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= 012567
(460 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|O22056|SIGB_ARATH RNA polymerase sigma factor sigB OS=Arabidopsis thaliana GN=SIGB
PE=2 SV=2
Length = 572
Score = 520 bits (1338), Expect = e-146, Method: Compositional matrix adjust.
Identities = 299/465 (64%), Positives = 351/465 (75%), Gaps = 20/465 (4%)
Query: 1 MTTVLDVEKLRLPSLEAHSNAVAANRQWTYFGAVGPSTEENLGTSLATETL-TSDEAVIA 59
+T++LDV KLRLPS + S+++ ++RQWTY GPSTE +LA+ETL TSDEAV+
Sbjct: 49 LTSMLDVAKLRLPSFDTDSDSLISDRQWTYTRPDGPSTEAKYLEALASETLLTSDEAVVV 108
Query: 60 AASAEAVALARAAVKVAKDAALMVNHHNSAKPKSKPAISSSADTNTSMWAQLTERERASI 119
AA+AEAVALARAAVKVAKDA L N +N+ ++SS S W Q TE+ERA I
Sbjct: 109 AAAAEAVALARAAVKVAKDATLFKNSNNTN------LLTSSTADKRSKWDQFTEKERAGI 162
Query: 120 IG-----DSVIVEAAPEEEYSEQQPLNKSADLEPTHEELKLLEEQV-SQSIAVRSRRQTE 173
+G D+ IV S ++ + DLE +E L E+ S S+AVRS RQTE
Sbjct: 163 LGHLAVSDNGIVSDKITASASNKESI---GDLESEKQEEVELLEEQPSVSLAVRSTRQTE 219
Query: 174 RKARRTRAAEKAAANVMSVKSGSTSRRKRPSVQEVDYSDPLRYLRATTSSSRLLTANEEM 233
RKARR + EK A+ + SVK+GS+ ++KR QEVD++DPLRYLR TTSSS+LLT EE
Sbjct: 220 RKARRAKGLEKTASGIPSVKTGSSPKKKRLVAQEVDHNDPLRYLRMTTSSSKLLTVREEH 279
Query: 234 QLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITS 293
+LSAGIQDLLKLE L+ L+ER G PTFAQWA+AAGVDQ+ LR+R+++G LCKDKMI S
Sbjct: 280 ELSAGIQDLLKLERLQTELTERSGRQPTFAQWASAAGVDQKSLRQRIHHGTLCKDKMIKS 339
Query: 294 NIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKS 353
NIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDA+KGFKFSTYAHWWIKQAVRKS
Sbjct: 340 NIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDATKGFKFSTYAHWWIKQAVRKS 399
Query: 354 LSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRLHAVLLSPK 413
LSDQSR IRLPFHMVEATYRVKEARKQLYSE G+HP NEE+AEATGLSMKRL AVLLSPK
Sbjct: 400 LSDQSRMIRLPFHMVEATYRVKEARKQLYSETGKHPKNEEIAEATGLSMKRLMAVLLSPK 459
Query: 414 APRSLDQKIGINQNLKPSVCFILNLADSLIIFFPPLFIIWFMSFD 458
PRSLDQKIG+NQNLKPS +AD + + I FM D
Sbjct: 460 PPRSLDQKIGMNQNLKPSEV----IADPEAVTSEDILIKEFMRQD 500
>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 = 201 bits (512), Expect = 7e-51, Method: Compositional matrix adjust.
Identities = 106/237 (44%), Positives = 150/237 (63%), Gaps = 2/237 (0%)
Query: 193 KSG--STSRRKRPSVQEVDYSDPLRYLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLRE 250
KSG + SRR+ S ++ D +R RLL A+EE++L+ I DLL+LE +RE
Sbjct: 59 KSGKAAKSRRRTQSKKKHYTEDSIRLYLQEIGRIRLLRADEEIELARKIADLLELERVRE 118
Query: 251 VLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGM 310
LSE+ P ++WA A + R RL+ G KDKM+ SN+RLV+SIAK Y G+
Sbjct: 119 RLSEKLERDPRDSEWAEAVQLPLPAFRYRLHIGRRAKDKMVQSNLRLVVSIAKKYMNRGL 178
Query: 311 NLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEA 370
+ QDL+QEG GL+R AEKFD KG+KFSTYA WWI+QA+ ++++DQSRTIRLP H+ E
Sbjct: 179 SFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYET 238
Query: 371 TYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQN 427
R+K+ K L E GR P EE+A +++++L + S + P SL+ IG ++
Sbjct: 239 ISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEED 295
>sp|Q9LD95|SIGF_ARATH RNA polymerase sigma factor sigF, chloroplastic OS=Arabidopsis
thaliana GN=SIGF PE=1 SV=1
Length = 547
Score = 191 bits (485), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 104/262 (39%), Positives = 155/262 (59%), Gaps = 1/262 (0%)
Query: 166 VRSRRQTERKARRTRAAEKAAANVMSVKSGSTSRRKRPSVQEVDYSDPLRYLRATTSSSR 225
VRS+RQ ER+A+ RA + + TS +K+ Q D D L+ + +
Sbjct: 188 VRSKRQLERRAKNRRAPKSNDVDDEGYVPQKTSAKKKYK-QGADNDDALQLFLWGPETKQ 246
Query: 226 LLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGIL 285
LLTA EE +L + IQ LLKLE ++ L + G PT +WA A G+ L+ ++ G
Sbjct: 247 LLTAKEEAELISHIQHLLKLEKVKTKLESQNGCEPTIGEWAEAMGISSPVLKSDIHRGRS 306
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
++K+IT+N+RLV+ IAK YQ G+N QDL+QEG GL++ EKF G +F+TYA+WW
Sbjct: 307 SREKLITANLRLVVHIAKQYQNRGLNFQDLLQEGSMGLMKSVEKFKPQSGCRFATYAYWW 366
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+Q++RKS+ SRTIRLP ++ +V EARK E P+ EE+A G+S ++L
Sbjct: 367 IRQSIRKSIFQNSRTIRLPENVYMLLGKVSEARKTCVQEGNYRPSKEELAGHVGVSTEKL 426
Query: 406 HAVLLSPKAPRSLDQKIGINQN 427
+L + + P S+ Q I +Q+
Sbjct: 427 DKLLYNTRTPLSMQQPIWSDQD 448
>sp|P38023|RPOD1_SYNE7 RNA polymerase sigma factor rpoD1 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD1 PE=3 SV=2
Length = 399
Score = 191 bits (485), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 101/216 (46%), Positives = 139/216 (64%)
Query: 212 DPLRYLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGV 271
D +R RLL A+EE++L+ I DLL LE +R+ L E+ P+ A+WAAA
Sbjct: 89 DSIRLYLQEIGRIRLLRADEEIELARQIADLLALERIRDELLEQLDRLPSDAEWAAAVDS 148
Query: 272 DQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFD 331
E RRRL G KDKM+ SN+RLV+SIAK Y G++ QDL+QEG GL+R AEKFD
Sbjct: 149 PLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFD 208
Query: 332 ASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNN 391
KG+KFSTYA WWI+QA+ ++++DQSRTIRLP H+ E R+K+ K L E GR P
Sbjct: 209 HEKGYKFSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTE 268
Query: 392 EEVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQN 427
EE+A +++++L + S + P SL+ IG ++
Sbjct: 269 EEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEED 304
>sp|Q31ME3|RPOD2_SYNE7 RNA polymerase sigma factor rpoD2 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD2 PE=1 SV=1
Length = 320
Score = 177 bits (450), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 88/203 (43%), Positives = 130/203 (64%)
Query: 225 RLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGI 284
RLLTA EE+ +Q L+ L + L +R G P+ +WAAA ++ +L R++ G
Sbjct: 24 RLLTAEEELCFGRQVQRLMMLLDAQTELRDRLGHEPSKEEWAAAVDLNLEDLDRQIEQGQ 83
Query: 285 LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHW 344
K KMI +N+RLV+SIAK YQ M DL+QEG GL RG EKFD SKG+KFSTYA+W
Sbjct: 84 RAKRKMIEANLRLVVSIAKKYQKRHMEFLDLIQEGTLGLERGVEKFDPSKGYKFSTYAYW 143
Query: 345 WIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKR 404
WI+QA+ ++++ QSRTIRLP H+ E ++K+ +++L + GR E+AE L +++
Sbjct: 144 WIRQAITRAIAQQSRTIRLPIHITEKLNKLKKTQRELSQQLGRSATASELAEVLELPLEQ 203
Query: 405 LHAVLLSPKAPRSLDQKIGINQN 427
+ + + P SLD K+G +Q+
Sbjct: 204 VREYIQMNRQPVSLDVKVGDSQD 226
>sp|Q31QG5|RPOD3_SYNE7 RNA polymerase sigma factor rpoD3 OS=Synechococcus elongatus
(strain PCC 7942) GN=rpoD3 PE=3 SV=1
Length = 320
Score = 175 bits (443), Expect = 8e-43, Method: Compositional matrix adjust.
Identities = 95/223 (42%), Positives = 142/223 (63%), Gaps = 3/223 (1%)
Query: 207 EVDYSDPLR-YLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVL-SERCGGSPTFAQ 264
E SD +R YLR LLT EE+ L +Q +KL+ LR+ L SE P+ +
Sbjct: 5 ETPTSDLVRTYLREIGRVP-LLTHEEEVVLGKRVQQWMKLQELRQTLQSEEGDRDPSDLE 63
Query: 265 WAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLV 324
WAAAAG+ ELR++ + G K KMI +N+RLV+S+AK Y M+L DL+QEG G+
Sbjct: 64 WAAAAGLSIEELRQQQHLGEQAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQ 123
Query: 325 RGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSE 384
RG EKFD +KG++FSTYA+WWI+QA+ +++++++RTIRLP H+ E ++K+ ++QL +
Sbjct: 124 RGVEKFDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKMQRQLSQQ 183
Query: 385 NGRHPNNEEVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQN 427
GR E+A A L+ ++ L + P SLD ++G NQ+
Sbjct: 184 LGRTATLPELAAALDLTPAQVRDYLEKARHPLSLDLRVGDNQD 226
>sp|P52322|RPOD_MICAE RNA polymerase sigma factor rpoD1 OS=Microcystis aeruginosa
GN=rpoD1 PE=3 SV=1
Length = 416
Score = 172 bits (435), Expect = 6e-42, Method: Compositional matrix adjust.
Identities = 97/255 (38%), Positives = 136/255 (53%), Gaps = 39/255 (15%)
Query: 212 DPLRYLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLRE--------------VLSERCG 257
D +R RLL A EE++L+ I DLLKLE +RE L ER
Sbjct: 67 DSIRIYLQEIGRIRLLRAEEEIELARKIADLLKLERIREDFCLYSDAEWGKQVFLFERIE 126
Query: 258 G-------------------------SPTFAQWAAAAGVDQRELRRRLNYGILCKDKMIT 292
+P +W A + +RRL +G K+KM+
Sbjct: 127 KIIVEKSEKEPKLSDIKAYLGKTELTAPLLEEWLAKSKEYLSAFKRRLYHGRRAKEKMVQ 186
Query: 293 SNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRK 352
SN+RLV+SIAK Y G++ QDL+QEG GL+R AEKFD KG+KFSTYA WWI+QA+ +
Sbjct: 187 SNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITR 246
Query: 353 SLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRLHAVLLSP 412
+++DQSRTIRLP H+ E R+K+ K L E R P EE+A +++++L + S
Sbjct: 247 AIADQSRTIRLPVHLYETISRIKKTTKILSQEMRRKPTEEEIATKMEMTIEKLRFIAKSA 306
Query: 413 KAPRSLDQKIGINQN 427
+ P SL+ IG ++
Sbjct: 307 QLPISLETPIGKEED 321
>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 = 158 bits (399), Expect = 9e-38, Method: Compositional matrix adjust.
Identities = 71/138 (51%), Positives = 97/138 (70%)
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
KDKM+ SN+RLV+SIAK Y G++ QDL+QEG GL+R AEKFD KG+KFSTYA WW
Sbjct: 189 AKDKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWW 248
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+QA+ ++++DQSRTIRLP H+ E R+K+ K L E R P EE+AE +++++L
Sbjct: 249 IRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMRRKPTEEEIAEKMEMTIEKL 308
Query: 406 HAVLLSPKAPRSLDQKIG 423
+ S + P SL+ IG
Sbjct: 309 RFIAKSAQLPISLETPIG 326
Score = 35.0 bits (79), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 40/75 (53%), Gaps = 1/75 (1%)
Query: 193 KSGSTSRRKRPSVQEVDYS-DPLRYLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREV 251
K + ++ +V++ Y+ D +R RLL A EE++L+ I DLL+LE +R+
Sbjct: 51 KEKKVRKIRKDAVKKKPYTEDSIRIYLQEIGRIRLLRAEEEIELARQIADLLELELIRDN 110
Query: 252 LSERCGGSPTFAQWA 266
L+ + P+ +W
Sbjct: 111 LTLQLERQPSELEWG 125
>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 = 158 bits (399), Expect = 1e-37, Method: Compositional matrix adjust.
Identities = 77/202 (38%), Positives = 123/202 (60%)
Query: 226 LLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGIL 285
LL+ +E+ + +Q ++ + +E L+E+ PT +WA + + L ++L+ G +
Sbjct: 37 LLSHEQEIFFAQQVQQMMVMFTAKEELAEKLQREPTLQEWADKMQLKEDVLLQQLSQGQI 96
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
K KMI +N+RLV+SIAK YQ + DL+QEG GL RG EKFD + G+KFSTYA+WW
Sbjct: 97 AKQKMIQANLRLVVSIAKKYQKRNLEFLDLIQEGALGLERGVEKFDPTLGYKFSTYAYWW 156
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+Q + ++++ QSRTIRLP HM + ++K +++L + G E+A+A L ++
Sbjct: 157 IRQGITRAIAQQSRTIRLPIHMADKLNKIKCVQRELSQKLGYIAGVTEIAQALNLEPSQI 216
Query: 406 HAVLLSPKAPRSLDQKIGINQN 427
L + P SLD +IG Q+
Sbjct: 217 REYLQLVRQPVSLDMRIGFEQD 238
>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 = 156 bits (395), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 72/163 (44%), Positives = 108/163 (66%), Gaps = 1/163 (0%)
Query: 273 QRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDA 332
+R+L+ + G + ++ +N+RLV+S+AK Y G GM L DL+QEG GL+R EKFD
Sbjct: 79 KRDLKVLVKEGRKARSHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLIRAMEKFDY 138
Query: 333 SKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNE 392
SKGFKFSTYA WWI+QA+ + ++DQSRTIRLP H+VE ++ ++++Y + GR NE
Sbjct: 139 SKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLSRIKREMYQQLGREATNE 198
Query: 393 EVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQNLKPSVCFI 435
E+AE +G+ ++ +L + P SLD +G ++ P FI
Sbjct: 199 ELAEESGIEESKIEMLLRQSRDPVSLDMPVGADEE-APLGDFI 240
>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 = 153 bits (386), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 72/156 (46%), Positives = 109/156 (69%), Gaps = 1/156 (0%)
Query: 273 QRELRRRLNYG-ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFD 331
+REL RR G K+K+ITSN+RLV+SIAK Y G G++ QDL+QEG GL++ EKFD
Sbjct: 141 ERELARRAQMGDKKAKEKLITSNLRLVVSIAKRYMGRGLSFQDLIQEGNIGLLKAVEKFD 200
Query: 332 ASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNN 391
KG+KFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ R++ Y ++G P+
Sbjct: 201 WRKGYKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLNRLRREYYQKHGEEPSI 260
Query: 392 EEVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQN 427
EE+A+ G +++ +L + K SL+ IG +++
Sbjct: 261 EELAKMMGKPPEKIKEILEAAKETISLESPIGEDED 296
>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 = 151 bits (381), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 85/237 (35%), Positives = 134/237 (56%), Gaps = 31/237 (13%)
Query: 215 RYLRATTSSSRLLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQ- 273
RYL+ R++ AN Q L L ++E L+ G P+ +WAA AG++
Sbjct: 89 RYLKL-----RIVLANAVKQGDEVATPYLHLIEVQERLASELGHRPSLERWAATAGINLC 143
Query: 274 ---------------------RELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNL 312
EL + + G+ K+ MI +N+RLV+S+AK YQ G+ L
Sbjct: 144 DLKPILSEGKRRWAEIAKMTVEELEKMQSQGLQSKEHMIKANLRLVVSVAKKYQNRGLEL 203
Query: 313 QDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATY 372
DLVQEG GL R EKFD +KG++FSTYA+WWI+Q + ++++ SRTIRLP H+ E
Sbjct: 204 LDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATSSRTIRLPVHITEKLN 263
Query: 373 RVKEARKQLYSENGRHPNNEEVAEATGLSMKRLHAVLLSPKAPR--SLDQKIGINQN 427
++K+A++++ E GR P E++A ++ ++ VLL + PR SL+ K+G +++
Sbjct: 264 KIKKAQRKIAQEKGRTPTLEDLAIELDMTPTQVREVLL--RVPRSVSLETKVGKDKD 318
>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 = 150 bits (379), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 69/163 (42%), Positives = 106/163 (65%), Gaps = 2/163 (1%)
Query: 265 WAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLV 324
WA AG+ EL GI K MI +N+RLV+S+AK YQ G+ L DL+QEG GL
Sbjct: 144 WAELAGLTVEELENIEKQGITAKAHMIKANLRLVVSVAKKYQNRGLELLDLIQEGTLGLE 203
Query: 325 RGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSE 384
R EKFD +KG++FSTY++WWI+Q + ++++ QSR IRLP H+ E ++K A++++ E
Sbjct: 204 RAVEKFDPTKGYRFSTYSYWWIRQGITRAIATQSRMIRLPVHITEKLNKIKRAQRKISQE 263
Query: 385 NGRHPNNEEVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQN 427
G P +EVAE G++ +++ VL + PRS+ ++ + Q+
Sbjct: 264 KGHTPKIDEVAEELGMTPEQVREVL--TQVPRSVSLELKVGQD 304
>sp|P0A602|RPOD_MYCTU RNA polymerase sigma factor RpoD OS=Mycobacterium tuberculosis
GN=rpoD PE=1 SV=1
Length = 528
Score = 150 bits (379), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 78/198 (39%), Positives = 119/198 (60%), Gaps = 9/198 (4%)
Query: 226 LLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGIL 285
LL A EE++L+ I+ L L LSER P +R++ G
Sbjct: 240 LLNAEEEVELAKRIEAGLYATQLMTELSERGEKLP---------AAQRRDMMWICRDGDR 290
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
K+ ++ +N+RLV+S+AK Y G GM DL+QEG GL+R EKFD +KG+KFSTYA WW
Sbjct: 291 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 350
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+QA+ ++++DQ+RTIR+P HMVE ++ +++L + GR P EE+A+ ++ +++
Sbjct: 351 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 410
Query: 406 HAVLLSPKAPRSLDQKIG 423
+ + P SLDQ IG
Sbjct: 411 LEIQQYAREPISLDQTIG 428
>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 = 150 bits (379), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 78/198 (39%), Positives = 119/198 (60%), Gaps = 9/198 (4%)
Query: 226 LLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGIL 285
LL A EE++L+ I+ L L LSER P +R++ G
Sbjct: 240 LLNAEEEVELAKRIEAGLYATQLMTELSERGEKLP---------AAQRRDMMWICRDGDR 290
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
K+ ++ +N+RLV+S+AK Y G GM DL+QEG GL+R EKFD +KG+KFSTYA WW
Sbjct: 291 AKNHLLEANLRLVVSLAKRYTGRGMAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWW 350
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+QA+ ++++DQ+RTIR+P HMVE ++ +++L + GR P EE+A+ ++ +++
Sbjct: 351 IRQAITRAMADQARTIRIPVHMVEVINKLGRIQRELLQDLGREPTPEELAKEMDITPEKV 410
Query: 406 HAVLLSPKAPRSLDQKIG 423
+ + P SLDQ IG
Sbjct: 411 LEIQQYAREPISLDQTIG 428
>sp|O24621|SIGC_ARATH RNA polymerase sigma factor sigC OS=Arabidopsis thaliana GN=SIGC
PE=2 SV=1
Length = 571
Score = 148 bits (373), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 68/193 (35%), Positives = 127/193 (65%), Gaps = 1/193 (0%)
Query: 232 EMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMI 291
E ++S G++ + +E +R L E G + + WAAAAG++++ L R L+YG C+D+++
Sbjct: 278 ETEMSTGVKIVADMERIRTQLEEESGKVASLSCWAAAAGMNEKLLMRNLHYGWYCRDELV 337
Query: 292 TSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVR 351
S LV+ +A+NY+G G+ +DL+Q G G+++GAE+FD ++G+KFSTY +WI++++
Sbjct: 338 KSTRSLVLFLARNYRGLGIAHEDLIQAGYVGVLQGAERFDHTRGYKFSTYVQYWIRKSMS 397
Query: 352 KSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENG-RHPNNEEVAEATGLSMKRLHAVLL 410
+S +R + +P ++ +++ARK L + +G ++ +EE+A+ TG S+K++ A
Sbjct: 398 TMVSRHARGVHIPSSIIRTINHIQKARKTLKTSHGIKYAADEEIAKLTGHSVKKIRAANQ 457
Query: 411 SPKAPRSLDQKIG 423
K S+D+K+G
Sbjct: 458 CLKVVGSIDKKVG 470
>sp|P27785|RPOD_STRAU RNA polymerase sigma factor RpoD OS=Streptomyces aureofaciens
GN=rpoD PE=3 SV=1
Length = 317
Score = 147 bits (372), Expect = 1e-34, Method: Compositional matrix adjust.
Identities = 82/198 (41%), Positives = 119/198 (60%), Gaps = 13/198 (6%)
Query: 226 LLTANEEMQLSAGIQDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGIL 285
LLTA EE+ L+ ++ L E E+ GG+ A +L R + G +
Sbjct: 33 LLTAAEEVDLARRVEAGLFAE-------EKLGGAADLDSQLAV------DLDRLVVMGRM 79
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
K ++I SN+RLV+S+AK Y G G+ + DLVQEG GL+R EKFD ++G+KFSTYA WW
Sbjct: 80 AKRRLIESNLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYATWW 139
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+QA+ ++L+DQ+RTIR+P H+VE RV ++++ E G P EEVA L+ +R+
Sbjct: 140 IRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGYEPTAEEVAVHLELTPERV 199
Query: 406 HAVLLSPKAPRSLDQKIG 423
VL + P SL +G
Sbjct: 200 LEVLRLAQEPVSLHAPVG 217
>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 = 146 bits (369), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 66/138 (47%), Positives = 96/138 (69%)
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +KGFKFSTYA WW
Sbjct: 135 AKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYNKGFKFSTYATWW 194
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P+ EEVAE L+ +++
Sbjct: 195 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEVAEEMDLTPEKV 254
Query: 406 HAVLLSPKAPRSLDQKIG 423
+L + P SL+ IG
Sbjct: 255 REILKIAQEPVSLETPIG 272
>sp|Q59914|HRDD_STRGR RNA polymerase principal sigma factor HrdD OS=Streptomyces griseus
GN=hrdD PE=3 SV=1
Length = 332
Score = 146 bits (368), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 71/155 (45%), Positives = 101/155 (65%)
Query: 268 AAGVDQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGA 327
+AG + EL + G KD I SN+RLV+++A+ Y +G+ L DL+QEG GLVR
Sbjct: 78 SAGASREELEALVAEGERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAV 137
Query: 328 EKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGR 387
EKFD +KGFKFSTYA WWI+QA+ +S++DQSRTIRLP H+VE R++ +++ ENGR
Sbjct: 138 EKFDYAKGFKFSTYATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNRENGR 197
Query: 388 HPNNEEVAEATGLSMKRLHAVLLSPKAPRSLDQKI 422
P E+A + +R+ VL + P SL+ +
Sbjct: 198 DPEPAEIAAELSSTPERVTDVLDWARDPVSLNMSV 232
>sp|Q8CP24|RPOD_STAES RNA polymerase sigma factor RpoD OS=Staphylococcus epidermidis
(strain ATCC 12228) GN=rpoD PE=3 SV=1
Length = 368
Score = 145 bits (367), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 69/150 (46%), Positives = 100/150 (66%), Gaps = 1/150 (0%)
Query: 275 ELRRRLNYGI-LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDAS 333
EL +R+ G + K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD S
Sbjct: 119 ELAKRIEQGDEIAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFS 178
Query: 334 KGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEE 393
KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEE 238
Query: 394 VAEATGLSMKRLHAVLLSPKAPRSLDQKIG 423
+ E L +++ +L + P SL+ IG
Sbjct: 239 IGEEMDLPPEKVREILKIAQEPVSLETPIG 268
>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 = 145 bits (367), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 69/150 (46%), Positives = 100/150 (66%), Gaps = 1/150 (0%)
Query: 275 ELRRRLNYGI-LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDAS 333
EL +R+ G + K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD S
Sbjct: 119 ELAKRIEQGDEIAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFS 178
Query: 334 KGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEE 393
KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEE 238
Query: 394 VAEATGLSMKRLHAVLLSPKAPRSLDQKIG 423
+ E L +++ +L + P SL+ IG
Sbjct: 239 IGEEMDLPPEKVREILKIAQEPVSLETPIG 268
>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 = 145 bits (367), Expect = 5e-34, Method: Compositional matrix adjust.
Identities = 64/138 (46%), Positives = 95/138 (68%)
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
K+KM SN+RLV+SIAK + G+ DL+QEG GL++ +KF+ KGFKFSTYA WW
Sbjct: 432 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 491
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
IKQA+ ++++DQ+RTIR+P HM++ R+ + ++ ENG+ P+ E VAE GLS+ ++
Sbjct: 492 IKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQENGKEPDLEVVAEEVGLSLDKV 551
Query: 406 HAVLLSPKAPRSLDQKIG 423
V+ K P SL+ +G
Sbjct: 552 KNVIKVTKEPISLETPVG 569
>sp|Q99TT5|RPOD_STAAN RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
N315) GN=rpoD PE=1 SV=1
Length = 368
Score = 145 bits (366), Expect = 6e-34, Method: Compositional matrix adjust.
Identities = 69/150 (46%), Positives = 100/150 (66%), Gaps = 1/150 (0%)
Query: 275 ELRRRLNYGI-LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDAS 333
EL +R+ G + K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +
Sbjct: 119 ELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFN 178
Query: 334 KGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEE 393
KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEE 238
Query: 394 VAEATGLSMKRLHAVLLSPKAPRSLDQKIG 423
+ E L +++ VL + P SL+ IG
Sbjct: 239 IGEEMDLPAEKVREVLKIAQEPVSLETPIG 268
>sp|P52328|RPSD2_BACSP RNA polymerase sigma factor RpoD OS=Bacillus sp. GN=sigA PE=3 SV=1
Length = 377
Score = 145 bits (365), Expect = 8e-34, Method: Compositional matrix adjust.
Identities = 70/153 (45%), Positives = 102/153 (66%), Gaps = 1/153 (0%)
Query: 272 DQRELRRRLNYGIL-CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKF 330
D+ EL +R+ G K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKF
Sbjct: 125 DEVELAKRIMNGDEEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKF 184
Query: 331 DASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPN 390
D +KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ +QL E GR P
Sbjct: 185 DHNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLLQELGREPT 244
Query: 391 NEEVAEATGLSMKRLHAVLLSPKAPRSLDQKIG 423
EE+A LS++++ ++ + P SL+ IG
Sbjct: 245 PEEIAAEMELSVEKVREIMKIAQEPVSLETPIG 277
>sp|Q9Z7F0|RPOD_CHLPN RNA polymerase sigma factor RpoD OS=Chlamydia pneumoniae GN=rpoD
PE=3 SV=1
Length = 572
Score = 145 bits (365), Expect = 9e-34, Method: Compositional matrix adjust.
Identities = 68/152 (44%), Positives = 100/152 (65%)
Query: 272 DQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFD 331
D R L+R ++ K +M+ SN+RLVISIAK Y G++ DL+QEG GL++ EKF+
Sbjct: 303 DVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFE 362
Query: 332 ASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNN 391
+G+KFSTYA WWI+QAV ++++DQ+RTIR+P HM+E +V K+L E G+ P
Sbjct: 363 YRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTP 422
Query: 392 EEVAEATGLSMKRLHAVLLSPKAPRSLDQKIG 423
EE+AE GL+ R+ + + P SL ++G
Sbjct: 423 EELAEELGLTPDRVREIYKIAQHPISLQAEVG 454
>sp|P0A0I9|RPOD_STAAW RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MW2) GN=rpoD PE=3 SV=1
Length = 368
Score = 145 bits (365), Expect = 9e-34, Method: Compositional matrix adjust.
Identities = 68/150 (45%), Positives = 100/150 (66%), Gaps = 1/150 (0%)
Query: 275 ELRRRLNYGI-LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDAS 333
EL +R+ G + K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +
Sbjct: 119 ELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFN 178
Query: 334 KGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEE 393
KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEE 238
Query: 394 VAEATGLSMKRLHAVLLSPKAPRSLDQKIG 423
+ E L +++ +L + P SL+ IG
Sbjct: 239 IGEEMDLPAEKVREILKIAQEPVSLETPIG 268
>sp|Q6G905|RPOD_STAAS RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MSSA476) GN=rpoD PE=3 SV=1
Length = 368
Score = 145 bits (365), Expect = 9e-34, Method: Compositional matrix adjust.
Identities = 68/150 (45%), Positives = 100/150 (66%), Gaps = 1/150 (0%)
Query: 275 ELRRRLNYGI-LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDAS 333
EL +R+ G + K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +
Sbjct: 119 ELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFN 178
Query: 334 KGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEE 393
KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEE 238
Query: 394 VAEATGLSMKRLHAVLLSPKAPRSLDQKIG 423
+ E L +++ +L + P SL+ IG
Sbjct: 239 IGEEMDLPAEKVREILKIAQEPVSLETPIG 268
>sp|Q6GGD8|RPOD_STAAR RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MRSA252) GN=rpoD PE=3 SV=1
Length = 368
Score = 145 bits (365), Expect = 9e-34, Method: Compositional matrix adjust.
Identities = 68/150 (45%), Positives = 100/150 (66%), Gaps = 1/150 (0%)
Query: 275 ELRRRLNYGI-LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDAS 333
EL +R+ G + K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +
Sbjct: 119 ELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFN 178
Query: 334 KGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEE 393
KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEE 238
Query: 394 VAEATGLSMKRLHAVLLSPKAPRSLDQKIG 423
+ E L +++ +L + P SL+ IG
Sbjct: 239 IGEEMDLPAEKVREILKIAQEPVSLETPIG 268
>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 = 145 bits (365), Expect = 9e-34, Method: Compositional matrix adjust.
Identities = 68/150 (45%), Positives = 100/150 (66%), Gaps = 1/150 (0%)
Query: 275 ELRRRLNYGI-LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDAS 333
EL +R+ G + K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +
Sbjct: 119 ELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFN 178
Query: 334 KGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEE 393
KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEE 238
Query: 394 VAEATGLSMKRLHAVLLSPKAPRSLDQKIG 423
+ E L +++ +L + P SL+ IG
Sbjct: 239 IGEEMDLPAEKVREILKIAQEPVSLETPIG 268
>sp|Q5HFJ9|RPOD_STAAC RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
COL) GN=rpoD PE=3 SV=1
Length = 368
Score = 145 bits (365), Expect = 9e-34, Method: Compositional matrix adjust.
Identities = 68/150 (45%), Positives = 100/150 (66%), Gaps = 1/150 (0%)
Query: 275 ELRRRLNYGI-LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDAS 333
EL +R+ G + K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +
Sbjct: 119 ELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFN 178
Query: 334 KGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEE 393
KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEE 238
Query: 394 VAEATGLSMKRLHAVLLSPKAPRSLDQKIG 423
+ E L +++ +L + P SL+ IG
Sbjct: 239 IGEEMDLPAEKVREILKIAQEPVSLETPIG 268
>sp|P0A0J0|RPOD_STAA8 RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
NCTC 8325) GN=rpoD PE=3 SV=1
Length = 368
Score = 145 bits (365), Expect = 9e-34, Method: Compositional matrix adjust.
Identities = 68/150 (45%), Positives = 100/150 (66%), Gaps = 1/150 (0%)
Query: 275 ELRRRLNYGI-LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDAS 333
EL +R+ G + K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +
Sbjct: 119 ELAKRIEQGDEVAKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFN 178
Query: 334 KGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEE 393
KGFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE
Sbjct: 179 KGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEE 238
Query: 394 VAEATGLSMKRLHAVLLSPKAPRSLDQKIG 423
+ E L +++ +L + P SL+ IG
Sbjct: 239 IGEEMDLPAEKVREILKIAQEPVSLETPIG 268
>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 = 144 bits (364), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 85/244 (34%), Positives = 124/244 (50%), Gaps = 52/244 (21%)
Query: 180 RAAEKAAANVMSVKSGSTSRRKRPSVQEVDYSDPLRYLRATTSSSRLLTANEEMQLSAGI 239
+ AEKA A +S +G V +DP+R +LLTA EE++L+ I
Sbjct: 77 KEAEKAQAEDLSAPTG------------VKINDPVRMYLKEIGRVQLLTAAEEVELALKI 124
Query: 240 QDLLKLEGLREVLSERCGGSPTFAQWAAAAGVDQRELRRRLNYGILCKDKMITSNIRLVI 299
+ EG +E K ++ +N+RLV+
Sbjct: 125 E-----EGDQE-----------------------------------AKQRLAEANLRLVV 144
Query: 300 SIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSR 359
SIAK Y G GM DL+QEG GL++ EKFD KGFKFSTYA WWI+QA+ ++++DQ+R
Sbjct: 145 SIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQAR 204
Query: 360 TIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRLHAVLLSPKAPRSLD 419
TIR+P HMVE ++ ++QL + GR P EE+ L +++ +L + P SL+
Sbjct: 205 TIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTEKVREILKIAQEPVSLE 264
Query: 420 QKIG 423
IG
Sbjct: 265 TPIG 268
>sp|Q60012|HRDD_STRVF RNA polymerase principal sigma factor HrdD OS=Streptomyces
viridifaciens GN=hrdD PE=3 SV=1
Length = 332
Score = 144 bits (363), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 70/148 (47%), Positives = 99/148 (66%)
Query: 275 ELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASK 334
EL+ ++ G KD I SN+RLV+++A+ Y +G+ L DL+QEG GLVR EKFD K
Sbjct: 85 ELQALVDAGERAKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRK 144
Query: 335 GFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEV 394
GFKFSTYA WWI+QA+ +S++DQSRTIRLP H+VE R++ +++ E+GR P EV
Sbjct: 145 GFKFSTYATWWIRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGRDPEPAEV 204
Query: 395 AEATGLSMKRLHAVLLSPKAPRSLDQKI 422
A G + +R+ VL + P SL+ +
Sbjct: 205 AAELGSTPERVIDVLDWARDPVSLNMAV 232
>sp|P0CZ15|RPOD_RHOCA RNA polymerase sigma factor rpoD OS=Rhodobacter capsulatus GN=rpoD
PE=2 SV=1
Length = 674
Score = 144 bits (362), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 70/169 (41%), Positives = 103/169 (60%), Gaps = 7/169 (4%)
Query: 262 FAQWAAAAGVDQRELRRRLNY-------GILCKDKMITSNIRLVISIAKNYQGAGMNLQD 314
AQ GVD E RR +N K +M+ +N+RLVISIAK Y G+ D
Sbjct: 405 MAQVGQYVGVDISEFRRIVNQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLD 464
Query: 315 LVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRV 374
L+QEG GL++ +KF+ +G+KFSTYA WWI+QA+ +S++DQ+RTIR+P HM+E ++
Sbjct: 465 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKL 524
Query: 375 KEARKQLYSENGRHPNNEEVAEATGLSMKRLHAVLLSPKAPRSLDQKIG 423
+Q+ E GR P EE+AE + ++++ V+ K P SL+ IG
Sbjct: 525 VRTGRQMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIG 573
>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 = 144 bits (362), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 70/173 (40%), Positives = 105/173 (60%), Gaps = 7/173 (4%)
Query: 262 FAQWAAAAGVDQRELRRRLNY-------GILCKDKMITSNIRLVISIAKNYQGAGMNLQD 314
AQ GVD E RR +N K +M+ +N+RLVISIAK Y G+ D
Sbjct: 405 MAQVGQYVGVDISEFRRIVNQVQKGEKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLD 464
Query: 315 LVQEGCRGLVRGAEKFDASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRV 374
L+QEG GL++ +KF+ +G+KFSTYA WWI+QA+ +S++DQ+RTIR+P HM+E ++
Sbjct: 465 LIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKL 524
Query: 375 KEARKQLYSENGRHPNNEEVAEATGLSMKRLHAVLLSPKAPRSLDQKIGINQN 427
+Q+ E GR P EE+AE + ++++ V+ K P SL+ IG ++
Sbjct: 525 VRTGRQMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPISLETPIGDEED 577
>sp|Q9ZMY3|RPOD_HELPJ RNA polymerase sigma factor RpoD OS=Helicobacter pylori (strain
J99) GN=rpoD PE=3 SV=1
Length = 681
Score = 143 bits (361), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 63/138 (45%), Positives = 94/138 (68%)
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
K+KM SN+RLV+SIAK + G+ DL+QEG GL++ +KF+ KGFKFSTYA WW
Sbjct: 442 AKNKMAKSNLRLVVSIAKRFTSRGLPFLDLIQEGNIGLMKAVDKFEHEKGFKFSTYATWW 501
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
IKQA+ ++++DQ+RTIR+P HM++ R+ + ++ E G+ P+ E VAE GLS+ ++
Sbjct: 502 IKQAISRAIADQARTIRIPIHMIDTINRINKVMRKHIQETGKEPDLEVVAEEVGLSLDKV 561
Query: 406 HAVLLSPKAPRSLDQKIG 423
V+ K P SL+ +G
Sbjct: 562 KNVIKVTKEPISLETPVG 579
>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 = 143 bits (360), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 66/137 (48%), Positives = 93/137 (67%)
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
KD I SN+RLV+++A+ Y +G+ L DL+QEG GLVR EKFD KGFKFSTYA WW
Sbjct: 96 AKDVFIRSNLRLVVAVARRYPRSGLPLLDLIQEGNAGLVRAVEKFDYRKGFKFSTYATWW 155
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+QA+ +S++DQSRTIRLP H+VE R++ +++ E+GR P E+A G + +R+
Sbjct: 156 IRQAITRSIADQSRTIRLPVHLVEELGRIRRVQREFNREHGREPEPAEIAAELGSTPERV 215
Query: 406 HAVLLSPKAPRSLDQKI 422
VL + P SL+ +
Sbjct: 216 TDVLDWARDPVSLNMSV 232
>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 = 142 bits (359), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 67/149 (44%), Positives = 99/149 (66%), Gaps = 1/149 (0%)
Query: 276 LRRRLNYG-ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASK 334
L +R+ G I K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +K
Sbjct: 126 LAKRIEAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDFNK 185
Query: 335 GFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEV 394
GFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++ L + GR P+ EE+
Sbjct: 186 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPEEI 245
Query: 395 AEATGLSMKRLHAVLLSPKAPRSLDQKIG 423
E L +++ +L + P SL+ IG
Sbjct: 246 GEEMDLPTEKVREILKIAQEPVSLETPIG 274
>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 = 142 bits (359), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 67/149 (44%), Positives = 99/149 (66%), Gaps = 1/149 (0%)
Query: 276 LRRRLNYG-ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASK 334
L +R+ G I K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD +K
Sbjct: 126 LAKRIEAGDIEAKGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDFNK 185
Query: 335 GFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEV 394
GFKFSTYA WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++ L + GR P+ EE+
Sbjct: 186 GFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSPEEI 245
Query: 395 AEATGLSMKRLHAVLLSPKAPRSLDQKIG 423
E L +++ +L + P SL+ IG
Sbjct: 246 GEEMDLPTEKVREILKIAQEPVSLETPIG 274
>sp|Q59753|RPOD_RHIME RNA polymerase sigma factor RpoD OS=Rhizobium meliloti (strain
1021) GN=rpoD PE=3 SV=1
Length = 684
Score = 142 bits (359), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 61/143 (42%), Positives = 96/143 (67%)
Query: 285 LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHW 344
+ K +M+ +N+RLVISIAK Y G+ DL+QEG GL++ +KF+ +G+KFSTYA W
Sbjct: 445 IAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 504
Query: 345 WIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKR 404
WI+QA+ +S++DQ+RTIR+P HM+E ++ +Q+ E GR P EE+AE + +++
Sbjct: 505 WIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEK 564
Query: 405 LHAVLLSPKAPRSLDQKIGINQN 427
+ VL K P SL+ +G ++
Sbjct: 565 VRKVLKIAKEPISLETPVGDEED 587
>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 = 142 bits (358), Expect = 5e-33, Method: Compositional matrix adjust.
Identities = 61/143 (42%), Positives = 96/143 (67%)
Query: 285 LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHW 344
+ K +M+ +N+RLVISIAK Y G+ DL+QEG GL++ +KF+ +G+KFSTYA W
Sbjct: 446 IAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 505
Query: 345 WIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKR 404
WI+QA+ +S++DQ+RTIR+P HM+E ++ +Q+ E GR P EE+AE + +++
Sbjct: 506 WIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEK 565
Query: 405 LHAVLLSPKAPRSLDQKIGINQN 427
+ VL K P SL+ +G ++
Sbjct: 566 VRKVLKIAKEPISLETPVGDEED 588
>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 = 142 bits (357), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 61/143 (42%), Positives = 96/143 (67%)
Query: 285 LCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHW 344
+ K +M+ +N+RLVISIAK Y G+ DL+QEG GL++ +KF+ +G+KFSTYA W
Sbjct: 445 IAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 504
Query: 345 WIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKR 404
WI+QA+ +S++DQ+RTIR+P HM+E ++ +Q+ E GR P EE+AE + +++
Sbjct: 505 WIRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEK 564
Query: 405 LHAVLLSPKAPRSLDQKIGINQN 427
+ VL K P SL+ +G ++
Sbjct: 565 VRKVLKIAKEPISLETPVGDEED 587
>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 = 142 bits (357), Expect = 7e-33, Method: Compositional matrix adjust.
Identities = 62/142 (43%), Positives = 95/142 (66%)
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
K +M+ +N+RLVISIAK Y G+ DL+QEG GL++ +KF+ +G+KFSTYA WW
Sbjct: 414 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 473
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+QA+ +S++DQ+RTIR+P HM+E ++ +Q+ E GR P EE+AE + ++++
Sbjct: 474 IRQAITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKV 533
Query: 406 HAVLLSPKAPRSLDQKIGINQN 427
VL K P SL+ IG ++
Sbjct: 534 RKVLKIAKEPISLETPIGDEED 555
>sp|P06224|RPOD_BACSU RNA polymerase sigma factor RpoD OS=Bacillus subtilis (strain 168)
GN=sigA PE=1 SV=2
Length = 371
Score = 141 bits (356), Expect = 9e-33, Method: Compositional matrix adjust.
Identities = 64/138 (46%), Positives = 94/138 (68%)
Query: 286 CKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWW 345
K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ EKFD KG+KFSTYA WW
Sbjct: 134 SKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGYKFSTYATWW 193
Query: 346 IKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRL 405
I+QA+ ++++DQ+RTIR+P HMVE ++ ++QL + GR P EE+AE L+ +++
Sbjct: 194 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPEEIAEDMDLTPEKV 253
Query: 406 HAVLLSPKAPRSLDQKIG 423
+L + P SL+ IG
Sbjct: 254 REILKIAQEPVSLETPIG 271
>sp|O83506|RPOD_TREPA RNA polymerase sigma factor RpoD OS=Treponema pallidum (strain
Nichols) GN=rpoD PE=3 SV=1
Length = 611
Score = 141 bits (356), Expect = 9e-33, Method: Compositional matrix adjust.
Identities = 65/137 (47%), Positives = 95/137 (69%)
Query: 287 KDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAHWWI 346
KDK+I +N+RLV+SIAK Y G+ DLVQEG GL++ EKF+ KG+KFSTYA WWI
Sbjct: 374 KDKLINANLRLVVSIAKKYTNRGLLFFDLVQEGNIGLIKAVEKFEYRKGYKFSTYATWWI 433
Query: 347 KQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMKRLH 406
+QA+ +S+SDQ+RTIR+P HM+E +V +QL + GR P++EE+A+ +++++
Sbjct: 434 RQAITRSISDQARTIRVPVHMIEQINKVTRESRQLLQKFGREPSDEEIAQQLCWTVEKVK 493
Query: 407 AVLLSPKAPRSLDQKIG 423
V + P SL+ IG
Sbjct: 494 QVKSVAREPISLETPIG 510
>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 = 141 bits (356), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 66/141 (46%), Positives = 96/141 (68%)
Query: 283 GILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYA 342
G L K ++I +N+RLV+S+AK Y G G+ + DLVQEG GL+R EKFD ++G+KFSTYA
Sbjct: 156 GRLAKRRLIEANLRLVVSVAKRYVGRGLTMLDLVQEGNLGLIRAVEKFDYARGYKFSTYA 215
Query: 343 HWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSM 402
WWI+QA+ ++L+DQ+RTIR+P H+VE RV ++++ E G P +EVA L+
Sbjct: 216 TWWIRQAMSRALADQARTIRVPVHVVELINRVVRVQRRMLQERGCEPTPQEVAAHLDLAP 275
Query: 403 KRLHAVLLSPKAPRSLDQKIG 423
+R+ VL + P SL +G
Sbjct: 276 ERVGEVLRLAQEPVSLHAPVG 296
>sp|P56835|RPOD_CHLMU RNA polymerase sigma factor RpoD OS=Chlamydia muridarum (strain
MoPn / Nigg) GN=rpoD PE=3 SV=1
Length = 571
Score = 141 bits (356), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 66/152 (43%), Positives = 98/152 (64%)
Query: 272 DQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFD 331
D R L+R ++ K +M+ SN+RLVISIAK Y G++ DL+QEG GL++ EKF+
Sbjct: 303 DVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFE 362
Query: 332 ASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNN 391
+G+KFSTYA WWI+QAV ++++DQ+RTIR+P HM+E +V K+L E G+ P
Sbjct: 363 YRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTP 422
Query: 392 EEVAEATGLSMKRLHAVLLSPKAPRSLDQKIG 423
EE+ E G + R+ + + P SL ++G
Sbjct: 423 EELGEELGFTPDRVREIYKIAQHPISLQAEVG 454
>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 = 141 bits (355), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 63/140 (45%), Positives = 94/140 (67%)
Query: 284 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAH 343
I K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ +KFD SKGFKFSTYA
Sbjct: 129 IEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYAT 188
Query: 344 WWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMK 403
WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++ L E G+ P E++AE ++
Sbjct: 189 WWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPD 248
Query: 404 RLHAVLLSPKAPRSLDQKIG 423
++ +L + P SL+ IG
Sbjct: 249 KVREILKIAQEPVSLETPIG 268
>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 = 141 bits (355), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 63/140 (45%), Positives = 94/140 (67%)
Query: 284 ILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFDASKGFKFSTYAH 343
I K ++ +N+RLV+SIAK Y G GM DL+QEG GL++ +KFD SKGFKFSTYA
Sbjct: 129 IEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYAT 188
Query: 344 WWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNNEEVAEATGLSMK 403
WWI+QA+ ++++DQ+RTIR+P HMVE ++ ++ L E G+ P E++AE ++
Sbjct: 189 WWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPD 248
Query: 404 RLHAVLLSPKAPRSLDQKIG 423
++ +L + P SL+ IG
Sbjct: 249 KVREILKIAQEPVSLETPIG 268
>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 = 141 bits (355), Expect = 1e-32, Method: Compositional matrix adjust.
Identities = 66/152 (43%), Positives = 98/152 (64%)
Query: 272 DQRELRRRLNYGILCKDKMITSNIRLVISIAKNYQGAGMNLQDLVQEGCRGLVRGAEKFD 331
D R L+R ++ K +M+ SN+RLVISIAK Y G++ DL+QEG GL++ EKF+
Sbjct: 303 DVRMLQRWMDKSQEAKKEMVESNLRLVISIAKKYTNRGLSFLDLIQEGNMGLMKAVEKFE 362
Query: 332 ASKGFKFSTYAHWWIKQAVRKSLSDQSRTIRLPFHMVEATYRVKEARKQLYSENGRHPNN 391
+G+KFSTYA WWI+QAV ++++DQ+RTIR+P HM+E +V K+L E G+ P
Sbjct: 363 YRRGYKFSTYATWWIRQAVTRAIADQARTIRIPVHMIETINKVLRGAKKLMMETGKEPTP 422
Query: 392 EEVAEATGLSMKRLHAVLLSPKAPRSLDQKIG 423
EE+ E G + R+ + + P SL ++G
Sbjct: 423 EELGEELGFTPDRVREIYKIAQHPISLQAEVG 454
Database: swissprot
Posted date: Mar 23, 2013 2:32 AM
Number of letters in database: 191,569,459
Number of sequences in database: 539,616
Lambda K H
0.315 0.127 0.352
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 150,666,550
Number of Sequences: 539616
Number of extensions: 5725805
Number of successful extensions: 22729
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 164
Number of HSP's successfully gapped in prelim test: 135
Number of HSP's that attempted gapping in prelim test: 22308
Number of HSP's gapped (non-prelim): 459
length of query: 460
length of database: 191,569,459
effective HSP length: 121
effective length of query: 339
effective length of database: 126,275,923
effective search space: 42807537897
effective search space used: 42807537897
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 63 (28.9 bits)