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= 011324
(488 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|Q9LD95|SIGF_ARATH RNA polymerase sigma factor sigF, chloroplastic OS=Arabidopsis
thaliana GN=SIGF PE=1 SV=1
Length = 547
Score = 457 bits (1177), Expect = e-128, Method: Compositional matrix adjust.
Identities = 254/482 (52%), Positives = 328/482 (68%), Gaps = 38/482 (7%)
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 FQ 474
FQ
Sbjct: 451 FQ 452
>sp|O22056|SIGB_ARATH RNA polymerase sigma factor sigB OS=Arabidopsis thaliana GN=SIGB
PE=2 SV=2
Length = 572
Score = 187 bits (476), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 95/259 (36%), Positives = 161/259 (62%), Gaps = 3/259 (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 IFITRMPLSMQQPVWADQD 470
+ + P S+ Q + +Q+
Sbjct: 455 LLSPKPPRSLDQKIGMNQN 473
>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 = 186 bits (472), Expect = 3e-46, Method: Compositional matrix adjust.
Identities = 98/268 (36%), Positives = 163/268 (60%), Gaps = 13/268 (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 EKLERLIFITRMPLSMQQPVWADQDTTF 473
EKL + ++P+S++ P+ ++D+
Sbjct: 271 EKLRFIAKSAQLPISLETPIGKEEDSRL 298
>sp|P38023|RPOD1_SYNE7 RNA polymerase sigma factor rpoD1 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD1 PE=3 SV=2
Length = 399
Score = 176 bits (447), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 87/217 (40%), Positives = 141/217 (64%)
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 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDT 471
E++A R+ +T+EKL + ++P+S++ P+ ++D+
Sbjct: 269 EEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEEDS 305
>sp|Q31ME3|RPOD2_SYNE7 RNA polymerase sigma factor rpoD2 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD2 PE=1 SV=1
Length = 320
Score = 169 bits (428), Expect = 4e-41, Method: Compositional matrix adjust.
Identities = 89/220 (40%), Positives = 135/220 (61%)
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 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQ 474
+LA + + +E++ I + R P+S+ V QDT Q
Sbjct: 191 SELAEVLELPLEQVREYIQMNRQPVSLDVKVGDSQDTELQ 230
>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 (399), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 88/221 (39%), Positives = 137/221 (61%), Gaps = 1/221 (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 DKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
+LA + +T ++ + R PLS+ V +QDT
Sbjct: 189 TLPELAAALDLTPAQVRDYLEKARHPLSLDLRVGDNQDTEL 229
>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 = 155 bits (391), Expect = 8e-37, Method: Compositional matrix adjust.
Identities = 91/278 (32%), Positives = 153/278 (55%), Gaps = 50/278 (17%)
Query: 239 RKASVKKK-LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQS 297
RK +VKKK +E D +R++L +LL A+EE EL QI DL+ LE + L
Sbjct: 59 RKDAVKKKPYTE-----DSIRIYLQEIGRIRLLRAEEEIELARQIADLLELELIRDNLTL 113
Query: 298 QFGREPTLIEWAKAI----------------GLSCRDLKSELHSGNS------------- 328
Q R+P+ +EW K + +D+ S L + ++
Sbjct: 114 QLERQPSELEWGKQVWKLETAKQRLVGDKKKEPKKKDIDSYLANPDNELSLENEWSQQPN 173
Query: 329 ---------------SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKF 373
+++K++ +NLRLVV +AK+Y RG+S DL+QEGS+GL+++ EKF
Sbjct: 174 KNFAAFRRRLFLDRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKF 233
Query: 374 KPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPD 433
+ G +F++YA WW+RQ I +AI SRTIRLP ++Y +S++ + +L QE P
Sbjct: 234 DHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMRRKPT 293
Query: 434 KEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDT 471
+E++A ++ +T+EKL + ++P+S++ P+ ++D+
Sbjct: 294 EEEIAEKMEMTIEKLRFIAKSAQLPISLETPIGKEEDS 331
>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 = 152 bits (385), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 93/268 (34%), Positives = 141/268 (52%), Gaps = 44/268 (16%)
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 IFITRMPLSMQQPVWADQDTTFQVMPLL 479
+T++P S+ + QD ++M LL
Sbjct: 288 --LTQVPRSVSLELKVGQDKDTELMDLL 313
>sp|P52322|RPOD_MICAE RNA polymerase sigma factor rpoD1 OS=Microcystis aeruginosa
GN=rpoD1 PE=3 SV=1
Length = 416
Score = 152 bits (383), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 84/256 (32%), Positives = 143/256 (55%), Gaps = 39/256 (15%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEK------------------------ 290
D +R++L +LL A+EE EL +I DL++LE+
Sbjct: 67 DSIRIYLQEIGRIRLLRAEEEIELARKIADLLKLERIREDFCLYSDAEWGKQVFLFERIE 126
Query: 291 ----EKSK-------LQSQFGR----EPTLIEWAKAIGLSCRDLKSELHSGNSSREKLIN 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 RMPLSMQQPVWADQDT 471
++P+S++ P+ ++D+
Sbjct: 307 QLPISLETPIGKEEDS 322
>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 = 150 bits (378), Expect = 3e-35, Method: Compositional matrix adjust.
Identities = 92/263 (34%), Positives = 135/263 (51%), Gaps = 43/263 (16%)
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 LIFITRMPLSMQQPVWADQDTTF 473
++ +S++ V D+DT
Sbjct: 299 VLLRVPRSVSLETKVGKDKDTEL 321
>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 = 148 bits (373), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 79/220 (35%), Positives = 129/220 (58%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D + ++L LL+ ++E Q+Q ++ + K +L + REPTL EWA + L
Sbjct: 23 DAVSIYLHKIGRVPLLSHEQEIFFAQQVQQMMVMFTAKEELAEKLQREPTLQEWADKMQL 82
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
L +L G +++K+I ANLRLVV +AK+YQ R + DL+QEG++GL + VEKF
Sbjct: 83 KEDVLLQQLSQGQIAKQKMIQANLRLVVSIAKKYQKRNLEFLDLIQEGALGLERGVEKFD 142
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
P G +F++YAYWW+RQ I +AI Q SRTIRLP ++ L+K+ +R Q+ +
Sbjct: 143 PTLGYKFSTYAYWWIRQGITRAIAQQSRTIRLPIHMADKLNKIKCVQRELSQKLGYIAGV 202
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQ 474
++A+ + + ++ + + R P+S+ + +QDT Q
Sbjct: 203 TEIAQALNLEPSQIREYLQLVRQPVSLDMRIGFEQDTQLQ 242
>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 = 139 bits (350), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 73/211 (34%), Positives = 131/211 (62%), Gaps = 17/211 (8%)
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 VGITVEKLERLIFITRMPLSMQQPVWADQDT 471
+G V+K++ + + R P+S++ PV +++D+
Sbjct: 459 LGWPVQKVKMVKNVAREPISLEIPVGSEEDS 489
>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 = 139 bits (350), Expect = 4e-32, Method: Compositional matrix adjust.
Identities = 73/211 (34%), Positives = 131/211 (62%), Gaps = 17/211 (8%)
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 VGITVEKLERLIFITRMPLSMQQPVWADQDT 471
+G V+K++ + + R P+S++ PV +++D+
Sbjct: 459 LGWPVQKVKMVKNVAREPISLEIPVGSEEDS 489
>sp|P55993|RPOD_HELPY RNA polymerase sigma factor RpoD OS=Helicobacter pylori (strain
ATCC 700392 / 26695) GN=rpoD PE=3 SV=1
Length = 671
Score = 138 bits (347), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 58/147 (39%), Positives = 103/147 (70%)
Query: 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAY 386
+ ++ K+ +NLRLVV +AK++ RG+ DL+QEG++GLMK+V+KF+ + G +F++YA
Sbjct: 430 DRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYAT 489
Query: 387 WWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVE 446
WW++Q I +AI +RTIR+P ++ ++++ + R +IQE PD E +A VG++++
Sbjct: 490 WWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGLSLD 549
Query: 447 KLERLIFITRMPLSMQQPVWADQDTTF 473
K++ +I +T+ P+S++ PV D D F
Sbjct: 550 KVKNVIKVTKEPISLETPVGNDDDGKF 576
>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 = 137 bits (346), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 80/216 (37%), Positives = 125/216 (57%), Gaps = 12/216 (5%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A++E EL I+ L +++ E + +A+
Sbjct: 30 DLVRVYLNGIGKTALLNAEDEVELAQTIE---------VGLYAEYLLENSQEPLTRAM-- 78
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
RDLK + G +R L+ ANLRLVV +AK+Y GRG+ L DL+QEG++GL++++EKF
Sbjct: 79 -KRDLKVLVKEGRKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFD 137
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I + + SRTIRLP ++ ++K+ KR Q+
Sbjct: 138 YSKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQQLGREATN 197
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQD 470
E+LA GI K+E L+ +R P+S+ PV AD++
Sbjct: 198 EELAEESGIEESKIEMLLRQSRDPVSLDMPVGADEE 233
>sp|Q9ZMY3|RPOD_HELPJ RNA polymerase sigma factor RpoD OS=Helicobacter pylori (strain
J99) GN=rpoD PE=3 SV=1
Length = 681
Score = 137 bits (345), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 58/147 (39%), Positives = 103/147 (70%)
Query: 327 NSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAY 386
+ ++ K+ +NLRLVV +AK++ RG+ DL+QEG++GLMK+V+KF+ + G +F++YA
Sbjct: 440 DRAKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYAT 499
Query: 387 WWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVE 446
WW++Q I +AI +RTIR+P ++ ++++ + R +IQE PD E +A VG++++
Sbjct: 500 WWIKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQETGKEPDLEVVAEEVGLSLD 559
Query: 447 KLERLIFITRMPLSMQQPVWADQDTTF 473
K++ +I +T+ P+S++ PV D D F
Sbjct: 560 KVKNVIKVTKEPISLETPVGNDDDGKF 586
>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 = 135 bits (341), Expect = 6e-31, Method: Compositional matrix adjust.
Identities = 63/159 (39%), Positives = 107/159 (67%), Gaps = 1/159 (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 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTFQ 474
+LA+ +G EK++ ++ + +S++ P+ D+D++ +
Sbjct: 262 ELAKMMGKPPEKIKEILEAAKETISLESPIGEDEDSSIE 300
>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 = 135 bits (340), Expect = 7e-31, Method: Compositional matrix adjust.
Identities = 87/285 (30%), Positives = 138/285 (48%), Gaps = 68/285 (23%)
Query: 187 NGAEFTDISLTSSLGYPLEEVKQFSQPRFLERRSKKRKVSKPQVTNHETYNSRKASVKKK 246
G TD S Y +EE+K ++T+ E S A V
Sbjct: 59 GGISITDREGNPSTKYAVEEIK------------------PEELTDEELLGSNSAKV--- 97
Query: 247 LSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLI 306
NDP+R++L LLT +EE EL
Sbjct: 98 -------NDPVRMYLKEIGVVPLLTNEEEKEL---------------------------- 122
Query: 307 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGL 366
AI + DL++ +++L ANLRLVV +AK+Y GRG+ DL+QEG+MGL
Sbjct: 123 ----AIAVENGDLEA--------KQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGL 170
Query: 367 MKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQ 426
MK+V+KF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q
Sbjct: 171 MKAVDKFDYSKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQ 230
Query: 427 EGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDT 471
E P E +A R+ +T +K+ ++ I + P+S++ P+ + D+
Sbjct: 231 ELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEEDDS 275
>sp|P52328|RPSD2_BACSP RNA polymerase sigma factor RpoD OS=Bacillus sp. GN=sigA PE=3 SV=1
Length = 377
Score = 135 bits (339), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 72/222 (32%), Positives = 119/222 (53%), Gaps = 40/222 (18%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+AD+E EL +I
Sbjct: 101 GIKINDPVRMYLKEIGRVPLLSADDEVELAKRI--------------------------- 133
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++ ++ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGL+K+
Sbjct: 134 -------------MNGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKA 180
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ R +QE
Sbjct: 181 VEKFDHNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELG 240
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDT 471
P E++A + ++VEK+ ++ I + P+S++ P+ + D+
Sbjct: 241 REPTPEEIAAEMELSVEKVREIMKIAQEPVSLETPIGEEDDS 282
>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 = 135 bits (339), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 71/222 (31%), Positives = 119/222 (53%), Gaps = 40/222 (18%)
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 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDT 471
P E++ + + EK+ ++ I + P+S++ P+ + D+
Sbjct: 232 REPTPEEIGAEMDLPTEKVREILKIAQEPVSLETPIGEEDDS 273
>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 = 134 bits (338), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 72/222 (32%), Positives = 118/222 (53%), Gaps = 40/222 (18%)
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 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDT 471
P E++A + +T EK+ ++ I + P+S++ P+ + D+
Sbjct: 236 REPSPEEVAEEMDLTPEKVREILKIAQEPVSLETPIGEEDDS 277
>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 = 134 bits (337), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 76/245 (31%), Positives = 130/245 (53%), Gaps = 50/245 (20%)
Query: 227 KPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLI 286
+P++++ + S A V NDP+R++L LLT +EE EL
Sbjct: 79 EPELSDEDLIGSTSAKV----------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 ADQDT 471
+ D+
Sbjct: 269 EEDDS 273
>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 = 134 bits (337), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 76/245 (31%), Positives = 130/245 (53%), Gaps = 50/245 (20%)
Query: 227 KPQVTNHETYNSRKASVKKKLSEGFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLI 286
+P++++ + S A V NDP+R++L LLT +EE EL
Sbjct: 79 EPELSDEDLIGSTSAKV----------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 ADQDT 471
+ D+
Sbjct: 269 EEDDS 273
>sp|O83506|RPOD_TREPA RNA polymerase sigma factor RpoD OS=Treponema pallidum (strain
Nichols) GN=rpoD PE=3 SV=1
Length = 611
Score = 134 bits (337), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 61/155 (39%), Positives = 108/155 (69%), Gaps = 4/155 (2%)
Query: 323 LHSGN----SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAG 378
+H G+ +++KLINANLRLVV +AK+Y RG+ DL+QEG++GL+K+VEKF+ + G
Sbjct: 363 IHRGHVMLKKAKDKLINANLRLVVSIAKKYTNRGLLFFDLVQEGNIGLIKAVEKFEYRKG 422
Query: 379 CRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLA 438
+F++YA WW+RQ I ++I +RTIR+P ++ ++KV R +Q+ P E++A
Sbjct: 423 YKFSTYATWWIRQAITRSISDQARTIRVPVHMIEQINKVTRESRQLLQKFGREPSDEEIA 482
Query: 439 RRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
+++ TVEK++++ + R P+S++ P+ ++D++
Sbjct: 483 QQLCWTVEKVKQVKSVAREPISLETPIGEEEDSSL 517
>sp|P06224|RPOD_BACSU RNA polymerase sigma factor RpoD OS=Bacillus subtilis (strain 168)
GN=sigA PE=1 SV=2
Length = 371
Score = 132 bits (333), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 75/216 (34%), Positives = 126/216 (58%), Gaps = 20/216 (9%)
Query: 264 PETRKLLTADEEFEL-------IAQIQDLIRLE-KEKSKLQSQFGREPTLIEWAKAIGLS 315
P ++L A+EEF+L +I D +R+ KE ++ +E I +A+ I
Sbjct: 73 PNIQQLAKAEEEFDLNDLSVPPGVKINDPVRMYLKEIGRVNLLSAKEE--IAYAQKIE-- 128
Query: 316 CRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKP 375
S+ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK+VEKF
Sbjct: 129 --------EGDEESKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDY 180
Query: 376 QAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKE 435
+ G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+ P E
Sbjct: 181 RKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPE 240
Query: 436 DLARRVGITVEKLERLIFITRMPLSMQQPVWADQDT 471
++A + +T EK+ ++ I + P+S++ P+ + D+
Sbjct: 241 EIAEDMDLTPEKVREILKIAQEPVSLETPIGEEDDS 276
>sp|P0A602|RPOD_MYCTU RNA polymerase sigma factor RpoD OS=Mycobacterium tuberculosis
GN=rpoD PE=1 SV=1
Length = 528
Score = 132 bits (333), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 77/226 (34%), Positives = 126/226 (55%), Gaps = 23/226 (10%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQI-------QDLIRLEKEKSKLQSQFGREPTLIE 307
D +R +L LL A+EE EL +I Q + L + KL + R+ I
Sbjct: 226 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKLPAAQRRDMMWI- 284
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
CRD G+ ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+
Sbjct: 285 --------CRD-------GDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLI 329
Query: 368 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
++VEKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 330 RAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQD 389
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
P E+LA+ + IT EK+ + R P+S+ Q + + D+
Sbjct: 390 LGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQL 435
>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 = 132 bits (333), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 77/226 (34%), Positives = 126/226 (55%), Gaps = 23/226 (10%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQI-------QDLIRLEKEKSKLQSQFGREPTLIE 307
D +R +L LL A+EE EL +I Q + L + KL + R+ I
Sbjct: 226 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKLPAAQRRDMMWI- 284
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLM 367
CRD G+ ++ L+ ANLRLVV +AK+Y GRG++ DL+QEG++GL+
Sbjct: 285 --------CRD-------GDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLI 329
Query: 368 KSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQE 427
++VEKF G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+
Sbjct: 330 RAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQD 389
Query: 428 GNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
P E+LA+ + IT EK+ + R P+S+ Q + + D+
Sbjct: 390 LGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEGDSQL 435
>sp|P17531|RPOD_MYXXA RNA polymerase sigma factor RpoD OS=Myxococcus xanthus GN=rpoD PE=3
SV=1
Length = 708
Score = 132 bits (332), Expect = 6e-30, Method: Compositional matrix adjust.
Identities = 54/143 (37%), Positives = 101/143 (70%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++ +L+ ANLRLVV +AK+Y RG+ DL+QEG++GLMK+V+KF+ + G +F++YA WW
Sbjct: 470 AKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATWW 529
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIR+P ++ ++K++ R +QE P E++A ++ + ++K+
Sbjct: 530 IRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEIGREPTPEEIAEKMELPLDKV 589
Query: 449 ERLIFITRMPLSMQQPVWADQDT 471
+++ I + P+S++ P+ ++D+
Sbjct: 590 RKVLKIAKEPISLETPIGEEEDS 612
>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 = 132 bits (332), Expect = 6e-30, Method: Compositional matrix adjust.
Identities = 72/223 (32%), Positives = 118/223 (52%), Gaps = 42/223 (18%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE L +I+
Sbjct: 98 GVKINDPVRMYLKEIGRVDLLTADEEIALAKRIE-------------------------- 131
Query: 310 KAIGLSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
+G+ ++ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK
Sbjct: 132 ---------------AGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMK 176
Query: 369 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 177 AVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDL 236
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDT 471
P E++ + + EK+ ++ I + P+S++ P+ + D+
Sbjct: 237 GRDPSPEEIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDS 279
>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 = 132 bits (332), Expect = 7e-30, Method: Compositional matrix adjust.
Identities = 75/219 (34%), Positives = 125/219 (57%), Gaps = 13/219 (5%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E EL +I+ + E KL + P L
Sbjct: 213 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAE---DKLANSDKLAPKL--------- 260
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
R+L+ G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 261 -KRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 319
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 320 YTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 379
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
E+LA+ + +T EK+ + R P+S+ P+ D D+ F
Sbjct: 380 EELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEF 418
>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 = 132 bits (332), Expect = 7e-30, Method: Compositional matrix adjust.
Identities = 72/223 (32%), Positives = 118/223 (52%), Gaps = 42/223 (18%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE L +I+
Sbjct: 98 GVKINDPVRMYLKEIGRVDLLTADEEIALAKRIE-------------------------- 131
Query: 310 KAIGLSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMK 368
+G+ ++ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGLMK
Sbjct: 132 ---------------AGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMK 176
Query: 369 SVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEG 428
+VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 177 AVEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDL 236
Query: 429 NHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDT 471
P E++ + + EK+ ++ I + P+S++ P+ + D+
Sbjct: 237 GRDPSPEEIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDS 279
>sp|P77951|HRDB_STRGR RNA polymerase principal sigma factor HrdB OS=Streptomyces griseus
GN=hrdB PE=1 SV=1
Length = 514
Score = 132 bits (331), Expect = 9e-30, Method: Compositional matrix adjust.
Identities = 75/219 (34%), Positives = 125/219 (57%), Gaps = 13/219 (5%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E EL +I+ + E KL + P L
Sbjct: 216 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAE---DKLANADKLAPKL--------- 263
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFK 374
R+L+ G ++ L+ ANLRLVV +AK+Y GRG+ DL+QEG++GL+++VEKF
Sbjct: 264 -KRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFD 322
Query: 375 PQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDK 434
G +F++YA WW+RQ I +A+ +RTIR+P ++ +++K+ +R +Q+ P
Sbjct: 323 YTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTP 382
Query: 435 EDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
E+LA+ + +T EK+ + R P+S+ P+ D D+ F
Sbjct: 383 EELAKELDMTPEKVIEVQKYGREPISLHTPLGEDGDSEF 421
>sp|P52326|RPOD_PSEFL RNA polymerase sigma factor RpoD OS=Pseudomonas fluorescens GN=rpoD
PE=3 SV=1
Length = 615
Score = 131 bits (330), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 66/200 (33%), Positives = 125/200 (62%), Gaps = 15/200 (7%)
Query: 277 ELIAQIQ-DLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS----SRE 331
E IA++Q D+IR +++ + L+ + G + I +D+ + G + +++
Sbjct: 330 EAIARLQPDIIRCQQKLTALEVETGLKIAEI----------KDINRRMSIGEAKARRAKK 379
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQ 391
+++ ANLRLV+ +AK+Y RG+ DL+QEG++GLMK+V+KF+ + G +F++YA WW+RQ
Sbjct: 380 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 439
Query: 392 TIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERL 451
I ++I +RTIR+P ++ ++K+ R +QE P E+L R+ + +K+ ++
Sbjct: 440 AITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERMEMPEDKIRKV 499
Query: 452 IFITRMPLSMQQPVWADQDT 471
+ I + P+SM+ P+ D+D+
Sbjct: 500 LKIAKEPISMETPIGDDEDS 519
>sp|Q4UJT1|RPOD_RICFE RNA polymerase sigma factor RpoD OS=Rickettsia felis (strain ATCC
VR-1525 / URRWXCal2) GN=rpoD PE=3 SV=1
Length = 635
Score = 131 bits (329), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 55/142 (38%), Positives = 98/142 (69%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
+++ +I ANLRLV+ +AK+Y RG+ DL+QEG++GLMK+V+KF+ + G +F++YA WW
Sbjct: 382 AKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIR+P ++ ++K+L R + E + P ++A R+ + ++K+
Sbjct: 442 IRQAITRAIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKV 501
Query: 449 ERLIFITRMPLSMQQPVWADQD 470
+++ I + P+S++ PV D D
Sbjct: 502 RKVMKIAKEPISLENPVGDDSD 523
>sp|Q92FZ8|RPOD_RICCN RNA polymerase sigma factor RpoD OS=Rickettsia conorii (strain ATCC
VR-613 / Malish 7) GN=rpoD PE=3 SV=1
Length = 634
Score = 131 bits (329), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 55/142 (38%), Positives = 98/142 (69%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
+++ +I ANLRLV+ +AK+Y RG+ DL+QEG++GLMK+V+KF+ + G +F++YA WW
Sbjct: 381 AKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 440
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIR+P ++ ++K+L R + E + P ++A R+ + ++K+
Sbjct: 441 IRQAITRAIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKV 500
Query: 449 ERLIFITRMPLSMQQPVWADQD 470
+++ I + P+S++ PV D D
Sbjct: 501 RKVMKIAKEPISLENPVGDDSD 522
>sp|P33451|RPOD_RICPR RNA polymerase sigma factor RpoD OS=Rickettsia prowazekii (strain
Madrid E) GN=rpoD PE=3 SV=1
Length = 635
Score = 130 bits (328), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 55/142 (38%), Positives = 98/142 (69%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
+++ +I ANLRLV+ +AK+Y RG+ DL+QEG++GLMK+V+KF+ + G +F++YA WW
Sbjct: 382 AKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIR+P ++ ++K+L R + E + P ++A R+ + ++K+
Sbjct: 442 IRQAITRAIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKV 501
Query: 449 ERLIFITRMPLSMQQPVWADQD 470
+++ I + P+S++ PV D D
Sbjct: 502 RKVMKIAKEPISLENPVGDDSD 523
>sp|Q9Z7F0|RPOD_CHLPN RNA polymerase sigma factor RpoD OS=Chlamydia pneumoniae GN=rpoD
PE=3 SV=1
Length = 572
Score = 130 bits (328), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 62/170 (36%), Positives = 109/170 (64%), Gaps = 4/170 (2%)
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 YIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
+ E P E+LA +G+T +++ + I + P+S+Q V +++F
Sbjct: 412 LMMETGKEPTPEELAEELGLTPDRVREIYKIAQHPISLQAEVGEGSESSF 461
>sp|Q68VQ5|RPOD_RICTY RNA polymerase sigma factor RpoD OS=Rickettsia typhi (strain ATCC
VR-144 / Wilmington) GN=rpoD PE=3 SV=1
Length = 635
Score = 130 bits (328), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 55/142 (38%), Positives = 98/142 (69%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
+++ +I ANLRLV+ +AK+Y RG+ DL+QEG++GLMK+V+KF+ + G +F++YA WW
Sbjct: 382 AKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 441
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIR+P ++ ++K+L R + E + P ++A R+ + ++K+
Sbjct: 442 IRQAITRAIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKV 501
Query: 449 ERLIFITRMPLSMQQPVWADQD 470
+++ I + P+S++ PV D D
Sbjct: 502 RKVMKIAKEPISLENPVGDDSD 523
>sp|O24744|RPOD_SHEVD RNA polymerase sigma factor RpoD OS=Shewanella violacea (strain JCM
10179 / CIP 106290 / LMG 19151 / DSS12) GN=rpoD PE=3
SV=1
Length = 614
Score = 130 bits (328), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 58/161 (36%), Positives = 107/161 (66%), Gaps = 4/161 (2%)
Query: 315 SCRDLKSELHSGNS----SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSV 370
S +D+ + G + ++++++ ANLRLV+ +AK+Y RG+ DL+QEG++GLMK+V
Sbjct: 358 SIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 417
Query: 371 EKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNH 430
+KF+ + G +F++YA WW+RQ I ++I +RTIR+P ++ ++K+ R +QE
Sbjct: 418 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGR 477
Query: 431 SPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDT 471
P E+LA R+ + +K+ +++ I + P+SM+ P+ D+D+
Sbjct: 478 EPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDS 518
>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 = 130 bits (327), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 62/190 (32%), Positives = 116/190 (61%), Gaps = 25/190 (13%)
Query: 307 EWAKAIGLSCRDLKSELH-----SGNS--------------------SREKLINANLRLV 341
E+AKA + RD++ E+ +G S ++++++ ANLRLV
Sbjct: 400 EFAKAENTTIRDIRQEIQNLATETGISISEFRRIVHMVQKGEREARIAKKEMVEANLRLV 459
Query: 342 VHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWWVRQTIRKAIFQHS 401
+ +AK+Y RG+ DL+QEG++GLMK+V+KF+ + G +F++YA WW+RQ I ++I +
Sbjct: 460 ISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 519
Query: 402 RTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKLERLIFITRMPLSM 461
RTIR+P ++ ++K++ R + E P E+LA ++ + +EK+ +++ I + P+S+
Sbjct: 520 RTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISL 579
Query: 462 QQPVWADQDT 471
+ PV ++D+
Sbjct: 580 ETPVGDEEDS 589
>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 = 130 bits (327), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 53/143 (37%), Positives = 101/143 (70%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++++++ ANLRLV+ +AK+Y RG+ DL+QEG++GLMK+V+KF+ + G +F++YA WW
Sbjct: 446 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 505
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I ++I +RTIR+P ++ ++K++ R + E P E+LA ++ + +EK+
Sbjct: 506 IRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKV 565
Query: 449 ERLIFITRMPLSMQQPVWADQDT 471
+++ I + P+S++ PV ++D+
Sbjct: 566 RKVLKIAKEPISLETPVGDEEDS 588
>sp|Q59753|RPOD_RHIME RNA polymerase sigma factor RpoD OS=Rhizobium meliloti (strain
1021) GN=rpoD PE=3 SV=1
Length = 684
Score = 130 bits (327), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 53/143 (37%), Positives = 101/143 (70%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++++++ ANLRLV+ +AK+Y RG+ DL+QEG++GLMK+V+KF+ + G +F++YA WW
Sbjct: 446 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 505
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I ++I +RTIR+P ++ ++K++ R + E P E+LA ++ + +EK+
Sbjct: 506 IRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKV 565
Query: 449 ERLIFITRMPLSMQQPVWADQDT 471
+++ I + P+S++ PV ++D+
Sbjct: 566 RKVLKIAKEPISLETPVGDEEDS 588
>sp|Q83BB6|RPOD_COXBU RNA polymerase sigma factor RpoD OS=Coxiella burnetii (strain RSA
493 / Nine Mile phase I) GN=rpoD PE=1 SV=1
Length = 698
Score = 130 bits (327), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 56/145 (38%), Positives = 99/145 (68%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
+++++I ANLRLV+ +AK+Y RG+ DL+QEG++GLMK+V+KF+ + G +F++YA WW
Sbjct: 458 AKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 517
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I ++I +RTIR+P ++ ++K+ R +QE E+L RR+ + EK+
Sbjct: 518 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQETGIEATPEELGRRMDMPEEKV 577
Query: 449 ERLIFITRMPLSMQQPVWADQDTTF 473
+++ I + P+SM+ P+ D+D+
Sbjct: 578 RKVLKIAKEPISMETPIGEDEDSNL 602
>sp|P27785|RPOD_STRAU RNA polymerase sigma factor RpoD OS=Streptomyces aureofaciens
GN=rpoD PE=3 SV=1
Length = 317
Score = 130 bits (326), Expect = 3e-29, Method: Compositional matrix adjust.
Identities = 58/156 (37%), Positives = 104/156 (66%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQA 377
DL + G ++ +LI +NLRLVV VAK+Y GRG+++ DL+QEG++GL+++VEKF
Sbjct: 69 DLDRLVVMGRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYAR 128
Query: 378 GCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDL 437
G +F++YA WW+RQ + +A+ +RTIR+P ++ L+++V+ +R +QE + P E++
Sbjct: 129 GYKFSTYATWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTAEEV 188
Query: 438 ARRVGITVEKLERLIFITRMPLSMQQPVWADQDTTF 473
A + +T E++ ++ + + P+S+ PV + D
Sbjct: 189 AVHLELTPERVLEVLRLAQEPVSLHAPVGEEDDVAL 224
>sp|P52324|RPOD_CAUCR RNA polymerase sigma factor RpoD OS=Caulobacter crescentus (strain
ATCC 19089 / CB15) GN=rpoD PE=3 SV=1
Length = 652
Score = 129 bits (325), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 66/215 (30%), Positives = 123/215 (57%), Gaps = 38/215 (17%)
Query: 295 LQSQFGRE--PTLIEWAKAIGL-----------SCRDLKSELHS---------------- 325
L++ FG E PT E KA+G+ S D++SE+ +
Sbjct: 342 LKAYFGSELNPTWSEQVKAMGVRWTKFVENDSQSVTDIRSEIAALATETGVPIDDYRRIV 401
Query: 326 ---------GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQ 376
++++++ ANLRLV+ +AK+Y RG+ DL+QEG++GLMK+V+KF+ +
Sbjct: 402 QTVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYR 461
Query: 377 AGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKED 436
G +F++YA WW+RQ I ++I +RTIR+P ++ ++K++ R + E P E+
Sbjct: 462 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEE 521
Query: 437 LARRVGITVEKLERLIFITRMPLSMQQPVWADQDT 471
LA ++ + +EK+ +++ I + P+S++ P+ ++D+
Sbjct: 522 LAEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDS 556
>sp|Q1RKH7|RPOD_RICBR RNA polymerase sigma factor RpoD OS=Rickettsia bellii (strain
RML369-C) GN=rpoD PE=3 SV=1
Length = 641
Score = 129 bits (325), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 53/145 (36%), Positives = 99/145 (68%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
+++ +I ANLRLV+ +AK+Y RG+ DL+QEG++GLMK+V+KF+ + G +F++YA WW
Sbjct: 388 AKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 447
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I +AI +RTIR+P ++ ++K++ R + E + P ++A R+ + ++K+
Sbjct: 448 IRQAITRAIADQARTIRIPVHMIETINKIIRTSRQMLNELGYEPTPAEIAARLSMPIDKV 507
Query: 449 ERLIFITRMPLSMQQPVWADQDTTF 473
+++ I + P+S++ PV D ++
Sbjct: 508 RKVMKIAKEPISLENPVGDGDDNSY 532
>sp|P52325|RPOD_NEIGO RNA polymerase sigma factor RpoD OS=Neisseria gonorrhoeae GN=rpoD
PE=3 SV=1
Length = 642
Score = 129 bits (324), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 55/144 (38%), Positives = 99/144 (68%)
Query: 328 SSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYW 387
++++++I ANLRLV+ +AK+Y RG+ DL+QEG++GLMK+V+KF+ + G +F++YA W
Sbjct: 398 AAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 457
Query: 388 WVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEK 447
W+RQ I ++I +RTIR+P ++ ++K+ R ++QE PD LA + + +K
Sbjct: 458 WIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQETGEEPDSAKLAELMQMPEDK 517
Query: 448 LERLIFITRMPLSMQQPVWADQDT 471
+ +++ I + P+SM+ P+ D D+
Sbjct: 518 IRKIMKIAKEPISMETPIGDDDDS 541
>sp|P43766|RPOD_HAEIN RNA polymerase sigma factor RpoD OS=Haemophilus influenzae (strain
ATCC 51907 / DSM 11121 / KW20 / Rd) GN=rpoD PE=3 SV=1
Length = 629
Score = 129 bits (324), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 55/143 (38%), Positives = 99/143 (69%)
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKSVEKFKPQAGCRFASYAYWW 388
++++++ ANLRLV+ +AK+Y RG+ DL+QEG++GLMK+V+KF+ + G +F++YA WW
Sbjct: 391 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 450
Query: 389 VRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGNHSPDKEDLARRVGITVEKL 448
+RQ I ++I +RTIR+P ++ ++K+ R +QE E+LA R+G+ +K+
Sbjct: 451 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQLLQEMGREATPEELAERMGMPEDKI 510
Query: 449 ERLIFITRMPLSMQQPVWADQDT 471
+++ I + P+SM+ P+ D D+
Sbjct: 511 RKVLKIAKEPISMETPIGDDDDS 533
>sp|P0A0I9|RPOD_STAAW RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MW2) GN=rpoD PE=3 SV=1
Length = 368
Score = 129 bits (324), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 69/222 (31%), Positives = 115/222 (51%), Gaps = 40/222 (18%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+A EE EL +I+
Sbjct: 92 GVKINDPVRMYLKEIGRVNLLSAQEEIELAKRIE-------------------------- 125
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGL+K+
Sbjct: 126 --------------QGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKA 171
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 172 VEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLG 231
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDT 471
P E++ + + EK+ ++ I + P+S++ P+ + D+
Sbjct: 232 RDPAPEEIGEEMDLPAEKVREILKIAQEPVSLETPIGEEDDS 273
>sp|Q6G905|RPOD_STAAS RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MSSA476) GN=rpoD PE=3 SV=1
Length = 368
Score = 129 bits (324), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 69/222 (31%), Positives = 115/222 (51%), Gaps = 40/222 (18%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+A EE EL +I+
Sbjct: 92 GVKINDPVRMYLKEIGRVNLLSAQEEIELAKRIE-------------------------- 125
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQEGSMGLMKS 369
++ +L ANLRLVV +AK+Y GRG+ DL+QEG+MGL+K+
Sbjct: 126 --------------QGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKA 171
Query: 370 VEKFKPQAGCRFASYAYWWVRQTIRKAIFQHSRTIRLPENIYTLLSKVLEAKRLYIQEGN 429
VEKF G +F++YA WW+RQ I +AI +RTIR+P ++ ++K++ +R +Q+
Sbjct: 172 VEKFDFNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLG 231
Query: 430 HSPDKEDLARRVGITVEKLERLIFITRMPLSMQQPVWADQDT 471
P E++ + + EK+ ++ I + P+S++ P+ + D+
Sbjct: 232 RDPAPEEIGEEMDLPAEKVREILKIAQEPVSLETPIGEEDDS 273
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
0.314 0.128 0.362
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 166,977,901
Number of Sequences: 539616
Number of extensions: 6665993
Number of successful extensions: 24275
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 155
Number of HSP's successfully gapped in prelim test: 49
Number of HSP's that attempted gapping in prelim test: 23636
Number of HSP's gapped (non-prelim): 509
length of query: 488
length of database: 191,569,459
effective HSP length: 121
effective length of query: 367
effective length of database: 126,275,923
effective search space: 46343263741
effective search space used: 46343263741
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 63 (28.9 bits)