Reference:
Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schäffer,
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.
RID: 1018865787-19289-15324
Query= f2_(878. .2542)#555 aa#15-Apr-2002
(555 letters)
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
920,511 sequences; 288,591,486 total letters
If you have any problems or questions with the results of this search
please refer to the BLAST FAQs
Taxonomy reports
Score E
Sequences producing significant alignments: (bits) Value
pir||S41307 transcription initiation factor sigma - Strepto... 867 0.0
sp|P18183|HRDB_STRCO RNA polymerase principal sigma factor ... 758 0.0
sp|P77951|HRDB_STRGR RNA polymerase principal sigma factor ... 743 0.0
pir||JN0443 transcription initiation factor sigma homolog h... 726 0.0
pir||S11712 transcription initiation factor sigma hrdB - St... 654 0.0
pir||JH0496 transcription initiation factor sigma homolog -... 647 0.0
prf||2119302A sigma factor [Streptomyces griseus] 636 0.0
pir||JN0445 transcription initiation factor sigma homolog h... 620 e-176
emb|CAA71796.1| (Y10835) RNA polymerase [Renibacterium salm... 531 e-150
emb|CAC83737.1| (AJ308422) RNA polymerase sigma 70 [Rhodoco... 466 e-130
ref|NP_601117.1| (NC_003450) COG0568:DNA-directed RNA polym... 462 e-129
gb|AAK09321.1|AF320817_2 (AF320817) sigma factor SigA [Brev... 461 e-129
pir||S61292 transcription initiation factor sigma mysA - My... 457 e-127
gb|AAK15630.1|AF326348_2 (AF326348) RNA polymerase major si... 457 e-127
emb|CAA89984.1| (Z49822) SigA sigma factor [Corynebacterium... 457 e-127
gb|AAA81640.1| (U21130) sigma factor [Mycobacterium bovis] ... 447 e-124
ref|NP_301755.1| (NC_002677) RNA polymerase sigma factor [M... 445 e-124
dbj|BAA76622.1| (AB019194) RpoT [Mycobacterium leprae] 444 e-124
ref|NP_217219.1| (NC_000962) sigA [Mycobacterium tuberculos... 444 e-123
gb|AAA81642.1| (U21132) sigma factor [Mycobacterium bovis] 442 e-123
ref|NP_242242.1| (NC_002570) RNA polymerase major sigma fac... 347 1e-94
dbj|BAA25730.1| (AB012852) SigA [Bacillus sp.] 346 3e-94
pir||JN0442 transcription initiation factor sigma homolog h... 346 4e-94
sp|P52328|RPSD_LEPIN RNA POLYMERASE SIGMA FACTOR RPOD >gi|1... 344 2e-93
ref|NP_374674.1| (NC_002745) RNA polymerase sigma factor [S... 340 2e-92
ref|NP_372085.1| (NC_002758) RNA polymerase sigma factor [S... 340 2e-92
gb|AAC44890.1| (U67424) sigma 70-type sigma factor SigA [He... 340 3e-92
ref|NP_562923.1| (NC_003366) transcription initiation facto... 339 4e-92
pir||S17929 transcription initiation factor sigma hrdA - St... 339 4e-92
sp|P18182|HRDA_STRCO RNA polymerase principal sigma factor ... 338 7e-92
ref|NP_347931.1| (NC_003030) RNA polymerase sigma factor RP... 338 9e-92
sp|P27785|RPSD_STRAU RNA POLYMERASE SIGMA FACTOR RPOD 338 9e-92
dbj|BAA19494.1| (AB001896) sigA=sigma70 [Staphylococcus aur... 337 2e-91
dbj|BAB62883.1| (AB055809) RNA polymerase major sigma facto... 336 4e-91
ref|NP_390399.1| (NC_000964) RNA polymerase major sigma-43 ... 333 3e-90
ref|NP_464979.1| (NC_003210) RNA polymerase sigma factor Rp... 332 6e-90
ref|NP_470827.1| (NC_003212) RNA polymerase sigma factor Rp... 331 1e-89
sp|P52329|RPSD_ENTFA RNA POLYMERASE SIGMA FACTOR RPOD (SIGM... 328 7e-89
ref|NP_217226.1| (NC_000962) sigB [Mycobacterium tuberculos... 321 1e-86
gb|AAC44535.1| (U39806) sigma factor MytB [Mycobacterium tu... 319 4e-86
pir||JC5011 transcription initiation factor sigma B - Mycob... 319 4e-86
ref|NP_301750.1| (NC_002677) RNA polymerase sigma factor [M... 318 1e-85
pir||S61293 transcription initiation factor sigma mysB - My... 316 4e-85
emb|CAC83730.1| (AJ308412) sigma factor [Rhodococcus fascians] 315 1e-84
ref|NP_345546.1| (NC_003028) RNA polymerase sigma-70 factor... 309 4e-83
ref|NP_269001.1| (NC_002737) putative RNA polymerase sigma ... 308 8e-83
ref|NP_607002.1| (NC_003485) putative RNA polymerase sigma ... 308 8e-83
sp|O33662|RPSD_STRMU RNA polymerase sigma factor rpoD (Sigm... 308 1e-82
sp|Q04506|RPSD_LACLA RNA polymerase sigma factor rpoD (Sigm... 306 3e-82
ref|NP_266709.1| (NC_002662) major RNA polymerase sigma fac... 306 3e-82
pir||JC1397 transcription initiation factor sigma, major - ... 305 6e-82
gb|AAK09322.1|AF320818_1 (AF320818) sigma factor SigB [Brev... 305 1e-81
sp|P58290|RSPD_LACLC RNA polymerase sigma factor rpoD (Sigm... 305 1e-81
pir||S38349 transcription initiation factor sigma, major - ... 304 1e-81
ref|NP_601125.1| (NC_003450) COG0568:DNA-directed RNA polym... 303 2e-81
prf||1908232B RNA polymerase:SUBUNIT=sigma factor [Lactococ... 303 3e-81
gb|AAB07554.1| (U67722) SigD [Chloroflexus aurantiacus] 294 1e-78
dbj|BAA74758.1| (AB017014) principal sigma factor [Thermus ... 292 6e-78
gb|AAG36964.1|AF291720_1 (AF291720) sigma factor SigA [Ther... 290 4e-77
ref|NP_294640.1| (NC_001263) RNA polymerase sigma-A factor ... 284 2e-75
gb|AAB07551.1| (U67719) SigA [Chloroflexus aurantiacus] 282 6e-75
prf||2208419B RNA polymerase sigma factor [Synechococcus sp.] 280 2e-74
gb|AAB41506.1| (U15574) SigA [Synechococcus sp. PCC 7002] 280 2e-74
gb|AAF73062.1|AF265349_1 (AF265349) primary vegetative sigm... 280 4e-74
ref|NP_489303.1| (NC_003272) transcription initiation facto... 279 5e-74
dbj|BAA01749.1| (D10973) principal sigma factor [Synechococ... 277 2e-73
pir||S24172 transcription initiation factor sigma A - Synec... 276 5e-73
gb|AAC44889.2| (U67423) sigma 70-type sigma factor SigA [Th... 275 1e-72
ref|NP_229250.1| (NC_000853) RNA polymerase sigma-A factor ... 275 1e-72
ref|NP_604215.1| (NC_003454) RNA polymerase sigma factor rp... 272 6e-72
gb|AAC26667.1| (AF071795) RNA polymerase sigma-like factor ... 272 6e-72
ref|NP_230168.1| (NC_002505) RNA polymerase sigma factor Rp... 271 1e-71
ref|NP_404281.1| (NC_003143) RNA polymerase sigma factor Rp... 269 5e-71
ref|NP_289642.1| (NC_002655) RNA polymerase, sigma(70) fact... 269 7e-71
gb|AAB60181.1| (U23083) RNA polymerase sigma-subunit [Esche... 269 7e-71
sp|P32001|RPSD_BUCAP RNA POLYMERASE SIGMA FACTOR RPOD (SIGM... 269 7e-71
ref|NP_457602.1| (NC_003198) RNA polymerase sigma-70 factor... 269 7e-71
sp|P07336|RPSD_SALTY RNA polymerase sigma factor rpoD (Sigm... 269 7e-71
ref|NP_462126.1| (NC_003197) sigma D (sigma 70) factor of R... 269 7e-71
pir||JC5425 transcription initiation factor sigma - Xanthom... 268 9e-71
sp|O24744|RPSD_SHEVI RNA POLYMERASE SIGMA FACTOR RPOD (SIGM... 268 9e-71
ref|NP_417539.1| (NC_000913) RNA polymerase, sigma(70) fact... 268 9e-71
gb|AAA24601.1| (J01687) RNA polymerase sigma-subunit [Esche... 268 9e-71
ref|NP_239892.1| (NC_002528) RNA polymerase sigma factor rp... 267 2e-70
ref|NP_249267.1| (NC_002516) sigma factor RpoD [Pseudomonas... 267 3e-70
ref|NP_438691.1| (NC_000907) RNA polymerase sigma-70 factor... 266 3e-70
ref|NP_246178.1| (NC_002663) RpoD [Pasteurella multocida] >... 266 4e-70
emb|CAA07705.1| (AJ007830) sigma-70 factor [Pseudomonas tol... 266 6e-70
ref|NP_445653.1| (NC_002179) RNA polymerase sigma factor, s... 266 6e-70
gb|AAB87749.1| (U93292) DNA-directed RNA polymerase sigma s... 266 6e-70
sp|P52326|RPSD_PSEFL RNA POLYMERASE SIGMA FACTOR RPOD (SIGM... 266 6e-70
ref|NP_421841.1| (NC_002696) RNA polymerase sigma factor Rp... 266 6e-70
ref|NP_224951.1| (NC_000922) RNA Polymerase Sigma-66 [Chlam... 266 6e-70
emb|CAA67902.1| (X99588) primary sigma factor [Bradyrhizobi... 265 7e-70
sp|P17531|RPSD_MYXXA RNA POLYMERASE SIGMA FACTOR RPOD (SIGM... 265 1e-69
sp|P46400|RPSD_RHOCA RNA POLYMERASE SIGMA FACTOR RPOD (SIGM... 265 1e-69
sp|P18184|HRDC_STRCO RNA polymerase principal sigma factor ... 265 1e-69
pir||JC5104 transcription initiation factor sigma - Rhodoba... 265 1e-69
ref|NP_214029.1| (NC_000918) RNA polymerase sigma factor Rp... 265 1e-69
gb|AAC44891.1| (U67425) sigma 70-type sigma factor SigA [Rh... 264 2e-69
Alignments
>pir||S41307 transcription initiation factor sigma - Streptomyces griseus
emb|CAA53564.1| (X75952) sigma factor (RNA polymerase subunit) [Streptomyces
griseus]
Length = 510
Score = 867 bits (2239), Expect = 0.0
Identities = 476/518 (91%), Positives = 479/518 (91%), Gaps = 8/518 (1%)
Query: 38 VSASTSRTLPPEIAESQSVMALIPRGKADGMIAGDDVRRAFEADQIYPAHQCLKNVLRSL 97
+SASTSRTLPPEIAESQSVMALI RGKADG IAGDDVRRAFEADQI PA Q KNVLRSL
Sbjct: 1 MSASTSRTLPPEIAESQSVMALIERGKADGQIAGDDVRRAFEADQI-PATQW-KNVLRSL 58
Query: 98 NQILEEEGVTLMVRWAEPKRTRKSVAAMSPAKRLATTRTMVAAKAAPVKKSAPAAAPTDE 157
NQILEEEGVTLMV AEPKRTRKSVAA SPAKR ATTRT VAAKAAPVKKSAPAAAPTDE
Sbjct: 59 NQILEEEGVTLMVSAAEPKRTRKSVAAKSPAKRTATTRT-VAAKAAPVKKSAPAAAPTDE 117
Query: 158 ESEQPVKKAAAKNVTAKKTAKKATAKKTAAKKTAAKNVVDELLDDEAEEKPITGKPGEEG 217
ESE PVKKAAAK TAKKTAKKATAKKTAAKKTAAKNVVDELLDDEAEEKP TGKPGEEG
Sbjct: 118 ESEAPVKKAAAKKTTAKKTAKKATAKKTAAKKTAAKNVVDELLDDEAEEKPTTGKPGEEG 177
Query: 218 APEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAK 277
APEGTGGESQGFV SDDDED APA VAAAGATADPVKDYLKQIGKVPLLNAEQEVELAK
Sbjct: 178 APEGTGGESQGFVLSDDDEDDAPAQQVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAK 237
Query: 278 RISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGF 337
RI AGLFAEDKLANADKIAPKLK ELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRG
Sbjct: 238 RIEAGLFAEDKLANADKIAPKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRG- 296
Query: 338 MLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMV 397
MLFLDLIQEGNLGLIRAVEKFDYTKG KFSTY TWWIRQAI TRAMADQARTIRIPVHMV
Sbjct: 297 MLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAI-TRAMADQARTIRIPVHMV 355
Query: 398 DSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAG 457
+ VINK ARV RQMLQDLGREPTPEELAKELDMTPEKVIE KYGREPISLHTP GE+
Sbjct: 356 E-VINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGED-- 412
Query: 458 ADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLD 517
DSE DLIEDSEAVVP DAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLD
Sbjct: 413 GDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLD 472
Query: 518 EIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
EIGKV GVTRERIRQIESKTMSKLRHPSRSQVL DYLD
Sbjct: 473 EIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 510
>sp|P18183|HRDB_STRCO RNA polymerase principal sigma factor hrdB
pir||T35194 transcription initiation factor sigma, vegetative, major -
Streptomyces coelicolor
emb|CAA18518.1| (AL022374) SC5B8.10, hrdB, major vegetative sigma factor, len: 511
aa; almost identical to, but 70 aa longer than, HRDB_ST
RCO P18183 streptomyces coelicolor (442 aa), 99.8%
identity in 442 aa overlap. A more upstream start site
has been cho sen due to>
Length = 511
Score = 758 bits (1957), Expect = 0.0
Identities = 435/526 (82%), Positives = 446/526 (84%), Gaps = 23/526 (4%)
Query: 38 VSASTSRTLPPEIAESQSVMALIPRGKADGMIAGDDVRRAFEADQIYPAHQCLKNVLRSL 97
+SASTSRTLPPEIAES SVMALI RGKA+G IAGDDVRRAFEADQI PA Q KNVLRSL
Sbjct: 1 MSASTSRTLPPEIAESVSVMALIERGKAEGQIAGDDVRRAFEADQI-PATQW-KNVLRSL 58
Query: 98 NQILEEEGVTLMVRWAEPKRTRKSVAAMSPAKRLATTRTMVAAK-------AAPVKKSAP 150
NQILEEEGVTLMV AEPKRTRKSVAA SPAKR AT VAAK AP +AP
Sbjct: 59 NQILEEEGVTLMVSAAEPKRTRKSVAAKSPAKRTATKA--VAAKPVTSRKATAPAAPAAP 116
Query: 151 AAAPTDEESEQPVKKAAAKNVTAKK-TAKKATAKKTAAKKTAAKNVVDELLDDEAEEKPI 209
A P E E P KKAAAK TAKK TAKK TAKK AAKKT AK ELL+DEA E+P
Sbjct: 117 ATEPAAVEEEAPAKKAAAKKTTAKKATAKKTTAKKAAAKKTTAKKEDGELLEDEATEEP- 175
Query: 210 TGKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNA 269
K E PEGT E+ GFV SD+DED APA VAAAGATADPVKDYLKQIGKVPLLNA
Sbjct: 176 --KAATE-EPEGT--ENAGFVLSDEDEDDAPAQQVAAAGATADPVKDYLKQIGKVPLLNA 230
Query: 270 EQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLA 329
EQEVELAKRI AGLFAEDKLAN+DK+APKLK ELEIIAEDGRRAKNHLLEANLRLVVSLA
Sbjct: 231 EQEVELAKRIEAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAKNHLLEANLRLVVSLA 290
Query: 330 KRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQART 389
KRYTGRG MLFLDLIQEGNLGLIRAVEKFDYTKG KFSTY TWWIRQAI TRAMADQART
Sbjct: 291 KRYTGRG-MLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAI-TRAMADQART 348
Query: 390 IRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLH 449
IRIPVHMV+ VINK ARV RQMLQDLGREPTPEELAKELDMTPEKVIE KYGREPISLH
Sbjct: 349 IRIPVHMVE-VINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLH 407
Query: 450 TPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLT 509
TP GE+ DSE DLIEDSEAVVP DAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLT
Sbjct: 408 TPLGED--GDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLT 465
Query: 510 DGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
DGQPKTLDEIGKV GVTRERIRQIESKTMSKLRHPSRSQVL DYLD
Sbjct: 466 DGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 511
>sp|P77951|HRDB_STRGR RNA polymerase principal sigma factor hrdB
gb|AAB16905.1| (L08071) principal sigma factor [Streptomyces griseus]
Length = 514
Score = 743 bits (1918), Expect = 0.0
Identities = 432/530 (81%), Positives = 446/530 (83%), Gaps = 28/530 (5%)
Query: 38 VSASTSRTLPPEIAESQSVMALIPRGKADGMIAGDDVRRAFEADQIYPAHQCLKNVLRSL 97
+SASTSRTLPPEIAES+SVMALI RGKADG IAGDDVRRAFEADQI P KNVLRSL
Sbjct: 1 MSASTSRTLPPEIAESESVMALIERGKADGQIAGDDVRRAFEADQIPPTQW--KNVLRSL 58
Query: 98 NQILEEEGVTLMVRWAE-PKRTRKSVAAMSPAKRLAT---------TRTMVAAKAAPVKK 147
NQILEEEGVTLMV AE PKR RKSVAA SP KR AT TRT VAA AAP +
Sbjct: 59 NQILEEEGVTLMVSAAESPKRARKSVAAKSPVKRTATKTVAAKTTVTRT-VAATAAPAVE 117
Query: 148 SAPAAAPTDEESEQPVKKAAAKNVTAKKTA-KKATAKKTAAKKTAAKNVVDELLD-DEAE 205
SA AA D + P KK AAK TAKK A KK TAKKTAAKK+ ++ DE+LD DEA
Sbjct: 118 SADAA--DDAVAAAPAKKTAAKKATAKKAAAKKTTAKKTAAKKSGKQD--DEILDGDEAA 173
Query: 206 EKPITGKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVP 265
E+ GK EE EG G E++GFV SDDDED APA VA AGATADPVKDYLKQIGKVP
Sbjct: 174 EEVKAGKGEEE---EGEG-ENKGFVLSDDDEDDAPAQQVAVAGATADPVKDYLKQIGKVP 229
Query: 266 LLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLV 325
LLNAEQEVELAKRI AGLFAEDKLANADK+APKLK ELEIIAEDGRRAKNHLLEANLRLV
Sbjct: 230 LLNAEQEVELAKRIEAGLFAEDKLANADKLAPKLKRELEIIAEDGRRAKNHLLEANLRLV 289
Query: 326 VSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMAD 385
VSLAKRYTGRG MLFLDLIQEGNLGLIRAVEKFDYTKG KFSTY TWWIRQAI TRAMAD
Sbjct: 290 VSLAKRYTGRG-MLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAI-TRAMAD 347
Query: 386 QARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREP 445
QARTIRIPVHMV+ VINK ARV RQMLQDLGREPTPEELAKELDMTPEKVIE KYGREP
Sbjct: 348 QARTIRIPVHMVE-VINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREP 406
Query: 446 ISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMR 505
ISLHTP GE+ DSE DLIEDSEAVVP DAVSFTLLQEQLHSVLDTLSEREAGVVSMR
Sbjct: 407 ISLHTPLGED--GDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMR 464
Query: 506 FGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
FGLTDGQPKTLDEIGKV GVTRERIRQIESKTMSKLRHPSRSQVL DYLD
Sbjct: 465 FGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 514
>pir||JN0443 transcription initiation factor sigma homolog hrdB - Streptomyces
aureofaciens
gb|AAA26763.1| (M90411) principal sigma-like factor [Streptomyces aureofaciens]
prf||1920369B RNA polymerase:SUBUNIT=sigma [Streptomyces aureofaciens]
Length = 525
Score = 726 bits (1874), Expect = 0.0
Identities = 423/541 (78%), Positives = 445/541 (82%), Gaps = 39/541 (7%)
Query: 38 VSASTSRTLPPEIAESQSVMALIPRGKADGMIAGDDVRRAFEADQIYPAHQCLKNVLRSL 97
+SASTSRTLPPEIA+S+SVMALI RGKA+G IAGDDVRRAFEADQI PA Q KNVLRSL
Sbjct: 1 MSASTSRTLPPEIADSESVMALIERGKAEGQIAGDDVRRAFEADQI-PATQW-KNVLRSL 58
Query: 98 NQILEEEGVTLMVRWAE-PKRT-RKSVAAMSPAKRLATTRTMVAAKAAPVKKSAPAAAP- 154
NQILEEEGVTLMV AE P+RT RKSVAA SPAKR AT +T+ A AAP PAAA
Sbjct: 59 NQILEEEGVTLMVSAAESPRRTPRKSVAAKSPAKRTAT-KTVAAKTAAP-----PAAAGI 112
Query: 155 -------------TDEESEQPVKKAAAKNVTAKKTA-------KKATAKKTAAKKTAAKN 194
TD +E+PV + AAK A+KTA KK AKKTAAKKTAAK
Sbjct: 113 VADTGTGTAEPDITDALAEEPVAEPAAKKTAARKTAAKKAAPAKKTAAKKTAAKKTAAKK 172
Query: 195 VVDELLDDEAEEKPITGKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPV 254
DE ++ A+E P P E E GGE++GFV SDD++D APA V AGATADPV
Sbjct: 173 DADEDGEETADEGP--DAPKAEAEEEEEGGENKGFVISDDEDD-APAQQVVVAGATADPV 229
Query: 255 KDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAK 314
KDYLKQIGKVPLLNAEQEVELAKRI AGLFAEDKLAN+DK+APKLK ELEIIAEDGRRAK
Sbjct: 230 KDYLKQIGKVPLLNAEQEVELAKRIEAGLFAEDKLANSDKLAPKLKRELEIIAEDGRRAK 289
Query: 315 NHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWI 374
NHLLEANLRLVVSLAKRYTGRG MLFLDLIQEGNLGLIRAVEKFDYTKG KFSTY TWWI
Sbjct: 290 NHLLEANLRLVVSLAKRYTGRG-MLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWI 348
Query: 375 RQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEK 434
RQAI TRAMADQARTIRIPVHMV+ VINK ARV RQMLQDLGREPTPEELAKELDMTPEK
Sbjct: 349 RQAI-TRAMADQARTIRIPVHMVE-VINKLARVQRQMLQDLGREPTPEELAKELDMTPEK 406
Query: 435 VIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTL 494
VIE KYGREPISLHTP GE+ DSE DLIEDSEAVVP DAVSFTLLQEQLHSVLDTL
Sbjct: 407 VIEVQKYGREPISLHTPLGED--GDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTL 464
Query: 495 SEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYL 554
SEREAGVVSMRFGLTDGQPKTLDEIGKV GVTRERIRQIESKTMSKLRHPSRSQVL DYL
Sbjct: 465 SEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYL 524
Query: 555 D 555
D
Sbjct: 525 D 525
>pir||S11712 transcription initiation factor sigma hrdB - Streptomyces
coelicolor
emb|CAA37175.1| (X52983) principal sigma subunit (AA 1-442) [Streptomyces
coelicolor A3(2)]
Length = 442
Score = 654 bits (1686), Expect = 0.0
Identities = 371/453 (81%), Positives = 382/453 (83%), Gaps = 17/453 (3%)
Query: 109 MVRWAEPKRTRKSVAAMSPAKRLAT----TRTMVAAKA-APVKKSAPAAAPTDEESEQPV 163
MV AEPKRTRKSVAA SPAKR AT + + KA AP +APA P E E P
Sbjct: 1 MVSAAEPKRTRKSVAAKSPAKRTATKAVAANPVTSRKATAPAAPAAPATEPAAVEEEAPA 60
Query: 164 KKAAAKNVTAKK-TAKKATAKKTAAKKTAAKNVVDELLDDEAEEKPITGKPGEEGAPEGT 222
KKAAAK TAKK TAKK TAKK AAKKT AK ELL+DEA E+P K E PEGT
Sbjct: 61 KKAAAKKTTAKKATAKKTTAKKAAAKKTTAKKEDGELLEDEATEEP---KAATE-EPEGT 116
Query: 223 GGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISAG 282
E+ GFV SD+DED APA VAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRI AG
Sbjct: 117 --ENAGFVLSDEDEDDAPAQQVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 174
Query: 283 LFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLD 342
LFAEDKLAN+DK+APKLK ELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRG MLFLD
Sbjct: 175 LFAEDKLANSDKLAPKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRG-MLFLD 233
Query: 343 LIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVIN 402
LIQEGNLGLIRAVEKFDYTKG KFSTY TWWIRQAI TRAMADQARTIRIPVHMV+ VIN
Sbjct: 234 LIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAI-TRAMADQARTIRIPVHMVE-VIN 291
Query: 403 KRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSEL 462
K ARV RQMLQDLGREPTPEELAKELDMTPEKVIE KYGREPISLHTP GE+ DSE
Sbjct: 292 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGED--GDSEF 349
Query: 463 RDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKV 522
DLIEDSEAVVP DAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKV
Sbjct: 350 GDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKV 409
Query: 523 SGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
GVTRERIRQIESKTMSKLRHPSRSQVL DYLD
Sbjct: 410 YGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 442
>pir||JH0496 transcription initiation factor sigma homolog - Streptomyces
coelicolor
Length = 442
Score = 647 bits (1669), Expect = 0.0
Identities = 369/453 (81%), Positives = 380/453 (83%), Gaps = 17/453 (3%)
Query: 109 MVRWAEPKRTRKSVAAMSPAKRLAT----TRTMVAAKA-APVKKSAPAAAPTDEESEQPV 163
MV AEPKRTRKSVAA SPAKR AT + + KA AP +APA P E E P
Sbjct: 1 MVSAAEPKRTRKSVAAKSPAKRTATKAVAANPVTSRKATAPAAPAAPATEPAAVEEEAPA 60
Query: 164 KKAAAKNVTAKK-TAKKATAKKTAAKKTAAKNVVDELLDDEAEEKPITGKPGEEGAPEGT 222
KKAAAK TAKK TAKK TAKK AAKKT AK ELL+DEA E+P K E PEGT
Sbjct: 61 KKAAAKKTTAKKATAKKTTAKKAAAKKTTAKKEDGELLEDEATEEP---KAATE-EPEGT 116
Query: 223 GGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISAG 282
E+ GFV SD+DED APA VAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRI AG
Sbjct: 117 --ENAGFVLSDEDEDDAPAQQVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRIEAG 174
Query: 283 LFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLD 342
LFAEDKLAN+DK+APKLK ELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRG MLFLD
Sbjct: 175 LFAEDKLANSDKLAPKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRG-MLFLD 233
Query: 343 LIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVIN 402
LIQEGNLGLIRAVEKFDYTKG KFSTY TWWIRQAI TRAMADQARTIRIPVHMV+ VIN
Sbjct: 234 LIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAI-TRAMADQARTIRIPVHMVE-VIN 291
Query: 403 KRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSEL 462
K ARV RQMLQDLGREPTPEELAKELDMTPEKVIE KYGREPISLHTP GE+ DSE
Sbjct: 292 KLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGED--GDSEF 349
Query: 463 RDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKV 522
DLIEDSEAVVP DAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKV
Sbjct: 350 GDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKV 409
Query: 523 SGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
GVTRERIRQIESKTMSKLR SRSQVL DYLD
Sbjct: 410 YGVTRERIRQIESKTMSKLRQGSRSQVLRDYLD 442
>prf||2119302A sigma factor [Streptomyces griseus]
Length = 445
Score = 636 bits (1640), Expect = 0.0
Identities = 371/459 (80%), Positives = 383/459 (82%), Gaps = 26/459 (5%)
Query: 109 MVRWAE-PKRTRKSVAAMSPAKRLAT---------TRTMVAAKAAPVKKSAPAAAPTDEE 158
MV AE PKR RKSVAA SP KR AT TRT VAA AAP +SA AA D
Sbjct: 1 MVSAAESPKRARKSVAAKSPVKRTATKTVAAKTTVTRT-VAATAAPAVESADAA--DDAV 57
Query: 159 SEQPVKKAAAKNVTAKKTA-KKATAKKTAAKKTAAKNVVDELLD-DEAEEKPITGKPGEE 216
+ P KK AAK TAKK A KK TAKKTAAKK+ ++ DE+LD DEA E+ GK EE
Sbjct: 58 AAAPAKKTAAKKATAKKAAAKKTTAKKTAAKKSGKQD--DEILDGDEAAEEVKAGKGEEE 115
Query: 217 GAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELA 276
EG G E++GFV SDDDED APA VA AGATADPVKDYLKQIGKVPLLNAEQEVELA
Sbjct: 116 ---EGEG-ENKGFVLSDDDEDDAPAQQVAVAGATADPVKDYLKQIGKVPLLNAEQEVELA 171
Query: 277 KRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRG 336
KRI AGLFAEDKLANADK+APKLK ELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRG
Sbjct: 172 KRIEAGLFAEDKLANADKLAPKLKRELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRG 231
Query: 337 FMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHM 396
MLFLDLIQEGNLGLIRAVEKFDYTKG KFSTY TWWIRQAI TRAMADQARTIRIPVHM
Sbjct: 232 -MLFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAI-TRAMADQARTIRIPVHM 289
Query: 397 VDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEA 456
V+ VINK ARV RQMLQDLGREPTPEELAKELDMTPEKVIE KYGREPISLHTP GE+
Sbjct: 290 VE-VINKLARVQRQMLQDLGREPTPEELAKELDMTPEKVIEVQKYGREPISLHTPLGED- 347
Query: 457 GADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTL 516
DSE DLIEDSEAVVP DAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTL
Sbjct: 348 -GDSEFGDLIEDSEAVVPADAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTL 406
Query: 517 DEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
DEIGKV GVTRERIRQIESKTMSKLRHPSRSQVL DYLD
Sbjct: 407 DEIGKVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 445
>pir||JN0445 transcription initiation factor sigma homolog hrdE - Streptomyces
aureofaciens
gb|AAA26764.1| (M90412) principal sigma-like factor [Streptomyces aureofaciens]
Length = 528
Score = 620 bits (1599), Expect = e-176
Identities = 365/543 (67%), Positives = 402/543 (73%), Gaps = 40/543 (7%)
Query: 38 VSASTSRTLPPEIAESQSVMALIPRGKADGMIAGDDVRRAFEADQIYPAHQCLKNVLRSL 97
+S S SRT PPEIAES++++AL+ RG+ G I GDDVR+AFEA +I P Q K VLRSL
Sbjct: 1 MSLSPSRTFPPEIAESEALVALVERGREQGHINGDDVRQAFEAGRI-PVDQW-KRVLRSL 58
Query: 98 NQILEEEGVTLMVRWAEP-----KRTRKSVAA---------MSPAKRLATTRTMVAAKAA 143
NQ+L+EEGV L V A K+ RK+ AA +P + + +T AA AA
Sbjct: 59 NQVLDEEGVALHVSAAPATKAAAKKPRKAAAAPARTVTKKAAAPPRPIGARKTSAAAPAA 118
Query: 144 PVKKSAPAAAPTDEESEQPVKKAAAKNVTAKKTAKKATA-KKTAA-KKTAAKNVVDELLD 201
SAP+AA T +E+ K K AKKATA KKTAA KK AK+
Sbjct: 119 AAAISAPSAAATGDEATAEAAAEPKKRTVKKTAAKKATATKKTAATKKAGAKD------G 172
Query: 202 DEAEEKPITGKP---------GEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATAD 252
D+AE + G+ EE P+ G +QGFV SDDDED APA +V AGATAD
Sbjct: 173 DDAENPAVEGEDWAVEDLADEAEEETPKAGG--TQGFVLSDDDEDDAPAQTVMVAGATAD 230
Query: 253 PVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRR 312
PVKDYLK IGKVPLLNAEQEVELAKRI AGLF+E KL + P K ELEI+ EDGRR
Sbjct: 231 PVKDYLKLIGKVPLLNAEQEVELAKRIEAGLFSEYKLEEEEDHKPAFKRELEILVEDGRR 290
Query: 313 AKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTW 372
AKNHLLEANLRLVVSLAKRYTGRG MLFLDLIQEGN+GLIRAVEKFDYTKG KFSTY TW
Sbjct: 291 AKNHLLEANLRLVVSLAKRYTGRG-MLFLDLIQEGNVGLIRAVEKFDYTKGFKFSTYATW 349
Query: 373 WIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTP 432
WIRQAI TRAMADQ+RTIRIPVHMV+ +INK ARV RQMLQDLGREPTPEEL KELDMTP
Sbjct: 350 WIRQAI-TRAMADQSRTIRIPVHMVE-IINKLARVQRQMLQDLGREPTPEELGKELDMTP 407
Query: 433 EKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLD 492
EKVIE KYGREPISLHTP GEE DSE DLIEDSEAVVP DAVSFT LQEQL S+L
Sbjct: 408 EKVIEVQKYGREPISLHTPLGEE--GDSEFGDLIEDSEAVVPADAVSFTFLQEQLQSILG 465
Query: 493 TLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTD 552
TLSEREAGVVSMR+GL DGQPKTLDEIG+V GVTRERIRQIESKTMSKLRHPSRSQVL
Sbjct: 466 TLSEREAGVVSMRYGLNDGQPKTLDEIGRVYGVTRERIRQIESKTMSKLRHPSRSQVLRG 525
Query: 553 YLD 555
YLD
Sbjct: 526 YLD 528
>emb|CAA71796.1| (Y10835) RNA polymerase [Renibacterium salmoninarum]
Length = 462
Score = 531 bits (1367), Expect = e-150
Identities = 308/444 (69%), Positives = 336/444 (75%), Gaps = 12/444 (2%)
Query: 117 RTRKSVAAMSPAKRLATTRTMVAAKAAPVKKSAPAAAPTDEESEQPVKKAAAKNVTAKKT 176
RTR +V +P + A +T+ A K + K + A T EE P +K AA AKK
Sbjct: 26 RTRAAVKD-APVAQTAAVKTLAAKKPSAKKVTEIPDAVTIEEKLTPAQKRAA-TAAAKKA 83
Query: 177 AKK---ATAKKTAAKKTAAKNVVDELLDDEAEEKPITGKPGEEGAPEGTGGES-QGFVRS 232
A A K T +K A + + D+ E + + APE + GFV S
Sbjct: 84 ALSEDDAAVKPTRGRKPKADDSAESADDESTEGVADSAETETADAPEEAEETAGSGFVYS 143
Query: 233 DDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANA 292
D D+D AP V +AGATADPVKDYLKQIGKV LLNAEQEV+LA RI AGL+AE+KLA
Sbjct: 144 DADDDDAPVQQVMSAGATADPVKDYLKQIGKVALLNAEQEVDLALRIEAGLYAEEKLAAD 203
Query: 293 D-KIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGL 351
D KI KL E + + DG+RAKNHLLEANLRLVVSLAKRYTGRG MLFLDLIQEGN+GL
Sbjct: 204 DGKITEKLNREYQWVIHDGKRAKNHLLEANLRLVVSLAKRYTGRG-MLFLDLIQEGNMGL 262
Query: 352 IRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQM 411
IRAVEKFDYTKG KFSTY TWWIRQAI TRAMADQARTIRIPVHMV+ VINK ARV RQM
Sbjct: 263 IRAVEKFDYTKGFKFSTYATWWIRQAI-TRAMADQARTIRIPVHMVE-VINKLARVQRQM 320
Query: 412 LQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEA 471
LQDLGREPTPEELA ELDMTPEKV+E KYGREPISLHTP GE+ DSE DLIEDSEA
Sbjct: 321 LQDLGREPTPEELALELDMTPEKVVEVQKYGREPISLHTPLGEDG--DSEFGDLIEDSEA 378
Query: 472 VVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIR 531
VVP DAVSFTLLQEQLHSVLDTLSEREAGVV+MRFGLTDGQPKTLDEIGKV GVTRERIR
Sbjct: 379 VVPADAVSFTLLQEQLHSVLDTLSEREAGVVAMRFGLTDGQPKTLDEIGKVYGVTRERIR 438
Query: 532 QIESKTMSKLRHPSRSQVLTDYLD 555
QIESKTMSKLRHPSRSQVL DYLD
Sbjct: 439 QIESKTMSKLRHPSRSQVLRDYLD 462
>emb|CAC83737.1| (AJ308422) RNA polymerase sigma 70 [Rhodococcus fascians]
Length = 474
Score = 466 bits (1198), Expect = e-130
Identities = 283/455 (62%), Positives = 323/455 (70%), Gaps = 33/455 (7%)
Query: 129 KRLATTRTMVAAK-AAPVKKSAPAAAPTDEESEQPVKKAAAKNVTAKKTA-KKATAKKTA 186
+RL R VAA S P A + + P KA AK AK+ A KKA AKK A
Sbjct: 25 QRLRHERAYVAATDIRQTVDSEPGTATPEPAVKAPAAKAPAKKAPAKRAAAKKAPAKKAA 84
Query: 187 AKKTAAKNVVDEL------LDD---------EAEEKPITGK----PGEEGAPEGTGGE-- 225
AKKTAA D++ ++D A + G+ P E+ E T +
Sbjct: 85 AKKTAAPATGDDVDESTPGIEDIDISEGDLAAAANDVVEGRRRRQPEEDATSEPTAEDKA 144
Query: 226 SQGFVRSDDD-EDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLF 284
S FV +++ E L A A A+AD V+ YLKQIGKV LLNAE+EVELAKRI AGLF
Sbjct: 145 SGDFVWDEEESEALRQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLF 204
Query: 285 AEDKLANADKIAPKL----KCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLF 340
A +K+ + + KL + ++ I DG RAKNHLLEANLRLVVSLAKRYTGRG M F
Sbjct: 205 AVEKMRESAEKGEKLPVAQRRDMTWICRDGNRAKNHLLEANLRLVVSLAKRYTGRG-MAF 263
Query: 341 LDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSV 400
LDLIQEGNLGLIRAVEKFDYTKG KFSTY TWWIRQAI TRAMADQARTIRIPVHMV+ V
Sbjct: 264 LDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAI-TRAMADQARTIRIPVHMVE-V 321
Query: 401 INKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADS 460
INK R+ R++LQDLGREPTPEELAKE+D+TPEKV+E +Y REPISL G+E DS
Sbjct: 322 INKLGRIQRELLQDLGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEG--DS 379
Query: 461 ELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIG 520
+L D IEDSEAVV DAVSFTLLQ+QL SVL+TLSEREAGVV +RFGLTDGQP+TLDEIG
Sbjct: 380 QLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIG 439
Query: 521 KVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
+V GVTRERIRQIESKTMSKLRHPSRSQVL DYLD
Sbjct: 440 QVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 474
>ref|NP_601117.1| (NC_003450) COG0568:DNA-directed RNA polymerase sigma subunits
(sigma70/sigma32) [Corynebacterium glutamicum]
Length = 494
Score = 462 bits (1189), Expect = e-129
Identities = 285/473 (60%), Positives = 329/473 (69%), Gaps = 51/473 (10%)
Query: 120 KSVAAMSPAKRLATTRTMVAAKAAPVKKSAPAAAPTDEESEQPVKKAAAKNVTAKKTAKK 179
+S + +PA+ + T T V A A ++ +APAA + P KA AK V AKKTA+K
Sbjct: 36 ESPISATPARSIDGTSTPVEA-ADTIETTAPAA-------KAPAAKAPAKKV-AKKTARK 86
Query: 180 ATAKKTAAKK-TAAKNVVDELLDDEA-----------EEKPITGKP---GEEGAPEGTGG 224
A AKKT AKK T AK D+ A +E+ G G E + G
Sbjct: 87 APAKKTVAKKATTAKAAPATAKDENAPVDDDEENLAQDEQDFDGDDFVDGIEDEEDEDGV 146
Query: 225 ESQGFVRSDDDED------------LAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQE 272
E+ G DD+ED L A A A+AD V+ YLKQIGKV LLNAEQE
Sbjct: 147 EALGEESEDDEEDGSSVWDEDESATLRQARKDAELTASADSVRAYLKQIGKVALLNAEQE 206
Query: 273 VELAKRISAGLFA-------EDKLANADK---IAPKLKCELEIIAEDGRRAKNHLLEANL 322
V LAKRI AGL+A E+ A DK + P +K +L IA DGR+AKNHLLEANL
Sbjct: 207 VSLAKRIEAGLYATHRMEEMEEAFAAGDKDAKLTPAVKRDLRAIARDGRKAKNHLLEANL 266
Query: 323 RLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRA 382
RLVVSLAKRYTGRG M FLDLIQEGNLGLIRAVEKFDY+KG KFSTY TWWIRQAI TRA
Sbjct: 267 RLVVSLAKRYTGRG-MAFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWWIRQAI-TRA 324
Query: 383 MADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYG 442
MADQARTIRIPVHMV+ VINK R+ R++LQ+LGREPTP+EL+KE+D++ EKV+E +Y
Sbjct: 325 MADQARTIRIPVHMVE-VINKLGRIQRELLQELGREPTPQELSKEMDISEEKVLEIQQYA 383
Query: 443 REPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVV 502
REPISL G+E DS+L D IEDSEAVV DAVSFTLLQ+QL VL+TLSEREAGVV
Sbjct: 384 REPISLDQTIGDEG--DSQLGDFIEDSEAVVAVDAVSFTLLQDQLQDVLETLSEREAGVV 441
Query: 503 SMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
+RFGLTDG P+TLDEIG+V GVTRERIRQIESKTMSKLRHPSRSQVL DYLD
Sbjct: 442 KLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 494
Score = 37.0 bits (84), Expect = 0.56
Identities = 42/129 (32%), Positives = 54/129 (41%), Gaps = 20/129 (15%)
Query: 169 KNVTAKKTAKKATAKKTAAKKTAAKNVVDELLDDEAEEKPITGKPGEEGAPEGTGGESQG 228
+N AKKT K TA+KTA K AA V L A E PI+ P G S
Sbjct: 3 ENNVAKKTVAKKTARKTARK--AAPRVATPL--GVASESPISATPA-----RSIDGTSTP 53
Query: 229 FVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRI----SAGLF 284
+D E APA AA A A K++ K A + +AK+ +A
Sbjct: 54 VEAADTIETTAPAAKAPAAKAPA-------KKVAKKTARKAPAKKTVAKKATTAKAAPAT 106
Query: 285 AEDKLANAD 293
A+D+ A D
Sbjct: 107 AKDENAPVD 115
>gb|AAK09321.1|AF320817_2 (AF320817) sigma factor SigA [Brevibacterium flavum]
Length = 498
Score = 461 bits (1186), Expect = e-129
Identities = 284/473 (60%), Positives = 329/473 (69%), Gaps = 51/473 (10%)
Query: 120 KSVAAMSPAKRLATTRTMVAAKAAPVKKSAPAAAPTDEESEQPVKKAAAKNVTAKKTAKK 179
+S + +PA+ + T T V A A ++ +APAA + P KA AK V AKKTA+K
Sbjct: 40 ESPISATPARSIDGTSTPVEA-ADTIETTAPAA-------KAPAAKAPAKKV-AKKTARK 90
Query: 180 ATAKKTAAKK-TAAKNVVDELLDDEA-----------EEKPITGKP---GEEGAPEGTGG 224
A AKKT AKK T AK D+ A +E+ G G E + G
Sbjct: 91 APAKKTVAKKATTAKAAPATAKDENAPVDDDEENLAQDEQDFDGDDFVDGIEDEEDEDGV 150
Query: 225 ESQGFVRSDDDED------------LAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQE 272
E+ G DD+ED L A A A+AD V+ YLKQIGKV LLNAEQE
Sbjct: 151 EALGEESEDDEEDGSSVWDEDESATLRQARKDAELTASADSVRAYLKQIGKVALLNAEQE 210
Query: 273 VELAKRISAGLFA-------EDKLANADK---IAPKLKCELEIIAEDGRRAKNHLLEANL 322
V LAKRI AGL+A E+ A DK + P ++ +L IA DGR+AKNHLLEANL
Sbjct: 211 VSLAKRIEAGLYATHRMEEMEEAFAAGDKDAKLTPAVRRDLRAIARDGRKAKNHLLEANL 270
Query: 323 RLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRA 382
RLVVSLAKRYTGRG M FLDLIQEGNLGLIRAVEKFDY+KG KFSTY TWWIRQAI TRA
Sbjct: 271 RLVVSLAKRYTGRG-MAFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWWIRQAI-TRA 328
Query: 383 MADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYG 442
MADQARTIRIPVHMV+ VINK R+ R++LQ+LGREPTP+EL+KE+D++ EKV+E +Y
Sbjct: 329 MADQARTIRIPVHMVE-VINKLGRIQRELLQELGREPTPQELSKEMDISEEKVLEIQQYA 387
Query: 443 REPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVV 502
REPISL G+E DS+L D IEDSEAVV DAVSFTLLQ+QL VL+TLSEREAGVV
Sbjct: 388 REPISLDQTIGDEG--DSQLGDFIEDSEAVVAVDAVSFTLLQDQLQDVLETLSEREAGVV 445
Query: 503 SMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
+RFGLTDG P+TLDEIG+V GVTRERIRQIESKTMSKLRHPSRSQVL DYLD
Sbjct: 446 KLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 498
Score = 37.7 bits (86), Expect = 0.33
Identities = 42/135 (31%), Positives = 57/135 (42%), Gaps = 20/135 (14%)
Query: 163 VKKAAAKNVTAKKTAKKATAKKTAAKKTAAKNVVDELLDDEAEEKPITGKPGEEGAPEGT 222
++ + +N AKKT K TA+KTA K AA V L A E PI+ P
Sbjct: 1 MESSMVENNVAKKTVAKKTARKTARK--AAPRVATPL--GVASESPISATPA-----RSI 51
Query: 223 GGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRI--- 279
G S +D E APA AA A A K++ K A + +AK+
Sbjct: 52 DGTSTPVEAADTIETTAPAAKAPAAKAPA-------KKVAKKTARKAPAKKTVAKKATTA 104
Query: 280 -SAGLFAEDKLANAD 293
+A A+D+ A D
Sbjct: 105 KAAPATAKDENAPVD 119
>pir||S61292 transcription initiation factor sigma mysA - Mycobacterium
smegmatis
gb|AAA85642.1| (U09821) sigma factor MysA [Mycobacterium smegmatis]
Length = 466
Score = 457 bits (1177), Expect = e-127
Identities = 283/478 (59%), Positives = 324/478 (67%), Gaps = 55/478 (11%)
Query: 118 TRKSVAAMSPAKRLATTRTMVAAKAAPVKKSAPAAAPTDEESEQPVKKAAAKNVTAKKTA 177
T+ S A P KR T T AK AP K++A +AA + P KKA AK A
Sbjct: 4 TKASPATEEPVKR---TATKTPAKKAPAKRAAKSAA-AKAGGKAPAKKAPAKR------A 53
Query: 178 KKATAKKTAAKKTAAKNVVDEL---------------------------LDDEAEEKPI- 209
K TA K T V D+L ++DE EE
Sbjct: 54 AKGTAAKPEDGVTDDLEVTDDLEAEPGEDLDVEDTDLELDDLDSDDDTAVEDEEEEADAA 113
Query: 210 -----TGKPGEEGAPEGTGGE--SQGFVRSDDD-EDLAPAHSVAAAGATADPVKDYLKQI 261
T K ++ E + + S FV +++ E L A A A+AD V+ YLKQI
Sbjct: 114 TPAVATAKAADDDIDEPSEKDKASGDFVWDEEESEALRQARKDAELTASADSVRAYLKQI 173
Query: 262 GKVPLLNAEQEVELAKRISAGLFAEDKLAN----ADKIAPKLKCELEIIAEDGRRAKNHL 317
GKV LLNAE+EVELAKRI AGL+A KLA +K+ + + +++ I DG RAKNHL
Sbjct: 174 GKVALLNAEEEVELAKRIEAGLYATQKLAELAEKGEKLPVQQRRDMQWICRDGDRAKNHL 233
Query: 318 LEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQA 377
LEANLRLVVSLAKRYTGRG M FLDLIQEGNLGLIRAVEKFDYTKG KFSTY TWWIRQA
Sbjct: 234 LEANLRLVVSLAKRYTGRG-MAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQA 292
Query: 378 INTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIE 437
I TRAMADQARTIRIPVHMV+ VINK R+ R++LQDLGREPTPEELAKE+D+TPEKV+E
Sbjct: 293 I-TRAMADQARTIRIPVHMVE-VINKLGRIQRELLQDLGREPTPEELAKEMDITPEKVLE 350
Query: 438 RAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSER 497
+Y REPISL G+E DS+L D IEDSEAVV DAVSFTLLQ+QL SVL+TLSER
Sbjct: 351 IQQYAREPISLDQTIGDEG--DSQLGDFIEDSEAVVAVDAVSFTLLQDQLQSVLETLSER 408
Query: 498 EAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
EAGVV +RFGLTDGQP+TLDEIG+V GVTRERIRQIESKTMSKLRHPSRSQVL DYLD
Sbjct: 409 EAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 466
>gb|AAK15630.1|AF326348_2 (AF326348) RNA polymerase major sigma subunit [Corynebacterium
ammoniagenes]
Length = 467
Score = 457 bits (1177), Expect = e-127
Identities = 277/473 (58%), Positives = 320/473 (67%), Gaps = 54/473 (11%)
Query: 131 LATTRTMVAAKAAPVKKSAPAAAPTDEESEQPVKKAAAKNV--TAKKTAKKATAKKTAAK 188
+A T + A +++ AP + +++ KK A K TAKKTAKK TAKKTAAK
Sbjct: 1 MAATESSDQAFGEGAEETPAVKAPAKKTAKKTAKKTAKKTAKKTAKKTAKK-TAKKTAAK 59
Query: 189 KTAAKNVV---------------DELLDDE-----AEEKPITGKPGEEGAPEGTGGESQG 228
KT K+ +E L+D+ A+E A E GE
Sbjct: 60 KTVRKSAAKKATSPAEASAESNDEEALEDQDVRPTADEDQAEVDFDPNAADEDEFGEPDD 119
Query: 229 FVRSDDDED----------------LAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQE 272
+D+E+ L A A A+AD V+ YLKQIGKV LLNAEQE
Sbjct: 120 LEEDEDEEEEEDAGASVWDEDESATLRQARKDAQLTASADSVRAYLKQIGKVALLNAEQE 179
Query: 273 VELAKRISAGLFAEDKLAN----------ADKIAPKLKCELEIIAEDGRRAKNHLLEANL 322
V LA+RI AGL+A+ +L A K++P K +L IA DGR+AKNHLLEANL
Sbjct: 180 VSLAERIEAGLYAQHRLDEMERLIAEGDAAAKLSPAQKRDLRWIARDGRKAKNHLLEANL 239
Query: 323 RLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRA 382
RLVVSLAKRYTGRG M FLDLIQEGNLGLIRAVEKFDYTKG KFSTY TWWIRQAI TRA
Sbjct: 240 RLVVSLAKRYTGRG-MAFLDLIQEGNLGLIRAVEKFDYTKGYKFSTYATWWIRQAI-TRA 297
Query: 383 MADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYG 442
MADQARTIRIPVHMV+ VINK R+ R++LQDLGREPTP+ELAKE+D+T EKV+E +Y
Sbjct: 298 MADQARTIRIPVHMVE-VINKLGRIQRELLQDLGREPTPQELAKEMDITEEKVLEIQQYA 356
Query: 443 REPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVV 502
REPISL G+E DS+L D IEDSEAV+ DAVSFTLLQ+QL VL TLSEREAGVV
Sbjct: 357 REPISLDQTIGDEG--DSQLGDFIEDSEAVIAVDAVSFTLLQDQLQDVLTTLSEREAGVV 414
Query: 503 SMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
+RFGLTDG P+TLDEIG+V GVTRERIRQIESKTMSKLRHPSRSQVL DYLD
Sbjct: 415 RLRFGLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKLRHPSRSQVLRDYLD 467
>emb|CAA89984.1| (Z49822) SigA sigma factor [Corynebacterium glutamicum]
Length = 497
Score = 457 bits (1175), Expect = e-127
Identities = 282/469 (60%), Positives = 325/469 (69%), Gaps = 53/469 (11%)
Query: 126 SPAKRLATTRTMVAAKAAPVKKSAPAAAPTDEESEQPVKKAAAKNVTAKKTAKKATAKKT 185
+PA+ + T T V A A ++ +APAA + P KA AK V AKKTA+KA AKKT
Sbjct: 43 TPARSIDGTSTPVEA-ADTIETTAPAA-------KAPAAKAPAKKV-AKKTARKAPAKKT 93
Query: 186 AAKK-TAAKNVVDELLDDEA-----------EEKPITGKPGEEGAPEGT-----GGESQG 228
AKK T AK D+ A +E+ G +G + G E+ G
Sbjct: 94 VAKKATTAKAAPATAKDENAPVDDDEENLAQDEQDFDGDDFVDGIEDEEDEDEDGVEALG 153
Query: 229 FVRSDDDED------------LAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELA 276
DD+ED L A A A+AD V+ YLKQIGKV LLNAEQEV LA
Sbjct: 154 EESEDDEEDGSSVWDEDESATLRQARKDAELTASADSVRAYLKQIGKVALLNAEQEVSLA 213
Query: 277 KRISAGLFA-------EDKLANADK---IAPKLKCELEIIAEDGRRAKNHLLEANLRLVV 326
KRI AGL+A E+ A DK + P +K +L IA DGR+AKNHLLEANLRLVV
Sbjct: 214 KRIEAGLYATHRMEEMEEAFAAGDKDAKLTPAVKRDLRAIARDGRKAKNHLLEANLRLVV 273
Query: 327 SLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQ 386
SLAKRYTGRG M FLDLIQEGNLGLIRAVEKFDY+KG KFSTY TWWIRQAI TRAMADQ
Sbjct: 274 SLAKRYTGRG-MAFLDLIQEGNLGLIRAVEKFDYSKGYKFSTYATWWIRQAI-TRAMADQ 331
Query: 387 ARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPI 446
ARTIRIPVHMV+ VINK R+ R++LQ+LGREPTP+EL+KE+D++ EKV+E +Y REPI
Sbjct: 332 ARTIRIPVHMVE-VINKLGRIQRELLQELGREPTPQELSKEMDISEEKVLEIQQYAREPI 390
Query: 447 SLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRF 506
SL G+E DS+L D IEDSEAVV DAVSFTLLQ+QL VL+TLSEREAGVV +RF
Sbjct: 391 SLDQTIGDEG--DSQLGDFIEDSEAVVAVDAVSFTLLQDQLQDVLETLSEREAGVVKLRF 448
Query: 507 GLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
GLTDG P+TLDEIG+V GVTRERIRQIESKTMSK RHPSRSQVL DYLD
Sbjct: 449 GLTDGMPRTLDEIGQVYGVTRERIRQIESKTMSKRRHPSRSQVLRDYLD 497
Score = 35.8 bits (81), Expect = 1.2
Identities = 41/135 (30%), Positives = 56/135 (41%), Gaps = 23/135 (17%)
Query: 163 VKKAAAKNVTAKKTAKKATAKKTAAKKTAAKNVVDELLDDEAEEKPITGKPGEEGAPEGT 222
++ + +N AKKT K TA+KTA K AA V L E PI+ P
Sbjct: 1 MESSMVENNVAKKTVAKKTARKTARK--AAPRVATPL-----ESHPISATPA-----RSI 48
Query: 223 GGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRI--- 279
G S +D E APA AA A A K++ K A + +AK+
Sbjct: 49 DGTSTPVEAADTIETTAPAAKAPAAKAPA-------KKVAKKTARKAPAKKTVAKKATTA 101
Query: 280 -SAGLFAEDKLANAD 293
+A A+D+ A D
Sbjct: 102 KAAPATAKDENAPVD 116
>gb|AAA81640.1| (U21130) sigma factor [Mycobacterium bovis]
gb|AAA81641.1| (U21131) sigma factor [Mycobacterium bovis]
Length = 528
Score = 447 bits (1149), Expect = e-124
Identities = 277/501 (55%), Positives = 319/501 (63%), Gaps = 65/501 (12%)
Query: 115 PKRTRKSVAAMSPAKRLATTRTMVAAKAAPVKKSAPAAAPTDEESEQPVKKAAAKNVTAK 174
PKRT A+ SP + AT + K A + + ++ K AAAK +A+
Sbjct: 33 PKRTAAKSASGSPPAKRATKPAARSVKPASAPQDTTTSTIPKRKTRAAAKSAAAKAPSAR 92
Query: 175 KTAKKATAKKTAAKKTA-----AKNVVDEL----------------------LDD----- 202
A K A K A + A A + V+EL LDD
Sbjct: 93 GHATKPRAPKDAQHEAATDPEDALDSVEELDAEPDLDVEPGEDLDLDAADLNLDDLEDDV 152
Query: 203 --EAEEKPITGKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAG------------ 248
+A++ +G + E + G DD+E P A+G
Sbjct: 153 APDADDDLDSGDDEDHEDLEAEAAVAPGQTADDDEEIAEPTEKDKASGDFVWDEDESEAL 212
Query: 249 ----------ATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPK 298
A+AD V+ YLKQIGKV LLNAE+EVELAKRI AGL+A + + K
Sbjct: 213 RQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEK 272
Query: 299 LKC----ELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRA 354
L ++ I DG RAKNHLLEANLRLVVSLAKRYTGRG M FLDLIQEGNLGLIRA
Sbjct: 273 LPAAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRG-MAFLDLIQEGNLGLIRA 331
Query: 355 VEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQD 414
VEKFDYTKG KFSTY TWWIRQAI TRAMADQARTIRIPVHMV+ VINK R+ R++LQD
Sbjct: 332 VEKFDYTKGYKFSTYATWWIRQAI-TRAMADQARTIRIPVHMVE-VINKLGRIQRELLQD 389
Query: 415 LGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVP 474
LGREPTPEELAKE+D+TPEKV+E +Y REPISL G+E DS+L D IEDSEAVV
Sbjct: 390 LGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEG--DSQLGDFIEDSEAVVA 447
Query: 475 PDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIE 534
DAVSFTLLQ+QL SVLDTLSEREAGVV +RFGLTDGQP+TLDEIG+V GVTRERIRQIE
Sbjct: 448 VDAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIE 507
Query: 535 SKTMSKLRHPSRSQVLTDYLD 555
SKTMSKLRHPSRSQVL DYLD
Sbjct: 508 SKTMSKLRHPSRSQVLRDYLD 528
>ref|NP_301755.1| (NC_002677) RNA polymerase sigma factor [Mycobacterium leprae]
gb|AAA62955.1| (U15181) rpoT [Mycobacterium leprae]
dbj|BAA76621.1| (AB019193) RpoT [Mycobacterium leprae]
emb|CAC31403.1| (AL583920) RNA polymerase sigma factor [Mycobacterium leprae]
Length = 574
Score = 445 bits (1145), Expect = e-124
Identities = 274/499 (54%), Positives = 319/499 (63%), Gaps = 66/499 (13%)
Query: 116 KRTRKSVAAMSPAKRLATTRTMVAAKAAPVKKSAPAAAPTDEESEQPVKKAAAKNVTAKK 175
+ T K+ +P KR +T + P K S A+ +++ VK K +A+
Sbjct: 83 RSTTKAANGSAPTKRATSTASRATKSTTPPKASG--ASDAAKKARTSVKSVDTKAPSAQD 140
Query: 176 -TAKKATAKKTAAKKTAAKNVVDEL------------------------------LDDEA 204
T K + AK T A N +D LDD
Sbjct: 141 HTTKASAAKDTLNDPEATLNTLDSDATADDLDAEPDLDVEPSEDIDIDIEAADLGLDDLE 200
Query: 205 EEKPITG-KPGEEGAPEGTGGESQGFVRSDDDEDLA-PAHSVAAAG-------------- 248
++ +T +PGE E T +DDDE++ P A+G
Sbjct: 201 DDDVVTDIEPGETEDGEATAATKTDEASTDDDEEIVEPTEKDKASGDFVWDEDESEALRQ 260
Query: 249 --------ATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKL- 299
A+AD V+ YLKQIGKV LLNAE+EVELAKRI AGL+A + + KL
Sbjct: 261 ARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGTKLP 320
Query: 300 ---KCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVE 356
+ ++ I DG RAKNHLLEANLRLVVSLAKRYTGRG M FLDLIQEGNLGLIRAVE
Sbjct: 321 TAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRG-MAFLDLIQEGNLGLIRAVE 379
Query: 357 KFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLG 416
KFDYTKG KFSTY TWWIRQAI TRAMADQARTIRIPVHMV+ VINK R+ R++LQDLG
Sbjct: 380 KFDYTKGYKFSTYATWWIRQAI-TRAMADQARTIRIPVHMVE-VINKLGRIQRELLQDLG 437
Query: 417 REPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPD 476
REPTPEELAKE+D+TPEKV+E +Y REPISL G+E DS+L D IEDSEAVV D
Sbjct: 438 REPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEG--DSQLGDFIEDSEAVVAVD 495
Query: 477 AVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESK 536
AVSFTLLQ+QL SVL+TLSEREAGVV +RFGLTDGQP+TLDEIG+V GVTRERIRQIESK
Sbjct: 496 AVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIESK 555
Query: 537 TMSKLRHPSRSQVLTDYLD 555
TMSKLRHPSRSQVL DYLD
Sbjct: 556 TMSKLRHPSRSQVLRDYLD 574
>dbj|BAA76622.1| (AB019194) RpoT [Mycobacterium leprae]
Length = 576
Score = 444 bits (1143), Expect = e-124
Identities = 274/501 (54%), Positives = 319/501 (62%), Gaps = 68/501 (13%)
Query: 116 KRTRKSVAAMSPAKRLATTRTMVAAKAAPVKKSAPAAAPTDEESEQPVKKAAAKNVTAKK 175
+ T K+ +P KR +T + P K S A+ +++ VK K +A+
Sbjct: 83 RSTTKAANGSAPTKRATSTASRATKSTTPPKASG--ASDAAKKARTSVKSVDTKAPSAQD 140
Query: 176 -TAKKATAKKTAAKKTAAKNVVDEL--------------------------------LDD 202
T K + AK T A N +D LDD
Sbjct: 141 HTTKASAAKDTLNDPEATLNTLDSDATADDLDAEPDLDVEPSEDIDIDIDIEAADLGLDD 200
Query: 203 EAEEKPITG-KPGEEGAPEGTGGESQGFVRSDDDEDLA-PAHSVAAAG------------ 248
++ +T +PGE E T +DDDE++ P A+G
Sbjct: 201 LEDDDVVTDIEPGETEDGEATAATKTDEASTDDDEEIVEPTEKDKASGDFVWDEDESEAL 260
Query: 249 ----------ATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPK 298
A+AD V+ YLKQIGKV LLNAE+EVELAKRI AGL+A + + K
Sbjct: 261 RQARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGTK 320
Query: 299 L----KCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRA 354
L + ++ I DG RAKNHLLEANLRLVVSLAKRYTGRG M FLDLIQEGNLGLIRA
Sbjct: 321 LPTAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRG-MAFLDLIQEGNLGLIRA 379
Query: 355 VEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQD 414
VEKFDYTKG KFSTY TWWIRQAI TRAMADQARTIRIPVHMV+ VINK R+ R++LQD
Sbjct: 380 VEKFDYTKGYKFSTYATWWIRQAI-TRAMADQARTIRIPVHMVE-VINKLGRIQRELLQD 437
Query: 415 LGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVP 474
LGREPTPEELAKE+D+TPEKV+E +Y REPISL G+E DS+L D IEDSEAVV
Sbjct: 438 LGREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEG--DSQLGDFIEDSEAVVA 495
Query: 475 PDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIE 534
DAVSFTLLQ+QL SVL+TLSEREAGVV +RFGLTDGQP+TLDEIG+V GVTRERIRQIE
Sbjct: 496 VDAVSFTLLQDQLQSVLETLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIE 555
Query: 535 SKTMSKLRHPSRSQVLTDYLD 555
SKTMSKLRHPSRSQVL DYLD
Sbjct: 556 SKTMSKLRHPSRSQVLRDYLD 576
>ref|NP_217219.1| (NC_000962) sigA [Mycobacterium tuberculosis H37Rv]
ref|NP_337278.1| (NC_002755) RNA polymerase principal sigma factor SigA
[Mycobacterium tuberculosis CDC1551]
sp|Q60162|RPSA_MYCTU RNA polymerase sigma factor rpoD (Sigma-A)
pir||B70531 probable sigA protein - Mycobacterium tuberculosis (strain H37RV)
gb|AAA81643.1| (U21133) sigma factor [Mycobacterium bovis]
gb|AAA81644.1| (U21134) sigma factor [Mycobacterium tuberculosis]
gb|AAA86043.1| (U10059) sigma factor MysA [Mycobacterium tuberculosis]
emb|CAB09463.1| (Z96072) sigA [Mycobacterium tuberculosis H37Rv]
gb|AAK47092.1| (AE007107) RNA polymerase principal sigma factor SigA
[Mycobacterium tuberculosis CDC1551]
Length = 528
Score = 444 bits (1142), Expect = e-123
Identities = 276/500 (55%), Positives = 318/500 (63%), Gaps = 65/500 (13%)
Query: 116 KRTRKSVAAMSPAKRLATTRTMVAAKAAPVKKSAPAAAPTDEESEQPVKKAAAKNVTAKK 175
KRT A+ SP + AT + K A + + ++ K AAAK +A+
Sbjct: 34 KRTAAKSASGSPPAKRATKPAARSVKPASAPQDTTTSTIPKRKTRAAAKSAAAKAPSARG 93
Query: 176 TAKKATAKKTAAKKTA-----AKNVVDEL----------------------LDD------ 202
A K A K A + A A + V+EL LDD
Sbjct: 94 HATKPRAPKDAQHEAATDPEDALDSVEELDAEPDLDVEPGEDLDLDAADLNLDDLEDDVA 153
Query: 203 -EAEEKPITGKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAG------------- 248
+A++ +G + E + G DD+E P A+G
Sbjct: 154 PDADDDLDSGDDEDHEDLEAEAAVAPGQTADDDEEIAEPTEKDKASGDFVWDEDESEALR 213
Query: 249 ---------ATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKL 299
A+AD V+ YLKQIGKV LLNAE+EVELAKRI AGL+A + + KL
Sbjct: 214 QARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKL 273
Query: 300 KC----ELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAV 355
++ I DG RAKNHLLEANLRLVVSLAKRYTGRG M FLDLIQEGNLGLIRAV
Sbjct: 274 PAAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRG-MAFLDLIQEGNLGLIRAV 332
Query: 356 EKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDL 415
EKFDYTKG KFSTY TWWIRQAI TRAMADQARTIRIPVHMV+ VINK R+ R++LQDL
Sbjct: 333 EKFDYTKGYKFSTYATWWIRQAI-TRAMADQARTIRIPVHMVE-VINKLGRIQRELLQDL 390
Query: 416 GREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPP 475
GREPTPEELAKE+D+TPEKV+E +Y REPISL G+E DS+L D IEDSEAVV
Sbjct: 391 GREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEG--DSQLGDFIEDSEAVVAV 448
Query: 476 DAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIES 535
DAVSFTLLQ+QL SVLDTLSEREAGVV +RFGLTDGQP+TLDEIG+V GVTRERIRQIES
Sbjct: 449 DAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIES 508
Query: 536 KTMSKLRHPSRSQVLTDYLD 555
KTMSKLRHPSRSQVL DYLD
Sbjct: 509 KTMSKLRHPSRSQVLRDYLD 528
>gb|AAA81642.1| (U21132) sigma factor [Mycobacterium bovis]
Length = 528
Score = 442 bits (1137), Expect = e-123
Identities = 275/500 (55%), Positives = 317/500 (63%), Gaps = 65/500 (13%)
Query: 116 KRTRKSVAAMSPAKRLATTRTMVAAKAAPVKKSAPAAAPTDEESEQPVKKAAAKNVTAKK 175
KRT A+ SP + AT + K A + + ++ K AAAK +A+
Sbjct: 34 KRTAAKSASGSPPAKRATKPAARSVKPASAPQDTTTSTIPKRKTRAAAKSAAAKAPSARG 93
Query: 176 TAKKATAKKTAAKKTA-----AKNVVDEL----------------------LDD------ 202
A K A K A + A A + V+EL LDD
Sbjct: 94 HATKPRAPKDAQHEAATDPEDALDSVEELDAEPDLDVEPGEDLDLDAADLNLDDLEDDVA 153
Query: 203 -EAEEKPITGKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAG------------- 248
+A++ +G + E + G DD+E P A+G
Sbjct: 154 PDADDDLDSGDDEDHEDLEAEAAVAPGQTADDDEEIAEPTEKDKASGDFVWDEDESEALR 213
Query: 249 ---------ATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKL 299
A+AD V+ YLKQIGKV LLNAE+EVELAKRI AGL+A + + KL
Sbjct: 214 QARKDAELTASADSVRAYLKQIGKVALLNAEEEVELAKRIEAGLYATQLMTELSERGEKL 273
Query: 300 KC----ELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAV 355
++ I DG RAKNHLLEANLRLVVSLAKRYTGRG M FLDLIQEGNLGLIRAV
Sbjct: 274 PAAQRRDMMWICRDGDRAKNHLLEANLRLVVSLAKRYTGRG-MAFLDLIQEGNLGLIRAV 332
Query: 356 EKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDL 415
EKFDYTKG KFSTY TWWIRQAI TRAMADQARTIRIPVHMV+ VINK R+ R++LQDL
Sbjct: 333 EKFDYTKGYKFSTYATWWIRQAI-TRAMADQARTIRIPVHMVE-VINKLGRIQRELLQDL 390
Query: 416 GREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPP 475
GREPTPEELAKE+D+TPEKV+E +Y REPISL G+E DS+L D IEDSEAVV
Sbjct: 391 GREPTPEELAKEMDITPEKVLEIQQYAREPISLDQTIGDEG--DSQLGDFIEDSEAVVAV 448
Query: 476 DAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIES 535
DAVSFTLLQ+QL SVLDTLSEREAGVV +RFGLTDGQP+TLDEIG+V GVTRERIRQIES
Sbjct: 449 DAVSFTLLQDQLQSVLDTLSEREAGVVRLRFGLTDGQPRTLDEIGQVYGVTRERIRQIES 508
Query: 536 KTMSKLRHPSRSQVLTDYLD 555
KTMSKL HPSRSQVL DYLD
Sbjct: 509 KTMSKLHHPSRSQVLRDYLD 528
>ref|NP_242242.1| (NC_002570) RNA polymerase major sigma factor [Bacillus halodurans]
sp|O66381|RPSA_BACHD RNA polymerase sigma factor rpoD (Sigma-A) (Sigma-43)
dbj|BAB05095.1| (AP001511) RNA polymerase major sigma factor [Bacillus halodurans]
Length = 372
Score = 347 bits (891), Expect = 1e-94
Identities = 210/412 (50%), Positives = 259/412 (61%), Gaps = 44/412 (10%)
Query: 144 PVKKSAPAAAPTDEESEQPVKKAAAKNVTAKKTAKKATAKKTAAKKTAAKNVVDELLDDE 203
P++ A D+ EQ V+ + V T A+ T D+ D
Sbjct: 5 PLRPLAEGELSIDQVKEQLVELGKKRGVL------------TYAEITEKLAPYDQDSDQM 52
Query: 204 AEEKPITGKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGK 263
E G+ G E + S V +++E SV DPV+ YLK+IG+
Sbjct: 53 DEFFEYLGEQGVEILNDNEEVPSLQQVEKEEEEFDLNDLSVPPGVKINDPVRMYLKEIGR 112
Query: 264 VPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLR 323
VPLL AE+E+ELA RI G AK L EANLR
Sbjct: 113 VPLLTAEEEIELATRIEQG---------------------------DEEAKRRLAEANLR 145
Query: 324 LVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAM 383
LVVS+AKRY GRG MLFLDLIQEGN+GLI+AVEKFDY KG KFSTY TWWIRQAI TRA+
Sbjct: 146 LVVSIAKRYVGRG-MLFLDLIQEGNMGLIKAVEKFDYNKGFKFSTYATWWIRQAI-TRAI 203
Query: 384 ADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGR 443
ADQARTIRIPVHMV++ INK RV RQ+LQDLGREP+PEE+A+E+D+TPEKV E K +
Sbjct: 204 ADQARTIRIPVHMVET-INKLIRVQRQLLQDLGREPSPEEVAEEMDLTPEKVREILKIAQ 262
Query: 444 EPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVS 503
EP+SL TP GEE DS L D IED +A+ P DA ++ LL+EQL VLDTL++RE V+
Sbjct: 263 EPVSLETPIGEED--DSHLGDFIEDQDALAPSDAAAYELLKEQLEDVLDTLTDREENVLR 320
Query: 504 MRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
+RFGL DG+ +TL+E+GKV GVTRERIRQIE+K + KLRHPSRS+ L D+L+
Sbjct: 321 LRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 372
>dbj|BAA25730.1| (AB012852) SigA [Bacillus sp.]
Length = 372
Score = 346 bits (888), Expect = 3e-94
Identities = 209/412 (50%), Positives = 259/412 (62%), Gaps = 44/412 (10%)
Query: 144 PVKKSAPAAAPTDEESEQPVKKAAAKNVTAKKTAKKATAKKTAAKKTAAKNVVDELLDDE 203
P++ A D+ EQ V+ + V T A+ T D+ D
Sbjct: 5 PLRPLAEGELSIDQVKEQLVELGKKRGVL------------TYAEITEKLAPYDQDSDQM 52
Query: 204 AEEKPITGKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGK 263
E G+ G E + S V +++E SV DPV+ YLK+IG+
Sbjct: 53 DEFFEYLGEQGVEILNDNEEVPSLQQVEKEEEEFDLNDLSVPPGVKINDPVRMYLKEIGR 112
Query: 264 VPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLR 323
VPLL AE+E+ELA RI G AK L EANLR
Sbjct: 113 VPLLTAEEEIELATRIEQG---------------------------DEEAKRRLAEANLR 145
Query: 324 LVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAM 383
LVVS+AKRY GRG MLFLDLIQEGN+GLI+AVEKFDY KG KFSTY TWWIRQAI TRA+
Sbjct: 146 LVVSIAKRYVGRG-MLFLDLIQEGNMGLIKAVEKFDYNKGFKFSTYATWWIRQAI-TRAI 203
Query: 384 ADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGR 443
ADQARTIRIPVHMV++ INK RV RQ+LQD+GREP+PEE+A+E+D+TPEKV E K +
Sbjct: 204 ADQARTIRIPVHMVET-INKLIRVQRQLLQDVGREPSPEEVAEEMDLTPEKVREILKIAQ 262
Query: 444 EPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVS 503
EP+SL TP GEE DS L D IED +A+ P DA ++ LL+EQL VLDTL++RE V+
Sbjct: 263 EPVSLETPIGEED--DSHLGDFIEDQDALAPSDAAAYELLKEQLEDVLDTLTDREENVLR 320
Query: 504 MRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
+RFGL DG+ +TL+E+GKV GVTRERIRQIE+K + KLRHPSRS+ L D+L+
Sbjct: 321 LRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 372
>pir||JN0442 transcription initiation factor sigma homolog hrdA - Streptomyces
aureofaciens
gb|AAA26762.1| (M90410) principal sigma-like factor [Streptomyces aureofaciens]
prf||1920369A RNA polymerase:SUBUNIT=sigma [Streptomyces aureofaciens]
Length = 393
Score = 346 bits (887), Expect = 4e-94
Identities = 201/399 (50%), Positives = 271/399 (67%), Gaps = 21/399 (5%)
Query: 161 QPVKKAAAKNVTAKKTAKKATAKKTAAKKTAAKNVVDELLDDEAEEKPITGKPGEEGAPE 220
+PV A + TA+ TA A++T VDE +D+ A+ P G+E A +
Sbjct: 12 RPVSDTAGASGTAR------TAAAPEARRT--DEPVDEAVDEAAD--PAARAAGDETAED 61
Query: 221 GTGGESQGFVRSDDDEDLAPAHSVAA----AGATADPVKDYLKQIGKVPLLNAEQEVELA 276
G +G + E + P + A AG +AD + YL++IG++PLL A +EV+LA
Sbjct: 62 E--GPDEGPEVLELIEHVPPPRTRGAESGGAGPSADLFRQYLREIGRIPLLTAAEEVDLA 119
Query: 277 KRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRG 336
+R+ AGLFAE+KL A + +L +L+ + GR AK L+E+NLRLVVS+AKRY GRG
Sbjct: 120 RRVEAGLFAEEKLGGAADLDSQLAVDLDRLVVMGRMAKRRLIESNLRLVVSVAKRYVGRG 179
Query: 337 FMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHM 396
+ LDL+QEGNLGLIRAVEKFDY +G KFSTY TWWIRQA++ RA+ADQARTIR+PVH+
Sbjct: 180 LTM-LDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQAMS-RALADQARTIRVPVHV 237
Query: 397 VDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEA 456
V+ +IN+ RV R+MLQ+ G EPT EE+A L++TPE+V+E + +EP+SLH P GEE
Sbjct: 238 VE-LINRVVRVQRRMLQERGYEPTAEEVAVHLELTPERVLEVLRLAQEPVSLHAPVGEED 296
Query: 457 GADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTL 516
D L DLIED +A P ++ +F L E L +VL TL ERE VV +R+GL DG+P+TL
Sbjct: 297 --DVALGDLIEDGDAASPVESAAFFLRCEHLEAVLSTLGERERKVVQLRYGLADGRPRTL 354
Query: 517 DEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
+EIG++ GVTRERIRQIESKT++KLR + + L YLD
Sbjct: 355 EEIGRIFGVTRERIRQIESKTLNKLRDHAFADQLRGYLD 393
>sp|P52328|RPSD_LEPIN RNA POLYMERASE SIGMA FACTOR RPOD
gb|AAA25264.1| (M96579) RNA polymerase sigma-subunit [Leptospira borgpetersenii]
Length = 377
Score = 344 bits (882), Expect = 2e-93
Identities = 199/354 (56%), Positives = 245/354 (68%), Gaps = 43/354 (12%)
Query: 202 DEAEEKPITGKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQI 261
+E +E+ + GE+ +G + F DDD L P + DPV+ YLK+I
Sbjct: 67 NENDEEVSNLRQGEDH--DGNDNDDFNF---DDDLSLPPGIKIN------DPVRMYLKEI 115
Query: 262 GKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEAN 321
G+VPLL+A+ EVELAKRI G AK L EAN
Sbjct: 116 GRVPLLSADDEVELAKRIMNG---------------------------DEEAKRRLAEAN 148
Query: 322 LRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTR 381
LRLVVS+AKRY GRG MLFLDLIQEGN+GLI+AVEKFD+ KG KFSTY TWWIRQAI TR
Sbjct: 149 LRLVVSIAKRYVGRG-MLFLDLIQEGNMGLIKAVEKFDHNKGFKFSTYATWWIRQAI-TR 206
Query: 382 AMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKY 441
A+ADQARTIRIPVHMV++ INK RV+RQ+LQ+LGREPTPEE+A E++++ EKV E K
Sbjct: 207 AIADQARTIRIPVHMVET-INKLIRVSRQLLQELGREPTPEEIAAEMELSVEKVREIMKI 265
Query: 442 GREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGV 501
+EP+SL TP GEE DS L D IED EA+ P DA ++ LL+EQL VLDTL+ERE V
Sbjct: 266 AQEPVSLETPIGEED--DSHLGDFIEDQEALTPADAAAYELLKEQLEDVLDTLTEREENV 323
Query: 502 VSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
+ +RFGL DG+ +TL+E+GKV GVTRERIRQIE+K + KLRHPSRS+ L D+L+
Sbjct: 324 LRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 377
>ref|NP_374674.1| (NC_002745) RNA polymerase sigma factor [Staphylococcus aureus
subsp. aureus N315]
dbj|BAB42653.1| (AP003134) RNA polymerase sigma factor [Staphylococcus aureus
subsp. aureus N315]
Length = 368
Score = 340 bits (872), Expect = 2e-92
Identities = 192/325 (59%), Positives = 234/325 (71%), Gaps = 33/325 (10%)
Query: 232 SDDDEDLAPAHSVAAAGATA-DPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLA 290
SD DE L P+ A G DPV+ YLK+IG+V LL+A++E+ELAKRI G
Sbjct: 76 SDTDEKLNPSDLSAPPGVKINDPVRMYLKEIGRVNLLSAQEEIELAKRIEQG-------- 127
Query: 291 NADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLG 350
D++A K+ L EANLRLVVS+AKRY GRG MLFLDLIQEGN+G
Sbjct: 128 --DEVA-----------------KSRLAEANLRLVVSIAKRYVGRG-MLFLDLIQEGNMG 167
Query: 351 LIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQ 410
LI+AVEKFD+ KG KFSTY TWWIRQAI TRA+ADQARTIRIPVHMV++ INK RV RQ
Sbjct: 168 LIKAVEKFDFNKGFKFSTYATWWIRQAI-TRAIADQARTIRIPVHMVET-INKLIRVQRQ 225
Query: 411 MLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSE 470
+LQDLGR+P PEE+ +E+D+ EKV E K +EP+SL TP GEE DS L D IED E
Sbjct: 226 LLQDLGRDPAPEEIGEEMDLPAEKVREVLKIAQEPVSLETPIGEED--DSHLGDFIEDQE 283
Query: 471 AVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERI 530
A P D ++ LL+EQL VLDTL++RE V+ +RFGL DG+ +TL+E+GKV GVTRERI
Sbjct: 284 AQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERI 343
Query: 531 RQIESKTMSKLRHPSRSQVLTDYLD 555
RQIE+K + KLRHPSRS+ L D++D
Sbjct: 344 RQIEAKALRKLRHPSRSKRLKDFMD 368
>ref|NP_372085.1| (NC_002758) RNA polymerase sigma factor [Staphylococcus aureus
subsp. aureus Mu50]
sp|P26766|RPSD_STAAM RNA polymerase sigma factor rpoD
pir||S34442 transcription initiation factor sigma plaC - Staphylococcus aureus
gb|AAB59090.1| (M63177) sigma factor [Staphylococcus aureus]
dbj|BAB57723.1| (AP003362) RNA polymerase sigma factor [Staphylococcus aureus
subsp. aureus Mu50]
Length = 368
Score = 340 bits (872), Expect = 2e-92
Identities = 192/325 (59%), Positives = 234/325 (71%), Gaps = 33/325 (10%)
Query: 232 SDDDEDLAPAHSVAAAGATA-DPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLA 290
SD DE L P+ A G DPV+ YLK+IG+V LL+A++E+ELAKRI G
Sbjct: 76 SDTDEKLNPSDLSAPPGVKINDPVRMYLKEIGRVNLLSAQEEIELAKRIEQG-------- 127
Query: 291 NADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLG 350
D++A K+ L EANLRLVVS+AKRY GRG MLFLDLIQEGN+G
Sbjct: 128 --DEVA-----------------KSRLAEANLRLVVSIAKRYVGRG-MLFLDLIQEGNMG 167
Query: 351 LIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQ 410
LI+AVEKFD+ KG KFSTY TWWIRQAI TRA+ADQARTIRIPVHMV++ INK RV RQ
Sbjct: 168 LIKAVEKFDFNKGFKFSTYATWWIRQAI-TRAIADQARTIRIPVHMVET-INKLIRVQRQ 225
Query: 411 MLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSE 470
+LQDLGR+P PEE+ +E+D+ EKV E K +EP+SL TP GEE DS L D IED E
Sbjct: 226 LLQDLGRDPAPEEIGEEMDLPAEKVREILKIAQEPVSLETPIGEED--DSHLGDFIEDQE 283
Query: 471 AVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERI 530
A P D ++ LL+EQL VLDTL++RE V+ +RFGL DG+ +TL+E+GKV GVTRERI
Sbjct: 284 AQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERI 343
Query: 531 RQIESKTMSKLRHPSRSQVLTDYLD 555
RQIE+K + KLRHPSRS+ L D++D
Sbjct: 344 RQIEAKALRKLRHPSRSKRLKDFMD 368
>gb|AAC44890.1| (U67424) sigma 70-type sigma factor SigA [Heliobacillus mobilis]
Length = 333
Score = 340 bits (871), Expect = 3e-92
Identities = 190/324 (58%), Positives = 233/324 (71%), Gaps = 34/324 (10%)
Query: 233 DDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANA 292
+++E++ SV DPV+ YLK+IG+VPLL+AE+E+ELAKR+
Sbjct: 43 EEEEEIEVDLSVPEGVGIDDPVRMYLKEIGRVPLLSAEEEIELAKRM------------- 89
Query: 293 DKIAPKLKCELEIIAEDG-RRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGL 351
EDG AK L EANLRLVVS+AKRY GRG MLFLDLIQEGNLGL
Sbjct: 90 ---------------EDGDEEAKRRLAEANLRLVVSIAKRYVGRG-MLFLDLIQEGNLGL 133
Query: 352 IRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQM 411
I+AVEKFDYTKG KFSTY TWWIRQAI TRA+ADQARTIRIPVHMV++ INK RV+RQ+
Sbjct: 134 IKAVEKFDYTKGYKFSTYATWWIRQAI-TRAIADQARTIRIPVHMVET-INKLIRVSRQL 191
Query: 412 LQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEA 471
LQ+ GREP PEE+AKE+D+ ++V E K +EP+SL TP GEE DS L D IED +A
Sbjct: 192 LQEFGREPNPEEIAKEMDIPVDRVREIMKIAQEPVSLETPIGEE--EDSHLGDFIEDQDA 249
Query: 472 VVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIR 531
P +A SF LL+EQL VL+TL+ RE V+ +RFGL DG+ +TL+E+G+ GVTRERIR
Sbjct: 250 PAPAEAASFILLKEQLEEVLETLTAREMKVLRLRFGLDDGRSRTLEEVGQEFGVTRERIR 309
Query: 532 QIESKTMSKLRHPSRSQVLTDYLD 555
QIE+K + KLRHPSRS+ L DY+D
Sbjct: 310 QIEAKALRKLRHPSRSKKLKDYVD 333
>ref|NP_562923.1| (NC_003366) transcription initiation factor sigma A [Clostridium
perfringens]
dbj|BAB81713.1| (AP003192) transcription initiation factor sigma A [Clostridium
perfringens]
Length = 373
Score = 339 bits (870), Expect = 4e-92
Identities = 209/402 (51%), Positives = 257/402 (62%), Gaps = 46/402 (11%)
Query: 165 KAAAKNVTAKKTAKKATAKKTA--------AKKTAA---KNVVDELLDDEAEEKPITGKP 213
K AK AKK K K KK+ + K ++DEL DE E P +
Sbjct: 7 KMKAKTTKAKKGEGKEKVDKMVLVKRLIDKGKKSGSLTYKEIMDEL--DEIELNPEQIEK 64
Query: 214 GEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEV 273
E E G E + +++E+ SV A DPV+ YLK+IGKVPLL++E E+
Sbjct: 65 IYE-VLESMGIEVISEIEQEEEEEEELDLSVPEGIAIDDPVRMYLKEIGKVPLLSSEDEI 123
Query: 274 ELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT 333
ELAK+I G AK L EANLRLVVS+AKRY
Sbjct: 124 ELAKKIEEG---------------------------SNYAKKKLAEANLRLVVSIAKRYV 156
Query: 334 GRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIP 393
GRG MLFLDLIQEGNLGLI+AVEKFDY KG KFSTY TWWIRQAI TRA+ADQARTIRIP
Sbjct: 157 GRG-MLFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAI-TRAIADQARTIRIP 214
Query: 394 VHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRG 453
VHMV++ INK R+ RQ++Q+LGR+P PEEL+K++DM +KV E K +EP+SL TP G
Sbjct: 215 VHMVET-INKLIRIQRQLVQELGRDPLPEELSKQMDMPVDKVREILKIAQEPVSLETPIG 273
Query: 454 EEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQP 513
EE DS L D I D +A P +A +FT+L+EQL +VLDTL+ RE V+ +RFGL DG+
Sbjct: 274 EE--EDSHLGDFIPDDDAPAPAEAAAFTMLKEQLINVLDTLTPREEKVLRLRFGLDDGRA 331
Query: 514 KTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
+TL+E+GK VTRERIRQIE+K + KLRHPSRS+ L DYLD
Sbjct: 332 RTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 373
>pir||S17929 transcription initiation factor sigma hrdA - Streptomyces
coelicolor
emb|CAA37172.1| (X52980) principal sigma subunit (AA 1-396) [Streptomyces
coelicolor A3(2)]
Length = 396
Score = 339 bits (870), Expect = 4e-92
Identities = 186/356 (52%), Positives = 251/356 (70%), Gaps = 8/356 (2%)
Query: 201 DDEAEEKPITGKPGEEGAPEGTGGESQGF-VRSDDDEDLAPAHSVAAAGATADPVKDYLK 259
+ +AE + P + GA G G V + + P + G ++D + YL+
Sbjct: 48 EPDAERGVLLAMPAQPGA--GAALPHPGAPVDVPEHPEPPPPTRTESGGPSSDLFRQYLR 105
Query: 260 QIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLE 319
+IG++PLL+A +EV+LA+R+ AGLFAE+KL + + +L +L+ + GR AK L+E
Sbjct: 106 EIGRIPLLSAAEEVDLARRVEAGLFAEEKLRCSPGLDDRLALDLDRLVVLGRLAKRRLIE 165
Query: 320 ANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAIN 379
ANLRLVVS+AKRY GRG + LDL+QEGNLGLIRAVEKFDY +G KFSTY TWWIRQA++
Sbjct: 166 ANLRLVVSVAKRYVGRGLTM-LDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQAMS 224
Query: 380 TRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERA 439
RA+ADQARTIR+PVH+V+ +IN+ RV R+MLQ+ G EPTP+E+A LD+ PE+V E
Sbjct: 225 -RALADQARTIRVPVHVVE-LINRVVRVQRRMLQERGCEPTPQEVAAHLDLAPERVGEVL 282
Query: 440 KYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREA 499
+ +EP+SLH P GEE D L DLIED +A P ++ +F LL++ L +VL TL ERE
Sbjct: 283 RLAQEPVSLHAPVGEED--DVALGDLIEDGDAASPVESAAFLLLRQHLEAVLSTLGERER 340
Query: 500 GVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
VV +R+GL DG+P+TL+EIG++ GVTRERIRQIESKT+SKLR + + L YLD
Sbjct: 341 KVVQLRYGLADGRPRTLEEIGRLGGVTRERIRQIESKTLSKLRDHAYADQLRGYLD 396
>sp|P18182|HRDA_STRCO RNA polymerase principal sigma factor hrdA
emb|CAB69753.1| (AL137187) RNA polymerase principal sigma factor [Streptomyces
coelicolor]
Length = 396
Score = 338 bits (868), Expect = 7e-92
Identities = 186/356 (52%), Positives = 251/356 (70%), Gaps = 8/356 (2%)
Query: 201 DDEAEEKPITGKPGEEGAPEGTGGESQGF-VRSDDDEDLAPAHSVAAAGATADPVKDYLK 259
+ +AE + P + GA G G V + + P + G ++D + YL+
Sbjct: 48 EPDAERGVLLAMPAQPGA--GAALPHPGAPVDVPEHPEPPPPTRTESGGPSSDLFRQYLR 105
Query: 260 QIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLE 319
+IG++PLL+A +EV+LA+R+ AGLFAE+KL + + +L +L+ + GR AK L+E
Sbjct: 106 EIGRIPLLSAAEEVDLARRVEAGLFAEEKLRCSPGLDDRLALDLDRLVVLGRLAKRRLIE 165
Query: 320 ANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAIN 379
ANLRLVVS+AKRY GRG + LDL+QEGNLGLIRAVEKFDY +G KFSTY TWWIRQA++
Sbjct: 166 ANLRLVVSVAKRYVGRGLTM-LDLVQEGNLGLIRAVEKFDYARGYKFSTYATWWIRQAMS 224
Query: 380 TRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERA 439
RA+ADQARTIR+PVH+V+ +IN+ RV R+MLQ+ G EPTP+E+A LD+ PE+V E
Sbjct: 225 -RALADQARTIRVPVHVVE-LINRVVRVQRRMLQERGCEPTPQEVAAHLDLAPERVGEVL 282
Query: 440 KYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREA 499
+ +EP+SLH P GEE D L DLIED +A P ++ +F LL++ L +VL TL ERE
Sbjct: 283 RLAQEPVSLHAPVGEED--DVALGDLIEDGDAASPVESAAFLLLRQHLEAVLSTLGERER 340
Query: 500 GVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
VV +R+GL DG+P+TL+EIG++ GVTRERIRQIESKT+SKLR + + L YLD
Sbjct: 341 KVVQLRYGLADGRPRTLEEIGRLFGVTRERIRQIESKTLSKLRDHAYADQLRGYLD 396
>ref|NP_347931.1| (NC_003030) RNA polymerase sigma factor RPOD [Clostridium
acetobutylicum]
sp|P33656|RPSD_CLOAB RNA polymerase sigma factor rpoD (Sigma-A) (Major vegetative sigma
factor)
pir||I40610 transcription initiation factor sigma A - Clostridium
acetobutylicum
emb|CAA80625.1| (Z23080) major vegetative sigma factor [Clostridium acetobutylicum]
gb|AAK79271.1|AE007642_3 (AE007642) RNA polymerase sigma factor RPOD [Clostridium
acetobutylicum]
Length = 378
Score = 338 bits (867), Expect = 9e-92
Identities = 204/407 (50%), Positives = 259/407 (63%), Gaps = 48/407 (11%)
Query: 165 KAAAKNVTAKKTAKKATAKKTAAKKTAAKNVVDELLD--------------DEAEEKPIT 210
K KN KK +KK + +++A +K +V L+D DE +E +
Sbjct: 4 KTEVKNGGEKKNSKKVSKEESAKEKNEKMKIVKNLIDKGKKSGSLTYKEIMDELQEVDLG 63
Query: 211 GKPGEE--GAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLN 268
+ E+ E G + G + + E+ ++ A DPV+ YLK+IGKVPLL+
Sbjct: 64 PEQIEKIYEVLESVGVDVVGDMHEIEVEEEDLDLTIPEGIAIDDPVRMYLKEIGKVPLLS 123
Query: 269 AEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSL 328
E+E++LA+RI G R A+ L EANLRLVVS+
Sbjct: 124 PEEEIDLAQRIKNG---------------------------DRSARKKLAEANLRLVVSI 156
Query: 329 AKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQAR 388
AKRY GRG MLFLDLIQEGNLGLI+AVEKFD+ KG KFSTY TWWIRQAI TRA+ADQAR
Sbjct: 157 AKRYVGRG-MLFLDLIQEGNLGLIKAVEKFDFKKGFKFSTYATWWIRQAI-TRAIADQAR 214
Query: 389 TIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISL 448
TIRIPVHMV++ INK RV+RQ+LQ+LGREP PEE+AK +DM +KV E K +EP+SL
Sbjct: 215 TIRIPVHMVET-INKLIRVSRQLLQELGREPQPEEIAKIMDMPVDKVREIMKIAQEPVSL 273
Query: 449 HTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGL 508
TP GEE DS L D I D EA P DA +F +L+EQL +L+TL+ RE V+ +RFGL
Sbjct: 274 ETPIGEEE--DSHLGDFIPDDEAPAPADAAAFRMLKEQLLKILNTLTPREEKVLRLRFGL 331
Query: 509 TDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
DG+ +TL+E+GK VTRERIRQIE+K + KLRHPSRS+ L DYLD
Sbjct: 332 DDGRARTLEEVGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 378
>sp|P27785|RPSD_STRAU RNA POLYMERASE SIGMA FACTOR RPOD
Length = 317
Score = 338 bits (867), Expect = 9e-92
Identities = 178/309 (57%), Positives = 234/309 (75%), Gaps = 5/309 (1%)
Query: 247 AGATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEII 306
AG +AD + YL++IG++PLL A +EV+LA+R+ AGLFAE+KL A + +L +L+ +
Sbjct: 14 AGPSADLFRQYLREIGRIPLLTAAEEVDLARRVEAGLFAEEKLGGAADLDSQLAVDLDRL 73
Query: 307 AEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKF 366
GR AK L+E+NLRLVVS+AKRY GRG + LDL+QEGNLGLIRAVEKFDY +G KF
Sbjct: 74 VVMGRMAKRRLIESNLRLVVSVAKRYVGRGLTM-LDLVQEGNLGLIRAVEKFDYARGYKF 132
Query: 367 STYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAK 426
STY TWWIRQA++ RA+ADQARTIR+PVH+V+ +IN+ RV R+MLQ+ G EPT EE+A
Sbjct: 133 STYATWWIRQAMS-RALADQARTIRVPVHVVE-LINRVVRVQRRMLQERGYEPTAEEVAV 190
Query: 427 ELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQ 486
L++TPE+V+E + +EP+SLH P GEE D L DLIED +A P ++ +F L E
Sbjct: 191 HLELTPERVLEVLRLAQEPVSLHAPVGEED--DVALGDLIEDGDAASPVESAAFFLRCEH 248
Query: 487 LHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSR 546
L +VL TL ERE VV +R+GL DG+P+TL+EIG++ GVTRERIRQIESKT++KLR +
Sbjct: 249 LEAVLSTLGERERKVVQLRYGLADGRPRTLEEIGRIFGVTRERIRQIESKTLNKLRDHAF 308
Query: 547 SQVLTDYLD 555
+ L YLD
Sbjct: 309 ADQLRGYLD 317
>dbj|BAA19494.1| (AB001896) sigA=sigma70 [Staphylococcus aureus]
Length = 368
Score = 337 bits (865), Expect = 2e-91
Identities = 191/325 (58%), Positives = 233/325 (70%), Gaps = 33/325 (10%)
Query: 232 SDDDEDLAPAHSVAAAGATA-DPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLA 290
SD DE L P+ A G DPV+ YLK+IG+V LL+A++E+ELAKRI G
Sbjct: 76 SDTDEKLNPSDLSAPPGVKINDPVRMYLKEIGRVNLLSAQEEIELAKRIEQG-------- 127
Query: 291 NADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLG 350
D++A K+ L EANLRLVVS+AKRY GRG MLFLDLIQEGN+G
Sbjct: 128 --DEVA-----------------KSRLAEANLRLVVSIAKRYVGRG-MLFLDLIQEGNMG 167
Query: 351 LIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQ 410
LI+AVEKFD+ KG KFSTY TWWIRQAI TRA+A QARTIRIPVHMV++ INK RV RQ
Sbjct: 168 LIKAVEKFDFNKGFKFSTYATWWIRQAI-TRAIAHQARTIRIPVHMVET-INKLIRVQRQ 225
Query: 411 MLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSE 470
+LQDLGR+P PEE+ +E+D+ EKV E K +EP+SL TP GEE DS L D IED E
Sbjct: 226 LLQDLGRDPAPEEIGEEMDLPAEKVREILKIAQEPVSLETPIGEED--DSHLGDFIEDQE 283
Query: 471 AVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERI 530
A P D ++ LL+EQL VLDTL++RE V+ +RFGL DG+ +TL+E+GKV GVTRERI
Sbjct: 284 AQSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERI 343
Query: 531 RQIESKTMSKLRHPSRSQVLTDYLD 555
RQIE+K + KLRHPSRS+ L D++D
Sbjct: 344 RQIEAKALRKLRHPSRSKRLKDFMD 368
>dbj|BAB62883.1| (AB055809) RNA polymerase major sigma factor [Clostridium
perfringens]
Length = 366
Score = 336 bits (861), Expect = 4e-91
Identities = 206/397 (51%), Positives = 255/397 (63%), Gaps = 47/397 (11%)
Query: 173 AKKT-AKKATAKKTAAKKTAAKNVVD-----------ELLD--DEAEEKPITGKPGEEGA 218
AK T AKK K+ K K ++D E++D DE E P + E
Sbjct: 3 AKTTKAKKGEGKEKVDKMVLVKRLIDKGKKSGSLTYKEIMDELDEIELNPEQIEKIYE-V 61
Query: 219 PEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKR 278
E G E + +++E+ SV A DPV+ YLK+IGKV LL++E E+ELAK+
Sbjct: 62 LESMGIEVISEIEQEEEEEEELDLSVPEGIAIDDPVRMYLKEIGKVQLLSSEDEIELAKK 121
Query: 279 ISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFM 338
I G AK L EANLRLVVS+AKRY GRG M
Sbjct: 122 IEEG---------------------------SNYAKKKLAEANLRLVVSIAKRYVGRG-M 153
Query: 339 LFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVD 398
LFLDLIQEGNLGLI+AVEKFDY KG KFSTY TWWIRQAI TRA+ADQARTIRIPVHMV+
Sbjct: 154 LFLDLIQEGNLGLIKAVEKFDYRKGYKFSTYATWWIRQAI-TRAIADQARTIRIPVHMVE 212
Query: 399 SVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGA 458
+ INK R+ RQ++Q+LGR+P PEEL+K++DM +KV E K +EP+SL TP GEE
Sbjct: 213 T-INKLIRIQRQLVQELGRDPLPEELSKQMDMPVDKVREILKIAQEPVSLETPIGEEE-- 269
Query: 459 DSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDE 518
DS L D I D +A P +A +FT+L+EQL +VLDTL+ RE V+ +RFGL DG+ +TL+E
Sbjct: 270 DSHLGDFIPDDDAPAPAEAAAFTMLKEQLINVLDTLTPREEKVLRLRFGLDDGRARTLEE 329
Query: 519 IGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
+GK VTRERIRQIE+K + KLRHPSRS+ L DYLD
Sbjct: 330 VGKEFNVTRERIRQIEAKALRKLRHPSRSKKLKDYLD 366
>ref|NP_390399.1| (NC_000964) RNA polymerase major sigma-43 factor (sigma-A)
[Bacillus subtilis]
sp|P06224|RPSA_BACSU RNA polymerase sigma factor rpoD (Sigma-A) (Sigma-43)
pir||RNBS43 transcription initiation factor sigma A - Bacillus subtilis
emb|CAA27538.1| (X03897) rpoD (aa 1-311) [Bacillus subtilis]
gb|AAA22709.1| (M10089) RNA polymerase sigma-43 factor [Bacillus subtilis]
dbj|BAA12489.1| (D84432) RpoD [Bacillus subtilis]
emb|CAB14450.1| (Z99116) RNA polymerase major sigma-43 factor (sigma-A) [Bacillus
subtilis]
emb|CAB14463.1| (Z99117) RNA polymerase major sigma-43 factor (sigma-A) [Bacillus
subtilis]
Length = 371
Score = 333 bits (854), Expect = 3e-90
Identities = 194/362 (53%), Positives = 244/362 (66%), Gaps = 37/362 (10%)
Query: 198 ELLDDEAEEK-PITGKPGEEGAPEGTGGES---QGFVRSDDDEDLAPAHSVAAAGATADP 253
E+ D+ +E G+ G E E E Q +++++ DL SV DP
Sbjct: 43 EIESDQMDEYYEFLGEQGVELISENEETEDPNIQQLAKAEEEFDLNDL-SVPPGVKINDP 101
Query: 254 VKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRA 313
V+ YLK+IG+V LL+A++E+ A++I G +
Sbjct: 102 VRMYLKEIGRVNLLSAKEEIAYAQKIEEG---------------------------DEES 134
Query: 314 KNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWW 373
K L EANLRLVVS+AKRY GRG MLFLDLI EGN+GL++AVEKFDY KG KFSTY TWW
Sbjct: 135 KRRLAEANLRLVVSIAKRYVGRG-MLFLDLIHEGNMGLMKAVEKFDYRKGYKFSTYATWW 193
Query: 374 IRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPE 433
IRQAI TRA+ADQARTIRIPVHMV++ INK RV RQ+LQDLGREPTPEE+A+++D+TPE
Sbjct: 194 IRQAI-TRAIADQARTIRIPVHMVET-INKLIRVQRQLLQDLGREPTPEEIAEDMDLTPE 251
Query: 434 KVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDT 493
KV E K +EP+SL TP GEE DS L D IED EA P D ++ LL+EQL VLDT
Sbjct: 252 KVREILKIAQEPVSLETPIGEED--DSHLGDFIEDQEATSPSDHAAYELLKEQLEDVLDT 309
Query: 494 LSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDY 553
L++RE V+ +RFGL DG+ +TL+E+GKV GVTRERIRQIE+K + KLRHPSRS+ L D+
Sbjct: 310 LTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDF 369
Query: 554 LD 555
L+
Sbjct: 370 LE 371
>ref|NP_464979.1| (NC_003210) RNA polymerase sigma factor RpoD [Listeria
monocytogenes EGD-e]
sp|P52331|RPSD_LISMO RNA polymerase sigma factor rpoD (Sigma-43)
gb|AAC43306.1| (U13165) sigma 43 subunit of RNA polymerase [Listeria
monocytogenes]
emb|CAC99532.1| (AL591979) RNA polymerase sigma factor RpoD [Listeria
monocytogenes]
prf||2104269C RNA polymerase:SUBUNIT=sigma [Listeria monocytogenes]
Length = 374
Score = 332 bits (851), Expect = 6e-90
Identities = 199/402 (49%), Positives = 254/402 (62%), Gaps = 37/402 (9%)
Query: 154 PTDEESEQPVKKAAAKNVTAKKTAKKATAKKTAAKKTAAKNVVDELLDDEAEEKPITGKP 213
P E S + VK+A + K A A T + +DE L+ E
Sbjct: 10 PVAELSVEQVKEALIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVGEAGIEVSDD 69
Query: 214 GEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEV 273
++ P+ T V+ + + SV DPV+ YLK+IG+V LL A++E+
Sbjct: 70 ADDEDPDETE-----LVKEETESFDLTDMSVPPGVKINDPVRMYLKEIGRVDLLTADEEI 124
Query: 274 ELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT 333
LAKRI AG ++E AK L EANLRLVVS+AKRY
Sbjct: 125 ALAKRIEAG-------------------DIE--------AKGRLAEANLRLVVSIAKRYV 157
Query: 334 GRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIP 393
GRG MLFLDLIQEGN+GL++AVEKFD+ KG KFSTY TWWIRQAI TRA+ADQARTIRIP
Sbjct: 158 GRG-MLFLDLIQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAI-TRAIADQARTIRIP 215
Query: 394 VHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRG 453
VHMV++ INK RV R +LQDLGR+P+PEE+ +E+D+ EKV E K +EP+SL TP G
Sbjct: 216 VHMVET-INKLIRVQRSLLQDLGRDPSPEEIGEEMDLPTEKVREILKIAQEPVSLETPIG 274
Query: 454 EEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQP 513
EE DS L D IED +A P D ++ LL+EQL VLDTL++RE V+ +RFGL DG+
Sbjct: 275 EED--DSHLGDFIEDQDATSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRT 332
Query: 514 KTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
+TL+E+G+V GVTRERIRQIE+K + KLRHPSRS+ L D+L+
Sbjct: 333 RTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 374
>ref|NP_470827.1| (NC_003212) RNA polymerase sigma factor RpoD [Listeria innocua]
sp|Q92BQ6|RPSD_LISIN RNA polymerase sigma factor rpoD (Sigma-43)
emb|CAC96722.1| (AL596168) RNA polymerase sigma factor RpoD [Listeria innocua]
Length = 374
Score = 331 bits (848), Expect = 1e-89
Identities = 198/402 (49%), Positives = 254/402 (62%), Gaps = 37/402 (9%)
Query: 154 PTDEESEQPVKKAAAKNVTAKKTAKKATAKKTAAKKTAAKNVVDELLDDEAEEKPITGKP 213
P E + + VK+A + K A A T + +DE L+ E
Sbjct: 10 PVAELNVEQVKEALIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVGEAGIEVSDD 69
Query: 214 GEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEV 273
++ P+ T V+ + + SV DPV+ YLK+IG+V LL A++E+
Sbjct: 70 ADDEDPDETE-----LVKEETESFDLTDMSVPPGVKINDPVRMYLKEIGRVDLLTADEEI 124
Query: 274 ELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT 333
LAKRI AG ++E AK L EANLRLVVS+AKRY
Sbjct: 125 ALAKRIEAG-------------------DIE--------AKGRLAEANLRLVVSIAKRYV 157
Query: 334 GRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIP 393
GRG MLFLDLIQEGN+GL++AVEKFD+ KG KFSTY TWWIRQAI TRA+ADQARTIRIP
Sbjct: 158 GRG-MLFLDLIQEGNMGLMKAVEKFDFNKGFKFSTYATWWIRQAI-TRAIADQARTIRIP 215
Query: 394 VHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRG 453
VHMV++ INK RV R +LQDLGR+P+PEE+ +E+D+ EKV E K +EP+SL TP G
Sbjct: 216 VHMVET-INKLIRVQRSLLQDLGRDPSPEEIGEEMDLPTEKVREILKIAQEPVSLETPIG 274
Query: 454 EEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQP 513
EE DS L D IED +A P D ++ LL+EQL VLDTL++RE V+ +RFGL DG+
Sbjct: 275 EED--DSHLGDFIEDQDATSPSDHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRT 332
Query: 514 KTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
+TL+E+G+V GVTRERIRQIE+K + KLRHPSRS+ L D+L+
Sbjct: 333 RTLEEVGRVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 374
>sp|P52329|RPSD_ENTFA RNA POLYMERASE SIGMA FACTOR RPOD (SIGMA-42)
pir||S54114 transcription initiation factor sigma 42 - Enterococcus faecalis
emb|CAA60113.1| (X86176) sigma 42 [Enterococcus faecalis]
Length = 368
Score = 328 bits (842), Expect = 7e-89
Identities = 206/399 (51%), Positives = 257/399 (63%), Gaps = 50/399 (12%)
Query: 174 KKTAKK-ATAKKTAAKKTAAKNVV--DEL---------LDDEAEEKPITGKPGEEGAP-- 219
K+T+KK A T K+ K V D+L LD EA EK I K + G
Sbjct: 3 KETSKKYEAAVGTFIKENKPKGTVVYDDLANQLATPYTLDAEAMEKLIQ-KVEDAGISVV 61
Query: 220 EGTGGESQGFVRSDDDE-DLAPAHSVAAAGATA--DPVKDYLKQIGKVPLLNAEQEVELA 276
+ G S+ ++ D+ E + A A ++A DPV+ YLK+IG+V LL A +EVELA
Sbjct: 62 DENGDPSEHSLKKDEKEAEKAQAEDLSAPTGVKINDPVRMYLKEIGRVQLLTAAEEVELA 121
Query: 277 KRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRG 336
+I G + AK L EANLRLVVS+AKRY GRG
Sbjct: 122 LKIEEG---------------------------DQEAKQRLAEANLRLVVSIAKRYVGRG 154
Query: 337 FMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHM 396
M FLDLIQEGN+GL++AVEKFDY KG KFSTY TWWIRQAI TRA+ADQARTIRIPVHM
Sbjct: 155 -MQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYATWWIRQAI-TRAIADQARTIRIPVHM 212
Query: 397 VDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEA 456
V++ INK R+ R +LQDLGREPTPEE+ E+D+ EKV E K +EP+SL TP GEE
Sbjct: 213 VET-INKLIRMQRNLLQDLGREPTPEEIGAEMDLPTEKVREILKIAQEPVSLETPIGEED 271
Query: 457 GADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTL 516
DS L D IED +A P + ++ LL+EQL VLDTL++RE V+ +RFGL DG+ +TL
Sbjct: 272 --DSHLGDFIEDQDATSPAEHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRTL 329
Query: 517 DEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
+E+GKV GVTRERIRQIE+K + KLRHPSRS+ L D+L+
Sbjct: 330 EEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 368
>ref|NP_217226.1| (NC_000962) sigB [Mycobacterium tuberculosis H37Rv]
ref|NP_337285.1| (NC_002755) RNA polymerase principal sigma factor SigB
[Mycobacterium tuberculosis CDC1551]
gb|AAA86044.1| (U10059) sigma factor MysB [Mycobacterium tuberculosis]
emb|CAB09470.1| (Z96072) sigB [Mycobacterium tuberculosis H37Rv]
gb|AAK47099.1| (AE007107) RNA polymerase principal sigma factor SigB
[Mycobacterium tuberculosis CDC1551]
Length = 323
Score = 321 bits (823), Expect = 1e-86
Identities = 180/308 (58%), Positives = 217/308 (70%), Gaps = 5/308 (1%)
Query: 246 AAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEI 305
A AD V+ YL IGK LLNA EVELAKRI AGL+AE L ++ K +L
Sbjct: 19 AQSPAADLVRVYLNGIGKTALLNAAGEVELAKRIEAGLYAEHLLETRKRLGENRKRDLAA 78
Query: 306 IAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRK 365
+ DG A+ HLLEANLRLVVSLAKRYTGRG L LDLIQEGNLGLIRA+EKFDYTKG K
Sbjct: 79 VVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPL-LDLIQEGNLGLIRAMEKFDYTKGFK 137
Query: 366 FSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELA 425
FSTY TWWIRQAI TR MADQ+RTIR+PVH+V+ V NK AR+ R+M Q LGRE T EELA
Sbjct: 138 FSTYATWWIRQAI-TRGMADQSRTIRLPVHLVEQV-NKLARIKREMHQHLGREATDEELA 195
Query: 426 KELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQE 485
E + +K+ + ++ R+P+SL P G E ++ L D IED+EA+ +AV LL
Sbjct: 196 AESGIPIDKINDLLEHSRDPVSLDMPVGSEE--EAPLGDFIEDAEAMSAENAVIAELLHT 253
Query: 486 QLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPS 545
+ SVL TL ERE V+ +RFGL DGQP+TLD+IGK+ G++RER+RQIE MSKLRH
Sbjct: 254 DIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLRHGE 313
Query: 546 RSQVLTDY 553
R+ L Y
Sbjct: 314 RADRLRSY 321
>gb|AAC44535.1| (U39806) sigma factor MytB [Mycobacterium tuberculosis]
Length = 345
Score = 319 bits (818), Expect = 4e-86
Identities = 179/308 (58%), Positives = 216/308 (70%), Gaps = 5/308 (1%)
Query: 246 AAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEI 305
A AD V+ YL IGK LLN EVELAKRI AGL+AE L ++ K +L
Sbjct: 41 AQSPAADLVRVYLNGIGKTALLNPAGEVELAKRIEAGLYAEHLLETRKRLGENRKRDLAA 100
Query: 306 IAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRK 365
+ DG A+ HLLEANLRLVVSLAKRYTGRG L LDLIQEGNLGLIRA+EKFDYTKG K
Sbjct: 101 VVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPL-LDLIQEGNLGLIRAMEKFDYTKGFK 159
Query: 366 FSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELA 425
FSTY TWWIRQAI TR MADQ+RTIR+PVH+V+ V NK AR+ R+M Q LGRE T EELA
Sbjct: 160 FSTYATWWIRQAI-TRGMADQSRTIRLPVHLVEQV-NKLARIKREMHQHLGREATDEELA 217
Query: 426 KELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQE 485
E + +K+ + ++ R+P+SL P G E ++ L D IED+EA+ +AV LL
Sbjct: 218 AESGIPIDKINDLLEHSRDPVSLDMPVGSEE--EAPLGDFIEDAEAMSAENAVIAELLHT 275
Query: 486 QLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPS 545
+ SVL TL ERE V+ +RFGL DGQP+TLD+IGK+ G++RER+RQIE MSKLRH
Sbjct: 276 DIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLRHGE 335
Query: 546 RSQVLTDY 553
R+ L Y
Sbjct: 336 RADRLRSY 343
>pir||JC5011 transcription initiation factor sigma B - Mycobacterium
tuberculosis
Length = 323
Score = 319 bits (818), Expect = 4e-86
Identities = 179/308 (58%), Positives = 216/308 (70%), Gaps = 5/308 (1%)
Query: 246 AAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEI 305
A AD V+ YL IGK LLN EVELAKRI AGL+AE L ++ K +L
Sbjct: 19 AQSPAADLVRVYLNGIGKTALLNPAGEVELAKRIEAGLYAEHLLETRKRLGENRKRDLAA 78
Query: 306 IAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRK 365
+ DG A+ HLLEANLRLVVSLAKRYTGRG L LDLIQEGNLGLIRA+EKFDYTKG K
Sbjct: 79 VVRDGEAARRHLLEANLRLVVSLAKRYTGRGMPL-LDLIQEGNLGLIRAMEKFDYTKGFK 137
Query: 366 FSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELA 425
FSTY TWWIRQAI TR MADQ+RTIR+PVH+V+ V NK AR+ R+M Q LGRE T EELA
Sbjct: 138 FSTYATWWIRQAI-TRGMADQSRTIRLPVHLVEQV-NKLARIKREMHQHLGREATDEELA 195
Query: 426 KELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQE 485
E + +K+ + ++ R+P+SL P G E ++ L D IED+EA+ +AV LL
Sbjct: 196 AESGIPIDKINDLLEHSRDPVSLDMPVGSEE--EAPLGDFIEDAEAMSAENAVIAELLHT 253
Query: 486 QLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPS 545
+ SVL TL ERE V+ +RFGL DGQP+TLD+IGK+ G++RER+RQIE MSKLRH
Sbjct: 254 DIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMSKLRHGE 313
Query: 546 RSQVLTDY 553
R+ L Y
Sbjct: 314 RADRLRSY 321
>ref|NP_301750.1| (NC_002677) RNA polymerase sigma factor [Mycobacterium leprae]
gb|AAA62952.1| (U15181) u1764a [Mycobacterium leprae]
emb|CAC31395.1| (AL583920) RNA polymerase sigma factor [Mycobacterium leprae]
Length = 319
Score = 318 bits (814), Expect = 1e-85
Identities = 180/308 (58%), Positives = 216/308 (69%), Gaps = 5/308 (1%)
Query: 246 AAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEI 305
A AD V+ YL IGK LLNA EVELAKRI AGL+AE L + K L
Sbjct: 15 AQSPAADLVRVYLNGIGKTALLNAADEVELAKRIEAGLYAEHLLQTRKRFGEGRKRALAA 74
Query: 306 IAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRK 365
+A DG A+ HLLEANLRLVVSLAKRYTGRG M LDLIQEGNLGLIRA+EKFDYTKG K
Sbjct: 75 VARDGAAARRHLLEANLRLVVSLAKRYTGRG-MPLLDLIQEGNLGLIRAMEKFDYTKGFK 133
Query: 366 FSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELA 425
FSTY TWWIRQAI TR MADQ+RTIR+PVH+V+ V NK AR+ R+M Q+LGRE T EELA
Sbjct: 134 FSTYATWWIRQAI-TRGMADQSRTIRLPVHLVEQV-NKLARIKREMHQNLGREATDEELA 191
Query: 426 KELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQE 485
E + EK+ + ++ R+P+SL P G E ++ L D IED+EA+ +AV LL
Sbjct: 192 AESGIPIEKINDLLEHSRDPVSLDMPVGSE--EEAPLGDFIEDAEAMSAENAVIAELLHT 249
Query: 486 QLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPS 545
+ SVL TL ERE V+ +RFGL DGQP+TLD+IGK+ G++RER+RQIE M KLR+
Sbjct: 250 DIRSVLATLDEREHQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERDVMCKLRNGE 309
Query: 546 RSQVLTDY 553
R+ L Y
Sbjct: 310 RADRLRSY 317
>pir||S61293 transcription initiation factor sigma mysB - Mycobacterium
smegmatis
gb|AAA85644.1| (U09863) sigma factor MysB [Mycobacterium smegmatis]
Length = 319
Score = 316 bits (810), Expect = 4e-85
Identities = 175/302 (57%), Positives = 218/302 (71%), Gaps = 5/302 (1%)
Query: 246 AAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEI 305
A AD V+ YL IGK LLNA EVELAKRI AGL+A+ L ++ K +L+
Sbjct: 15 AQSPAADLVRVYLNGIGKTALLNAADEVELAKRIEAGLYAQHLLDTKKRLGEARKRDLQA 74
Query: 306 IAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRK 365
+ DG A+ HLLEANLRLVVSLAKRYTGRG M LDLIQEGNLGLIRA+EKFDYTKG K
Sbjct: 75 VVRDGEAARRHLLEANLRLVVSLAKRYTGRG-MPLLDLIQEGNLGLIRAMEKFDYTKGFK 133
Query: 366 FSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELA 425
FSTY TWWIRQAI TR MADQ+RTIR+PVH+V+ V NK AR+ R+M Q+LGRE T EELA
Sbjct: 134 FSTYATWWIRQAI-TRGMADQSRTIRLPVHLVEQV-NKLARIKREMHQNLGREATDEELA 191
Query: 426 KELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQE 485
+E + EK+ + ++ R+P+SL P G + ++ L D IEDSEA+ +AV LL
Sbjct: 192 EESGIPVEKINDLLEHSRDPVSLDMPVGTD--EEAPLGDFIEDSEAMSAENAVISELLHT 249
Query: 486 QLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPS 545
+ VL TL ERE V+ +RFGL DGQP+TLD+IGK+ G++RER+RQIE + M+KLR+
Sbjct: 250 DIRYVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMAKLRNGE 309
Query: 546 RS 547
R+
Sbjct: 310 RA 311
>emb|CAC83730.1| (AJ308412) sigma factor [Rhodococcus fascians]
Length = 323
Score = 315 bits (806), Expect = 1e-84
Identities = 174/308 (56%), Positives = 217/308 (69%), Gaps = 5/308 (1%)
Query: 246 AAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEI 305
A AD V+ YL IG+ LL AE+EV+LAKRI AGL+A+ L N +++ K L I
Sbjct: 19 AQSPAADLVRVYLNGIGRTALLTAEEEVDLAKRIEAGLYAKQVLENTKRLSAVKKRNLAI 78
Query: 306 IAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRK 365
I DG A++HLLEANLRLVVSLAKRYTGRG M LDLIQEGNLGLIRA+EKFDY KG K
Sbjct: 79 IVRDGSAARSHLLEANLRLVVSLAKRYTGRG-MPLLDLIQEGNLGLIRAMEKFDYAKGFK 137
Query: 366 FSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELA 425
FSTY TWWIRQAI TR MADQ+RTIR+PVH+V+ V NK AR+ R++ Q LGRE T EEL+
Sbjct: 138 FSTYATWWIRQAI-TRGMADQSRTIRLPVHLVEQV-NKLARIKRELHQQLGREATDEELS 195
Query: 426 KELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQE 485
E + EK+ + + R+P+SL P G + ++ L D IEDSEA +AV LL
Sbjct: 196 SESGIAVEKIADLLDHSRDPVSLDMPVGSD--EEAPLGDFIEDSEATSAENAVIAGLLHS 253
Query: 486 QLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPS 545
+ VL TL ERE V+ +R+GL DGQP+TLD+IGK+ G++RER+RQIE + M KLR
Sbjct: 254 DVRVVLGTLDEREQQVIRLRYGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMVKLRQGD 313
Query: 546 RSQVLTDY 553
R++ L Y
Sbjct: 314 RAEKLRSY 321
>ref|NP_345546.1| (NC_003028) RNA polymerase sigma-70 factor [Streptococcus
pneumoniae TIGR4]
ref|NP_358573.1| (NC_003098) RNA polymerase sigmA FACTOR 70 [Streptococcus
pneumoniae R6]
sp|O08388|RPSD_STRPN RNA polymerase sigma factor rpoD
emb|CAA72252.1| (Y11463) rpoD [Streptococcus pneumoniae]
gb|AAK75186.1| (AE007409) RNA polymerase sigma-70 factor [Streptococcus pneumoniae
TIGR4]
gb|AAK99783.1| (AE008471) RNA polymerase sigmA FACTOR 70 [Streptococcus pneumoniae
R6]
Length = 369
Score = 309 bits (792), Expect = 4e-83
Identities = 175/337 (51%), Positives = 230/337 (67%), Gaps = 33/337 (9%)
Query: 220 EGTGGESQGFVRSDDDEDLAPAHSVAAAGATA-DPVKDYLKQIGKVPLLNAEQEVELAKR 278
+ G S + ++++ +L+ + + A DPV+ YLK+IG VPLL E+E ELA
Sbjct: 64 DNEGNPSARVLSNEEEPELSDEDLIGSTSAKVNDPVRMYLKEIGVVPLLTNEEEKELALA 123
Query: 279 ISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFM 338
+ AG ++E AK L EANLRLVVS+AKRY GRG M
Sbjct: 124 VEAG-------------------DIE--------AKQRLAEANLRLVVSIAKRYVGRG-M 155
Query: 339 LFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVD 398
FLDLIQEGN+GL++AV+KFDY+KG KFSTY TWWIRQAI TRA+ADQARTIRIPVHMV+
Sbjct: 156 QFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAI-TRAIADQARTIRIPVHMVE 214
Query: 399 SVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGA 458
+ INK R R +LQ+LG++PTPE++A+ +DMTP+KV E K +EP+SL TP GEE
Sbjct: 215 T-INKLVREQRNLLQELGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEED-- 271
Query: 459 DSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDE 518
DS L D IED P D + +L+EQL +LDTL++RE V+ +RFGL DG+ +TL++
Sbjct: 272 DSHLGDFIEDEVIENPVDYTTRIVLREQLDEILDTLTDREENVLRLRFGLDDGKMRTLED 331
Query: 519 IGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
+GKV VTRERIRQIE+K + KLR PSRS+ L D+++
Sbjct: 332 VGKVFNVTRERIRQIEAKALRKLRQPSRSKPLRDFIE 368
>ref|NP_269001.1| (NC_002737) putative RNA polymerase sigma 42 protein [Streptococcus
pyogenes] [Streptococcus pyogenes M1 GAS]
gb|AAK33722.1| (AE006529) putative RNA polymerase sigma 42 protein [Streptococcus
pyogenes M1 GAS]
Length = 369
Score = 308 bits (790), Expect = 8e-83
Identities = 178/342 (52%), Positives = 228/342 (66%), Gaps = 38/342 (11%)
Query: 215 EEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATA-DPVKDYLKQIGKVPLLNAEQEV 273
+EG P S+ V E+L + + A DPV+ YLK+IG VPLL +E+E
Sbjct: 64 KEGNPS-----SKYIVEEPKPEELTDEELIGSNSAKVNDPVRMYLKEIGVVPLLTSEEEK 118
Query: 274 ELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT 333
ELA ++ G AK L EANLRLVVS+AKRY
Sbjct: 119 ELAVAVAKG---------------------------DLMAKQRLAEANLRLVVSIAKRYV 151
Query: 334 GRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIP 393
GRG M FLDLIQEGN+GL++AV+KFDY+KG KFSTY TWWIRQAI TRA+ADQARTIRIP
Sbjct: 152 GRG-MQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAI-TRAIADQARTIRIP 209
Query: 394 VHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRG 453
VHMV++ INK R R +LQ+LG++PTPE++A+ ++MTP+KV E K +EP+SL TP G
Sbjct: 210 VHMVET-INKLVREQRNLLQELGQDPTPEQIAERMEMTPDKVREILKIAQEPVSLETPIG 268
Query: 454 EEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQP 513
EE DS L D IED P D + +L+EQL VLDTL++RE V+ +RFGL DG+
Sbjct: 269 EED--DSHLGDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326
Query: 514 KTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
+TL+++GKV VTRERIRQIE+K + KLRHPSRS+ L D+++
Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSKQLRDFIE 368
>ref|NP_607002.1| (NC_003485) putative RNA polymerase sigma 42 protein [Streptococcus
pyogenes MGAS8232]
gb|AAL97501.1| (AE010014) putative RNA polymerase sigma 42 protein [Streptococcus
pyogenes MGAS8232]
Length = 369
Score = 308 bits (790), Expect = 8e-83
Identities = 178/342 (52%), Positives = 228/342 (66%), Gaps = 38/342 (11%)
Query: 215 EEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATA-DPVKDYLKQIGKVPLLNAEQEV 273
+EG P S+ V E+L + + A DPV+ YLK+IG VPLL +E+E
Sbjct: 64 KEGNPS-----SKYIVEEPKPEELTDEELIGSNSAKVNDPVRMYLKEIGVVPLLTSEEEK 118
Query: 274 ELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYT 333
ELA ++ G AK L EANLRLVVS+AKRY
Sbjct: 119 ELAVAVAKG---------------------------DLMAKQRLAEANLRLVVSIAKRYV 151
Query: 334 GRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIP 393
GRG M FLDLIQEGN+GL++AV+KFDY+KG KFSTY TWWIRQAI TRA+ADQARTIRIP
Sbjct: 152 GRG-MQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATWWIRQAI-TRAIADQARTIRIP 209
Query: 394 VHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRG 453
VHMV++ INK R R +LQ+LG++PTPE++A+ ++MTP+KV E K +EP+SL TP G
Sbjct: 210 VHMVET-INKLVREQRNLLQELGQDPTPEQIAERMEMTPDKVREILKIAQEPVSLETPIG 268
Query: 454 EEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQP 513
EE DS L D IED P D + +L+EQL VLDTL++RE V+ +RFGL DG+
Sbjct: 269 EED--DSHLGDFIEDEVIENPVDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKM 326
Query: 514 KTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
+TL+++GKV VTRERIRQIE+K + KLRHPSRS+ L D+++
Sbjct: 327 RTLEDVGKVFNVTRERIRQIEAKALRKLRHPSRSKQLRDFIE 368
>sp|O33662|RPSD_STRMU RNA polymerase sigma factor rpoD (Sigma-42)
dbj|BAA21507.1| (AB000631) sigma 42 protein [Streptococcus mutans]
Length = 371
Score = 308 bits (788), Expect = 1e-82
Identities = 177/321 (55%), Positives = 223/321 (69%), Gaps = 36/321 (11%)
Query: 235 DEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADK 294
DE+L ++S DPV+ YLK+IG VPLL E+E ELA + G
Sbjct: 86 DEELLGSNSAKVN----DPVRMYLKEIGVVPLLTNEEEKELAIAVENG------------ 129
Query: 295 IAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRA 354
+LE AK L EANLRLVVS+AKRY GRG M FLDLIQEGN+GL++A
Sbjct: 130 -------DLE--------AKQRLAEANLRLVVSIAKRYVGRG-MQFLDLIQEGNMGLMKA 173
Query: 355 VEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQD 414
V+KFDY+KG KFSTY TWWIRQAI TRA+ADQARTIRIPVHMV++ INK R R +LQ+
Sbjct: 174 VDKFDYSKGFKFSTYATWWIRQAI-TRAIADQARTIRIPVHMVET-INKLVREQRNLLQE 231
Query: 415 LGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVP 474
LG++PTPE++A+ +DMTP+KV E K +EP+SL TP GEE DS L D IED P
Sbjct: 232 LGQDPTPEQIAERMDMTPDKVREILKIAQEPVSLETPIGEED--DSHLGDFIEDEVIENP 289
Query: 475 PDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIE 534
D + +L+EQL VLDTL++RE V+ +RFGL DG+ +TL+++GKV VTRERIRQIE
Sbjct: 290 VDYTTRVVLREQLDEVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFDVTRERIRQIE 349
Query: 535 SKTMSKLRHPSRSQVLTDYLD 555
+K + KLRHPSRS+ L D+++
Sbjct: 350 AKALRKLRHPSRSKQLRDFVE 370
>sp|Q04506|RPSD_LACLA RNA polymerase sigma factor rpoD (Sigma-42)
Length = 386
Score = 306 bits (785), Expect = 3e-82
Identities = 186/393 (47%), Positives = 247/393 (62%), Gaps = 33/393 (8%)
Query: 164 KKAAAKNVTAKKTAKKATAKKTAAKKTAAKNVVDELLDDEAEEKPITGKP--GEEGAPEG 221
+KA +T +K +A ++ + + +VD+ L+D ++ G ++G P
Sbjct: 25 EKAVKSYITKRKPLGEALDEEIMDELSVKFGIVDDALEDLFKQIQDAGISIVDKDGNPSP 84
Query: 222 TGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISA 281
+ + ++ D A V DPV+ YLK+IG+ PL++ ++E +LA+ I A
Sbjct: 85 LALVTDE-IEKEEVSDTAMDEIVTNVRID-DPVRMYLKEIGRYPLISLDEETKLAEAIIA 142
Query: 282 GLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFL 341
G E AK L EANLRLVVS+AKRY+GRG M FL
Sbjct: 143 G------------------------GEGAEFAKQMLAEANLRLVVSIAKRYSGRG-MQFL 177
Query: 342 DLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVI 401
DLIQEGN+GL++AV+KFD+TKG KFSTY TWWIRQAI TRA+ADQARTIRIPVHMV++ I
Sbjct: 178 DLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAI-TRAIADQARTIRIPVHMVET-I 235
Query: 402 NKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSE 461
NK RV R +LQ+LGR+P+PEE+ KEL M P+KV E K +EP+SL TP GEE DS
Sbjct: 236 NKLIRVQRNLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEPVSLETPIGEED--DSH 293
Query: 462 LRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGK 521
L D IED P D + LL+EQL V+DTL++RE V+ MRFGL DG+ TL+++GK
Sbjct: 294 LGDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLEDVGK 353
Query: 522 VSGVTRERIRQIESKTMSKLRHPSRSQVLTDYL 554
VTRERIRQIE+K + KLRHP RS+ L D++
Sbjct: 354 QFKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 386
>ref|NP_266709.1| (NC_002662) major RNA polymerase sigma factor [Lactococcus lactis
subsp. lactis]
gb|AAK04651.1|AE006289_2 (AE006289) major RNA polymerase sigma factor [Lactococcus lactis
subsp. lactis]
Length = 447
Score = 306 bits (785), Expect = 3e-82
Identities = 186/393 (47%), Positives = 247/393 (62%), Gaps = 33/393 (8%)
Query: 164 KKAAAKNVTAKKTAKKATAKKTAAKKTAAKNVVDELLDDEAEEKPITGKP--GEEGAPEG 221
+KA +T +K +A ++ + + +VD+ L+D ++ G ++G P
Sbjct: 86 EKAVKSYITKRKPLGEALDEEIMDELSVKFGIVDDALEDLFKQIQDAGISIVDKDGNPSP 145
Query: 222 TGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISA 281
+ + ++ D A V DPV+ YLK+IG+ PL++ ++E +LA+ I A
Sbjct: 146 LALVTDE-IEKEEVSDTAMDEIVTNVRID-DPVRMYLKEIGRYPLISLDEETKLAEAIIA 203
Query: 282 GLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFL 341
G E AK L EANLRLVVS+AKRY+GRG M FL
Sbjct: 204 G------------------------GEGAEFAKQMLAEANLRLVVSIAKRYSGRG-MQFL 238
Query: 342 DLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVI 401
DLIQEGN+GL++AV+KFD+TKG KFSTY TWWIRQAI TRA+ADQARTIRIPVHMV++ I
Sbjct: 239 DLIQEGNMGLMKAVDKFDHTKGFKFSTYATWWIRQAI-TRAIADQARTIRIPVHMVET-I 296
Query: 402 NKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSE 461
NK RV R +LQ+LGR+P+PEE+ KEL M P+KV E K +EP+SL TP GEE DS
Sbjct: 297 NKLIRVQRNLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEPVSLETPIGEED--DSH 354
Query: 462 LRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGK 521
L D IED P D + LL+EQL V+DTL++RE V+ MRFGL DG+ TL+++GK
Sbjct: 355 LGDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLEDVGK 414
Query: 522 VSGVTRERIRQIESKTMSKLRHPSRSQVLTDYL 554
VTRERIRQIE+K + KLRHP RS+ L D++
Sbjct: 415 QFKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 447
>pir||JC1397 transcription initiation factor sigma, major - Lactococcus lactis
dbj|BAA01038.1| (D10168) RNA polymerase sigma factor [Lactococcus lactis]
Length = 340
Score = 305 bits (782), Expect = 6e-82
Identities = 171/303 (56%), Positives = 213/303 (69%), Gaps = 29/303 (9%)
Query: 252 DPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGR 311
DPV+ YLK+IG+ PL++ ++E +LA+ I AG E
Sbjct: 67 DPVRMYLKEIGRYPLISLDEETKLAEAIIAG------------------------GEGAE 102
Query: 312 RAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHT 371
AK L EANLRLVVS+AKRY+GRG M FLDLIQEGN+GL++AV+KFD+TKG KFSTY T
Sbjct: 103 FAKQMLAEANLRLVVSIAKRYSGRG-MQFLDLIQEGNMGLMKAVDKFDHTKGFKFSTYAT 161
Query: 372 WWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMT 431
WWIRQAI TRA+ADQARTIRIPVHMV++ INK RV R +LQ+LGR+P+PEE+ KEL M
Sbjct: 162 WWIRQAI-TRAIADQARTIRIPVHMVET-INKLIRVQRNLLQELGRDPSPEEIGKELHMA 219
Query: 432 PEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVL 491
P+KV E K +EP+SL TP GEE DS L D IED P D + LL+EQL V+
Sbjct: 220 PDKVREVLKIAQEPVSLETPIGEED--DSHLGDFIEDDVIESPVDYTNRILLREQLDEVM 277
Query: 492 DTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLT 551
DTL++RE V+ MRFGL DG+ TL+++GK VTRERIRQIE+K + KLRHP RS+ L
Sbjct: 278 DTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPLR 337
Query: 552 DYL 554
D++
Sbjct: 338 DFM 340
>gb|AAK09322.1|AF320818_1 (AF320818) sigma factor SigB [Brevibacterium flavum]
Length = 331
Score = 305 bits (780), Expect = 1e-81
Identities = 171/333 (51%), Positives = 227/333 (67%), Gaps = 6/333 (1%)
Query: 222 TGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISA 281
T +Q ++ + D + D V+ YL IGK LL AE EVELA+ I
Sbjct: 2 TAPSTQDLATTEREVDPGSRRGQTNDNPSQDLVRVYLNGIGKTALLTAEDEVELAQTIEV 61
Query: 282 GLFAEDKLANADK-IAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLF 340
GL+AE L N+++ + +K +L+++A+DG++A++HLLEANLRLVVSLAKRYTGRG L
Sbjct: 62 GLYAEHLLKNSEEPLTRAMKRDLKVLAKDGKKARSHLLEANLRLVVSLAKRYTGRGMPL- 120
Query: 341 LDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSV 400
LDLIQEGNLGLIRA+EKFDY+KG KFSTY TWWIRQAI TR MADQ+RTIR+PVH+V+ V
Sbjct: 121 LDLIQEGNLGLIRAMEKFDYSKGFKFSTYATWWIRQAI-TRGMADQSRTIRLPVHLVEQV 179
Query: 401 INKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADS 460
NK +R+ R+M Q LGRE T EELA+E + K+ + R+P+SL P G A ++
Sbjct: 180 -NKLSRIKREMYQHLGREATNEELAEESGIEESKIEMLLRQSRDPVSLDMPVG--ADEEA 236
Query: 461 ELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIG 520
L D IEDSEA AV ++ + +VL+TL RE V+ +R+GL DG P+TLD+IG
Sbjct: 237 PLGDFIEDSEATDAESAVVASMRHSDIRAVLNTLEPREQDVIRLRYGLDDGVPRTLDQIG 296
Query: 521 KVSGVTRERIRQIESKTMSKLRHPSRSQVLTDY 553
+ G++RER+RQIE + MSKLR R+ L +Y
Sbjct: 297 RRFGLSRERVRQIEREVMSKLRDGERASRLREY 329
>sp|P58290|RSPD_LACLC RNA polymerase sigma factor rpoD (Sigma-42)
Length = 364
Score = 305 bits (780), Expect = 1e-81
Identities = 186/393 (47%), Positives = 246/393 (62%), Gaps = 33/393 (8%)
Query: 164 KKAAAKNVTAKKTAKKATAKKTAAKKTAAKNVVDELLDDEAEEKPITGKP--GEEGAPEG 221
+KA +T +K +A ++ + + +VD+ L+D ++ G ++G P
Sbjct: 3 EKAVKGYITKRKPLGEALDEEIMDELSVKFGIVDDALEDLFKQIQDAGISIVDKDGNPSP 62
Query: 222 TGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISA 281
+ + ++ D A V DPV+ YLK+IG+ PL++ ++E +LA+ I A
Sbjct: 63 LALVTDE-IEKEEVSDTAMDEIVTNVRID-DPVRMYLKEIGRYPLISLDEETKLAEAIIA 120
Query: 282 GLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFL 341
G E AK L EANLRLVVS+AKRY+GRG M FL
Sbjct: 121 G------------------------GEGAEFAKQMLAEANLRLVVSIAKRYSGRG-MQFL 155
Query: 342 DLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVI 401
DLIQEGN+GL++AV+KFD TKG KFSTY TWWIRQAI TRA+ADQARTIRIPVHMV++ I
Sbjct: 156 DLIQEGNMGLMKAVDKFDQTKGFKFSTYATWWIRQAI-TRAIADQARTIRIPVHMVET-I 213
Query: 402 NKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSE 461
NK RV R +LQ+LGR+P+PEE+ KEL M P+KV E K +EP+SL TP GEE DS
Sbjct: 214 NKLIRVQRNLLQELGRDPSPEEIGKELHMAPDKVREVLKIAQEPVSLETPIGEED--DSH 271
Query: 462 LRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGK 521
L D IED P D + LL+EQL V+DTL++RE V+ MRFGL DG+ TL+++GK
Sbjct: 272 LGDFIEDDVIESPVDYTNRILLREQLDEVMDTLTDREENVLRMRFGLDDGRMHTLEDVGK 331
Query: 522 VSGVTRERIRQIESKTMSKLRHPSRSQVLTDYL 554
VTRERIRQIE+K + KLRHP RS+ L D++
Sbjct: 332 QFKVTRERIRQIEAKAIKKLRHPRRSKPLRDFM 364
>pir||S38349 transcription initiation factor sigma, major - Lactococcus lactis
emb|CAA50594.1| (X71493) major sigma factor [Lactococcus lactis]
Length = 340
Score = 304 bits (779), Expect = 1e-81
Identities = 171/303 (56%), Positives = 212/303 (69%), Gaps = 29/303 (9%)
Query: 252 DPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGR 311
DPV+ YLK+IG+ PL++ ++E +LA+ I AG E
Sbjct: 67 DPVRMYLKEIGRYPLISLDEETKLAEAIIAG------------------------GEGAE 102
Query: 312 RAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHT 371
AK L EANLRLVVS+AKRY+GRG M FLDLIQEGN+GL++AV+KFD TKG KFSTY T
Sbjct: 103 FAKQMLAEANLRLVVSIAKRYSGRG-MQFLDLIQEGNMGLMKAVDKFDQTKGFKFSTYAT 161
Query: 372 WWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMT 431
WWIRQAI TRA+ADQARTIRIPVHMV++ INK RV R +LQ+LGR+P+PEE+ KEL M
Sbjct: 162 WWIRQAI-TRAIADQARTIRIPVHMVET-INKLIRVQRNLLQELGRDPSPEEIGKELHMA 219
Query: 432 PEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVL 491
P+KV E K +EP+SL TP GEE DS L D IED P D + LL+EQL V+
Sbjct: 220 PDKVREVLKIAQEPVSLETPIGEED--DSHLGDFIEDDVIESPVDYTNRILLREQLDEVM 277
Query: 492 DTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLT 551
DTL++RE V+ MRFGL DG+ TL+++GK VTRERIRQIE+K + KLRHP RS+ L
Sbjct: 278 DTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPLR 337
Query: 552 DYL 554
D++
Sbjct: 338 DFM 340
>ref|NP_601125.1| (NC_003450) COG0568:DNA-directed RNA polymerase sigma subunits
(sigma70/sigma32) [Corynebacterium glutamicum]
emb|CAA89988.1| (Z49824) SigB sigma factor [Corynebacterium glutamicum]
Length = 331
Score = 303 bits (777), Expect = 2e-81
Identities = 170/333 (51%), Positives = 227/333 (68%), Gaps = 6/333 (1%)
Query: 222 TGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISA 281
T +Q ++ + D + D V+ YL IGK LL AE EVELA+ I
Sbjct: 2 TAPSTQDLATTEREVDPGSRRGQTNDNPSQDLVRVYLNGIGKTALLTAEDEVELAQTIEV 61
Query: 282 GLFAEDKLANADK-IAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLF 340
GL+AE L N+++ + +K +L+++A+DG++A++HLLEANLRLVVSLAKRYTGRG L
Sbjct: 62 GLYAEHLLKNSEEPLTRAMKRDLKVLAKDGKKARSHLLEANLRLVVSLAKRYTGRGMPL- 120
Query: 341 LDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSV 400
LDLIQEGNLGLIRA+EKFDY+KG KFSTY TWWIRQAI TR MADQ+RTIR+PVH+V+ V
Sbjct: 121 LDLIQEGNLGLIRAMEKFDYSKGFKFSTYATWWIRQAI-TRGMADQSRTIRLPVHLVEQV 179
Query: 401 INKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADS 460
NK +R+ R++ Q LGRE T EELA+E + K+ + R+P+SL P G A ++
Sbjct: 180 -NKLSRIKRELYQHLGREATNEELAEESGIEESKIEMLLRQSRDPVSLDMPVG--ADEEA 236
Query: 461 ELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIG 520
L D IEDSEA AV ++ + +VL+TL RE V+ +R+GL DG P+TLD+IG
Sbjct: 237 PLGDFIEDSEATDAESAVVASMRHSDIRAVLNTLEPREQDVIRLRYGLDDGVPRTLDQIG 296
Query: 521 KVSGVTRERIRQIESKTMSKLRHPSRSQVLTDY 553
+ G++RER+RQIE + MSKLR R+ L +Y
Sbjct: 297 RRFGLSRERVRQIEREVMSKLRDGERASRLREY 329
>prf||1908232B RNA polymerase:SUBUNIT=sigma factor [Lactococcus lactis]
Length = 340
Score = 303 bits (776), Expect = 3e-81
Identities = 170/303 (56%), Positives = 212/303 (69%), Gaps = 29/303 (9%)
Query: 252 DPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGR 311
DPV+ YLK+IG+ PL++ ++E +LA+ I AG E
Sbjct: 67 DPVRMYLKEIGRYPLISLDEETKLAEAIIAG------------------------GEGAE 102
Query: 312 RAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHT 371
AK L EANLRLVVS+AKRY+GRG FLDLIQEGN+GL++AV+KFD+TKG KFSTY T
Sbjct: 103 FAKQMLAEANLRLVVSIAKRYSGRGNQ-FLDLIQEGNMGLMKAVDKFDHTKGFKFSTYAT 161
Query: 372 WWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMT 431
WWIRQAI TRA+ADQARTIRIPVHMV++ INK RV R +LQ+LGR+P+PEE+ KEL M
Sbjct: 162 WWIRQAI-TRAIADQARTIRIPVHMVET-INKLIRVQRNLLQELGRDPSPEEIGKELHMA 219
Query: 432 PEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVL 491
P+KV E K +EP+SL TP GEE DS L D IED P D + LL+EQL V+
Sbjct: 220 PDKVREVLKIAQEPVSLETPIGEED--DSHLGDFIEDDVIESPVDYTNRILLREQLDEVM 277
Query: 492 DTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLT 551
DTL++RE V+ MRFGL DG+ TL+++GK VTRERIRQIE+K + KLRHP RS+ L
Sbjct: 278 DTLTDREENVLRMRFGLDDGRMHTLEDVGKQFKVTRERIRQIEAKAIKKLRHPRRSKPLR 337
Query: 552 DYL 554
D++
Sbjct: 338 DFM 340
>gb|AAB07554.1| (U67722) SigD [Chloroflexus aurantiacus]
Length = 398
Score = 294 bits (753), Expect = 1e-78
Identities = 172/360 (47%), Positives = 233/360 (63%), Gaps = 15/360 (4%)
Query: 198 ELLDDEAEEKPITGKPGEEGAPEGTGGE--SQGFVRSDDDEDLAPAHSVAAAGATADPVK 255
EL+D G P +EG E S + D D++L+ A +D V+
Sbjct: 50 ELIDSIYAALAEAGVPVQEGDETALDDEPSSPATMDLDLDDELSDA-------LLSDSVR 102
Query: 256 DYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKN 315
YL++IG+VPLL AEQE LA+ I G AE KLA +P+ L+ + G A++
Sbjct: 103 LYLREIGQVPLLTAEQEKRLAQLIEQGQEAERKLATLPPDSPEA-ARLKQLKAKGEEARH 161
Query: 316 HLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIR 375
+ ANLRLVVS+AKRY RG L LDLIQEG+LGL+RA+EKFDYTKG KFSTY TWWI+
Sbjct: 162 EMAAANLRLVVSIAKRYRDRGLPL-LDLIQEGSLGLLRAIEKFDYTKGYKFSTYATWWIK 220
Query: 376 QAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKV 435
QA++ RA+ADQ+R +R+PVH+ ++ +N+ RQ+ Q LGREPT ELA L M+ EK+
Sbjct: 221 QALS-RALADQSRLVRLPVHLGET-LNRIQSARRQLTQSLGREPTDTELANHLGMSEEKL 278
Query: 436 IERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLS 495
+ ++P+SL TP GEEA +S L D I D A+ DA + ++++Q+ + LD LS
Sbjct: 279 ATVRRTAQDPVSLATPVGEEA--NSTLADFIPDPHALDADDAAASGIVRQQITAALDQLS 336
Query: 496 EREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
ERE V+ +R+GL DGQP+TL+E+GK GVTRER+RQIE K + KLRHP ++L DYLD
Sbjct: 337 ERERRVLELRYGLVDGQPRTLEEVGKAFGVTRERVRQIEVKALRKLRHPRLGKLLKDYLD 396
>dbj|BAA74758.1| (AB017014) principal sigma factor [Thermus thermophilus]
Length = 423
Score = 292 bits (748), Expect = 6e-78
Identities = 196/442 (44%), Positives = 260/442 (58%), Gaps = 81/442 (18%)
Query: 175 KTAKKATAKKTAAKKTAAKNVVDELLDDEAEEKPI--TGKPGEE-------------GAP 219
K +K+ A+ A++T + L+ +EAEE P G+P + P
Sbjct: 2 KKSKRKNAQAQEAQET------EVLVQEEAEELPEFPEGEPDPDLEDPDLALEDDLLDLP 55
Query: 220 EGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRI 279
E E +G +++EDL P ++ T+DPV+ YL +IG+VPLL E+EVELA+++
Sbjct: 56 E----EGEGLDLEEEEEDL-PIPKIS----TSDPVRQYLHEIGQVPLLTLEEEVELARKV 106
Query: 280 SAGLFAEDKLANADKIAPKLKCEL---------------------------EI------- 305
G+ A KL+ + P L E+ EI
Sbjct: 107 EEGMEAIKKLSEITGLDPDLIREVVRAKILGSARVRHIPGLKETLDPKTVEEIDQKLKSL 166
Query: 306 ---------IAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVE 356
IA +G A+ HL+EANLRLVVS+AK+YTGRG + FLDLIQEGN GLIRAVE
Sbjct: 167 PKEHKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRG-LSFLDLIQEGNQGLIRAVE 225
Query: 357 KFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLG 416
KF+Y + KFSTY TWWIRQAIN RA+ADQARTIRIPVHMV++ INK +R RQ+ Q+LG
Sbjct: 226 KFEYKRRFKFSTYATWWIRQAIN-RAIADQARTIRIPVHMVET-INKLSRTARQLQQELG 283
Query: 417 REPTPEELAKELD--MTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVP 474
REPT EE+A+ + ++V E K +EP+SL TP G+E DS D I D P
Sbjct: 284 REPTYEEIAEAMGPGWDAKRVEETLKIAQEPVSLETPIGDEK--DSFYGDFIPDEHLPSP 341
Query: 475 PDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIE 534
DA + +LL E+L L LSEREA V+ +R GL DG+ TL+E+G GVTRERIRQIE
Sbjct: 342 VDAATQSLLSEELEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAFFGVTRERIRQIE 401
Query: 535 SKTMSKLR-HPSRSQVLTDYLD 555
+K + KL+ H SR++ L D+LD
Sbjct: 402 NKALRKLKYHESRTRKLRDFLD 423
>gb|AAG36964.1|AF291720_1 (AF291720) sigma factor SigA [Thermus aquaticus]
Length = 438
Score = 290 bits (741), Expect = 4e-77
Identities = 192/451 (42%), Positives = 264/451 (57%), Gaps = 66/451 (14%)
Query: 157 EESEQPVKKAAAKNVTAKKTAKKATAKKTAAKKTAAKNVVD------ELLDDEAEEKPIT 210
++S+ K A A+ V K+ K+ + + AA+++ D ELL E E + +
Sbjct: 2 KKSKSKKKAAKAQEVEVKEPVKEP---EPLPELEAAEDLQDLPEPDPELLASEPELEDLA 58
Query: 211 GKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAE 270
EG E +G + +++E P S T+DPV+ YL +IG+VPLL E
Sbjct: 59 DPLDLEGPLEADLLPEEGLLEEEEEELSLPKVS------TSDPVRQYLHEIGQVPLLTLE 112
Query: 271 QEVELAKRISAGLFAEDKLANA-----------------------------DKIAPKLKC 301
+E++LA+++ G+ A KL+ A +K PK
Sbjct: 113 EEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQKIPGLKEKPDPKTVE 172
Query: 302 ELE--------------IIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEG 347
E++ IA +G A+ HL+EANLRLVVS+AK+YTGRG + FLDLIQEG
Sbjct: 173 EVDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRG-LSFLDLIQEG 231
Query: 348 NLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARV 407
N GLIRAVEKF+Y + KFSTY TWWIRQAIN RA+ADQARTIRIPVHMV++ INK +R
Sbjct: 232 NQGLIRAVEKFEYKRRFKFSTYATWWIRQAIN-RAIADQARTIRIPVHMVET-INKLSRT 289
Query: 408 TRQMLQDLGREPTPEELAKELD--MTPEKVIERAKYGREPISLHTPRGEEAGADSELRDL 465
RQ+ Q+LGREP+ EE+A+ + ++V E K +EP+SL TP G+E DS D
Sbjct: 290 ARQLQQELGREPSYEEIAEAMGPGWDAKRVEETLKIAQEPVSLETPIGDEK--DSFYGDF 347
Query: 466 IEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGV 525
I D P +A + +LL E+L L LSEREA V+ +R GL DG+ TL+E+G GV
Sbjct: 348 IPDENLPSPVEAAAQSLLSEELEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGV 407
Query: 526 TRERIRQIESKTMSKLR-HPSRSQVLTDYLD 555
TRERIRQIE+K + KL+ H SR++ L D+L+
Sbjct: 408 TRERIRQIENKALRKLKYHESRTRKLRDFLE 438
>ref|NP_294640.1| (NC_001263) RNA polymerase sigma-A factor [Deinococcus radiodurans]
Length = 360
Score = 284 bits (726), Expect = 2e-75
Identities = 175/368 (47%), Positives = 228/368 (61%), Gaps = 16/368 (4%)
Query: 191 AAKNVVDELLDDEAEEKPITGKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGAT 250
A +N+ + LD++ +E EG T G ++ D+D +
Sbjct: 6 AGQNIEVQDLDEDEDEL--------EGDDADTEDAVPGTAQAQQDDDEEKYFDDMPRAVS 57
Query: 251 ADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDG 310
DPV+ YL +IG+V LL E+E+ LA+RI G A +L + + + + L EDG
Sbjct: 58 NDPVRQYLHEIGRVSLLTLEEEIALARRIEEGEEARKQLEEDESLDDRSRRRLMRQMEDG 117
Query: 311 RRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYH 370
A+ L+EANLRLVVS+AK+YTGRG + FLDLIQEGN GLIRAVEKF+Y + KFSTY
Sbjct: 118 AAARQGLIEANLRLVVSIAKKYTGRG-LGFLDLIQEGNQGLIRAVEKFEYRRRYKFSTYA 176
Query: 371 TWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKEL-- 428
TWWIRQAIN RA+ADQARTIRIPVHMV++ INK R RQ+ Q+L RE T EE+A+ +
Sbjct: 177 TWWIRQAIN-RAIADQARTIRIPVHMVET-INKLTRTARQLQQELSREATHEEIAEAMGP 234
Query: 429 DMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLH 488
KV E K +EP+SL TP G+E DS D I D P D + TLL E+L
Sbjct: 235 GWDAAKVEEVQKVSQEPVSLETPIGDE--KDSFYGDFIPDENLDSPVDNAAKTLLSEELE 292
Query: 489 SVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLR-HPSRS 547
L L+EREA V+ R GL DG+ TL+E+G+ VTRERIRQIE+K + KL+ H SR+
Sbjct: 293 KALGKLTEREAMVLKFRKGLVDGREHTLEEVGQRFSVTRERIRQIENKALRKLKYHESRT 352
Query: 548 QVLTDYLD 555
+ L D+LD
Sbjct: 353 RKLRDFLD 360
>gb|AAB07551.1| (U67719) SigA [Chloroflexus aurantiacus]
Length = 343
Score = 282 bits (722), Expect = 6e-75
Identities = 154/312 (49%), Positives = 211/312 (67%), Gaps = 5/312 (1%)
Query: 233 DDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANA 292
D D DL A DPV+ YL++IG+VPLL AEQEVELAK + AG A +L
Sbjct: 26 DPDADLIADLPDLGDIAFDDPVRMYLQEIGQVPLLTAEQEVELAKAMEAGAAARQRLDRE 85
Query: 293 DKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLI 352
D P+ + ELE + G+ A++HL++ANLRLVVS+AK+YT G + +DL+QEGN+GL+
Sbjct: 86 DTPRPRARFELERAVQQGQDARHHLIQANLRLVVSIAKKYTSYG-LTMMDLVQEGNIGLM 144
Query: 353 RAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQML 412
RAVEKFDY KG KFSTY TWWIRQAI TRA+ADQ+RTIR+PVHM ++ I++ R + ++
Sbjct: 145 RAVEKFDYKKGHKFSTYATWWIRQAI-TRAIADQSRTIRLPVHMGEA-ISQVKRTSHRLQ 202
Query: 413 QDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAV 472
Q + R+ TPEE+A + ++ KV + P+SL P G+E + + D IED
Sbjct: 203 QTMQRDATPEEIADAMGISAGKVRRTLEASMHPLSLEMPVGQE--GEGRMGDFIEDDRIS 260
Query: 473 VPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQ 532
P +A + +LL+EQL VL L ERE ++ +R+GL DG+ +TL+E+G G+TRERIRQ
Sbjct: 261 TPAEAPAASLLREQLEEVLMKLPERERKIIQLRYGLKDGRYRTLEEVGIEFGITRERIRQ 320
Query: 533 IESKTMSKLRHP 544
IE+ + KLRHP
Sbjct: 321 IEAVALRKLRHP 332
>prf||2208419B RNA polymerase sigma factor [Synechococcus sp.]
Length = 391
Score = 280 bits (717), Expect = 2e-74
Identities = 161/318 (50%), Positives = 224/318 (69%), Gaps = 19/318 (5%)
Query: 250 TADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAE---DKLANADKIAPKLKCELEII 306
T D ++ YL++IG++ LL AE+E+ELA++I+ L E ++L + P K E
Sbjct: 79 TEDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERMREQLTEHESRVPTDKEWAEAA 138
Query: 307 AED----------GRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVE 356
GRRAK+ ++++NLRLVVS+AK+Y RG + F DLIQEG+LGLIRA E
Sbjct: 139 GMPLKDFRRRLFHGRRAKDKMVQSNLRLVVSIAKKYMNRG-LSFQDLIQEGSLGLIRAAE 197
Query: 357 KFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLG 416
KFD+ KG KFSTY TWWIRQAI TRA+ADQ+RTIR+PVH+ ++ I++ + T+ + Q+LG
Sbjct: 198 KFDHEKGYKFSTYATWWIRQAI-TRAIADQSRTIRLPVHLYET-ISRIKKTTKILSQELG 255
Query: 417 REPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPD 476
R+PT EE+A+ ++MT EK+ AK + PISL TP G+E DS L D IE ++ P D
Sbjct: 256 RKPTEEEIAERMEMTIEKLRFIAKSAQLPISLETPIGKEE--DSRLGDFIE-ADGETPED 312
Query: 477 AVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESK 536
VS +LL+E L +VLDTLS RE V+ +R+GL DG+ KTL+EIG++ VTRERIRQIE+K
Sbjct: 313 QVSKSLLREDLENVLDTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAK 372
Query: 537 TMSKLRHPSRSQVLTDYL 554
+ KLRHP+R+ +L +Y+
Sbjct: 373 ALRKLRHPNRNSILKEYI 390
>gb|AAB41506.1| (U15574) SigA [Synechococcus sp. PCC 7002]
Length = 375
Score = 280 bits (717), Expect = 2e-74
Identities = 161/318 (50%), Positives = 224/318 (69%), Gaps = 19/318 (5%)
Query: 250 TADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAE---DKLANADKIAPKLKCELEII 306
T D ++ YL++IG++ LL AE+E+ELA++I+ L E ++L + P K E
Sbjct: 63 TEDSIRIYLQEIGRIRLLRAEEEIELARKIADLLELERMREQLTEHESRVPTDKEWAEAA 122
Query: 307 AED----------GRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVE 356
GRRAK+ ++++NLRLVVS+AK+Y RG + F DLIQEG+LGLIRA E
Sbjct: 123 GMPLKDFRRRLFHGRRAKDKMVQSNLRLVVSIAKKYMNRG-LSFQDLIQEGSLGLIRAAE 181
Query: 357 KFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLG 416
KFD+ KG KFSTY TWWIRQAI TRA+ADQ+RTIR+PVH+ ++ I++ + T+ + Q+LG
Sbjct: 182 KFDHEKGYKFSTYATWWIRQAI-TRAIADQSRTIRLPVHLYET-ISRIKKTTKILSQELG 239
Query: 417 REPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPD 476
R+PT EE+A+ ++MT EK+ AK + PISL TP G+E DS L D IE ++ P D
Sbjct: 240 RKPTEEEIAERMEMTIEKLRFIAKSAQLPISLETPIGKEE--DSRLGDFIE-ADGETPED 296
Query: 477 AVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESK 536
VS +LL+E L +VLDTLS RE V+ +R+GL DG+ KTL+EIG++ VTRERIRQIE+K
Sbjct: 297 QVSKSLLREDLENVLDTLSARERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAK 356
Query: 537 TMSKLRHPSRSQVLTDYL 554
+ KLRHP+R+ +L +Y+
Sbjct: 357 ALRKLRHPNRNSILKEYI 374
>gb|AAF73062.1|AF265349_1 (AF265349) primary vegetative sigma factor [Nostoc punctiforme]
Length = 389
Score = 280 bits (715), Expect = 4e-74
Identities = 167/378 (44%), Positives = 241/378 (63%), Gaps = 45/378 (11%)
Query: 197 DELLDDEAEEKPITGKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKD 256
D L+ DE +++ + + E+ A G +S+ +S T D ++
Sbjct: 36 DLLIIDEGDDEFLEPQSDEDDAKSGKAAKSRRRTQSKKKH------------YTEDSIRL 83
Query: 257 YLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAED------- 309
YL++IG++ LL A++E+ELA++I+ L +++ +L +L+ D
Sbjct: 84 YLQEIGRIRLLRADEEIELARKIA-------DLLELERVRERLSEQLDRDPRDSEWAEAV 136
Query: 310 -------------GRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVE 356
GRRAK+ ++++NLRLVVS+AK+Y RG + F DLIQEG+LGLIRA E
Sbjct: 137 QLPLPAFRYRLHVGRRAKDKMVQSNLRLVVSIAKKYMNRG-LSFQDLIQEGSLGLIRAAE 195
Query: 357 KFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLG 416
KFD+ KG KFSTY TWWIRQAI TRA+ADQ+RTIR+PVH+ ++ I++ + T+ + Q++G
Sbjct: 196 KFDHEKGYKFSTYATWWIRQAI-TRAIADQSRTIRLPVHLYET-ISRIKKTTKLLSQEMG 253
Query: 417 REPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPD 476
R+PT EE+A ++MT EK+ AK + PISL TP G+E DS L D IE S+ P D
Sbjct: 254 RKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPIGKEE--DSRLGDFIE-SDGETPED 310
Query: 477 AVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESK 536
VS LL+E L VLD+LS RE V+ +R+GL DG+ KTL+EIG++ VTRERIRQIE+K
Sbjct: 311 QVSKNLLREDLEKVLDSLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAK 370
Query: 537 TMSKLRHPSRSQVLTDYL 554
+ KLRHP+R+ VL +Y+
Sbjct: 371 ALRKLRHPNRNSVLKEYI 388
>ref|NP_489303.1| (NC_003272) transcription initiation factor sigma [Nostoc sp. PCC
7120]
sp|P26683|RPSD_ANASP RNA polymerase sigma factor rpoD (Sigma-A)
pir||A42724 transcription initiation factor sigma sigA - Anabaena sp. (strain
PCC 7120)
gb|AAA22043.1| (M60046) RNA polymerase sigma-subunit [Anabaena sp.]
dbj|BAB76962.1| (AP003599) transcription initiation factor sigma [Nostoc sp. PCC
7120]
Length = 390
Score = 279 bits (714), Expect = 5e-74
Identities = 166/360 (46%), Positives = 233/360 (64%), Gaps = 42/360 (11%)
Query: 224 GESQGFVRSDDDEDLAPAHSVAAAGA---------TADPVKDYLKQIGKVPLLNAEQEVE 274
G+ F+ DED A + A + T D ++ YL++IG++ LL A++E+E
Sbjct: 43 GDIDEFLEPQTDEDDAKSGKAAKSRRRTQSKKKHYTEDSIRLYLQEIGRIRLLRADEEIE 102
Query: 275 LAKRISAGLFAEDKLANADKIAPKLKCELEIIAED--------------------GRRAK 314
LA++I+ L +++ +L +LE D GRRAK
Sbjct: 103 LARKIA-------DLLELERVRERLSEKLERDPRDSEWAEAVQLPLPAFRYRLHIGRRAK 155
Query: 315 NHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWI 374
+ ++++NLRLVVS+AK+Y RG + F DLIQEG+LGLIRA EKFD+ KG KFSTY TWWI
Sbjct: 156 DKMVQSNLRLVVSIAKKYMNRG-LSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWI 214
Query: 375 RQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEK 434
RQAI TRA+ADQ+RTIR+PVH+ ++ I++ + T+ + Q++GR+PT EE+A ++MT EK
Sbjct: 215 RQAI-TRAIADQSRTIRLPVHLYET-ISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEK 272
Query: 435 VIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTL 494
+ AK + PISL TP G+E DS L D IE S+ P D VS LL+E L VLD+L
Sbjct: 273 LRFIAKSAQLPISLETPIGKEE--DSRLGDFIE-SDGETPEDQVSKNLLREDLEKVLDSL 329
Query: 495 SEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYL 554
S RE V+ +R+GL DG+ KTL+EIG++ VTRERIRQIE+K + KLRHP+R+ VL +Y+
Sbjct: 330 SPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVLKEYI 389
>dbj|BAA01749.1| (D10973) principal sigma factor [Synechococcus sp.]
Length = 384
Score = 277 bits (709), Expect = 2e-73
Identities = 165/342 (48%), Positives = 230/342 (67%), Gaps = 27/342 (7%)
Query: 234 DDEDLAPAHSVAAAGA--------TADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFA 285
DDED AAA A T D ++ YL++IG++ LL A++E+ELA++I+ L
Sbjct: 48 DDEDSVGEDEDAAAKAKAKVRKTYTEDSIRLYLQEIGRIRLLRADEEIELARQIADLLAL 107
Query: 286 E----------DKLANADKIAPKLKCELEIIAED---GRRAKNHLLEANLRLVVSLAKRY 332
E D+L + + A + L+ GRRAK+ ++++NLRLVVS+AK+Y
Sbjct: 108 ERIRDELLEQLDRLPSDAEWAAAVDSPLDEFRRRLFRGRRAKDKMVQSNLRLVVSIAKKY 167
Query: 333 TGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRI 392
RG + F DLIQEG+LGLIRA EKFD+ KG KFSTY TWWIRQAI TRA+ADQ+RTIR+
Sbjct: 168 MNRG-LSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI-TRAIADQSRTIRL 225
Query: 393 PVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPR 452
PVH+ ++ I++ + T+ + Q++GR+PT EE+A ++MT EK+ AK + PISL TP
Sbjct: 226 PVHLYET-ISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPI 284
Query: 453 GEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQ 512
G+E DS L D IE ++ P D V+ LL+E L VL TLS RE V+ +R+GL DG+
Sbjct: 285 GKEE--DSRLGDFIE-ADGETPEDEVAKNLLREDLEGVLSTLSPRERDVLRLRYGLDDGR 341
Query: 513 PKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYL 554
KTL+EIG++ VTRERIRQIE+K + KLRHP+R+ +L +Y+
Sbjct: 342 MKTLEEIGQLFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 383
>pir||S24172 transcription initiation factor sigma A - Synechococcus sp
Length = 384
Score = 276 bits (705), Expect = 5e-73
Identities = 165/342 (48%), Positives = 229/342 (66%), Gaps = 27/342 (7%)
Query: 234 DDEDLAPAHSVAAAGA--------TADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFA 285
DDED AAA A T D ++ YL++IG++ LL A++E+ELA++I+ L
Sbjct: 48 DDEDSVGEDEDAAAKAKAKVRKTYTEDSIRLYLQEIGRIRLLRADEEIELARQIADLLAL 107
Query: 286 E----------DKLANADKIAPKLKCELEIIAED---GRRAKNHLLEANLRLVVSLAKRY 332
E D+L + + A + L+ GRRAK+ + ++NLRLVVS+AK+Y
Sbjct: 108 ERIRDELLEQLDRLPSDAEWAAAVDSPLDEFRRRLFRGRRAKDKMNQSNLRLVVSIAKKY 167
Query: 333 TGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRI 392
RG + F DLIQEG+LGLIRA EKFD+ KG KFSTY TWWIRQAI TRA+ADQ+RTIR+
Sbjct: 168 MNRG-LSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAI-TRAIADQSRTIRL 225
Query: 393 PVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPR 452
PVH+ ++ I++ + T+ + Q++GR+PT EE+A ++MT EK+ AK + PISL TP
Sbjct: 226 PVHLYET-ISRIKKTTKLLSQEMGRKPTEEEIATRMEMTIEKLRFIAKSAQLPISLETPI 284
Query: 453 GEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQ 512
G+E DS L D IE ++ P D V+ LL+E L VL TLS RE V+ +R+GL DG+
Sbjct: 285 GKEE--DSRLGDFIE-ADGETPEDEVAKNLLREDLEGVLSTLSPRERDVLRLRYGLDDGR 341
Query: 513 PKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYL 554
KTL+EIG++ VTRERIRQIE+K + KLRHP+R+ +L +Y+
Sbjct: 342 MKTLEEIGQLFNVTRERIRQIEAKALRKLRHPNRNSILKEYI 383
>gb|AAC44889.2| (U67423) sigma 70-type sigma factor SigA [Thermotoga maritima]
Length = 407
Score = 275 bits (702), Expect = 1e-72
Identities = 167/356 (46%), Positives = 214/356 (59%), Gaps = 47/356 (13%)
Query: 199 LLDDEAEEKPITGKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYL 258
++++E EE+ I+ E+ E ES S + D +K YL
Sbjct: 91 IVENEPEEEEISASSDEQELEELLEKESPEIHDSSN---------------VRDSIKMYL 135
Query: 259 KQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLL 318
K+IGK+PLL QE ELA+R G ++AK L+
Sbjct: 136 KEIGKIPLLTPAQERELARRAQMG---------------------------DKKAKEKLI 168
Query: 319 EANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAI 378
+NLRLVVS+AKRY GRG + F DLIQEGN+GL++AVEKFD+ KG KFSTY TWWIRQAI
Sbjct: 169 TSNLRLVVSIAKRYMGRG-LSFQDLIQEGNIGLLKAVEKFDWRKGYKFSTYATWWIRQAI 227
Query: 379 NTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIER 438
TRA+ADQARTIRIPVHMV++ INK R+ R+ Q G EP+ EELAK + PEK+ E
Sbjct: 228 -TRAIADQARTIRIPVHMVET-INKLNRLRREYYQKHGEEPSIEELAKMMGKPPEKIKEI 285
Query: 439 AKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSERE 498
+ +E ISL +P GE+ DS + D + D P L++E+L VL TLS RE
Sbjct: 286 LEAAKETISLESPIGED--EDSSIEDFVADDSIASPKKEAMRMLMREELEKVLKTLSPRE 343
Query: 499 AGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYL 554
A V+ MR+GL DG+PKTL+E+G+ VTRERIRQIE K + KLRHPSRS+ L L
Sbjct: 344 AMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLRHPSRSKYLKSLL 399
>ref|NP_229250.1| (NC_000853) RNA polymerase sigma-A factor [Thermotoga maritima]
sp|P77994|RPSD_THEMA RNA polymerase sigma factor rpoD (Sigma-A)
pir||G72253 RNA polymerase sigma-A factor - Thermotoga maritima (strain MSB8)
gb|AAD36519.1|AE001796_11 (AE001796) RNA polymerase sigma-A factor [Thermotoga maritima]
Length = 399
Score = 275 bits (702), Expect = 1e-72
Identities = 167/356 (46%), Positives = 214/356 (59%), Gaps = 47/356 (13%)
Query: 199 LLDDEAEEKPITGKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYL 258
++++E EE+ I+ E+ E ES S + D +K YL
Sbjct: 83 IVENEPEEEEISASSDEQELEELLEKESPEIHDSSN---------------VRDSIKMYL 127
Query: 259 KQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLL 318
K+IGK+PLL QE ELA+R G ++AK L+
Sbjct: 128 KEIGKIPLLTPAQERELARRAQMG---------------------------DKKAKEKLI 160
Query: 319 EANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAI 378
+NLRLVVS+AKRY GRG + F DLIQEGN+GL++AVEKFD+ KG KFSTY TWWIRQAI
Sbjct: 161 TSNLRLVVSIAKRYMGRG-LSFQDLIQEGNIGLLKAVEKFDWRKGYKFSTYATWWIRQAI 219
Query: 379 NTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIER 438
TRA+ADQARTIRIPVHMV++ INK R+ R+ Q G EP+ EELAK + PEK+ E
Sbjct: 220 -TRAIADQARTIRIPVHMVET-INKLNRLRREYYQKHGEEPSIEELAKMMGKPPEKIKEI 277
Query: 439 AKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSERE 498
+ +E ISL +P GE+ DS + D + D P L++E+L VL TLS RE
Sbjct: 278 LEAAKETISLESPIGED--EDSSIEDFVADDSIASPKKEAMRMLMREELEKVLKTLSPRE 335
Query: 499 AGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYL 554
A V+ MR+GL DG+PKTL+E+G+ VTRERIRQIE K + KLRHPSRS+ L L
Sbjct: 336 AMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLRHPSRSKYLKSLL 391
>ref|NP_604215.1| (NC_003454) RNA polymerase sigma factor rpoD [Fusobacterium
nucleatum subsp. nucleatum ATCC 25586]
gb|AAL95514.1| (AE010636) RNA polymerase sigma factor rpoD [Fusobacterium
nucleatum subsp. nucleatum ATCC 25586]
Length = 331
Score = 272 bits (696), Expect = 6e-72
Identities = 152/302 (50%), Positives = 201/302 (66%), Gaps = 32/302 (10%)
Query: 252 DPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGR 311
+P+K YL++IG+VPLL E+E++ AK+ G
Sbjct: 59 EPIKMYLREIGQVPLLTHEEEIDYAKKAYEG---------------------------DE 91
Query: 312 RAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHT 371
A L+E+NLRLVVS+AK++T RG L LDLIQEGN+GL++AVEKF+YTKG KFSTY T
Sbjct: 92 EASKKLIESNLRLVVSIAKKHTNRGLKL-LDLIQEGNIGLMKAVEKFEYTKGYKFSTYAT 150
Query: 372 WWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMT 431
WWIRQAI TRA+ADQ RTIRIPVHM+++ INK + +R LQ+ G++ +PE LA+ L M
Sbjct: 151 WWIRQAI-TRAIADQGRTIRIPVHMIET-INKIKKESRIYLQETGKDASPEILAERLGME 208
Query: 432 PEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVL 491
+K+ + +EPISL TP G E DSEL D +ED + P +A + +L+E+L +VL
Sbjct: 209 VDKIKAIQEMNQEPISLETPVGSEE--DSELGDFVEDQKTTSPYEATNRAILREELDAVL 266
Query: 492 DTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLT 551
TLS RE V+ R+GL D PKTL+E+GK+ VTRERIRQIE K + KLRHPSR + L
Sbjct: 267 KTLSPREEKVLRYRYGLDDSSPKTLEEVGKIFNVTRERIRQIEVKALRKLRHPSRKKKLE 326
Query: 552 DY 553
D+
Sbjct: 327 DF 328
>gb|AAC26667.1| (AF071795) RNA polymerase sigma-like factor [Streptomyces bluensis]
Length = 161
Score = 272 bits (696), Expect = 6e-72
Identities = 146/165 (88%), Positives = 151/165 (91%), Gaps = 4/165 (2%)
Query: 369 YHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKEL 428
Y TWWIRQAI TRAMADQARTIRIPVHMV+ VINK ARV+RQMLQDLGREPTPEELAKEL
Sbjct: 1 YATWWIRQAI-TRAMADQARTIRIPVHMVE-VINKLARVSRQMLQDLGREPTPEELAKEL 58
Query: 429 DMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLH 488
DMTPEKVIE KYGREPISLHTP GE+ D++ DLIEDSEAVVP DAVSFTLLQEQLH
Sbjct: 59 DMTPEKVIEVQKYGREPISLHTPLGEDG--DTQFGDLIEDSEAVVPADAVSFTLLQEQLH 116
Query: 489 SVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQI 533
SVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKV GVTRERIRQI
Sbjct: 117 SVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVYGVTRERIRQI 161
>ref|NP_230168.1| (NC_002505) RNA polymerase sigma factor RpoD [Vibrio cholerae]
pir||F82312 RNA polymerase sigma factor RpoD VC0517 [imported] - Vibrio
cholerae (group O1 strain N16961)
gb|AAF93687.1| (AE004138) RNA polymerase sigma factor RpoD [Vibrio cholerae]
Length = 625
Score = 271 bits (693), Expect = 1e-71
Identities = 148/286 (51%), Positives = 199/286 (68%), Gaps = 5/286 (1%)
Query: 270 EQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHLLEANLRLVVSLA 329
EQE E+ + I E + + + + + + I RRAK ++EANLRLV+S+A
Sbjct: 344 EQEEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARRAKKEMVEANLRLVISIA 403
Query: 330 KRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQART 389
K+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFSTY TWWIRQAI TR++ADQART
Sbjct: 404 KKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI-TRSIADQART 461
Query: 390 IRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLH 449
IRIPVHM+++ INK R++RQMLQ++GREP PEELA+ + M +K+ + K +EPIS+
Sbjct: 462 IRIPVHMIET-INKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISME 520
Query: 450 TPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLT 509
TP G++ DS L D IED+ +P D+ + T L+ VL L+ REA V+ MRFG+
Sbjct: 521 TPIGDDE--DSHLGDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFGID 578
Query: 510 DGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
TL+E+GK VTRERIRQIE+K + KLRHPSRS+VL +LD
Sbjct: 579 MNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 624
Score = 45.8 bits (107), Expect = 0.001
Identities = 27/72 (37%), Positives = 40/72 (55%), Gaps = 10/72 (13%)
Query: 222 TGGESQGFVRSDD----DEDLAPAHSVAAA------GATADPVKDYLKQIGKVPLLNAEQ 271
T ++ SDD DED A A + A + G T DPV+ Y++++G V LL E
Sbjct: 58 TAPDADDLALSDDTTITDEDAAEAAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREG 117
Query: 272 EVELAKRISAGL 283
E+++AKRI G+
Sbjct: 118 EIDIAKRIEDGI 129
>ref|NP_404281.1| (NC_003143) RNA polymerase sigma factor RpoD [Yersinia pestis]
emb|CAC89497.1| (AJ414143) RNA polymerase sigma factor RpoD [Yersinia pestis]
Length = 612
Score = 269 bits (688), Expect = 5e-71
Identities = 142/245 (57%), Positives = 185/245 (74%), Gaps = 5/245 (2%)
Query: 311 RRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYH 370
RRAK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFSTY
Sbjct: 372 RRAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 430
Query: 371 TWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDM 430
TWWIRQAI TR++ADQARTIRIPVHM+++ INK R++RQMLQ++GREPTPEELA+ + M
Sbjct: 431 TWWIRQAI-TRSIADQARTIRIPVHMIET-INKLNRISRQMLQEMGREPTPEELAERMLM 488
Query: 431 TPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSV 490
+K+ + K +EPIS+ TP G++ DS L D IED+ +P D+ + L+ H V
Sbjct: 489 PEDKIRKVLKIAKEPISMETPIGDDE--DSHLGDFIEDTTLELPLDSATSESLRSATHDV 546
Query: 491 LDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVL 550
L L+ REA V+ MRFG+ TL+E+GK VTRERIRQIE+K + KLRHPSRS+VL
Sbjct: 547 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 606
Query: 551 TDYLD 555
+LD
Sbjct: 607 RSFLD 611
Score = 43.1 bits (100), Expect = 0.008
Identities = 22/56 (39%), Positives = 35/56 (62%), Gaps = 4/56 (7%)
Query: 232 SDDDEDLAPAHSVAAA----GATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGL 283
+DDD A A +++ G T DPV+ Y++++G V LL E E+++AKRI G+
Sbjct: 74 TDDDAAEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGI 129
>ref|NP_289642.1| (NC_002655) RNA polymerase, sigma(70) factor; regulation of
proteins induced at high temperatures [Escherichia coli
O157:H7 EDL933]
ref|NP_311977.1| (NC_002695) RNA polymerase sigma 70 factor RpoD [Escherichia coli
O157:H7]
gb|AAG58201.1|AE005536_2 (AE005536) RNA polymerase, sigma(70) factor; regulation of proteins
induced at high temperatures [Escherichia coli O157:H7
EDL933]
dbj|BAB37373.1| (AP002564) RNA polymerase sigma 70 factor RpoD [Escherichia coli
O157:H7]
Length = 613
Score = 269 bits (687), Expect = 7e-71
Identities = 142/245 (57%), Positives = 185/245 (74%), Gaps = 5/245 (2%)
Query: 311 RRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYH 370
RRAK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFSTY
Sbjct: 373 RRAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 431
Query: 371 TWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDM 430
TWWIRQAI TR++ADQARTIRIPVHM+++ INK R++RQMLQ++GREPTPEELA+ + M
Sbjct: 432 TWWIRQAI-TRSIADQARTIRIPVHMIET-INKLNRISRQMLQEMGREPTPEELAERMLM 489
Query: 431 TPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSV 490
+K+ + K +EPIS+ TP G++ DS L D IED+ +P D+ + L+ H V
Sbjct: 490 PEDKIRKVLKIAKEPISMETPIGDDE--DSHLGDFIEDTTLELPLDSATTESLRAATHDV 547
Query: 491 LDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVL 550
L L+ REA V+ MRFG+ TL+E+GK VTRERIRQIE+K + KLRHPSRS+VL
Sbjct: 548 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 607
Query: 551 TDYLD 555
+LD
Sbjct: 608 RSFLD 612
Score = 42.0 bits (97), Expect = 0.017
Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 6/55 (10%)
Query: 235 DEDLAPAHSVAAA------GATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGL 283
DED A A + + G T DPV+ Y++++G V LL E E+++AKRI G+
Sbjct: 73 DEDAAEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGI 127
>gb|AAB60181.1| (U23083) RNA polymerase sigma-subunit [Escherichia coli]
Length = 603
Score = 269 bits (687), Expect = 7e-71
Identities = 142/245 (57%), Positives = 185/245 (74%), Gaps = 5/245 (2%)
Query: 311 RRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYH 370
RRAK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFSTY
Sbjct: 363 RRAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 421
Query: 371 TWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDM 430
TWWIRQAI TR++ADQARTIRIPVHM+++ INK R++RQMLQ++GREPTPEELA+ + M
Sbjct: 422 TWWIRQAI-TRSIADQARTIRIPVHMIET-INKLNRISRQMLQEMGREPTPEELAERMLM 479
Query: 431 TPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSV 490
+K+ + K +EPIS+ TP G++ DS L D IED+ +P D+ + L+ H V
Sbjct: 480 PEDKIRKVLKIAKEPISMETPIGDDE--DSHLGDFIEDTTLELPLDSATTESLRAATHDV 537
Query: 491 LDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVL 550
L L+ REA V+ MRFG+ TL+E+GK VTRERIRQIE+K + KLRHPSRS+VL
Sbjct: 538 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 597
Query: 551 TDYLD 555
+LD
Sbjct: 598 RSFLD 602
Score = 42.0 bits (97), Expect = 0.017
Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 6/55 (10%)
Query: 235 DEDLAPAHSVAAA------GATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGL 283
DED A A + + G T DPV+ Y++++G V LL E E+++AKRI G+
Sbjct: 73 DEDAAEAAAQVLSSVESQIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGI 127
>sp|P32001|RPSD_BUCAP RNA POLYMERASE SIGMA FACTOR RPOD (SIGMA-70)
pir||RNJV7A transcription initiation factor sigma 70 - Buchnera aphidicola
gb|AAA73234.1| (M90644) sigma factor [Buchnera aphidicola]
Length = 617
Score = 269 bits (687), Expect = 7e-71
Identities = 151/298 (50%), Positives = 201/298 (66%), Gaps = 29/298 (9%)
Query: 258 LKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKNHL 317
LKQI K L EQ ++ KR+S G +RAK +
Sbjct: 348 LKQIEKETGLTIEQVKDINKRMSIG------------------------EAKAKRAKKEM 383
Query: 318 LEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQA 377
+EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFSTY TWWIRQA
Sbjct: 384 VEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 442
Query: 378 INTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIE 437
I TR++ADQARTIRIPVHM+++ INK R++RQMLQ++GREPTPEEL++++ + +K+ +
Sbjct: 443 I-TRSIADQARTIRIPVHMIET-INKLNRISRQMLQEIGREPTPEELSEKMLIPEDKIRK 500
Query: 438 RAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSER 497
K +EPIS+ TP G++ DS L D IED+ +P D+ + L+ H VL L+ R
Sbjct: 501 VLKIAKEPISMETPIGDDD--DSHLGDFIEDTTLELPLDSATSESLRSATHDVLSGLTAR 558
Query: 498 EAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
EA V+ MRFG+ TL+E+GK VTRERIRQIE+K + KLRHPSRS+VL +LD
Sbjct: 559 EAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 616
Score = 44.3 bits (103), Expect = 0.003
Identities = 22/60 (36%), Positives = 35/60 (57%), Gaps = 6/60 (10%)
Query: 230 VRSDDDEDLAPAHSVAAA------GATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGL 283
+ +D DED A + + G T DPV+ Y++++G V LL E E+++AKRI G+
Sbjct: 70 INTDTDEDAVEAATQVLSSVESELGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEEGI 129
>ref|NP_457602.1| (NC_003198) RNA polymerase sigma-70 factor [Salmonella enterica
subsp. enterica serovar Typhi]
emb|CAD07736.1| (AL627278) RNA polymerase sigma-70 factor [Salmonella enterica
subsp. enterica serovar Typhi]
Length = 660
Score = 269 bits (687), Expect = 7e-71
Identities = 142/245 (57%), Positives = 185/245 (74%), Gaps = 5/245 (2%)
Query: 311 RRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYH 370
RRAK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFSTY
Sbjct: 420 RRAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 478
Query: 371 TWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDM 430
TWWIRQAI TR++ADQARTIRIPVHM+++ INK R++RQMLQ++GREPTPEELA+ + M
Sbjct: 479 TWWIRQAI-TRSIADQARTIRIPVHMIET-INKLNRISRQMLQEMGREPTPEELAERMLM 536
Query: 431 TPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSV 490
+K+ + K +EPIS+ TP G++ DS L D IED+ +P D+ + L+ H V
Sbjct: 537 PEDKIRKVLKIAKEPISMETPIGDDE--DSHLGDFIEDTTLELPLDSATTESLRAATHDV 594
Query: 491 LDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVL 550
L L+ REA V+ MRFG+ TL+E+GK VTRERIRQIE+K + KLRHPSRS+VL
Sbjct: 595 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 654
Query: 551 TDYLD 555
+LD
Sbjct: 655 RSFLD 659
Score = 43.1 bits (100), Expect = 0.008
Identities = 21/56 (37%), Positives = 36/56 (63%), Gaps = 4/56 (7%)
Query: 232 SDDDEDLAPAHSVAAA----GATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGL 283
+D+D + A A +++ G T DPV+ Y++++G V LL E E+++AKRI G+
Sbjct: 119 TDEDAEEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGI 174
>sp|P07336|RPSD_SALTY RNA polymerase sigma factor rpoD (Sigma-70)
pir||RNEBST transcription initiation factor sigma 70 - Salmonella typhimurium
gb|AAA27242.1| (M14427) rpoD protein [Salmonella typhimurium]
Length = 615
Score = 269 bits (687), Expect = 7e-71
Identities = 142/245 (57%), Positives = 185/245 (74%), Gaps = 5/245 (2%)
Query: 311 RRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYH 370
RRAK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFSTY
Sbjct: 375 RRAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 433
Query: 371 TWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDM 430
TWWIRQAI TR++ADQARTIRIPVHM+++ INK R++RQMLQ++GREPTPEELA+ + M
Sbjct: 434 TWWIRQAI-TRSIADQARTIRIPVHMIET-INKLNRISRQMLQEMGREPTPEELAERMLM 491
Query: 431 TPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSV 490
+K+ + K +EPIS+ TP G++ DS L D IED+ +P D+ + L+ H V
Sbjct: 492 PEDKIRKVLKIAKEPISMETPIGDDE--DSHLGDFIEDTTLELPLDSATTESLRAATHDV 549
Query: 491 LDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVL 550
L L+ REA V+ MRFG+ TL+E+GK VTRERIRQIE+K + KLRHPSRS+VL
Sbjct: 550 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 609
Query: 551 TDYLD 555
+LD
Sbjct: 610 RSFLD 614
Score = 43.1 bits (100), Expect = 0.008
Identities = 21/56 (37%), Positives = 36/56 (63%), Gaps = 4/56 (7%)
Query: 232 SDDDEDLAPAHSVAAA----GATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGL 283
+D+D + A A +++ G T DPV+ Y++++G V LL E E+++AKRI G+
Sbjct: 74 TDEDAEEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGI 129
>ref|NP_462126.1| (NC_003197) sigma D (sigma 70) factor of RNA polymerase, major
sigma factor during exponential growth [Salmonella
typhimurium LT2]
gb|AAL22085.1| (AE008847) sigma D (sigma 70) factor of RNA polymerase, major sigma
factor during exponential growth [Salmonella typhimurium
LT2]
Length = 660
Score = 269 bits (687), Expect = 7e-71
Identities = 142/245 (57%), Positives = 185/245 (74%), Gaps = 5/245 (2%)
Query: 311 RRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYH 370
RRAK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFSTY
Sbjct: 420 RRAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 478
Query: 371 TWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDM 430
TWWIRQAI TR++ADQARTIRIPVHM+++ INK R++RQMLQ++GREPTPEELA+ + M
Sbjct: 479 TWWIRQAI-TRSIADQARTIRIPVHMIET-INKLNRISRQMLQEMGREPTPEELAERMLM 536
Query: 431 TPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSV 490
+K+ + K +EPIS+ TP G++ DS L D IED+ +P D+ + L+ H V
Sbjct: 537 PEDKIRKVLKIAKEPISMETPIGDDE--DSHLGDFIEDTTLELPLDSATTESLRAATHDV 594
Query: 491 LDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVL 550
L L+ REA V+ MRFG+ TL+E+GK VTRERIRQIE+K + KLRHPSRS+VL
Sbjct: 595 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 654
Query: 551 TDYLD 555
+LD
Sbjct: 655 RSFLD 659
Score = 43.1 bits (100), Expect = 0.008
Identities = 21/56 (37%), Positives = 36/56 (63%), Gaps = 4/56 (7%)
Query: 232 SDDDEDLAPAHSVAAA----GATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGL 283
+D+D + A A +++ G T DPV+ Y++++G V LL E E+++AKRI G+
Sbjct: 119 TDEDAEEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGI 174
>pir||JC5425 transcription initiation factor sigma - Xanthomonas campestris pv.
campestris
gb|AAC45155.1| (U82763) RpoD [Xanthomonas campestris pv. campestris]
Length = 622
Score = 268 bits (686), Expect = 9e-71
Identities = 143/245 (58%), Positives = 182/245 (73%), Gaps = 5/245 (2%)
Query: 311 RRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYH 370
R+AK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFSTY
Sbjct: 381 RKAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 439
Query: 371 TWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDM 430
TWWIRQAI TR++ADQARTIRIPVHM+++ INK R++RQMLQ GREPTPEELAKE+DM
Sbjct: 440 TWWIRQAI-TRSIADQARTIRIPVHMIET-INKLNRISRQMLQQFGREPTPEELAKEMDM 497
Query: 431 TPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSV 490
+K+ + K +EPIS+ TP G++ DS L D IED+ P D + L E + V
Sbjct: 498 PEDKIRKVMKIAKEPISMETPIGDDE--DSHLGDFIEDTNVESPIDNTTNINLSETVRDV 555
Query: 491 LDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVL 550
L L+ REA V+ MRFG+ TL+E+GK VTRERIRQIE+K + KLRHPSRS+ L
Sbjct: 556 LAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEQL 615
Query: 551 TDYLD 555
+LD
Sbjct: 616 RSFLD 620
Score = 42.4 bits (98), Expect = 0.013
Identities = 34/100 (34%), Positives = 48/100 (48%), Gaps = 13/100 (13%)
Query: 197 DELLDDEAEEKPIT-----GKPGEEGAPEGT----GGESQGFVRSDDDEDLAPAHSVAA- 246
D+L+D E E I+ G E AP+ + G DD A A ++ A
Sbjct: 36 DDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLNDGNTGNREVDDTAAEAAAAALTAL 95
Query: 247 ---AGATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGL 283
G T DPV+ Y++++G V LL E E+ +AKRI GL
Sbjct: 96 DTEGGRTTDPVRMYMREMGTVELLTREAEIAIAKRIEEGL 135
>sp|O24744|RPSD_SHEVI RNA POLYMERASE SIGMA FACTOR RPOD (SIGMA-70)
dbj|BAA19475.1| (AB002098) RNA polymerase sigma factor [Shewanella violacea]
Length = 614
Score = 268 bits (686), Expect = 9e-71
Identities = 141/245 (57%), Positives = 185/245 (74%), Gaps = 5/245 (2%)
Query: 311 RRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYH 370
RRAK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFSTY
Sbjct: 374 RRAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 432
Query: 371 TWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDM 430
TWWIRQAI TR++ADQARTIRIPVHM+++ INK R++RQMLQ++GREPTPEELA+ + M
Sbjct: 433 TWWIRQAI-TRSIADQARTIRIPVHMIET-INKLNRISRQMLQEMGREPTPEELAERMLM 490
Query: 431 TPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSV 490
+K+ + K +EPIS+ TP G++ DS L D IED+ +P D+ + L+ H V
Sbjct: 491 PEDKIRKVLKIAKEPISMETPIGDDE--DSHLGDFIEDTTLELPLDSATGESLRNATHEV 548
Query: 491 LDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVL 550
L L+ REA V+ MRFG+ TL+E+GK VTRERIRQIE+K + KLRHPSRS++L
Sbjct: 549 LAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEIL 608
Query: 551 TDYLD 555
+LD
Sbjct: 609 KSFLD 613
Score = 43.5 bits (101), Expect = 0.006
Identities = 24/57 (42%), Positives = 36/57 (63%), Gaps = 4/57 (7%)
Query: 232 SDDD--EDLAPAHSVAAA--GATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLF 284
+DDD E+ A A + A G T DPV+ Y++++G V LL E E+ +AKRI G++
Sbjct: 72 TDDDAAEEAAAALATVEAELGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGIY 128
>ref|NP_417539.1| (NC_000913) RNA polymerase, sigma(70) factor; regulation of
proteins induced at high temperatures [Escherichia coli
K12]
sp|P00579|RPSD_ECOLI RNA polymerase sigma factor rpoD (Sigma-70)
pir||RNECS transcription initiation factor sigma 70 - Escherichia coli
gb|AAA89147.1| (U28379) CG Site No. 231; alternate gene name alt [Escherichia
coli]
gb|AAC76103.1| (AE000388) RNA polymerase, sigma(70) factor; regulation of proteins
induced at high temperatures [Escherichia coli K12]
Length = 613
Score = 268 bits (686), Expect = 9e-71
Identities = 142/245 (57%), Positives = 185/245 (74%), Gaps = 5/245 (2%)
Query: 311 RRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYH 370
RRAK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFSTY
Sbjct: 373 RRAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 431
Query: 371 TWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDM 430
TWWIRQAI TR++ADQARTIRIPVHM+++ INK R++RQMLQ++GREPTPEELA+ + M
Sbjct: 432 TWWIRQAI-TRSIADQARTIRIPVHMIET-INKLNRISRQMLQEMGREPTPEELAERMLM 489
Query: 431 TPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSV 490
+K+ + K +EPIS+ TP G++ DS L D IED+ +P D+ + L+ H V
Sbjct: 490 PEDKIRKVLKIAKEPISMETPIGDDE--DSHLGDFIEDTTLELPLDSATTESLRAATHDV 547
Query: 491 LDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVL 550
L L+ REA V+ MRFG+ TL+E+GK VTRERIRQIE+K + KLRHPSRS+VL
Sbjct: 548 LAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 607
Query: 551 TDYLD 555
+LD
Sbjct: 608 RSFLD 612
Score = 42.0 bits (97), Expect = 0.017
Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 6/55 (10%)
Query: 235 DEDLAPAHSVAAA------GATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGL 283
DED A A + + G T DPV+ Y++++G V LL E E+++AKRI G+
Sbjct: 73 DEDAAEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGI 127
>gb|AAA24601.1| (J01687) RNA polymerase sigma-subunit [Escherichia coli]
Length = 613
Score = 268 bits (686), Expect = 9e-71
Identities = 142/245 (57%), Positives = 185/245 (74%), Gaps = 5/245 (2%)
Query: 311 RRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYH 370
RRAK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFSTY
Sbjct: 373 RRAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 431
Query: 371 TWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDM 430
TWWIRQAI TR++ADQARTIRIPVHM+++ INK R++RQMLQ++GREPTPEELA+ + M
Sbjct: 432 TWWIRQAI-TRSIADQARTIRIPVHMIET-INKLNRISRQMLQEMGREPTPEELAERMLM 489
Query: 431 TPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSV 490
+K+ + K +EPIS+ TP G++ DS L D IED+ +P D+ + L+ H V
Sbjct: 490 PEDKIRKVLKIAKEPISMETPIGDDE--DSHLGDFIEDTTLELPLDSATTESLRAATHDV 547
Query: 491 LDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVL 550
L L+ REA V+ MRFG+ TL+E+GK VTRERIRQIE+K + KLRHPSRS+VL
Sbjct: 548 LAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 607
Query: 551 TDYLD 555
+LD
Sbjct: 608 RSFLD 612
Score = 42.0 bits (97), Expect = 0.017
Identities = 22/55 (40%), Positives = 33/55 (60%), Gaps = 6/55 (10%)
Query: 235 DEDLAPAHSVAAA------GATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGL 283
DED A A + + G T DPV+ Y++++G V LL E E+++AKRI G+
Sbjct: 73 DEDAAEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGI 127
>ref|NP_239892.1| (NC_002528) RNA polymerase sigma factor rpoD [Buchnera sp. APS]
sp|P57163|RPSD_BUCAI RNA polymerase sigma factor rpoD (Sigma-70)
dbj|BAB12778.1| (AP001118) RNA polymerase sigma factor rpoD [Buchnera sp. APS]
Length = 612
Score = 267 bits (683), Expect = 2e-70
Identities = 140/245 (57%), Positives = 186/245 (75%), Gaps = 5/245 (2%)
Query: 311 RRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYH 370
RRAK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFSTY
Sbjct: 372 RRAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 430
Query: 371 TWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDM 430
TWWIRQAI TR++ADQARTIRIPVHM+++ INK R++RQMLQ++GREPTPEEL++++ +
Sbjct: 431 TWWIRQAI-TRSIADQARTIRIPVHMIET-INKLNRISRQMLQEIGREPTPEELSEKMLI 488
Query: 431 TPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSV 490
+K+ + K +EPIS+ TP G++ DS L D IED+ +P D+ + L+ H V
Sbjct: 489 PEDKIRKVLKIAKEPISMETPIGDDD--DSHLGDFIEDTTLELPLDSATSESLRSATHDV 546
Query: 491 LDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVL 550
L L+ REA V+ MRFG+ TL+E+GK VTRERIRQIE+K + KLRHPSRS+VL
Sbjct: 547 LSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVL 606
Query: 551 TDYLD 555
+LD
Sbjct: 607 RSFLD 611
Score = 45.4 bits (106), Expect = 0.002
Identities = 31/98 (31%), Positives = 51/98 (51%), Gaps = 8/98 (8%)
Query: 193 KNVVD-ELLDDEAEEKPITGKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAA---- 247
++++D E +DD + G P E AP+ + +D DED A + +
Sbjct: 33 EDIIDSEQIDDIIQMINDMGIPVVEEAPDADD-LILNEINTDTDEDAVEAATQVLSSVES 91
Query: 248 --GATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGL 283
G T DPV+ Y++++G V LL E E+++AKRI G+
Sbjct: 92 ELGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEEGI 129
>ref|NP_249267.1| (NC_002516) sigma factor RpoD [Pseudomonas aeruginosa]
sp|P26480|RPSD_PSEAE RNA polymerase sigma factor rpoD (Sigma-70)
pir||RNPS7A transcription initiation factor sigma 70 - Pseudomonas aeruginosa
pir||D83572 sigma factor RpoD PA0576 [imported] - Pseudomonas aeruginosa
(strain PAO1)
dbj|BAA14146.1| (D90118) principal sigma factor, rpoDA [Pseudomonas aeruginosa]
gb|AAG03965.1|AE004494_1 (AE004494) sigma factor RpoD [Pseudomonas aeruginosa]
Length = 617
Score = 267 bits (682), Expect = 3e-70
Identities = 149/284 (52%), Positives = 196/284 (68%), Gaps = 20/284 (7%)
Query: 286 EDKLANADKIAPKLKCELEIIAED--------------GRRAKNHLLEANLRLVVSLAKR 331
+D L N K+A L+ E+E+ + RRAK ++EANLRLV+S+AK+
Sbjct: 339 DDILRNQQKLAA-LESEVELTVAEIKEINRAMSIGEAKARRAKKEMVEANLRLVISIAKK 397
Query: 332 YTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIR 391
YT RG FLDLIQEGN+GL++AV+KF+Y +G KFSTY TWWIRQAI TR++ADQARTIR
Sbjct: 398 YTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI-TRSIADQARTIR 455
Query: 392 IPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTP 451
IPVHM+++ INK R++RQMLQ++GREPTPEEL + +DM +K+ + K +EPIS+ TP
Sbjct: 456 IPVHMIET-INKLNRISRQMLQEMGREPTPEELGERMDMPEDKIRKVLKIAKEPISMETP 514
Query: 452 RGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDG 511
G++ DS L D IEDS P + + L+E VL L+ REA V+ MRFG+
Sbjct: 515 IGDDE--DSHLGDFIEDSTMQSPIEMATSESLKESTREVLAGLTAREAKVLRMRFGIDMN 572
Query: 512 QPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
TL+E+GK VTRERIRQIE+K + KLRHPSRS+ L +LD
Sbjct: 573 TDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEHLRSFLD 616
Score = 47.8 bits (112), Expect = 3e-04
Identities = 26/70 (37%), Positives = 39/70 (55%), Gaps = 8/70 (11%)
Query: 222 TGGESQGFVRSDDDEDLAPAHSVAAA--------GATADPVKDYLKQIGKVPLLNAEQEV 273
T ++ + ++ D D A A AAA G T DPV+ Y++++G V LL E E+
Sbjct: 60 TAPDADALLLAEADTDEAAAEEAAAALAAVESDIGRTTDPVRMYMREMGTVELLTREGEI 119
Query: 274 ELAKRISAGL 283
E+AKRI G+
Sbjct: 120 EIAKRIEEGI 129
>ref|NP_438691.1| (NC_000907) RNA polymerase sigma-70 factor (rpoD) [Haemophilus
influenzae Rd]
sp|P43766|RPSD_HAEIN RNA polymerase sigma factor rpoD (Sigma-70)
pir||B64075 transcription initiation factor sigma 70 - Haemophilus influenzae
(strain Rd KW20)
gb|AAC22190.1| (U32735) RNA polymerase sigma-70 factor (rpoD) [Haemophilus
influenzae Rd]
Length = 629
Score = 266 bits (681), Expect = 3e-70
Identities = 140/248 (56%), Positives = 185/248 (74%), Gaps = 5/248 (2%)
Query: 308 EDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFS 367
+ RRAK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFS
Sbjct: 386 QKARRAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFS 444
Query: 368 TYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKE 427
TY TWWIRQAI TR++ADQARTIRIPVHM+++ INK R++RQ+LQ++GRE TPEELA+
Sbjct: 445 TYATWWIRQAI-TRSIADQARTIRIPVHMIET-INKLNRISRQLLQEMGREATPEELAER 502
Query: 428 LDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQL 487
+ M +K+ + K +EPIS+ TP G++ DS L D IEDS +P D+ + L+
Sbjct: 503 MGMPEDKIRKVLKIAKEPISMETPIGDDD--DSHLGDFIEDSTLELPLDSATAQSLKVAT 560
Query: 488 HSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRS 547
H VL+ L+ REA V+ MRFG+ TL+E+GK VTRERIRQIE+K + KLRHPSRS
Sbjct: 561 HEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRS 620
Query: 548 QVLTDYLD 555
+ L +LD
Sbjct: 621 ETLRSFLD 628
Score = 43.1 bits (100), Expect = 0.008
Identities = 29/96 (30%), Positives = 47/96 (48%), Gaps = 9/96 (9%)
Query: 197 DELLDDEAEEKPITGKPGEEGAPE-GTGGESQGFVRSDD--DEDLAP------AHSVAAA 247
++ +D E +K + + G P ES + SD DED ++ +
Sbjct: 40 EDAIDPEYYDKLLQTLQNDAGIPVLDEAPESDDMMLSDTIPDEDAVEEATQILSNVESEI 99
Query: 248 GATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGL 283
G T DPV+ Y++++G V LL E E+ +AKRI G+
Sbjct: 100 GRTTDPVRMYMREMGTVDLLTREDEISIAKRIEGGI 135
>ref|NP_246178.1| (NC_002663) RpoD [Pasteurella multocida]
gb|AAK03325.1| (AE006163) RpoD [Pasteurella multocida]
Length = 622
Score = 266 bits (680), Expect = 4e-70
Identities = 152/300 (50%), Positives = 202/300 (66%), Gaps = 29/300 (9%)
Query: 256 DYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCELEIIAEDGRRAKN 315
D + +I + L Q E+ +RISAG EL+ RRAK
Sbjct: 351 DNILEIERQTNLTVSQIREVCERISAG-------------------ELK-----ARRAKK 386
Query: 316 HLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIR 375
++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFSTY TWWIR
Sbjct: 387 EMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 445
Query: 376 QAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKV 435
QAI TR++ADQARTIRIPVHM+++ INK R++RQMLQ++GRE +PEELA+ + M +K+
Sbjct: 446 QAI-TRSIADQARTIRIPVHMIET-INKLNRISRQMLQEMGREASPEELAERMGMPEDKI 503
Query: 436 IERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLS 495
+ K +EPIS+ TP G++ DS L D IEDS +P D+ + L+ H VL+ L+
Sbjct: 504 RKVLKIAKEPISMETPIGDDD--DSHLGDFIEDSTLELPLDSATAQSLKVATHEVLEGLT 561
Query: 496 EREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDYLD 555
REA V+ MRFG+ TL+E+GK VTRERIRQIE+K + KLRHPSRS+ L +LD
Sbjct: 562 PREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 621
Score = 42.4 bits (98), Expect = 0.013
Identities = 18/39 (46%), Positives = 27/39 (69%)
Query: 245 AAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGL 283
A G T DPV+ Y++++G V LL E E+++AKRI G+
Sbjct: 89 AEIGRTTDPVRMYMREMGSVELLTREGEIDIAKRIEEGI 127
>emb|CAA07705.1| (AJ007830) sigma-70 factor [Pseudomonas tolaasii]
Length = 616
Score = 266 bits (679), Expect = 6e-70
Identities = 140/245 (57%), Positives = 182/245 (74%), Gaps = 5/245 (2%)
Query: 311 RRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYH 370
RRAK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFSTY
Sbjct: 376 RRAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 434
Query: 371 TWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDM 430
TWWIRQAI TR++ADQARTIRIPVHM+++ INK R++RQMLQ++GREPTPEEL + ++M
Sbjct: 435 TWWIRQAI-TRSIADQARTIRIPVHMIET-INKLNRISRQMLQEMGREPTPEELGERMEM 492
Query: 431 TPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSV 490
+K+ + K +EPIS+ TP G++ DS L D IEDS P D + L+E V
Sbjct: 493 PEDKIRKVLKIAKEPISMETPIGDDE--DSHLGDFIEDSTMQSPIDVATVESLKEATRDV 550
Query: 491 LDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVL 550
L L+ REA V+ MRFG+ TL+E+GK VTRERIRQIE+K + KLRHP+RS+ L
Sbjct: 551 LSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHL 610
Query: 551 TDYLD 555
+LD
Sbjct: 611 RSFLD 615
Score = 45.1 bits (105), Expect = 0.002
Identities = 25/67 (37%), Positives = 36/67 (53%), Gaps = 8/67 (11%)
Query: 225 ESQGFVRSDDDEDLAPAHSVAAA--------GATADPVKDYLKQIGKVPLLNAEQEVELA 276
+ + +D D D A A AAA G T DPV+ Y++++G V LL E E+ +A
Sbjct: 63 DKDSLMLADADTDEAAAEEAAAALAAVKTDIGRTTDPVRMYMREMGTVELLTREGEIGIA 122
Query: 277 KRISAGL 283
KRI G+
Sbjct: 123 KRIEEGI 129
>ref|NP_445653.1| (NC_002179) RNA polymerase sigma factor, sigma-70 family
[Chlamydophila pneumoniae AR39]
pir||E81502 RNA polymerase sigma factor, sigma-70 family CP1116 [imported] -
Chlamydophila pneumoniae (strain AR39)
gb|AAF38883.1| (AE002267) RNA polymerase sigma factor, sigma-70 family
[Chlamydophila pneumoniae AR39]
Length = 591
Score = 266 bits (679), Expect = 6e-70
Identities = 150/304 (49%), Positives = 208/304 (68%), Gaps = 20/304 (6%)
Query: 267 LNAEQEV-ELAKRISAGLFAEDKLANADKIAPKLKCE----LEIIAEDGR---------- 311
L+ EQ++ +L R FA KLA A + K + LE +D R
Sbjct: 275 LHLEQQINDLKVRAERNKFAAAKLAAAKRKLYKREVAAGRTLEEFKKDVRMLQRWMDKSQ 334
Query: 312 RAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHT 371
AK ++E+NLRLV+S+AK+YT RG + FLDLIQEGN+GL++AVEKF+Y +G KFSTY T
Sbjct: 335 EAKKEMVESNLRLVISIAKKYTNRG-LSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYAT 393
Query: 372 WWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMT 431
WWIRQA+ TRA+ADQARTIRIPVHM+++ INK R ++++ + G+EPTPEELA+EL +T
Sbjct: 394 WWIRQAV-TRAIADQARTIRIPVHMIET-INKVLRGAKKLMMETGKEPTPEELAEELGLT 451
Query: 432 PEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVL 491
P++V E K + PISL GE G++S D +ED+ P +A +++L++++ VL
Sbjct: 452 PDRVREIYKIAQHPISLQAEVGE--GSESSFGDFLEDTAVESPAEATGYSMLKDKMKEVL 509
Query: 492 DTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLT 551
TL++RE V+ RFGL DG+PKTL+E+G VTRERIRQIE+K + K+RHP RS+ L
Sbjct: 510 KTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQLR 569
Query: 552 DYLD 555
+LD
Sbjct: 570 AFLD 573
Score = 43.1 bits (100), Expect = 0.008
Identities = 29/98 (29%), Positives = 47/98 (47%), Gaps = 12/98 (12%)
Query: 248 GATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCEL---- 303
G DPV+ YLK++G VPLL E+EVE++KRI +++ + + K +
Sbjct: 116 GTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQIERIILRFRYSAKEAISIAHYL 175
Query: 304 --------EIIAEDGRRAKNHLLEANLRLVVSLAKRYT 333
+II+E K H L+ +L+ L + T
Sbjct: 176 ISGKERFDKIISEKEVEDKTHFLKLLPKLITLLKEEDT 213
>gb|AAB87749.1| (U93292) DNA-directed RNA polymerase sigma subunit [Pseudomonas
putida]
gb|AAC38073.1| (AF014397) sigma-70 [Pseudomonas putida]
Length = 616
Score = 266 bits (679), Expect = 6e-70
Identities = 140/245 (57%), Positives = 182/245 (74%), Gaps = 5/245 (2%)
Query: 311 RRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYH 370
RRAK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFSTY
Sbjct: 376 RRAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 434
Query: 371 TWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDM 430
TWWIRQAI TR++ADQARTIRIPVHM+++ INK R++RQMLQ++GREPTPEEL + ++M
Sbjct: 435 TWWIRQAI-TRSIADQARTIRIPVHMIET-INKLNRISRQMLQEMGREPTPEELGERMEM 492
Query: 431 TPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSV 490
+K+ + K +EPIS+ TP G++ DS L D IEDS P D + L+E V
Sbjct: 493 PEDKIRKVLKIAKEPISMETPIGDDE--DSHLGDFIEDSTMQSPIDVATVESLKEATRDV 550
Query: 491 LDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVL 550
L L+ REA V+ MRFG+ TL+E+GK VTRERIRQIE+K + KLRHP+RS+ L
Sbjct: 551 LSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHL 610
Query: 551 TDYLD 555
+LD
Sbjct: 611 RSFLD 615
Score = 46.6 bits (109), Expect = 7e-04
Identities = 25/67 (37%), Positives = 38/67 (56%), Gaps = 8/67 (11%)
Query: 225 ESQGFVRSDDDEDLAPAHSVAAA--------GATADPVKDYLKQIGKVPLLNAEQEVELA 276
++ + ++ D D A A AAA G T DPV+ Y++++G V LL E E+E+A
Sbjct: 63 DADALLLAEADTDEAAAEEAAAALAAVETDIGRTTDPVRMYMREMGTVELLTREGEIEIA 122
Query: 277 KRISAGL 283
KRI G+
Sbjct: 123 KRIEEGI 129
>sp|P52326|RPSD_PSEFL RNA POLYMERASE SIGMA FACTOR RPOD (SIGMA-70)
pir||S58230 transcription initiation factor sigma 70 - Pseudomonas fluorescens
emb|CAA59134.1| (X84416) sigma 70 [Pseudomonas fluorescens]
Length = 615
Score = 266 bits (679), Expect = 6e-70
Identities = 140/245 (57%), Positives = 182/245 (74%), Gaps = 5/245 (2%)
Query: 311 RRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYH 370
RRAK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFSTY
Sbjct: 375 RRAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 433
Query: 371 TWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDM 430
TWWIRQAI TR++ADQARTIRIPVHM+++ INK R++RQMLQ++GREPTPEEL + ++M
Sbjct: 434 TWWIRQAI-TRSIADQARTIRIPVHMIET-INKLNRISRQMLQEMGREPTPEELGERMEM 491
Query: 431 TPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSV 490
+K+ + K +EPIS+ TP G++ DS L D IEDS P D + L+E V
Sbjct: 492 PEDKIRKVLKIAKEPISMETPIGDDE--DSHLGDFIEDSTMQSPIDVATVESLKEATREV 549
Query: 491 LDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVL 550
L L+ REA V+ MRFG+ TL+E+GK VTRERIRQIE+K + KLRHP+RS+ L
Sbjct: 550 LSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHL 609
Query: 551 TDYLD 555
+LD
Sbjct: 610 RSFLD 614
Score = 46.6 bits (109), Expect = 7e-04
Identities = 25/67 (37%), Positives = 38/67 (56%), Gaps = 8/67 (11%)
Query: 225 ESQGFVRSDDDEDLAPAHSVAAA--------GATADPVKDYLKQIGKVPLLNAEQEVELA 276
++ + ++ D D A A AAA G T DPV+ Y++++G V LL E E+E+A
Sbjct: 63 DADALLLAEADTDEAAAEEAAAALAAVETDIGRTTDPVRMYMREMGTVELLTREGEIEIA 122
Query: 277 KRISAGL 283
KRI G+
Sbjct: 123 KRIEEGI 129
>ref|NP_421841.1| (NC_002696) RNA polymerase sigma factor RpoD [Caulobacter
crescentus CB15]
sp|P52324|RPSD_CAUCR RNA polymerase sigma factor rpoD (Sigma-70)
pir||I40676 transcription initiation factor sigma - Caulobacter crescentus
gb|AAA82054.1| (U35138) RNA polymerase principal sigma factor [Caulobacter
vibrioides]
gb|AAK25009.1| (AE005967) RNA polymerase sigma factor RpoD [Caulobacter crescentus
CB15]
prf||2201399A sigma73 factor [Caulobacter vibrioides]
Length = 652
Score = 266 bits (679), Expect = 6e-70
Identities = 143/247 (57%), Positives = 185/247 (74%), Gaps = 5/247 (2%)
Query: 309 DGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFST 368
+ R+AK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFST
Sbjct: 410 EARQAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFST 468
Query: 369 YHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKEL 428
Y TWWIRQAI TR++ADQARTIRIPVHM+++ INK R +RQML ++GREPTPEELA++L
Sbjct: 469 YATWWIRQAI-TRSIADQARTIRIPVHMIET-INKIVRTSRQMLHEIGREPTPEELAEKL 526
Query: 429 DMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLH 488
M EKV + K +EPISL TP G+E DS L D IED A++P DA + L+E
Sbjct: 527 AMPLEKVRKVLKIAKEPISLETPIGDEE--DSHLGDFIEDKNAILPIDAAIQSNLRETTT 584
Query: 489 SVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQ 548
VL +L+ RE V+ MRFG+ TL+E+G+ VTRERIRQIE+K + KL+HPSRS+
Sbjct: 585 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSR 644
Query: 549 VLTDYLD 555
L +LD
Sbjct: 645 KLRSFLD 651
Score = 49.3 bits (116), Expect = 1e-04
Identities = 42/143 (29%), Positives = 61/143 (42%), Gaps = 13/143 (9%)
Query: 148 SAPAAAPTDEESEQPVKKAAAKNVTAKKTAKKATAKKTAAKKTAAKNVVDELLDDEA--- 204
SA AP + P+ V KK K+A A+ K + E + +A
Sbjct: 6 SAETEAPETTGGDGPLLDLTDAGV--KKFIKQAKARGYVTMDELNKVLPSEEVSPDAIED 63
Query: 205 -----EEKPITGKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLK 259
E + EE A GGE D++ + + AA T DPV+ YL+
Sbjct: 64 TLAMLSEMGVNVVEAEEDAENAEGGE---VATRDENTTVIASDKPAAYDRTDDPVRMYLR 120
Query: 260 QIGKVPLLNAEQEVELAKRISAG 282
++G V LL+ E E+ +AKRI AG
Sbjct: 121 EMGSVELLSREGEIAIAKRIEAG 143
>ref|NP_224951.1| (NC_000922) RNA Polymerase Sigma-66 [Chlamydophila pneumoniae
CWL029]
ref|NP_300813.1| (NC_002491) RNA polymerase sigma-66 [Chlamydophila pneumoniae J138]
sp|Q9Z7F0|RPSD_CHLPN RNA polymerase sigma factor rpoD (Sigma-70) (Sigma-A) (Sigma-66)
pir||E72039 RNA polymerase sigma-66 - Chlamydophila pneumoniae (strain CWL029)
gb|AAD18894.1| (AE001657) RNA Polymerase Sigma-66 [Chlamydophila pneumoniae
CWL029]
dbj|BAA98964.1| (AP002547) RNA polymerase sigma-66 [Chlamydophila pneumoniae J138]
Length = 572
Score = 266 bits (679), Expect = 6e-70
Identities = 150/304 (49%), Positives = 208/304 (68%), Gaps = 20/304 (6%)
Query: 267 LNAEQEV-ELAKRISAGLFAEDKLANADKIAPKLKCE----LEIIAEDGR---------- 311
L+ EQ++ +L R FA KLA A + K + LE +D R
Sbjct: 256 LHLEQQINDLKVRAERNKFAAAKLAAAKRKLYKREVAAGRTLEEFKKDVRMLQRWMDKSQ 315
Query: 312 RAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHT 371
AK ++E+NLRLV+S+AK+YT RG + FLDLIQEGN+GL++AVEKF+Y +G KFSTY T
Sbjct: 316 EAKKEMVESNLRLVISIAKKYTNRG-LSFLDLIQEGNMGLMKAVEKFEYRRGYKFSTYAT 374
Query: 372 WWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMT 431
WWIRQA+ TRA+ADQARTIRIPVHM+++ INK R ++++ + G+EPTPEELA+EL +T
Sbjct: 375 WWIRQAV-TRAIADQARTIRIPVHMIET-INKVLRGAKKLMMETGKEPTPEELAEELGLT 432
Query: 432 PEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVL 491
P++V E K + PISL GE G++S D +ED+ P +A +++L++++ VL
Sbjct: 433 PDRVREIYKIAQHPISLQAEVGE--GSESSFGDFLEDTAVESPAEATGYSMLKDKMKEVL 490
Query: 492 DTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLT 551
TL++RE V+ RFGL DG+PKTL+E+G VTRERIRQIE+K + K+RHP RS+ L
Sbjct: 491 KTLTDRERFVLIHRFGLLDGKPKTLEEVGSAFNVTRERIRQIEAKALRKMRHPIRSKQLR 550
Query: 552 DYLD 555
+LD
Sbjct: 551 AFLD 554
Score = 43.1 bits (100), Expect = 0.008
Identities = 29/98 (29%), Positives = 47/98 (47%), Gaps = 12/98 (12%)
Query: 248 GATADPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADKIAPKLKCEL---- 303
G DPV+ YLK++G VPLL E+EVE++KRI +++ + + K +
Sbjct: 97 GTPDDPVRMYLKEMGTVPLLTREEEVEISKRIEKAQVQIERIILRFRYSAKEAISIAHYL 156
Query: 304 --------EIIAEDGRRAKNHLLEANLRLVVSLAKRYT 333
+II+E K H L+ +L+ L + T
Sbjct: 157 ISGKERFDKIISEKEVEDKTHFLKLLPKLITLLKEEDT 194
>emb|CAA67902.1| (X99588) primary sigma factor [Bradyrhizobium japonicum]
Length = 719
Score = 265 bits (678), Expect = 7e-70
Identities = 142/247 (57%), Positives = 185/247 (74%), Gaps = 5/247 (2%)
Query: 309 DGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFST 368
+ R+AK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFST
Sbjct: 477 EARQAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFST 535
Query: 369 YHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKEL 428
Y TWWIRQAI TR++ADQARTIRIPVHM+++ INK R +RQML ++GREPTPEELA++L
Sbjct: 536 YATWWIRQAI-TRSIADQARTIRIPVHMIET-INKIVRTSRQMLNEIGREPTPEELAEKL 593
Query: 429 DMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLH 488
M EKV + K +EP+SL TP G+E DS L D IED A++P DA + L+E
Sbjct: 594 GMPLEKVRKVLKIAKEPLSLETPVGDEE--DSHLGDFIEDKNAILPIDAAIQSNLRETTT 651
Query: 489 SVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQ 548
VL +L+ RE V+ MRFG+ TL+E+G+ VTRERIRQIE+K + KL+HPSRS+
Sbjct: 652 RVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSR 711
Query: 549 VLTDYLD 555
L +LD
Sbjct: 712 KLRSFLD 718
Score = 47.0 bits (110), Expect = 5e-04
Identities = 40/148 (27%), Positives = 66/148 (44%), Gaps = 7/148 (4%)
Query: 140 AKAAPVKKSAPAAAPTDEESEQPVKKAAAKN-----VTAKKTAKKATAKKTAAKKTAAKN 194
A AP K S A +P + S+ VKK + VT + + + +T+ ++ ++
Sbjct: 19 AADAPEKDSQDAPSPLLDLSDAAVKKMIKQAKKRGFVTFDQLNEVLPSDQTSPEQI--ED 76
Query: 195 VVDELLDDEAEEKPITGKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPV 254
++ L D GEE EG E+ + + + T DPV
Sbjct: 77 IMSMLSDMGINVTEADDSEGEEDKDEGGEDETDNELVEVTQKAVTEVKKSEPGERTDDPV 136
Query: 255 KDYLKQIGKVPLLNAEQEVELAKRISAG 282
+ YL+++G V LL+ E E+ +AKRI AG
Sbjct: 137 RMYLREMGTVELLSREGEIAIAKRIEAG 164
>sp|P17531|RPSD_MYXXA RNA POLYMERASE SIGMA FACTOR RPOD (SIGMA-80)
pir||S70834 transcription initiation factor sigma D - Myxococcus xanthus
gb|AAA25404.1| (M32347) sigma factor (rpoD) [Myxococcus xanthus]
gb|AAB60208.1| (U20669) major sigma factor [Myxococcus xanthus]
prf||2204381D sigma factor [Myxococcus xanthus]
Length = 708
Score = 265 bits (677), Expect = 1e-69
Identities = 143/244 (58%), Positives = 184/244 (74%), Gaps = 5/244 (2%)
Query: 312 RAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHT 371
RAK+ L+EANLRLVVS+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFSTY T
Sbjct: 469 RAKSELVEANLRLVVSIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYKRGYKFSTYAT 527
Query: 372 WWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKELDMT 431
WWIRQAI TRA+ADQARTIRIPVHM+++ INK R +R ++Q++GREPTPEE+A+++++
Sbjct: 528 WWIRQAI-TRAIADQARTIRIPVHMIET-INKLIRTSRYLVQEIGREPTPEEIAEKMELP 585
Query: 432 PEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVL 491
+KV + K +EPISL TP GEE DS L D IED V P DAV L EQ VL
Sbjct: 586 LDKVRKVLKIAKEPISLETPIGEEE--DSHLGDFIEDKSLVSPADAVINMNLAEQTRKVL 643
Query: 492 DTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLT 551
TL+ RE V+ MRFG+ + TL+E+G+ VTRERIRQIE+K + KLRHPSRS+ L
Sbjct: 644 ATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRSKRLR 703
Query: 552 DYLD 555
+++
Sbjct: 704 SFVE 707
Score = 50.1 bits (118), Expect = 6e-05
Identities = 55/227 (24%), Positives = 85/227 (37%), Gaps = 67/227 (29%)
Query: 119 RKSVAAMSPAKRLATTRTMVAAKAAPVKKSAPAAAPTDEESEQPVKKAAAKNVTAK-KTA 177
+ S A++ P K+ ++ K AP +A A EE E+ V + T K K
Sbjct: 5 KPSKASVKPTKKKVDP--VIRKKKAPDGAAAKGAKTGAEEKEELVARDVVAEATEKLKKK 62
Query: 178 KKATA---------KKTAAKKTAAKNVVDELLDDEAEEKPITGKPGEEGAPEGTGGESQG 228
KK A ++ A + AA V + ++D+ EE P+ + +E G +G
Sbjct: 63 KKGVAPAMGDDVDPEEAAEEAAAAVQVDPDAVEDDIEEDPVAER--KEVKDLLAAGREKG 120
Query: 229 FVRSDDDEDLAPAHSVAA------------------------------------------ 246
F+ D+ D PA V++
Sbjct: 121 FLTYDEVNDALPADIVSSDQIDDVMSMFGDNDIEIVDAQKAAQNNEIKPTVTVEEEKEDA 180
Query: 247 -----------AGATADPVKDYLKQIGKVPLLNAEQEVELAKRISAG 282
G + DPV+ YL+++G V LL E EVE+AKRI G
Sbjct: 181 DEDEKDEDDEPGGKSNDPVRLYLRKMGSVSLLTREGEVEIAKRIEDG 227
>sp|P46400|RPSD_RHOCA RNA POLYMERASE SIGMA FACTOR RPOD (SIGMA-70)
gb|AAA70413.1| (U28162) RpoD [Rhodobacter capsulatus]
Length = 674
Score = 265 bits (677), Expect = 1e-69
Identities = 142/248 (57%), Positives = 185/248 (74%), Gaps = 5/248 (2%)
Query: 308 EDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFS 367
++ R+AK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFS
Sbjct: 431 KEARQAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFS 489
Query: 368 TYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKE 427
TY TWWIRQAI TR++ADQARTIRIPVHM+++ INK R RQML ++GREPTPEELA++
Sbjct: 490 TYATWWIRQAI-TRSIADQARTIRIPVHMIET-INKLVRTGRQMLHEIGREPTPEELAEK 547
Query: 428 LDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQL 487
L M EKV + K +EPISL TP G+E DS+L D IED A++P D+ L+E
Sbjct: 548 LQMPLEKVRKVMKIAKEPISLETPIGDEE--DSQLGDFIEDKNAILPLDSAIQENLKETT 605
Query: 488 HSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRS 547
VL +L+ RE V+ MRFG+ TL+E+G+ VTRERIRQIE+K + KL+HPSRS
Sbjct: 606 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRS 665
Query: 548 QVLTDYLD 555
+ L +LD
Sbjct: 666 RKLRSFLD 673
Score = 43.5 bits (101), Expect = 0.006
Identities = 46/155 (29%), Positives = 67/155 (42%), Gaps = 22/155 (14%)
Query: 138 VAAKAAPVKKSAPAAAPTDEESEQPVKKAAAKNVTAKKTAKKATAKKTAAKKTAAKNVVD 197
+AAK K AA DE++ + +AA K + + + + V
Sbjct: 1 MAAKDIDDTKPDTAA---DEDASFDMSQAAVKRMIGEAKERGYITIDQLNAVMPPETVSG 57
Query: 198 ELLDDEAE---EKPITGKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGA----- 249
E ++D E I GEE E GGE E + + +A AGA
Sbjct: 58 EQIEDVMSMLSEMGINVVEGEE-VEESEGGEVV--------ETGSGSREIAVAGAAGETL 108
Query: 250 --TADPVKDYLKQIGKVPLLNAEQEVELAKRISAG 282
T DPV+ YL+++G V LL+ E E+ +AKRI AG
Sbjct: 109 DRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAG 143
>sp|P18184|HRDC_STRCO RNA polymerase principal sigma factor hrdC
pir||S17930 transcription initiation factor sigma hrdC - Streptomyces
coelicolor
emb|CAA37173.1| (X52981) principal sigma subunit (AA 1-339) [Streptomyces
coelicolor A3(2)]
emb|CAB62686.1| (AL133422) RNA polymerase principal sigma factor HrdC.
[Streptomyces coelicolor A3(2)]
Length = 339
Score = 265 bits (676), Expect = 1e-69
Identities = 147/306 (48%), Positives = 204/306 (66%), Gaps = 9/306 (2%)
Query: 252 DPVKDYLKQIGKVPLLNAEQEVELAKRISAGLFAEDKLANADK----IAPKLKCELEIIA 307
D + YL QIG PLL AE EV LA RI AG+ A ++L AD P+ + LE
Sbjct: 37 DLLGQYLTQIGATPLLTAEDEVRLATRIEAGVRAREELETADTGEPAPTPRRRRTLEETV 96
Query: 308 EDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFS 367
DG+ AK+H++ ANLRLVVS+AKR+ RG L LD+IQEGNLGLIRAVEKFD+TKG KFS
Sbjct: 97 HDGQEAKDHMVRANLRLVVSMAKRHAHRGLPL-LDVIQEGNLGLIRAVEKFDHTKGFKFS 155
Query: 368 TYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKE 427
TY TWWIRQAI R +A ART+R+PVH+V+ + K A+V R++ L REPT EE+A E
Sbjct: 156 TYATWWIRQAIE-RGLATHARTVRLPVHVVEQ-LQKLAKVERKLRAGLDREPTTEEVAAE 213
Query: 428 LDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQL 487
+ +KV+ + GR+ +SL TP E D+ + DLI D+E + P+ F L +L
Sbjct: 214 SGIDVDKVVWLRRVGRDAVSLDTPVDETG--DTVVGDLIPDTEVLRAPEVAEFQALAAEL 271
Query: 488 HSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRS 547
+ TL+ RE+ ++S+R+GL DG+P+TL ++ + G+TRER+RQ+E ++++ LR P
Sbjct: 272 REAVGTLAPRESLILSLRYGLHDGRPRTLQQVAQHVGLTRERVRQLEKESLAHLRAPENR 331
Query: 548 QVLTDY 553
+ L D+
Sbjct: 332 ERLLDW 337
>pir||JC5104 transcription initiation factor sigma - Rhodobacter capsulatus
emb|CAA92648.1| (Z68306) major sigma factor [Rhodobacter capsulatus]
Length = 674
Score = 265 bits (676), Expect = 1e-69
Identities = 142/248 (57%), Positives = 184/248 (73%), Gaps = 5/248 (2%)
Query: 308 EDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFS 367
++ R+AK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFS
Sbjct: 431 KEARQAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFS 489
Query: 368 TYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKE 427
TY TWWIRQAI TR++ADQARTIRIPVHM+++ INK R RQML ++GREPTPEELA++
Sbjct: 490 TYATWWIRQAI-TRSIADQARTIRIPVHMIET-INKLVRTGRQMLHEIGREPTPEELAEK 547
Query: 428 LDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQL 487
L M EKV + K +EPISL TP G E DS+L D IED A++P D+ L+E
Sbjct: 548 LQMPLEKVRKVMKIAKEPISLETPIGHEE--DSQLGDFIEDKNAILPLDSAIQENLKETT 605
Query: 488 HSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRS 547
VL +L+ RE V+ MRFG+ TL+E+G+ VTRERIRQIE+K + KL+HPSRS
Sbjct: 606 TRVLPSLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRS 665
Query: 548 QVLTDYLD 555
+ L +LD
Sbjct: 666 RKLPSFLD 673
Score = 43.5 bits (101), Expect = 0.006
Identities = 46/155 (29%), Positives = 67/155 (42%), Gaps = 22/155 (14%)
Query: 138 VAAKAAPVKKSAPAAAPTDEESEQPVKKAAAKNVTAKKTAKKATAKKTAAKKTAAKNVVD 197
+AAK K AA DE++ + +AA K + + + + V
Sbjct: 1 MAAKDIDDTKPDTAA---DEDASFDMSQAAVKRMIGEAKERGYITIDQLNAVMPPETVSG 57
Query: 198 ELLDDEAE---EKPITGKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGA----- 249
E ++D E I GEE E GGE E + + +A AGA
Sbjct: 58 EQIEDVMSMLSEMGINVVEGEE-VEESEGGEVV--------ETGSGSREIAVAGAAGETL 108
Query: 250 --TADPVKDYLKQIGKVPLLNAEQEVELAKRISAG 282
T DPV+ YL+++G V LL+ E E+ +AKRI AG
Sbjct: 109 DRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAG 143
>ref|NP_214029.1| (NC_000918) RNA polymerase sigma factor RpoD [Aquifex aeolicus]
pir||F70429 RNA polymerase sigma factor RpoD - Aquifex aeolicus
gb|AAC07417.1| (AE000742) RNA polymerase sigma factor RpoD [Aquifex aeolicus]
Length = 575
Score = 265 bits (676), Expect = 1e-69
Identities = 145/276 (52%), Positives = 198/276 (71%), Gaps = 20/276 (7%)
Query: 282 GLFAEDKLANADKIAPKLKCELEIIAEDGRR----AKNHLLEANLRLVVSLAKRYTGRGF 337
G+F E++L KI E GR+ AK ++++NLRLVVS+AK+Y RG
Sbjct: 314 GVFPEEELPKVMKII-----------EQGRKKVVQAKQVMIQSNLRLVVSIAKKYVNRG- 361
Query: 338 MLFLDLIQEGNLGLIRAVEKFDYTKGRKFSTYHTWWIRQAINTRAMADQARTIRIPVHMV 397
+ FLDLIQEGN+GL++AV+K+DY KG KFSTY TWWIRQAI TRA+ADQARTIRIPVHM+
Sbjct: 362 LHFLDLIQEGNIGLMKAVDKYDYRKGYKFSTYATWWIRQAI-TRAIADQARTIRIPVHMI 420
Query: 398 DSVINKRARVTRQMLQDLGREPTPEELAKELDMTPEKVIERAKYGREPISLHTPRGEEAG 457
++ INK + ++++ Q+ GREPTPEE+A+ LD+ EKV + K+ +EPISL TP G++
Sbjct: 421 ET-INKIIKASKKLFQENGREPTPEEIAEYLDIPVEKVKKVMKFSQEPISLETPIGDDD- 478
Query: 458 ADSELRDLIEDSEAVVPPDAVSFTLLQEQLHSVLDTLSEREAGVVSMRFGLTDGQPKTLD 517
D+ L+D IED P + V+ LL+EQL VL TLSE+E ++ R+GL DG TL+
Sbjct: 479 -DTFLKDFIEDKSIPNPEEQVTRKLLREQLQKVLSTLSEKEREILMYRYGLVDGTEYTLE 537
Query: 518 EIGKVSGVTRERIRQIESKTMSKLRHPSRSQVLTDY 553
++GK+ VTRERIRQIE+K + KLRHP+R++ L D+
Sbjct: 538 QVGKMFNVTRERIRQIENKALRKLRHPARAKYLKDF 573
Score = 45.8 bits (107), Expect = 0.001
Identities = 19/58 (32%), Positives = 37/58 (63%)
Query: 225 ESQGFVRSDDDEDLAPAHSVAAAGATADPVKDYLKQIGKVPLLNAEQEVELAKRISAG 282
E + +++E++ + S+ ++ DPVK YL+++GK+PLL E+E+ A++I G
Sbjct: 61 EEESEETQEEEEEVVVSGSLTSSSRDGDPVKLYLREMGKIPLLKREEEIYYARQIEIG 118
>gb|AAC44891.1| (U67425) sigma 70-type sigma factor SigA [Rhodobacter sphaeroides]
Length = 666
Score = 264 bits (675), Expect = 2e-69
Identities = 141/248 (56%), Positives = 185/248 (73%), Gaps = 5/248 (2%)
Query: 308 EDGRRAKNHLLEANLRLVVSLAKRYTGRGFMLFLDLIQEGNLGLIRAVEKFDYTKGRKFS 367
++ R+AK ++EANLRLV+S+AK+YT RG FLDLIQEGN+GL++AV+KF+Y +G KFS
Sbjct: 423 KEARQAKKEMVEANLRLVISIAKKYTNRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFS 481
Query: 368 TYHTWWIRQAINTRAMADQARTIRIPVHMVDSVINKRARVTRQMLQDLGREPTPEELAKE 427
TY TWWIRQAI TR++ADQARTIRIPVHM+++ INK R RQML ++GREPTPEELA++
Sbjct: 482 TYATWWIRQAI-TRSIADQARTIRIPVHMIET-INKLVRTGRQMLHEIGREPTPEELAEK 539
Query: 428 LDMTPEKVIERAKYGREPISLHTPRGEEAGADSELRDLIEDSEAVVPPDAVSFTLLQEQL 487
L M EKV + K +EPISL TP G+E DS+L D IED A++P D+ L+E
Sbjct: 540 LQMPLEKVRKVMKIAKEPISLETPIGDEE--DSQLGDFIEDKNAILPLDSAIQENLKETT 597
Query: 488 HSVLDTLSEREAGVVSMRFGLTDGQPKTLDEIGKVSGVTRERIRQIESKTMSKLRHPSRS 547
VL +L+ RE V+ MRFG+ TL+E+G+ VTRER+RQIE+K + KL+HPSRS
Sbjct: 598 TRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERLRQIEAKALRKLKHPSRS 657
Query: 548 QVLTDYLD 555
+ L +LD
Sbjct: 658 RKLRSFLD 665
Score = 42.7 bits (99), Expect = 0.010
Identities = 27/87 (31%), Positives = 44/87 (50%), Gaps = 14/87 (16%)
Query: 196 VDELLDDEAEEKPITGKPGEEGAPEGTGGESQGFVRSDDDEDLAPAHSVAAAGATADPVK 255
++ + ++EAEE G+P E +G+G + + T DPV+
Sbjct: 70 INVIENEEAEE----GEPAGELVEQGSGSREIAVAGTQGE----------TLDRTDDPVR 115
Query: 256 DYLKQIGKVPLLNAEQEVELAKRISAG 282
YL+++G V LL+ E E+ +AKRI AG
Sbjct: 116 MYLREMGSVELLSREGEIAIAKRIEAG 142
Database: All non-redundant GenBank CDS
translations+PDB+SwissProt+PIR+PRF
Posted date: Apr 13, 2002 12:41 PM
Number of letters in database: 288,591,486
Number of sequences in database: 920,511
Lambda K H
0.313 0.130 0.355
Gapped
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 297,002,589
Number of Sequences: 920511
Number of extensions: 12394057
Number of successful extensions: 59344
Number of sequences better than 10.0: 1459
Number of HSP's better than 10.0 without gapping: 742
Number of HSP's successfully gapped in prelim test: 757
Number of HSP's that attempted gapping in prelim test: 49381
Number of HSP's gapped (non-prelim): 4668
length of query: 555
length of database: 288,591,486
effective HSP length: 125
effective length of query: 430
effective length of database: 173,527,611
effective search space: 74616872730
effective search space used: 74616872730
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 74 (33.1 bits)
