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= 014852
(417 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 = 582 bits (1500), Expect = e-165, Method: Compositional matrix adjust.
Identities = 296/424 (69%), Positives = 344/424 (81%), Gaps = 29/424 (6%)
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 LGLIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPG 409
LGLIRNAKLRL+EKG+TPS+DRIAE LNMSQKKVRNATEA+ KVFSLDR+AFPSLNGLPG
Sbjct: 344 LGLIRNAKLRLQEKGITPSIDRIAESLNMSQKKVRNATEAVSKVFSLDRDAFPSLNGLPG 403
Query: 410 ETHH 413
ETHH
Sbjct: 404 ETHH 407
>sp|Q31ME3|RPOD2_SYNE7 RNA polymerase sigma factor rpoD2 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD2 PE=1 SV=1
Length = 320
Score = 147 bits (371), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 77/214 (35%), Positives = 133/214 (62%), Gaps = 5/214 (2%)
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 GVTPSVDRIAEYLNMSQKKVRNATEAIGKVFSLD 397
G + + +AE L + ++VR + + SLD
Sbjct: 185 GRSATASELAEVLELPLEQVREYIQMNRQPVSLD 218
>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 = 143 bits (361), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 69/194 (35%), Positives = 122/194 (62%), Gaps = 1/194 (0%)
Query: 205 LLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPELQSILMECSL 264
LL+H + + +++++ + + K L E+L EP++++ A +++ L L + +
Sbjct: 37 LLSHEQEIFFAQQVQQMMVMFTAKEELAEKLQREPTLQEWADKMQLKEDVLLQQLSQGQI 96
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A++K++ +N+RLV+SIA++Y + DL+Q G +GL RG+EKFD + G+K STY YWW
Sbjct: 97 AKQKMIQANLRLVVSIAKKYQKRNLEFLDLIQEGALGLERGVEKFDPTLGYKFSTYAYWW 156
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAEYLNMSQKKV 383
IRQG++RA+ + SRT+RLP H+ ++L I+ + L +K G V IA+ LN+ ++
Sbjct: 157 IRQGITRAIAQQSRTIRLPIHMADKLNKIKCVQRELSQKLGYIAGVTEIAQALNLEPSQI 216
Query: 384 RNATEAIGKVFSLD 397
R + + + SLD
Sbjct: 217 REYLQLVRQPVSLD 230
>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 = 138 bits (348), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 75/196 (38%), Positives = 121/196 (61%), Gaps = 1/196 (0%)
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 384
+ IA + M+ +K+R
Sbjct: 259 EEEIATRMEMTIEKLR 274
>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 = 138 bits (348), Expect = 7e-32, Method: Compositional matrix adjust.
Identities = 73/191 (38%), Positives = 118/191 (61%), Gaps = 23/191 (12%)
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 TEAIGKVFSLD 397
+ + SL+
Sbjct: 300 LLRVPRSVSLE 310
>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 = 138 bits (347), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 62/145 (42%), Positives = 101/145 (69%), Gaps = 1/145 (0%)
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 AEYLNMSQKKVRNATEAIGKVFSLD 397
AE L M+ ++VR + + SL+
Sbjct: 274 AEELGMTPEQVREVLTQVPRSVSLE 298
>sp|Q31QG5|RPOD3_SYNE7 RNA polymerase sigma factor rpoD3 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD3 PE=3 SV=1
Length = 320
Score = 138 bits (347), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 75/207 (36%), Positives = 128/207 (61%), Gaps = 2/207 (0%)
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 RIAEYLNMSQKKVRNATEAIGKVFSLD 397
+A L+++ +VR+ E SLD
Sbjct: 192 ELAAALDLTPAQVRDYLEKARHPLSLD 218
>sp|O22056|SIGB_ARATH RNA polymerase sigma factor sigB OS=Arabidopsis thaliana GN=SIGB
PE=2 SV=2
Length = 572
Score = 137 bits (344), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 77/214 (35%), Positives = 127/214 (59%), Gaps = 2/214 (0%)
Query: 172 LQQNGSKQLRSMISPELIQNRLKGYVKGVVSE-ELLTHAEVVRLSKKIKTGLSLDDHKLR 230
++ S + + +++ E+ N Y++ S +LLT E LS I+ L L+ +
Sbjct: 238 VKTGSSPKKKRLVAQEVDHNDPLRYLRMTTSSSKLLTVREEHELSAGIQDLLKLERLQTE 297
Query: 231 LKERLGCEPSMEQLAASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGAD 290
L ER G +P+ Q A++ + + L+ + +L ++K++ SN+RLV+SIA+ Y G +
Sbjct: 298 LTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKSNIRLVISIAKNYQGAGMN 357
Query: 291 MADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERL 350
+ DLVQ G GL+RG EKFD++KGFK STY +WWI+Q V ++L + SR +RLP H+ E
Sbjct: 358 LQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKSLSDQSRMIRLPFHMVEAT 417
Query: 351 GLIRNAKLRL-EEKGVTPSVDRIAEYLNMSQKKV 383
++ A+ +L E G P + IAE +S K++
Sbjct: 418 YRVKEARKQLYSETGKHPKNEEIAEATGLSMKRL 451
>sp|Q9LD95|SIGF_ARATH RNA polymerase sigma factor sigF, chloroplastic OS=Arabidopsis
thaliana GN=SIGF PE=1 SV=1
Length = 547
Score = 136 bits (342), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 70/192 (36%), Positives = 122/192 (63%), Gaps = 1/192 (0%)
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 383
+A ++ +S +K+
Sbjct: 415 LAGHVGVSTEKL 426
>sp|P38023|RPOD1_SYNE7 RNA polymerase sigma factor rpoD1 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD1 PE=3 SV=2
Length = 399
Score = 133 bits (335), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 75/196 (38%), Positives = 120/196 (61%), Gaps = 1/196 (0%)
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 384
+ IA + M+ +K+R
Sbjct: 268 EEEIATRMEMTIEKLR 283
>sp|P27785|RPOD_STRAU RNA polymerase sigma factor RpoD OS=Streptomyces aureofaciens
GN=rpoD PE=3 SV=1
Length = 317
Score = 129 bits (323), Expect = 5e-29, Method: Compositional matrix adjust.
Identities = 70/193 (36%), Positives = 121/193 (62%), Gaps = 16/193 (8%)
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 RIAEYLNMSQKKV 383
+A +L ++ ++V
Sbjct: 187 EVAVHLELTPERV 199
>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 = 127 bits (319), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 78/226 (34%), Positives = 132/226 (58%), Gaps = 22/226 (9%)
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 IAEYLNMSQKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHIHCG 417
+A +L++ A E +G+V L +E SL+ GE + G
Sbjct: 267 VAAHLDL-------APERVGEVLRLAQEPV-SLHAPVGEEDDVALG 304
>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 = 122 bits (307), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 70/192 (36%), Positives = 117/192 (60%), Gaps = 14/192 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+K Y+K + LL + V L+K+I+ GL +D KL ++L P +++
Sbjct: 215 VKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAED-KLANSDKLA--PKLKR--------- 262
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL+ I + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +
Sbjct: 263 -ELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYT 321
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ +
Sbjct: 322 KGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEE 381
Query: 372 IAEYLNMSQKKV 383
+A+ L+M+ +KV
Sbjct: 382 LAKELDMTPEKV 393
>sp|P18249|HRDD_STRCO RNA polymerase principal sigma factor HrdD OS=Streptomyces
coelicolor (strain ATCC BAA-471 / A3(2) / M145) GN=hrdD
PE=3 SV=2
Length = 332
Score = 122 bits (307), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 75/201 (37%), Positives = 109/201 (54%), Gaps = 14/201 (6%)
Query: 187 ELIQNRLKG-YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLA 245
EL L G Y+ + LL A+ V LS+ I+ G+ L E G + +
Sbjct: 29 ELADRDLVGMYLDEIARTPLLDAAKEVELSQTIEAGV-FARQVLEGYEETGADAT----- 82
Query: 246 ASLRISRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRG 305
R ELQ+++ E A++ + SN+RLV+++A+RY G + DL+Q G GL+R
Sbjct: 83 ------REELQALIDESERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRA 136
Query: 306 IEKFDSSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKG 364
+EKFD KGFK STY WWIRQ ++R++ + SRT+RLP HL E LG IR + E G
Sbjct: 137 VEKFDYRKGFKFSTYATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHG 196
Query: 365 VTPSVDRIAEYLNMSQKKVRN 385
P IA L + ++V +
Sbjct: 197 REPEPAEIAAELGSTPERVTD 217
>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 = 122 bits (306), Expect = 5e-27, Method: Compositional matrix adjust.
Identities = 58/121 (47%), Positives = 84/121 (69%), Gaps = 1/121 (0%)
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 384
R
Sbjct: 309 R 309
>sp|P77951|HRDB_STRGR RNA polymerase principal sigma factor HrdB OS=Streptomyces griseus
GN=hrdB PE=1 SV=1
Length = 514
Score = 122 bits (305), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 70/192 (36%), Positives = 117/192 (60%), Gaps = 14/192 (7%)
Query: 193 LKGYVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISR 252
+K Y+K + LL + V L+K+I+ GL +D KL ++L P +++
Sbjct: 218 VKDYLKQIGKVPLLNAEQEVELAKRIEAGLFAED-KLANADKLA--PKLKR--------- 265
Query: 253 PELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSS 312
EL+ I + A+ L+ +N+RLV+S+A+RY G DL+Q G +GL+R +EKFD +
Sbjct: 266 -ELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGMLFLDLIQEGNLGLIRAVEKFDYT 324
Query: 313 KGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDR 371
KG+K STY WWIRQ ++RA+ + +RT+R+P H+ E + L R + L++ G P+ +
Sbjct: 325 KGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVEVINKLARVQRQMLQDLGREPTPEE 384
Query: 372 IAEYLNMSQKKV 383
+A+ L+M+ +KV
Sbjct: 385 LAKELDMTPEKV 396
>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 = 122 bits (305), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 62/154 (40%), Positives = 97/154 (62%), Gaps = 9/154 (5%)
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 RNATEAIGKVFSLDREAFPSLNGLPGETHHIHCG 417
R ++ + +E SL GE H G
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLG 276
>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 = 122 bits (305), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 62/154 (40%), Positives = 97/154 (62%), Gaps = 9/154 (5%)
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 RNATEAIGKVFSLDREAFPSLNGLPGETHHIHCG 417
R ++ + +E SL GE H G
Sbjct: 251 R-------EILKIAQEPV-SLETPIGEEDDSHLG 276
>sp|P0A602|RPOD_MYCTU RNA polymerase sigma factor RpoD OS=Mycobacterium tuberculosis
GN=rpoD PE=1 SV=1
Length = 528
Score = 122 bits (305), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 72/211 (34%), Positives = 123/211 (58%), Gaps = 14/211 (6%)
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 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDR 398
+ + +A+ ++++ +KV + + SLD+
Sbjct: 395 TPEELAKEMDITPEKVLEIQQYAREPISLDQ 425
>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 = 122 bits (305), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 72/211 (34%), Positives = 123/211 (58%), Gaps = 14/211 (6%)
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 SVDRIAEYLNMSQKKVRNATEAIGKVFSLDR 398
+ + +A+ ++++ +KV + + SLD+
Sbjct: 395 TPEELAKEMDITPEKVLEIQQYAREPISLDQ 425
>sp|Q59914|HRDD_STRGR RNA polymerase principal sigma factor HrdD OS=Streptomyces griseus
GN=hrdD PE=3 SV=1
Length = 332
Score = 121 bits (304), Expect = 8e-27, Method: Compositional matrix adjust.
Identities = 71/191 (37%), Positives = 107/191 (56%), Gaps = 12/191 (6%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ + LL A+ V LS+ I+ G+ G E + S SR EL
Sbjct: 38 YLDEIARTPLLDAAKEVELSQTIEAGVYA-----------GKILDGEVDSDSAGASREEL 86
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
++++ E A++ + SN+RLV+++A+RY G + DL+Q G GL+R +EKFD +KGF
Sbjct: 87 EALVAEGERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYAKGF 146
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSVDRIAE 374
K STY WWIRQ ++R++ + SRT+RLP HL E LG IR + E G P IA
Sbjct: 147 KFSTYATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNRENGRDPEPAEIAA 206
Query: 375 YLNMSQKKVRN 385
L+ + ++V +
Sbjct: 207 ELSSTPERVTD 217
>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 = 121 bits (304), Expect = 9e-27, Method: Compositional matrix adjust.
Identities = 55/121 (45%), Positives = 86/121 (71%), Gaps = 1/121 (0%)
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 R 384
R
Sbjct: 253 R 253
>sp|P17531|RPOD_MYXXA RNA polymerase sigma factor RpoD OS=Myxococcus xanthus GN=rpoD PE=3
SV=1
Length = 708
Score = 120 bits (301), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 61/154 (39%), Positives = 95/154 (61%), Gaps = 9/154 (5%)
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 RNATEAIGKVFSLDREAFPSLNGLPGETHHIHCG 417
R KV + +E SL GE H G
Sbjct: 590 R-------KVLKIAKEPI-SLETPIGEEEDSHLG 615
>sp|P52322|RPOD_MICAE RNA polymerase sigma factor rpoD1 OS=Microcystis aeruginosa
GN=rpoD1 PE=3 SV=1
Length = 416
Score = 119 bits (299), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 57/121 (47%), Positives = 83/121 (68%), Gaps = 1/121 (0%)
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 R 384
R
Sbjct: 300 R 300
>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 = 119 bits (299), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 56/125 (44%), Positives = 88/125 (70%), Gaps = 1/125 (0%)
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 384
+KV+
Sbjct: 463 VQKVK 467
>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 = 119 bits (299), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 56/125 (44%), Positives = 88/125 (70%), Gaps = 1/125 (0%)
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 384
+KV+
Sbjct: 463 VQKVK 467
>sp|Q59753|RPOD_RHIME RNA polymerase sigma factor RpoD OS=Rhizobium meliloti (strain
1021) GN=rpoD PE=3 SV=1
Length = 684
Score = 119 bits (298), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 59/158 (37%), Positives = 98/158 (62%), Gaps = 9/158 (5%)
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 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHIHCG 417
+KVR KV + +E SL G+ H G
Sbjct: 562 LEKVR-------KVLKIAKEPI-SLETPVGDEEDSHLG 591
>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 = 118 bits (296), Expect = 6e-26, Method: Compositional matrix adjust.
Identities = 59/158 (37%), Positives = 98/158 (62%), Gaps = 9/158 (5%)
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 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHIHCG 417
+KVR KV + +E SL G+ H G
Sbjct: 563 LEKVR-------KVLKIAKEPI-SLETPVGDEEDSHLG 592
>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 = 118 bits (296), Expect = 7e-26, Method: Compositional matrix adjust.
Identities = 59/158 (37%), Positives = 98/158 (62%), Gaps = 9/158 (5%)
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 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHIHCG 417
+KVR KV + +E SL G+ H G
Sbjct: 562 LEKVR-------KVLKIAKEPI-SLETPVGDEEDSHLG 591
>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 = 118 bits (295), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 57/134 (42%), Positives = 88/134 (65%), Gaps = 1/134 (0%)
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 RNATEAIGKVFSLD 397
+ EA + SL+
Sbjct: 275 KEILEAAKETISLE 288
>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 = 117 bits (294), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 63/157 (40%), Positives = 94/157 (59%), Gaps = 9/157 (5%)
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 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHIHCG 417
KVR +V + +E SL GE H G
Sbjct: 267 DKVR-------EVLKIAQEPV-SLETPIGEEDDSHLG 295
>sp|P58290|RPOD_LACLC RNA polymerase sigma factor RpoD (Fragment) OS=Lactococcus lactis
subsp. cremoris GN=rpoD PE=3 SV=1
Length = 364
Score = 117 bits (294), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 63/157 (40%), Positives = 94/157 (59%), Gaps = 9/157 (5%)
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 KKVRNATEAIGKVFSLDREAFPSLNGLPGETHHIHCG 417
KVR +V + +E SL GE H G
Sbjct: 245 DKVR-------EVLKIAQEPV-SLETPIGEEDDSHLG 273
>sp|Q9Z7F0|RPOD_CHLPN RNA polymerase sigma factor RpoD OS=Chlamydia pneumoniae GN=rpoD
PE=3 SV=1
Length = 572
Score = 117 bits (292), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 56/147 (38%), Positives = 96/147 (65%), Gaps = 5/147 (3%)
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 RLEEKGVTPSVDRIAEYLNMSQKKVRN 385
+ E G P+ + +AE L ++ +VR
Sbjct: 412 LMMETGKEPTPEELAEELGLTPDRVRE 438
>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 = 116 bits (291), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 61/154 (39%), Positives = 96/154 (62%), Gaps = 9/154 (5%)
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 RNATEAIGKVFSLDREAFPSLNGLPGETHHIHCG 417
R ++ + +E SL GE H G
Sbjct: 255 R-------EILKIAQEPV-SLETPIGEEDDSHLG 280
>sp|Q60012|HRDD_STRVF RNA polymerase principal sigma factor HrdD OS=Streptomyces
viridifaciens GN=hrdD PE=3 SV=1
Length = 332
Score = 116 bits (291), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 57/134 (42%), Positives = 84/134 (62%), Gaps = 1/134 (0%)
Query: 251 SRPELQSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFD 310
+R ELQ+++ A++ + SN+RLV+++A+RY G + DL+Q G GL+R +EKFD
Sbjct: 82 TREELQALVDAGERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFD 141
Query: 311 SSKGFKISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRL-EEKGVTPSV 369
KGFK STY WWIRQ ++R++ + SRT+RLP HL E LG IR + E G P
Sbjct: 142 YRKGFKFSTYATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGRDPEP 201
Query: 370 DRIAEYLNMSQKKV 383
+A L + ++V
Sbjct: 202 AEVAAELGSTPERV 215
>sp|P0CZ15|RPOD_RHOCA RNA polymerase sigma factor rpoD OS=Rhodobacter capsulatus GN=rpoD
PE=2 SV=1
Length = 674
Score = 115 bits (289), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 54/138 (39%), Positives = 90/138 (65%), Gaps = 1/138 (0%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 432 EARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 491
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + L+R + L E G P+ + +AE L M
Sbjct: 492 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAEKLQMP 551
Query: 380 QKKVRNATEAIGKVFSLD 397
+KVR + + SL+
Sbjct: 552 LEKVRKVMKIAKEPISLE 569
>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 = 115 bits (288), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 59/158 (37%), Positives = 97/158 (61%), Gaps = 9/158 (5%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 410 EARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 469
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + ++R ++ L E G P+ + +AE L M
Sbjct: 470 ATWWIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMP 529
Query: 380 QKKVRNATEAIGKVFSLDREAFPSLNGLPGETHHIHCG 417
+KVR KV + +E SL G+ H G
Sbjct: 530 LEKVR-------KVLKIAKEPI-SLETPIGDEEDSHLG 559
>sp|Q8CP24|RPOD_STAES RNA polymerase sigma factor RpoD OS=Staphylococcus epidermidis
(strain ATCC 12228) GN=rpoD PE=3 SV=1
Length = 368
Score = 115 bits (288), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 54/122 (44%), Positives = 84/122 (68%), Gaps = 1/122 (0%)
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 VR 384
VR
Sbjct: 250 VR 251
>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 = 115 bits (288), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 54/122 (44%), Positives = 84/122 (68%), Gaps = 1/122 (0%)
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 VR 384
VR
Sbjct: 250 VR 251
>sp|D5AQI9|RPOD_RHOCB RNA polymerase sigma factor rpoD OS=Rhodobacter capsulatus (strain
ATCC BAA-309 / NBRC 16581 / SB1003) GN=rpoD PE=3 SV=1
Length = 674
Score = 115 bits (288), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 54/138 (39%), Positives = 90/138 (65%), Gaps = 1/138 (0%)
Query: 261 ECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTY 320
E A++++V +N+RLV+SIA++Y N G DL+Q G IGL++ ++KF+ +G+K STY
Sbjct: 432 EARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 491
Query: 321 VYWWIRQGVSRALVENSRTLRLPNHLHERLG-LIRNAKLRLEEKGVTPSVDRIAEYLNMS 379
WWIRQ ++R++ + +RT+R+P H+ E + L+R + L E G P+ + +AE L M
Sbjct: 492 ATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAEKLQMP 551
Query: 380 QKKVRNATEAIGKVFSLD 397
+KVR + + SL+
Sbjct: 552 LEKVRKVMKIAKEPISLE 569
>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 = 115 bits (288), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 64/172 (37%), Positives = 107/172 (62%), Gaps = 12/172 (6%)
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-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRN 385
+ +RT+R+P H+ E + LIR + L++ G PS + I E +++ +KVR
Sbjct: 207 DQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPEEIGEEMDLPTEKVRE 258
>sp|P52328|RPSD2_BACSP RNA polymerase sigma factor RpoD OS=Bacillus sp. GN=sigA PE=3 SV=1
Length = 377
Score = 115 bits (287), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 55/121 (45%), Positives = 84/121 (69%), Gaps = 1/121 (0%)
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 R 384
R
Sbjct: 260 R 260
>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 = 115 bits (287), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 64/171 (37%), Positives = 107/171 (62%), Gaps = 12/171 (7%)
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-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVR 384
+ +RT+R+P H+ E + LIR + L++ G PS + I E +++ +KVR
Sbjct: 207 DQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPEEIGEEMDLPTEKVR 257
>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 = 115 bits (287), Expect = 7e-25, Method: Compositional matrix adjust.
Identities = 62/170 (36%), Positives = 105/170 (61%), Gaps = 12/170 (7%)
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-LIRNAKLRLEEKGVTPSVDRIAEYLNMSQKKVRN 385
+RT+R+P H+ E + LIR + L++ G P+ + I +++ +KVR
Sbjct: 203 ARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKVRE 252
>sp|Q31QR8|RPOD4_SYNE7 RNA polymerase sigma factor rpoD4 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD4 PE=3 SV=1
Length = 311
Score = 115 bits (287), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 71/206 (34%), Positives = 112/206 (54%), Gaps = 20/206 (9%)
Query: 196 YVKGVVSEELLTHAEVVRLSKKIKTGLSLDDHKLRLKERLGCEPSMEQLAASLRISRPEL 255
Y+ + LLT E V LS+K++ ++L ++ P E S E
Sbjct: 24 YLSSIGRIPLLTAEEEVELSRKVQLMMALLEN-----------PDAE--------SNSEN 64
Query: 256 QSILMECSLAREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGF 315
Q++L A+ K++ +N+RLV+S+A++Y N G ++ DL+Q G +GL R +EKFD + G+
Sbjct: 65 QAVLQAGQRAKTKMLKANLRLVVSVAKKYQNQGLELLDLIQEGSLGLERAVEKFDPALGY 124
Query: 316 KISTYVYWWIRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLRLEEK-GVTPSVDRIAE 374
K STY YWWIRQ ++RA+ ++RT+RLP H+ E++ I+ L + PS IAE
Sbjct: 125 KFSTYAYWWIRQSMTRAIDNHARTIRLPIHVSEKISRIKKMTRELTHQLKRLPSRAEIAE 184
Query: 375 YLNMSQKKVRNATEAIGKVFSLDREA 400
L + + V SLD +A
Sbjct: 185 ALKLPLQDVEMLLSQSTPCTSLDAQA 210
>sp|P56835|RPOD_CHLMU RNA polymerase sigma factor RpoD OS=Chlamydia muridarum (strain
MoPn / Nigg) GN=rpoD PE=3 SV=1
Length = 571
Score = 114 bits (286), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 55/147 (37%), Positives = 94/147 (63%), Gaps = 5/147 (3%)
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 RLEEKGVTPSVDRIAEYLNMSQKKVRN 385
+ E G P+ + + E L + +VR
Sbjct: 412 LMMETGKEPTPEELGEELGFTPDRVRE 438
>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 = 114 bits (286), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 54/135 (40%), Positives = 89/135 (65%), Gaps = 3/135 (2%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ K+ SN+RLV+SIA+R+ + G DL+Q G IGL++ ++KF+ KGFK STY WW
Sbjct: 432 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 491
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR--LEEKGVTPSVDRIAEYLNMSQKK 382
I+Q +SRA+ + +RT+R+P H+ + + I N +R ++E G P ++ +AE + +S K
Sbjct: 492 IKQAISRAIADQARTIRIPIHMIDTINRI-NKVMRKHIQENGKEPDLEVVAEEVGLSLDK 550
Query: 383 VRNATEAIGKVFSLD 397
V+N + + SL+
Sbjct: 551 VKNVIKVTKEPISLE 565
>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 = 114 bits (286), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 55/146 (37%), Positives = 94/146 (64%), Gaps = 5/146 (3%)
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 RLEEKGVTPSVDRIAEYLNMSQKKVR 384
+ E G P+ + + E L + +VR
Sbjct: 412 LMMETGKEPTPEELGEELGFTPDRVR 437
>sp|Q9ZMY3|RPOD_HELPJ RNA polymerase sigma factor RpoD OS=Helicobacter pylori (strain
J99) GN=rpoD PE=3 SV=1
Length = 681
Score = 114 bits (285), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 54/135 (40%), Positives = 89/135 (65%), Gaps = 3/135 (2%)
Query: 265 AREKLVMSNVRLVMSIAQRYDNMGADMADLVQGGLIGLLRGIEKFDSSKGFKISTYVYWW 324
A+ K+ SN+RLV+SIA+R+ + G DL+Q G IGL++ ++KF+ KGFK STY WW
Sbjct: 442 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 501
Query: 325 IRQGVSRALVENSRTLRLPNHLHERLGLIRNAKLR--LEEKGVTPSVDRIAEYLNMSQKK 382
I+Q +SRA+ + +RT+R+P H+ + + I N +R ++E G P ++ +AE + +S K
Sbjct: 502 IKQAISRAIADQARTIRIPIHMIDTINRI-NKVMRKHIQETGKEPDLEVVAEEVGLSLDK 560
Query: 383 VRNATEAIGKVFSLD 397
V+N + + SL+
Sbjct: 561 VKNVIKVTKEPISLE 575
>sp|Q99TT5|RPOD_STAAN RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
N315) GN=rpoD PE=1 SV=1
Length = 368
Score = 114 bits (285), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 61/155 (39%), Positives = 95/155 (61%), Gaps = 9/155 (5%)
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 VRNATEAIGKVFSLDREAFPSLNGLPGETHHIHCG 417
VR +V + +E SL GE H G
Sbjct: 250 VR-------EVLKIAQEPV-SLETPIGEEDDSHLG 276
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 0.129 0.356
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 142,181,910
Number of Sequences: 539616
Number of extensions: 5573747
Number of successful extensions: 14891
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 159
Number of HSP's successfully gapped in prelim test: 41
Number of HSP's that attempted gapping in prelim test: 14587
Number of HSP's gapped (non-prelim): 270
length of query: 417
length of database: 191,569,459
effective HSP length: 120
effective length of query: 297
effective length of database: 126,815,539
effective search space: 37664215083
effective search space used: 37664215083
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 62 (28.5 bits)