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= 018065
(361 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 = 267 bits (682), Expect = 1e-70, Method: Compositional matrix adjust.
Identities = 172/368 (46%), Positives = 226/368 (61%), Gaps = 38/368 (10%)
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 ISLHDLLQ 360
++ DLLQ
Sbjct: 331 LNFQDLLQ 338
>sp|O22056|SIGB_ARATH RNA polymerase sigma factor sigB OS=Arabidopsis thaliana GN=SIGB
PE=2 SV=2
Length = 572
Score = 108 bits (271), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 56/148 (37%), Positives = 92/148 (62%), Gaps = 1/148 (0%)
Query: 214 RFLERRSKKRKVSKPQVTNHETYNSRKASVKKKL-SEGFDRNDPLRLFLWGPETRKLLTA 272
R ER++++ K + + + + + KK+L ++ D NDPLR + KLLT
Sbjct: 216 RQTERKARRAKGLEKTASGIPSVKTGSSPKKKRLVAQEVDHNDPLRYLRMTTSSSKLLTV 275
Query: 273 DEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREK 332
EE EL A IQDL++LE+ +++L + GR+PT +WA A G+ + L+ +H G ++K
Sbjct: 276 REEHELSAGIQDLLKLERLQTELTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCKDK 335
Query: 333 LINANLRLVVHVAKQYQGRGISLHDLLQ 360
+I +N+RLV+ +AK YQG G++L DL+Q
Sbjct: 336 MIKSNIRLVISIAKNYQGAGMNLQDLVQ 363
>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 = 89.7 bits (221), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 55/155 (35%), Positives = 87/155 (56%), Gaps = 13/155 (8%)
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 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
G +++K++ +NLRLVV +AK+Y RG+S DL+Q
Sbjct: 151 GRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQ 185
>sp|Q31ME3|RPOD2_SYNE7 RNA polymerase sigma factor rpoD2 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD2 PE=1 SV=1
Length = 320
Score = 80.1 bits (196), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 42/106 (39%), Positives = 65/106 (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 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
+ DL ++ G ++ K+I ANLRLVV +AK+YQ R + DL+Q
Sbjct: 71 NLEDLDRQIEQGQRAKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQ 116
>sp|P38023|RPOD1_SYNE7 RNA polymerase sigma factor rpoD1 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD1 PE=3 SV=2
Length = 399
Score = 79.7 bits (195), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 44/106 (41%), Positives = 65/106 (61%)
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 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
+ + L G +++K++ +NLRLVV +AK+Y RG+S DL+Q
Sbjct: 149 PLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQ 194
>sp|Q31QG5|RPOD3_SYNE7 RNA polymerase sigma factor rpoD3 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD3 PE=3 SV=1
Length = 320
Score = 77.8 bits (190), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 45/108 (41%), Positives = 69/108 (63%), Gaps = 1/108 (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 GLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
GLS +L+ + H G ++ K+I ANLRLVV VAK+Y R + L DL+Q
Sbjct: 69 GLSIEELRQQQHLGEQAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQ 116
>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 = 67.4 bits (163), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 38/106 (35%), Positives = 60/106 (56%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D + ++L LL+ ++E Q+Q ++ + K +L + REPTL EWA + L
Sbjct: 23 DAVSIYLHKIGRVPLLSHEQEIFFAQQVQQMMVMFTAKEELAEKLQREPTLQEWADKMQL 82
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
L +L G +++K+I ANLRLVV +AK+YQ R + DL+Q
Sbjct: 83 KEDVLLQQLSQGQIAKQKMIQANLRLVVSIAKKYQKRNLEFLDLIQ 128
>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 = 60.5 bits (145), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 49/167 (29%), Positives = 77/167 (46%), Gaps = 50/167 (29%)
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 ---------------SREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
+++K++ +NLRLVV +AK+Y RG+S DL+Q
Sbjct: 174 KNFAAFRRRLFLDRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQ 220
>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 = 60.5 bits (145), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 45/149 (30%), Positives = 64/149 (42%), Gaps = 42/149 (28%)
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 KLINANLRLVVHVAKQYQGRGISLHDLLQ 360
+I ANLRLVV VAK+YQ RG+ L DL+Q
Sbjct: 168 HMIKANLRLVVSVAKKYQNRGLELLDLIQ 196
>sp|P52322|RPOD_MICAE RNA polymerase sigma factor rpoD1 OS=Microcystis aeruginosa
GN=rpoD1 PE=3 SV=1
Length = 416
Score = 59.3 bits (142), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 43/145 (29%), Positives = 67/145 (46%), Gaps = 39/145 (26%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEK------------------------ 290
D +R++L +LL A+EE EL +I DL++LE+
Sbjct: 67 DSIRIYLQEIGRIRLLRAEEEIELARKIADLLKLERIREDFCLYSDAEWGKQVFLFERIE 126
Query: 291 ----EKSK-------LQSQFGRE----PTLIEWAKAIGLSCRDLKSELHSGNSSREKLIN 335
EKS+ +++ G+ P L EW K L+ G ++EK++
Sbjct: 127 KIIVEKSEKEPKLSDIKAYLGKTELTAPLLEEWLAKSKEYLSAFKRRLYHGRRAKEKMVQ 186
Query: 336 ANLRLVVHVAKQYQGRGISLHDLLQ 360
+NLRLVV +AK+Y RG+S DL+Q
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQ 211
>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 = 58.2 bits (139), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 45/150 (30%), Positives = 64/150 (42%), Gaps = 43/150 (28%)
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 EKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
E +I ANLRLVV VAK+YQ RG+ L DL+Q
Sbjct: 179 EHMIKANLRLVVSVAKKYQNRGLELLDLVQ 208
>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 = 54.7 bits (130), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 42/106 (39%), Positives = 58/106 (54%), Gaps = 12/106 (11%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
D +R++L G LL A++E EL I+ + L E SQ EP +A+
Sbjct: 30 DLVRVYLNGIGKTALLNAEDEVELAQTIE--VGLYAEYLLENSQ---EP----LTRAM-- 78
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
RDLK + G +R L+ ANLRLVV +AK+Y GRG+ L DL+Q
Sbjct: 79 -KRDLKVLVKEGRKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQ 123
>sp|O24629|SIGA_ARATH RNA polymerase sigma factor sigA OS=Arabidopsis thaliana GN=SIGA
PE=1 SV=1
Length = 502
Score = 53.1 bits (126), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 32/104 (30%), Positives = 63/104 (60%)
Query: 257 LRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSC 316
+R ++ G + +L+ E L +I+ +RL+ KS+L+ + G EP+ + A ++ +S
Sbjct: 187 VRGYVKGVISEDVLSHVEVVRLSKKIKSGLRLDDHKSRLKDRLGCEPSDEQLAVSLKISR 246
Query: 317 RDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
+L++ L + +REKL +N+RLV+ +A++Y G + DL+Q
Sbjct: 247 AELQAWLMECHLAREKLAMSNVRLVMSIAQRYDNLGAEMSDLVQ 290
>sp|O24621|SIGC_ARATH RNA polymerase sigma factor sigC OS=Arabidopsis thaliana GN=SIGC
PE=2 SV=1
Length = 571
Score = 52.4 bits (124), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 52/86 (60%)
Query: 275 EFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNSSREKLI 334
E E+ ++ + +E+ +++L+ + G+ +L WA A G++ + L LH G R++L+
Sbjct: 278 ETEMSTGVKIVADMERIRTQLEEESGKVASLSCWAAAAGMNEKLLMRNLHYGWYCRDELV 337
Query: 335 NANLRLVVHVAKQYQGRGISLHDLLQ 360
+ LV+ +A+ Y+G GI+ DL+Q
Sbjct: 338 KSTRSLVLFLARNYRGLGIAHEDLIQ 363
>sp|P0A602|RPOD_MYCTU RNA polymerase sigma factor RpoD OS=Mycobacterium tuberculosis
GN=rpoD PE=1 SV=1
Length = 528
Score = 50.4 bits (119), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 38/113 (33%), Positives = 55/113 (48%), Gaps = 23/113 (20%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQI-------QDLIRLEKEKSKLQSQFGREPTLIE 307
D +R +L LL A+EE EL +I Q + L + KL + R+ I
Sbjct: 226 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKLPAAQRRDMMWI- 284
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
CRD G+ ++ L+ ANLRLVV +AK+Y GRG++ DL+Q
Sbjct: 285 --------CRD-------GDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQ 322
>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 = 50.4 bits (119), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 38/113 (33%), Positives = 55/113 (48%), Gaps = 23/113 (20%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQI-------QDLIRLEKEKSKLQSQFGREPTLIE 307
D +R +L LL A+EE EL +I Q + L + KL + R+ I
Sbjct: 226 DSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKLPAAQRRDMMWI- 284
Query: 308 WAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
CRD G+ ++ L+ ANLRLVV +AK+Y GRG++ DL+Q
Sbjct: 285 --------CRD-------GDRAKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQ 322
>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 = 48.9 bits (115), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 23/45 (51%), Positives = 32/45 (71%), Gaps = 1/45 (2%)
Query: 317 RDLKSELHSGNS-SREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
R+L G+ ++EKLI +NLRLVV +AK+Y GRG+S DL+Q
Sbjct: 142 RELARRAQMGDKKAKEKLITSNLRLVVSIAKRYMGRGLSFQDLIQ 186
>sp|Q9ZNX9|SIGE_ARATH RNA polymerase sigma factor sigE, chloroplastic/mitochondrial
OS=Arabidopsis thaliana GN=SIGE PE=1 SV=1
Length = 517
Score = 48.1 bits (113), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 44/80 (55%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
+L++ E L +Q + L + K LQ GREP E A I ++ ++K ++ G +
Sbjct: 219 VLSSTEHAWLFKLMQPMKALLEVKDVLQKSLGREPREAEIAGEINMTAGEVKKKIEIGRA 278
Query: 329 SREKLINANLRLVVHVAKQY 348
+R KLI NLRLV+ V +Y
Sbjct: 279 ARNKLIKHNLRLVLFVMNKY 298
>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 = 46.6 bits (109), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 32/111 (28%), Positives = 47/111 (42%), Gaps = 40/111 (36%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L +LLTA EE EL +I++
Sbjct: 92 GVKINDPVRMYLKEIGRVQLLTAAEEVELALKIEE------------------------- 126
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
++++L ANLRLVV +AK+Y GRG+ DL+Q
Sbjct: 127 ---------------GDQEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQ 162
>sp|P18184|HRDC_STRCO RNA polymerase principal sigma factor HrdC OS=Streptomyces
coelicolor (strain ATCC BAA-471 / A3(2) / M145) GN=hrdC
PE=3 SV=1
Length = 339
Score = 46.6 bits (109), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 30/92 (32%), Positives = 52/92 (56%), Gaps = 9/92 (9%)
Query: 269 LLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS 328
LLTA++E L +I+ +R +E L++ EP + R L+ +H G
Sbjct: 51 LLTAEDEVRLATRIEAGVRAREE---LETADTGEPAPTPRRR------RTLEETVHDGQE 101
Query: 329 SREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
+++ ++ ANLRLVV +AK++ RG+ L D++Q
Sbjct: 102 AKDHMVRANLRLVVSMAKRHAHRGLPLLDVIQ 133
>sp|P33656|RPOD_CLOAB RNA polymerase sigma factor RpoD OS=Clostridium acetobutylicum
(strain ATCC 824 / DSM 792 / JCM 1419 / LMG 5710 / VKM
B-1787) GN=rpoD PE=3 SV=1
Length = 378
Score = 46.6 bits (109), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/44 (52%), Positives = 32/44 (72%), Gaps = 1/44 (2%)
Query: 318 DLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
DL + +G+ S+R+KL ANLRLVV +AK+Y GRG+ DL+Q
Sbjct: 129 DLAQRIKNGDRSARKKLAEANLRLVVSIAKRYVGRGMLFLDLIQ 172
>sp|P27785|RPOD_STRAU RNA polymerase sigma factor RpoD OS=Streptomyces aureofaciens
GN=rpoD PE=3 SV=1
Length = 317
Score = 46.6 bits (109), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/43 (48%), Positives = 31/43 (72%)
Query: 318 DLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
DL + G ++ +LI +NLRLVV VAK+Y GRG+++ DL+Q
Sbjct: 69 DLDRLVVMGRMAKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQ 111
>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 = 46.2 bits (108), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/35 (57%), Positives = 28/35 (80%)
Query: 326 GNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
G ++ +LI ANLRLVV VAK+Y GRG+++ DL+Q
Sbjct: 156 GRLAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQ 190
>sp|Q31QR8|RPOD4_SYNE7 RNA polymerase sigma factor rpoD4 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD4 PE=3 SV=1
Length = 311
Score = 45.8 bits (107), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/38 (52%), Positives = 29/38 (76%)
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
L +G ++ K++ ANLRLVV VAK+YQ +G+ L DL+Q
Sbjct: 68 LQAGQRAKTKMLKANLRLVVSVAKKYQNQGLELLDLIQ 105
>sp|O83506|RPOD_TREPA RNA polymerase sigma factor RpoD OS=Treponema pallidum (strain
Nichols) GN=rpoD PE=3 SV=1
Length = 611
Score = 45.4 bits (106), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/42 (50%), Positives = 30/42 (71%), Gaps = 4/42 (9%)
Query: 323 LHSGN----SSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
+H G+ +++KLINANLRLVV +AK+Y RG+ DL+Q
Sbjct: 363 IHRGHVMLKKAKDKLINANLRLVVSIAKKYTNRGLLFFDLVQ 404
>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 = 45.1 bits (105), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 35/106 (33%), Positives = 53/106 (50%), Gaps = 13/106 (12%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E EL +I+ + E KL + P L
Sbjct: 213 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAE---DKLANSDKLAPKL--------- 260
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
R+L+ G ++ L+ ANLRLVV +AK+Y GRG+ DL+Q
Sbjct: 261 -KRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQ 305
>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 = 45.1 bits (105), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 32/111 (28%), Positives = 45/111 (40%), Gaps = 40/111 (36%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTA+EE EL +I+
Sbjct: 96 GVKINDPVRMYLKEIGRVPLLTAEEEIELATRIE-------------------------- 129
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
++ +L ANLRLVV +AK+Y GRG+ DL+Q
Sbjct: 130 --------------QGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQ 166
>sp|P77951|HRDB_STRGR RNA polymerase principal sigma factor HrdB OS=Streptomyces griseus
GN=hrdB PE=1 SV=1
Length = 514
Score = 44.7 bits (104), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 35/106 (33%), Positives = 53/106 (50%), Gaps = 13/106 (12%)
Query: 255 DPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWAKAIGL 314
DP++ +L LL A++E EL +I+ + E KL + P L
Sbjct: 216 DPVKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAE---DKLANADKLAPKL--------- 263
Query: 315 SCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
R+L+ G ++ L+ ANLRLVV +AK+Y GRG+ DL+Q
Sbjct: 264 -KRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQ 308
>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 = 43.9 bits (102), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 46/174 (26%), Positives = 65/174 (37%), Gaps = 68/174 (39%)
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 EWAKAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
AI + DL++ +++L ANLRLVV +AK+Y GRG+ DL+Q
Sbjct: 123 ----AIAVENGDLEA--------KQRLAEANLRLVVSIAKRYVGRGMQFLDLIQ 164
>sp|P52328|RPSD2_BACSP RNA polymerase sigma factor RpoD OS=Bacillus sp. GN=sigA PE=3 SV=1
Length = 377
Score = 43.9 bits (102), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 46/111 (41%), Gaps = 40/111 (36%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+AD+E EL +I
Sbjct: 101 GIKINDPVRMYLKEIGRVPLLSADDEVELAKRI--------------------------- 133
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
++ ++ +L ANLRLVV +AK+Y GRG+ DL+Q
Sbjct: 134 -------------MNGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQ 171
>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 = 43.9 bits (102), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 33/112 (29%), Positives = 47/112 (41%), Gaps = 42/112 (37%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE L +I+
Sbjct: 98 GVKINDPVRMYLKEIGRVDLLTADEEIALAKRIE-------------------------- 131
Query: 310 KAIGLSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
+G+ ++ +L ANLRLVV +AK+Y GRG+ DL+Q
Sbjct: 132 ---------------AGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQ 168
>sp|P26768|RPSX_BACTK Putative RNA polymerase sigma-G factor (Fragment) OS=Bacillus
thuringiensis subsp. kurstaki PE=3 SV=1
Length = 125
Score = 43.5 bits (101), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 31/46 (67%), Gaps = 1/46 (2%)
Query: 317 RDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQI 361
R L E+ SG S+REKL+N NLRLV+ V +++ RG + DL Q+
Sbjct: 25 RKLFREMQSGEISAREKLVNGNLRLVLSVIQRFNNRGEYVDDLFQV 70
>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 = 43.5 bits (101), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 33/112 (29%), Positives = 47/112 (41%), Gaps = 42/112 (37%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LLTADEE L +I+
Sbjct: 98 GVKINDPVRMYLKEIGRVDLLTADEEIALAKRIE-------------------------- 131
Query: 310 KAIGLSCRDLKSELHSGN-SSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
+G+ ++ +L ANLRLVV +AK+Y GRG+ DL+Q
Sbjct: 132 ---------------AGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQ 168
>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 = 43.1 bits (100), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 35/134 (26%), Positives = 57/134 (42%), Gaps = 50/134 (37%)
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 QYQGRGISLHDLLQ 360
+Y GRG+ DL+Q
Sbjct: 149 RYVGRGMQFLDLIQ 162
>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 = 43.1 bits (100), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 35/134 (26%), Positives = 57/134 (42%), Gaps = 50/134 (37%)
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 QYQGRGISLHDLLQ 360
+Y GRG+ DL+Q
Sbjct: 149 RYVGRGMQFLDLIQ 162
>sp|P52326|RPOD_PSEFL RNA polymerase sigma factor RpoD OS=Pseudomonas fluorescens GN=rpoD
PE=3 SV=1
Length = 615
Score = 42.7 bits (99), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 51/89 (57%), Gaps = 15/89 (16%)
Query: 277 ELIAQIQ-DLIRLEKEKSKLQSQFGREPTLIEWAKAIGLSCRDLKSELHSGNS----SRE 331
E IA++Q D+IR +++ + L+ + G + I +D+ + G + +++
Sbjct: 330 EAIARLQPDIIRCQQKLTALEVETGLKIAEI----------KDINRRMSIGEAKARRAKK 379
Query: 332 KLINANLRLVVHVAKQYQGRGISLHDLLQ 360
+++ ANLRLV+ +AK+Y RG+ DL+Q
Sbjct: 380 EMVEANLRLVISIAKKYTNRGLQFLDLIQ 408
>sp|Q99TT5|RPOD_STAAN RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
N315) GN=rpoD PE=1 SV=1
Length = 368
Score = 42.4 bits (98), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 44/111 (39%), Gaps = 40/111 (36%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+A EE EL +I+
Sbjct: 92 GVKINDPVRMYLKEIGRVNLLSAQEEIELAKRIE-------------------------- 125
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
++ +L ANLRLVV +AK+Y GRG+ DL+Q
Sbjct: 126 --------------QGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQ 162
>sp|P0A0I9|RPOD_STAAW RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MW2) GN=rpoD PE=3 SV=1
Length = 368
Score = 42.0 bits (97), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 44/111 (39%), Gaps = 40/111 (36%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+A EE EL +I+
Sbjct: 92 GVKINDPVRMYLKEIGRVNLLSAQEEIELAKRIE-------------------------- 125
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
++ +L ANLRLVV +AK+Y GRG+ DL+Q
Sbjct: 126 --------------QGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQ 162
>sp|Q6G905|RPOD_STAAS RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MSSA476) GN=rpoD PE=3 SV=1
Length = 368
Score = 42.0 bits (97), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 44/111 (39%), Gaps = 40/111 (36%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+A EE EL +I+
Sbjct: 92 GVKINDPVRMYLKEIGRVNLLSAQEEIELAKRIE-------------------------- 125
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
++ +L ANLRLVV +AK+Y GRG+ DL+Q
Sbjct: 126 --------------QGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQ 162
>sp|Q6GGD8|RPOD_STAAR RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MRSA252) GN=rpoD PE=3 SV=1
Length = 368
Score = 42.0 bits (97), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 44/111 (39%), Gaps = 40/111 (36%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+A EE EL +I+
Sbjct: 92 GVKINDPVRMYLKEIGRVNLLSAQEEIELAKRIE-------------------------- 125
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
++ +L ANLRLVV +AK+Y GRG+ DL+Q
Sbjct: 126 --------------QGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQ 162
>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 = 42.0 bits (97), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 44/111 (39%), Gaps = 40/111 (36%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+A EE EL +I+
Sbjct: 92 GVKINDPVRMYLKEIGRVNLLSAQEEIELAKRIE-------------------------- 125
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
++ +L ANLRLVV +AK+Y GRG+ DL+Q
Sbjct: 126 --------------QGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQ 162
>sp|Q5HFJ9|RPOD_STAAC RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
COL) GN=rpoD PE=3 SV=1
Length = 368
Score = 42.0 bits (97), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 44/111 (39%), Gaps = 40/111 (36%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+A EE EL +I+
Sbjct: 92 GVKINDPVRMYLKEIGRVNLLSAQEEIELAKRIE-------------------------- 125
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
++ +L ANLRLVV +AK+Y GRG+ DL+Q
Sbjct: 126 --------------QGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQ 162
>sp|P0A0J0|RPOD_STAA8 RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
NCTC 8325) GN=rpoD PE=3 SV=1
Length = 368
Score = 42.0 bits (97), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 44/111 (39%), Gaps = 40/111 (36%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+A EE EL +I+
Sbjct: 92 GVKINDPVRMYLKEIGRVNLLSAQEEIELAKRIE-------------------------- 125
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
++ +L ANLRLVV +AK+Y GRG+ DL+Q
Sbjct: 126 --------------QGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQ 162
>sp|Q8CP24|RPOD_STAES RNA polymerase sigma factor RpoD OS=Staphylococcus epidermidis
(strain ATCC 12228) GN=rpoD PE=3 SV=1
Length = 368
Score = 42.0 bits (97), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 44/111 (39%), Gaps = 40/111 (36%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+A EE EL +I+
Sbjct: 92 GVKINDPVRMYLKEIGRVNLLSAQEEIELAKRIE-------------------------- 125
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
++ +L ANLRLVV +AK+Y GRG+ DL+Q
Sbjct: 126 --------------QGDEIAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQ 162
>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 = 42.0 bits (97), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 31/111 (27%), Positives = 44/111 (39%), Gaps = 40/111 (36%)
Query: 250 GFDRNDPLRLFLWGPETRKLLTADEEFELIAQIQDLIRLEKEKSKLQSQFGREPTLIEWA 309
G NDP+R++L LL+A EE EL +I+
Sbjct: 92 GVKINDPVRMYLKEIGRVNLLSAQEEIELAKRIE-------------------------- 125
Query: 310 KAIGLSCRDLKSELHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
++ +L ANLRLVV +AK+Y GRG+ DL+Q
Sbjct: 126 --------------QGDEIAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQ 162
>sp|P0A2E5|RPOS_SALTY RNA polymerase sigma factor RpoS OS=Salmonella typhimurium (strain
LT2 / SGSC1412 / ATCC 700720) GN=rpoS PE=3 SV=1
Length = 330
Score = 41.6 bits (96), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 28/38 (73%)
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
L +SR ++I +NLRLVV +A++Y RG++L DL++
Sbjct: 84 LRGDVASRRRMIESNLRLVVKIARRYGNRGLALLDLIE 121
>sp|P0A2E6|RPOS_SALTI RNA polymerase sigma factor RpoS OS=Salmonella typhi GN=rpoS PE=3
SV=1
Length = 330
Score = 41.6 bits (96), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 28/38 (73%)
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
L +SR ++I +NLRLVV +A++Y RG++L DL++
Sbjct: 84 LRGDVASRRRMIESNLRLVVKIARRYGNRGLALLDLIE 121
>sp|P0A2E7|RPOS_SALDU RNA polymerase sigma factor RpoS OS=Salmonella dublin GN=rpoS PE=3
SV=1
Length = 330
Score = 41.6 bits (96), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 28/38 (73%)
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
L +SR ++I +NLRLVV +A++Y RG++L DL++
Sbjct: 84 LRGDVASRRRMIESNLRLVVKIARRYGNRGLALLDLIE 121
>sp|P35540|RPOS_SHIFL RNA polymerase sigma factor RpoS OS=Shigella flexneri GN=rpoS PE=3
SV=3
Length = 330
Score = 41.2 bits (95), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 28/38 (73%)
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
L +SR ++I +NLRLVV +A++Y RG++L DL++
Sbjct: 84 LRGDVASRRRMIESNLRLVVKIARRYGNRGLALLDLIE 121
>sp|P13445|RPOS_ECOLI RNA polymerase sigma factor RpoS OS=Escherichia coli (strain K12)
GN=rpoS PE=3 SV=3
Length = 330
Score = 41.2 bits (95), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 28/38 (73%)
Query: 323 LHSGNSSREKLINANLRLVVHVAKQYQGRGISLHDLLQ 360
L +SR ++I +NLRLVV +A++Y RG++L DL++
Sbjct: 84 LRGDVASRRRMIESNLRLVVKIARRYGNRGLALLDLIE 121
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
0.311 0.126 0.348
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 122,349,996
Number of Sequences: 539616
Number of extensions: 4789792
Number of successful extensions: 20919
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 139
Number of HSP's successfully gapped in prelim test: 69
Number of HSP's that attempted gapping in prelim test: 20189
Number of HSP's gapped (non-prelim): 629
length of query: 361
length of database: 191,569,459
effective HSP length: 119
effective length of query: 242
effective length of database: 127,355,155
effective search space: 30819947510
effective search space used: 30819947510
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 62 (28.5 bits)