EK+V SN+RLV+SIA++Y N G DL+Q G +GL+R EKFD KG+K STY WW
Sbjct: 180 AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 239
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLI-RNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + SRT+RLP HL+E + I + K+ +E P+ + IA + M+ +K+
Sbjct: 240 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKL 299
Query: 384 RNATEV----------LAYIADNRVENNPWHGVDDWALKDEVNK--------LIIVTLGE 425
R + + D+R+ + + D +DEV+K ++ TL
Sbjct: 300 RFIAKSAQLPISLETPIGKEEDSRLGD--FIEADGETPEDEVSKNLLREDLENVLDTLSP 357
Query: 426 REREIIRLYYGLDKECL-TWEDISKRIGLSRERVRQVGLVALEKLKHAAR 474
RER+++RL YGLD + T E+I + ++RER+RQ+ AL KL+H R
Sbjct: 358 RERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNR 407
>sp|P06224|RPOD_BACSU RNA polymerase sigma factor RpoD OS=Bacillus subtilis (strain 168)
GN=sigA PE=1 SV=2
Length = 371
Score = 148 bits (374), Expect = 8e-35, Method: Compositional matrix adjust.
Identities = 93/289 (32%), Positives = 161/289 (55%), Gaps = 34/289 (11%)
Query: 218 IKTGLSLDDH-KLRLKE--RLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNV 274
+ G+ ++D ++ LKE R+ + E++A + +I + +S + +L +N+
Sbjct: 92 VPPGVKINDPVRMYLKEIGRVNLLSAKEEIAYAQKIEEGDEES--------KRRLAEANL 143
Query: 275 RLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALV 334
RLV+SIA+RY G DL+Q G +GL++ +EKFD KG+K STY WWIRQ ++RA+
Sbjct: 144 RLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIA 203
Query: 335 ENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEVLA-- 391
+ +RT+R+P H+ E + LIR + L++ G P+ + IAE ++++ +KVR ++
Sbjct: 204 DQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPEEIAEDMDLTPEKVREILKIAQEP 263
Query: 392 -----------------YIADNRVENNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLY 434
+I D + H + L E + ++ TL +RE ++RL
Sbjct: 264 VSLETPIGEEDDSHLGDFIEDQEATSPSDHAA--YELLKEQLEDVLDTLTDREENVLRLR 321
Query: 435 YGLDK-ECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 482
+GLD T E++ K G++RER+RQ+ AL KL+H +R K+++ L
Sbjct: 322 FGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFL 370
>sp|P77994|RPOD_THEMA RNA polymerase sigma factor RpoD OS=Thermotoga maritima (strain
ATCC 43589 / MSB8 / DSM 3109 / JCM 10099) GN=rpoD PE=1
SV=3
Length = 399
Score = 147 bits (371), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 83/239 (34%), Positives = 142/239 (59%), Gaps = 23/239 (9%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+EKL+ SN+RLV+SIA+RY G DL+Q G IGLL+ +EKFD KG+K STY WW
Sbjct: 155 AKEKLITSNLRLVVSIAKRYMGRGLSFQDLIQEGNIGLLKAVEKFDWRKGYKFSTYATWW 214
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + L R + ++ G PS++ +A+ + +K+
Sbjct: 215 IRQAITRAIADQARTIRIPVHMVETINKLNRLRREYYQKHGEEPSIEELAKMMGKPPEKI 274
Query: 384 RNATE-------------------VLAYIADNRVENNPWHGVDDWALKDEVNKLIIVTLG 424
+ E + ++AD+ + +P +++E+ K ++ TL
Sbjct: 275 KEILEAAKETISLESPIGEDEDSSIEDFVADDSI-ASPKKEAMRMLMREELEK-VLKTLS 332
Query: 425 EREREIIRLYYG-LDKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 482
RE ++R+ YG LD + T E++ + ++RER+RQ+ + AL KL+H +R K ++++L
Sbjct: 333 PREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLRHPSRSKYLKSLL 391
>sp|Q9Z7F0|RPOD_CHLPN RNA polymerase sigma factor RpoD OS=Chlamydia pneumoniae GN=rpoD
PE=3 SV=1
Length = 572
Score = 147 bits (370), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 87/264 (32%), Positives = 151/264 (57%), Gaps = 27/264 (10%)
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
++E+ +R+ LQ + + A++++V SN+RLV+SIA++Y N G DL+Q G
Sbjct: 296 TLEEFKKDVRM----LQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 351
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKL 358
+GL++ +EKF+ +G+K STY WWIRQ V+RA+ + +RT+R+P H+ E + ++R AK
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 411
Query: 359 RLEEKGVTPSVDRIAEYLNMSQKKVRNATEVLA-------------------YIADNRVE 399
+ E G P+ + +AE L ++ +VR ++ ++ D VE
Sbjct: 412 LMMETGKEPTPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGSESSFGDFLEDTAVE 471
Query: 400 NNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERV 458
+P LKD++ K ++ TL +RER ++ +G LD + T E++ ++RER+
Sbjct: 472 -SPAEATGYSMLKDKM-KEVLKTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERI 529
Query: 459 RQVGLVALEKLKHAARKKKMEAML 482
RQ+ AL K++H R K++ A L
Sbjct: 530 RQIEAKALRKMRHPIRSKQLRAFL 553
>sp|P17531|RPOD_MYXXA RNA polymerase sigma factor RpoD OS=Myxococcus xanthus GN=rpoD PE=3
SV=1
Length = 708
Score = 146 bits (369), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 78/238 (32%), Positives = 141/238 (59%), Gaps = 21/238 (8%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ +LV +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WW
Sbjct: 470 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 529
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++RA+ + +RT+R+P H+ E + LIR ++ ++E G P+ + IAE + + KV
Sbjct: 530 IRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEIGREPTPEEIAEKMELPLDKV 589
Query: 384 RNATEV------------------LAYIADNRVENNPWHGVDDWALKDEVNKLIIVTLGE 425
R ++ L +++ +P V + L ++ K ++ TL
Sbjct: 590 RKVLKIAKEPISLETPIGEEEDSHLGDFIEDKSLVSPADAVINMNLAEQTRK-VLATLTP 648
Query: 426 REREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAML 482
RE +++R+ +G+ +K T E++ + ++RER+RQ+ AL KL+H +R K++ + +
Sbjct: 649 REEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRSKRLRSFV 706
>sp|P33118|RPSB_CORDI RNA polymerase sigma factor SigB OS=Corynebacterium diphtheriae
(strain ATCC 700971 / NCTC 13129 / Biotype gravis)
GN=sigB PE=3 SV=2
Length = 329
Score = 146 bits (368), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 105/308 (34%), Positives = 165/308 (53%), Gaps = 39/308 (12%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ G+ LL + V L++ I+ GL E L E S E L R + +L
Sbjct: 35 YLNGIGKTALLNAEDEVELAQTIEVGL--------YAEYL-LENSQEPLT---RAMKRDL 82
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
+ ++ E AR L+ +N+RLV+S+A+RY G + DL+Q G +GL+R +EKFD SKGF
Sbjct: 83 KVLVKEGRKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDYSKGF 142
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY WWIRQ ++R + + SRT+RLP HL E++ + K + ++ G + + +AE
Sbjct: 143 KFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQQLGREATNEELAE 202
Query: 375 YLNMSQKKVRNATEVLAYIADNRVENNPWHGVDDWA-LKDEVN----------------- 416
+ + K+ E+L + + V + G D+ A L D +
Sbjct: 203 ESGIEESKI----EMLLRQSRDPVSLDMPVGADEEAPLGDFIEDSEATDAESAVVASLRH 258
Query: 417 ---KLIIVTLGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHA 472
+ ++ TL +RE+++IRL YGLD T + I ++ GLSRERVRQ+ + KL+
Sbjct: 259 SDIRTVLDTLEQREQDVIRLRYGLDDGVPRTLDQIGRQFGLSRERVRQIEREVMSKLRDG 318
Query: 473 ARKKKMEA 480
AR +K+ A
Sbjct: 319 ARAEKLRA 326
>sp|P0A602|RPOD_MYCTU RNA polymerase sigma factor RpoD OS=Mycobacterium tuberculosis
GN=rpoD PE=1 SV=1
Length = 528
Score = 145 bits (365), Expect = 8e-34, Method: Compositional matrix adjust.
Identities = 98/308 (31%), Positives = 171/308 (55%), Gaps = 34/308 (11%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ ++ Y+K + LL E V L+K+I+ GL L ER E+L A+
Sbjct: 226 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSER------GEKLPAA--- 276
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
R ++ I + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD
Sbjct: 277 QRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFD 336
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHE---RLGLIRNAKLRLEEKGVTP 367
+KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E +LG I+ + L++ G P
Sbjct: 337 YTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQ--RELLQDLGREP 394
Query: 368 SVDRIAEYLNMSQKKV-------RNATEVLAYIAD-------NRVENNPW----HGVDDW 409
+ + +A+ ++++ +KV R + I D + +E++ V
Sbjct: 395 TPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFT 454
Query: 410 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 468
L+D++ ++ TL ERE ++RL +GL D + T ++I + G++RER+RQ+ + K
Sbjct: 455 LLQDQLQS-VLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSK 513
Query: 469 LKHAARKK 476
L+H +R +
Sbjct: 514 LRHPSRSQ 521
>sp|P0A603|RPOD_MYCBO RNA polymerase sigma factor RpoD OS=Mycobacterium bovis (strain
ATCC BAA-935 / AF2122/97) GN=rpoD PE=3 SV=1
Length = 528
Score = 145 bits (365), Expect = 8e-34, Method: Compositional matrix adjust.
Identities = 98/308 (31%), Positives = 171/308 (55%), Gaps = 34/308 (11%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ ++ Y+K + LL E V L+K+I+ GL L ER E+L A+
Sbjct: 226 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSER------GEKLPAA--- 276
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
R ++ I + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD
Sbjct: 277 QRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFD 336
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHE---RLGLIRNAKLRLEEKGVTP 367
+KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E +LG I+ + L++ G P
Sbjct: 337 YTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQ--RELLQDLGREP 394
Query: 368 SVDRIAEYLNMSQKKV-------RNATEVLAYIAD-------NRVENNPW----HGVDDW 409
+ + +A+ ++++ +KV R + I D + +E++ V
Sbjct: 395 TPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQLGDFIEDSEAVVAVDAVSFT 454
Query: 410 ALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEK 468
L+D++ ++ TL ERE ++RL +GL D + T ++I + G++RER+RQ+ + K
Sbjct: 455 LLQDQLQS-VLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSK 513
Query: 469 LKHAARKK 476
L+H +R +
Sbjct: 514 LRHPSRSQ 521
>sp|P18183|HRDB_STRCO RNA polymerase principal sigma factor HrdB OS=Streptomyces
coelicolor (strain ATCC BAA-471 / A3(2) / M145) GN=hrdB
PE=3 SV=2
Length = 511
Score = 145 bits (365), Expect = 9e-34, Method: Compositional matrix adjust.
Identities = 96/306 (31%), Positives = 173/306 (56%), Gaps = 34/306 (11%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ +K Y+K + LL + V L+K+I+ GL +D KL ++L P +++
Sbjct: 213 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAED-KLANSDKLA--PKLKR------- 262
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
EL+ I + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD
Sbjct: 263 ---ELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 319
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSV 369
+KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+
Sbjct: 320 YTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 379
Query: 370 DRIAEYLNMSQKKV-------RNATEVLAYIADNR-------VENN----PWHGVDDWAL 411
+ +A+ L+M+ +KV R + + ++ +E++ P V L
Sbjct: 380 EELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSFTLL 439
Query: 412 KDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALEKLK 470
+++++ ++ TL ERE ++ + +GL D + T ++I K G++RER+RQ+ + KL+
Sbjct: 440 QEQLHS-VLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLR 498
Query: 471 HAARKK 476
H +R +
Sbjct: 499 HPSRSQ 504
>sp|Q59753|RPOD_RHIME RNA polymerase sigma factor RpoD OS=Rhizobium meliloti (strain
1021) GN=rpoD PE=3 SV=1
Length = 684
Score = 144 bits (363), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 76/241 (31%), Positives = 140/241 (58%), Gaps = 19/241 (7%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 442 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 501
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + ++R ++ L E G P+ + +AE L M
Sbjct: 502 ATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMP 561
Query: 380 QKKVRNATEVL---------------AYIADNRVENNPWHGVDDWALKD--EVNKLIIVT 422
+KVR ++ +++ D + N +D + E ++ +
Sbjct: 562 LEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLAS 621
Query: 423 LGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAM 481
L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH +R +K+ +
Sbjct: 622 LTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSF 681
Query: 482 L 482
L
Sbjct: 682 L 682
>sp|P56835|RPOD_CHLMU RNA polymerase sigma factor RpoD OS=Chlamydia muridarum (strain
MoPn / Nigg) GN=rpoD PE=3 SV=1
Length = 571
Score = 144 bits (363), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 86/264 (32%), Positives = 148/264 (56%), Gaps = 27/264 (10%)
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
++E+ +R+ LQ + + A++++V SN+RLV+SIA++Y N G DL+Q G
Sbjct: 296 TLEEFKKDVRM----LQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 351
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKL 358
+GL++ +EKF+ +G+K STY WWIRQ V+RA+ + +RT+R+P H+ E + ++R AK
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 411
Query: 359 RLEEKGVTPSVDRIAEYLNMSQKKVRNATEVLA-------------------YIADNRVE 399
+ E G P+ + + E L + +VR ++ ++ D VE
Sbjct: 412 LMMETGKEPTPEELGEELGFTPDRVREIYKIAQHPISLQAEVGDSGESSFGDFLEDTAVE 471
Query: 400 NNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERV 458
+P LKD++ K ++ TL +RER ++ +G LD T E++ ++RER+
Sbjct: 472 -SPAEATGYSMLKDKM-KEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERI 529
Query: 459 RQVGLVALEKLKHAARKKKMEAML 482
RQ+ AL K++H R K++ A L
Sbjct: 530 RQIEAKALRKMRHPIRSKQLRAFL 553
>sp|P77951|HRDB_STRGR RNA polymerase principal sigma factor HrdB OS=Streptomyces griseus
GN=hrdB PE=1 SV=1
Length = 514
Score = 144 bits (363), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 98/309 (31%), Positives = 173/309 (55%), Gaps = 40/309 (12%)
Query: 191 NRLKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRI 250
+ +K Y+K + LL + V L+K+I+ GL +D KL ++L P +++
Sbjct: 216 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAED-KLANADKLA--PKLKR------- 265
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
EL+ I + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD
Sbjct: 266 ---ELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 322
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSV 369
+KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+
Sbjct: 323 YTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 382
Query: 370 DRIAEYLNMSQKKVRNATEVLAYIAD-----------------NRVENN----PWHGVDD 408
+ +A+ L+M+ +KV EV Y + + +E++ P V
Sbjct: 383 EELAKELDMTPEKV---IEVQKYGREPISLHTPLGEDGDSEFGDLIEDSEAVVPADAVSF 439
Query: 409 WALKDEVNKLIIVTLGEREREIIRLYYGL-DKECLTWEDISKRIGLSRERVRQVGLVALE 467
L+++++ ++ TL ERE ++ + +GL D + T ++I K G++RER+RQ+ +
Sbjct: 440 TLLQEQLHS-VLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMS 498
Query: 468 KLKHAARKK 476
KL+H +R +
Sbjct: 499 KLRHPSRSQ 507
>sp|P33452|RPOD_AGRT5 RNA polymerase sigma factor RpoD OS=Agrobacterium tumefaciens
(strain C58 / ATCC 33970) GN=rpoD PE=3 SV=2
Length = 684
Score = 144 bits (362), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 76/241 (31%), Positives = 140/241 (58%), Gaps = 19/241 (7%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 442 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 501
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + ++R ++ L E G P+ + +AE L M
Sbjct: 502 ATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMP 561
Query: 380 QKKVRNATEVL---------------AYIADNRVENNPWHGVDDWALKD--EVNKLIIVT 422
+KVR ++ +++ D + N +D + E ++ +
Sbjct: 562 LEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLAS 621
Query: 423 LGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAM 481
L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH +R +K+ +
Sbjct: 622 LTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSF 681
Query: 482 L 482
L
Sbjct: 682 L 682
>sp|P18333|RPOD_CHLTR RNA polymerase sigma factor RpoD OS=Chlamydia trachomatis (strain
D/UW-3/Cx) GN=rpoD PE=3 SV=2
Length = 571
Score = 144 bits (362), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 86/264 (32%), Positives = 148/264 (56%), Gaps = 27/264 (10%)
Query: 240 SMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGL 299
++E+ +R+ LQ + + A++++V SN+RLV+SIA++Y N G DL+Q G
Sbjct: 296 TLEEFKKDVRM----LQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGN 351
Query: 300 IGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKL 358
+GL++ +EKF+ +G+K STY WWIRQ V+RA+ + +RT+R+P H+ E + ++R AK
Sbjct: 352 MGLMKAVEKFEYRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKK 411
Query: 359 RLEEKGVTPSVDRIAEYLNMSQKKVRNATEVLA-------------------YIADNRVE 399
+ E G P+ + + E L + +VR ++ ++ D VE
Sbjct: 412 LMMETGKEPTPEELGEELGFTPDRVREIYKIAQHPISLQAEVGDGGESSFGDFLEDTAVE 471
Query: 400 NNPWHGVDDWALKDEVNKLIIVTLGEREREIIRLYYG-LDKECLTWEDISKRIGLSRERV 458
+P LKD++ K ++ TL +RER ++ +G LD T E++ ++RER+
Sbjct: 472 -SPAEATGYSMLKDKM-KEVLKTLTDRERFVLIHRFGLLDGRPKTLEEVGSAFNVTRERI 529
Query: 459 RQVGLVALEKLKHAARKKKMEAML 482
RQ+ AL K++H R K++ A L
Sbjct: 530 RQIEAKALRKMRHPIRSKQLRAFL 553
>sp|Q2K619|RPOD_RHIEC RNA polymerase sigma factor rpoD OS=Rhizobium etli (strain CFN 42 /
ATCC 51251) GN=sigA PE=1 SV=1
Length = 685
Score = 144 bits (362), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 76/241 (31%), Positives = 140/241 (58%), Gaps = 19/241 (7%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E +A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 443 EARIAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 502
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + ++R ++ L E G P+ + +AE L M
Sbjct: 503 ATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMP 562
Query: 380 QKKVRNATEVL---------------AYIADNRVENNPWHGVDDWALKD--EVNKLIIVT 422
+KVR ++ +++ D + N +D + E ++ +
Sbjct: 563 LEKVRKVLKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLAS 622
Query: 423 LGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAM 481
L RE ++R+ +G+ T E++ ++ ++RER+RQ+ AL KLKH +R +K+ +
Sbjct: 623 LTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSF 682
Query: 482 L 482
L
Sbjct: 683 L 683
>sp|P52325|RPOD_NEIGO RNA polymerase sigma factor RpoD OS=Neisseria gonorrhoeae GN=rpoD
PE=3 SV=1
Length = 642
Score = 143 bits (361), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 78/241 (32%), Positives = 137/241 (56%), Gaps = 27/241 (11%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+++++ +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY WW
Sbjct: 399 AKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 458
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKV 383
IRQ ++R++ + +RT+R+P H+ E + + R ++ L+E G P ++AE + M + K+
Sbjct: 459 IRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQETGEEPDSAKLAELMQMPEDKI 518
Query: 384 RNATEVLAYIADNRVE-NNPWHGVDDWALKD--------------------EVNKLIIVT 422
R + IA + P DD L D EV K I+ +
Sbjct: 519 RK----IMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPADAAMYTSLHEVTKEILES 574
Query: 423 LGEREREIIRLYYGLDKEC-LTWEDISKRIGLSRERVRQVGLVALEKLKHAARKKKMEAM 481
L RE +++R+ +G+D T E++ ++ ++RER+RQ+ AL KL+H R ++ +
Sbjct: 575 LTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAKALRKLRHPTRSDRLRSF 634
Query: 482 L 482
L
Sbjct: 635 L 635
Database: swissprot
Posted date: Mar 23, 2013 2:32 AM
Number of letters in database: 191,569,459
Number of sequences in database: 539,616
Lambda K H
0.315 0.130 0.360
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 165,530,944
Number of Sequences: 539616
Number of extensions: 6691144
Number of successful extensions: 23410
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 158
Number of HSP's successfully gapped in prelim test: 39
Number of HSP's that attempted gapping in prelim test: 22921
Number of HSP's gapped (non-prelim): 289
length of query: 485
length of database: 191,569,459
effective HSP length: 121
effective length of query: 364
effective length of database: 126,275,923
effective search space: 45964435972
effective search space used: 45964435972
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: 63 (28.9 bits)