BLASTP 2.2.25+
Reference:
Stephen F. Altschul, 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.
Reference for composition-based statistics:
Alejandro A. Schäffer, L. Aravind, Thomas L. Madden, Sergei
Shavirin, John L. Spouge, Yuri I. Wolf, Eugene V. Koonin, and
Stephen F. Altschul (2001), "Improving the accuracy of PSI-BLAST
protein database searches with composition-based statistics and
other refinements", Nucleic Acids Res. 29:2994-3005.
Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF
excluding environmental samples from WGS projects
15,229,318 sequences; 5,219,829,388 total letters
Query= Rv3328c
Length=312
Score E
Sequences producing significant alignments: (Bits) Value
gi|15610464|ref|NP_217845.1| RNA polymerase sigma factor SigJ [M... 625 3e-177
gi|254233940|ref|ZP_04927265.1| alternative RNA polymerase sigma... 622 2e-176
gi|31794513|ref|NP_857006.1| RNA polymerase sigma factor SigJ [M... 622 2e-176
gi|15842923|ref|NP_337960.1| RNA polymerase sigma factor SigJ [M... 561 7e-158
gi|289571559|ref|ZP_06451786.1| alternative RNA polymerase sigma... 508 3e-142
gi|240169101|ref|ZP_04747760.1| RNA polymerase sigma factor SigJ... 498 3e-139
gi|254776735|ref|ZP_05218251.1| RNA polymerase sigma factor SigJ... 477 9e-133
gi|118464731|ref|YP_883440.1| RNA polymerase sigma factor SigJ [... 477 1e-132
gi|336459588|gb|EGO38523.1| RNA polymerase sigma factor, sigma-7... 474 8e-132
gi|296168855|ref|ZP_06850527.1| RNA polymerase sigma-70 factor [... 468 4e-130
gi|342861548|ref|ZP_08718195.1| RNA polymerase sigma factor SigJ... 454 6e-126
gi|41409544|ref|NP_962380.1| RNA polymerase sigma factor SigJ [M... 449 2e-124
gi|254820246|ref|ZP_05225247.1| RNA polymerase sigma factor SigJ... 449 2e-124
gi|183981218|ref|YP_001849509.1| alternative RNA polymerase sigm... 428 7e-118
gi|126433852|ref|YP_001069543.1| RNA polymerase sigma factor Sig... 397 1e-108
gi|118473352|ref|YP_886043.1| RNA polymerase sigma factor SigJ [... 395 3e-108
gi|108798194|ref|YP_638391.1| RNA polymerase sigma factor SigJ [... 395 5e-108
gi|145225430|ref|YP_001136108.1| RNA polymerase sigma factor Sig... 392 4e-107
gi|169630757|ref|YP_001704406.1| RNA polymerase sigma factor Sig... 385 3e-105
gi|333991789|ref|YP_004524403.1| RNA polymerase sigma factor Sig... 385 6e-105
gi|120402582|ref|YP_952411.1| RNA polymerase sigma factor SigJ [... 384 9e-105
gi|315445778|ref|YP_004078657.1| RNA polymerase sigma factor, si... 380 1e-103
gi|111021908|ref|YP_704880.1| RNA polymerase sigma factor SigJ [... 325 5e-87
gi|226364418|ref|YP_002782200.1| RNA polymerase sigma factor Sig... 316 4e-84
gi|312138393|ref|YP_004005729.1| sigma-70 factor [Rhodococcus eq... 303 2e-80
gi|325674611|ref|ZP_08154298.1| RNA polymerase sigma factor SigJ... 303 3e-80
gi|229488585|ref|ZP_04382451.1| RNA polymerase sigma factor SigJ... 283 2e-74
gi|226308144|ref|YP_002768104.1| RNA polymerase ECF-type sigma f... 282 4e-74
gi|229818896|ref|YP_002880422.1| RNA polymerase sigma factor Sig... 281 7e-74
gi|300788425|ref|YP_003768716.1| RNA polymerase sigma-70 factor,... 277 2e-72
gi|37954430|gb|AAP69762.1| putative ECF sigma factor [Rhodococcu... 276 3e-72
gi|302528809|ref|ZP_07281151.1| RNA polymerase sigma factor SigJ... 269 5e-70
gi|331698225|ref|YP_004334464.1| ECF subfamily RNA polymerase si... 246 4e-63
gi|134098091|ref|YP_001103752.1| RNA polymerase sigma factor Sig... 245 5e-63
gi|291007450|ref|ZP_06565423.1| RNA polymerase sigma factor SigJ... 245 8e-63
gi|256375412|ref|YP_003099072.1| ECF subfamily RNA polymerase si... 244 1e-62
gi|308406123|ref|ZP_07495207.2| alternative RNA polymerase sigma... 233 4e-59
gi|302547996|ref|ZP_07300338.1| RNA polymerase sigma-70 factor, ... 203 3e-50
gi|271968354|ref|YP_003342550.1| ECF subfamily RNA polymerase si... 201 2e-49
gi|163793316|ref|ZP_02187291.1| sigma-24 (FecI-like) protein [al... 199 5e-49
gi|311107419|ref|YP_003980272.1| RNA polymerase sigma factor sig... 197 2e-48
gi|297195718|ref|ZP_06913116.1| RNA polymerase ECF-subfamily sig... 197 2e-48
gi|284033319|ref|YP_003383250.1| ECF subfamily RNA polymerase si... 196 3e-48
gi|26541497|gb|AAN85484.1|AF484556_6 RNA polymerase ECF-type sig... 194 1e-47
gi|345011533|ref|YP_004813887.1| ECF subfamily RNA polymerase si... 193 2e-47
gi|320012102|gb|ADW06952.1| RNA polymerase, sigma-24 subunit, EC... 192 4e-47
gi|149375325|ref|ZP_01893096.1| RNA polymerase sigma-70 factor [... 192 4e-47
gi|126348516|emb|CAJ90240.1| putative ECF-sigma factor [Streptom... 192 5e-47
gi|302561888|ref|ZP_07314230.1| RNA polymerase ECF-subfamily sig... 190 3e-46
gi|337763590|emb|CCB72300.1| RNA polymerase ECF-type sigma facto... 189 7e-46
>gi|15610464|ref|NP_217845.1| RNA polymerase sigma factor SigJ [Mycobacterium tuberculosis
H37Rv]
gi|148663192|ref|YP_001284715.1| RNA polymerase sigma factor SigJ [Mycobacterium tuberculosis
H37Ra]
gi|167967095|ref|ZP_02549372.1| RNA polymerase sigma factor SigJ [Mycobacterium tuberculosis
H37Ra]
gi|2894238|emb|CAA17100.1| PROBABLE ALTERNATIVE RNA POLYMERASE SIGMA FACTOR (FRAGMENT) SIGJ
[Mycobacterium tuberculosis H37Rv]
gi|148507344|gb|ABQ75153.1| RNA polymerase sigma-70 factor [Mycobacterium tuberculosis H37Ra]
Length=312
Score = 625 bits (1611), Expect = 3e-177, Method: Compositional matrix adjust.
Identities = 312/312 (100%), Positives = 312/312 (100%), Gaps = 0/312 (0%)
Query 1 MEVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLG 60
MEVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLG
Sbjct 1 MEVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLG 60
Query 61 LDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVA 120
LDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVA
Sbjct 61 LDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVA 120
Query 121 FVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMA 180
FVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMA
Sbjct 121 FVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMA 180
Query 181 AMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGAN 240
AMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGAN
Sbjct 181 AMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGAN 240
Query 241 QLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLKERR 300
QLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLKERR
Sbjct 241 QLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLKERR 300
Query 301 AQPTGRGRHHRN 312
AQPTGRGRHHRN
Sbjct 301 AQPTGRGRHHRN 312
>gi|254233940|ref|ZP_04927265.1| alternative RNA polymerase sigma factor (fragment) sigJ [Mycobacterium
tuberculosis C]
gi|289752028|ref|ZP_06511406.1| alternative RNA polymerase sigma factor sigJ [Mycobacterium tuberculosis
T92]
gi|308370228|ref|ZP_07666893.1| alternative RNA polymerase sigma factor sigJ [Mycobacterium tuberculosis
SUMu002]
16 more sequence titles
Length=315
Score = 622 bits (1605), Expect = 2e-176, Method: Compositional matrix adjust.
Identities = 311/312 (99%), Positives = 311/312 (99%), Gaps = 0/312 (0%)
Query 1 MEVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLG 60
MEVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDS DTVIADPRAWLTTVVSRLG
Sbjct 4 MEVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSQDTVIADPRAWLTTVVSRLG 63
Query 61 LDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVA 120
LDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVA
Sbjct 64 LDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVA 123
Query 121 FVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMA 180
FVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMA
Sbjct 124 FVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMA 183
Query 181 AMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGAN 240
AMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGAN
Sbjct 184 AMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGAN 243
Query 241 QLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLKERR 300
QLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLKERR
Sbjct 244 QLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLKERR 303
Query 301 AQPTGRGRHHRN 312
AQPTGRGRHHRN
Sbjct 304 AQPTGRGRHHRN 315
>gi|31794513|ref|NP_857006.1| RNA polymerase sigma factor SigJ [Mycobacterium bovis AF2122/97]
gi|121639256|ref|YP_979480.1| RNA polymerase sigma factor SigJ [Mycobacterium bovis BCG str.
Pasteur 1173P2]
gi|148824533|ref|YP_001289287.1| RNA polymerase sigma factor SigJ [Mycobacterium tuberculosis
F11]
38 more sequence titles
Length=312
Score = 622 bits (1604), Expect = 2e-176, Method: Compositional matrix adjust.
Identities = 311/312 (99%), Positives = 311/312 (99%), Gaps = 0/312 (0%)
Query 1 MEVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLG 60
MEVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDS DTVIADPRAWLTTVVSRLG
Sbjct 1 MEVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSQDTVIADPRAWLTTVVSRLG 60
Query 61 LDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVA 120
LDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVA
Sbjct 61 LDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVA 120
Query 121 FVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMA 180
FVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMA
Sbjct 121 FVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMA 180
Query 181 AMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGAN 240
AMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGAN
Sbjct 181 AMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGAN 240
Query 241 QLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLKERR 300
QLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLKERR
Sbjct 241 QLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLKERR 300
Query 301 AQPTGRGRHHRN 312
AQPTGRGRHHRN
Sbjct 301 AQPTGRGRHHRN 312
>gi|15842923|ref|NP_337960.1| RNA polymerase sigma factor SigJ [Mycobacterium tuberculosis
CDC1551]
gi|289759478|ref|ZP_06518856.1| alternative RNA polymerase sigma factor sigJ [Mycobacterium tuberculosis
T85]
gi|13883257|gb|AAK47774.1| RNA polymerase sigma factor, putative [Mycobacterium tuberculosis
CDC1551]
gi|289715042|gb|EFD79054.1| alternative RNA polymerase sigma factor sigJ [Mycobacterium tuberculosis
T85]
Length=282
Score = 561 bits (1445), Expect = 7e-158, Method: Compositional matrix adjust.
Identities = 280/282 (99%), Positives = 281/282 (99%), Gaps = 0/282 (0%)
Query 31 VQEAWLRWDSPDTVIADPRAWLTTVVSRLGLDKLRSAAHRRETYTGTWLPEPVVTGLDAT 90
+QEAWLRWDS DTVIADPRAWLTTVVSRLGLDKLRSAAHRRETYTGTWLPEPVVTGLDAT
Sbjct 1 MQEAWLRWDSQDTVIADPRAWLTTVVSRLGLDKLRSAAHRRETYTGTWLPEPVVTGLDAT 60
Query 91 DPLAAVVAAEDARFAAMVVLERLRPDQRVAFVLHDGFAVPFAEVAEVLGTSEAAARQLAS 150
DPLAAVVAAEDARFAAMVVLERLRPDQRVAFVLHDGFAVPFAEVAEVLGTSEAAARQLAS
Sbjct 61 DPLAAVVAAEDARFAAMVVLERLRPDQRVAFVLHDGFAVPFAEVAEVLGTSEAAARQLAS 120
Query 151 RARKAVTAQPALISGDPDPAHNEVVGRLMAAMAAGDLDTVVSLLHPDVTFTGDSNGKAPT 210
RARKAVTAQPALISGDPDPAHNEVVGRLMAAMAAGDLDTVVSLLHPDVTFTGDSNGKAPT
Sbjct 121 RARKAVTAQPALISGDPDPAHNEVVGRLMAAMAAGDLDTVVSLLHPDVTFTGDSNGKAPT 180
Query 211 AVRAVRGSDKVVRFILGLVQRYGPGLFGANQLALVNGELGAYTAGLPGVDGYRAMAPRIT 270
AVRAVRGSDKVVRFILGLVQRYGPGLFGANQLALVNGELGAYTAGLPGVDGYRAMAPRIT
Sbjct 181 AVRAVRGSDKVVRFILGLVQRYGPGLFGANQLALVNGELGAYTAGLPGVDGYRAMAPRIT 240
Query 271 AITVRDGKVCALWDIANPDKFTGSPLKERRAQPTGRGRHHRN 312
AITVRDGKVCALWDIANPDKFTGSPLKERRAQPTGRGRHHRN
Sbjct 241 AITVRDGKVCALWDIANPDKFTGSPLKERRAQPTGRGRHHRN 282
>gi|289571559|ref|ZP_06451786.1| alternative RNA polymerase sigma factor sigJ [Mycobacterium tuberculosis
T17]
gi|289545313|gb|EFD48961.1| alternative RNA polymerase sigma factor sigJ [Mycobacterium tuberculosis
T17]
Length=259
Score = 508 bits (1309), Expect = 3e-142, Method: Compositional matrix adjust.
Identities = 258/259 (99%), Positives = 258/259 (99%), Gaps = 0/259 (0%)
Query 1 MEVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLG 60
MEVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDS DTVIADPRAWLTTVVSRLG
Sbjct 1 MEVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSQDTVIADPRAWLTTVVSRLG 60
Query 61 LDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVA 120
LDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVA
Sbjct 61 LDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVA 120
Query 121 FVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMA 180
FVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMA
Sbjct 121 FVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMA 180
Query 181 AMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGAN 240
AMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGAN
Sbjct 181 AMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGAN 240
Query 241 QLALVNGELGAYTAGLPGV 259
QLALVNGELGAYTAGLPGV
Sbjct 241 QLALVNGELGAYTAGLPGV 259
>gi|240169101|ref|ZP_04747760.1| RNA polymerase sigma factor SigJ [Mycobacterium kansasii ATCC
12478]
Length=306
Score = 498 bits (1283), Expect = 3e-139, Method: Compositional matrix adjust.
Identities = 248/304 (82%), Positives = 270/304 (89%), Gaps = 3/304 (0%)
Query 2 EVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLGL 61
+++EFEALR HLMSVAYRLTGTVADAEDIVQEAWLRWD+ D I D RAWLTTVVSRLGL
Sbjct 6 QITEFEALRPHLMSVAYRLTGTVADAEDIVQEAWLRWDTYDREIDDLRAWLTTVVSRLGL 65
Query 62 DKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVAF 121
DKLRSAAHRRETYTG WLPEP+VTGLD DPLAAVVAAEDARFAAMVVLERL PDQRVAF
Sbjct 66 DKLRSAAHRRETYTGNWLPEPIVTGLDGADPLAAVVAAEDARFAAMVVLERLSPDQRVAF 125
Query 122 VLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAA 181
VLHDGF+VPFA++A+VLGT+EAAARQLASRARKA+ ++ A PDPAHNEVVG+LMAA
Sbjct 126 VLHDGFSVPFADIADVLGTNEAAARQLASRARKALASEAADAPQRPDPAHNEVVGKLMAA 185
Query 182 MAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGANQ 241
MAAGDLDTVVSLLHPDVTFTGDSNGKAPTAV+ + G+DKVVRF+ GL +RYGP F ANQ
Sbjct 186 MAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVQVIHGADKVVRFMFGLARRYGPAFFTANQ 245
Query 242 LALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLKERRA 301
LALVNGELGAYT G G DG+R MAPRITA+TVRDGKVCA+WDIANPDKFTGSPL RA
Sbjct 246 LALVNGELGAYTTGFAGADGHRDMAPRITAMTVRDGKVCAIWDIANPDKFTGSPL---RA 302
Query 302 QPTG 305
P G
Sbjct 303 TPAG 306
>gi|254776735|ref|ZP_05218251.1| RNA polymerase sigma factor SigJ [Mycobacterium avium subsp.
avium ATCC 25291]
Length=308
Score = 477 bits (1228), Expect = 9e-133, Method: Compositional matrix adjust.
Identities = 239/298 (81%), Positives = 260/298 (88%), Gaps = 6/298 (2%)
Query 2 EVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLGL 61
+VSEFE+LR HLMSVAYRLTGTVADAEDIVQ+AWLRW D I D RAWLTTVVSRLGL
Sbjct 12 QVSEFESLRPHLMSVAYRLTGTVADAEDIVQDAWLRWHGQDGAITDLRAWLTTVVSRLGL 71
Query 62 DKLRSAAHRRETYTGTWLPEPVVTGL---DATDPLAAVVAAEDARFAAMVVLERLRPDQR 118
D+LRSA HRRETYTG WLPEPVVTGL DPLAAVVA EDARFAAMVVLERL PDQR
Sbjct 72 DRLRSATHRRETYTGNWLPEPVVTGLGPHSGADPLAAVVAGEDARFAAMVVLERLSPDQR 131
Query 119 VAFVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRL 178
VAFVLHDGFAVPF+EVAEVLGTSEAAARQLASRARK V+AQP +PDP+H+EVVG+L
Sbjct 132 VAFVLHDGFAVPFSEVAEVLGTSEAAARQLASRARKVVSAQP---PPEPDPSHDEVVGQL 188
Query 179 MAAMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFG 238
MAAMAAG+L+ VV+LLHPDV FTGDSNGKAPTAV+ + G+DKVVRF+LGL +RYGPG +
Sbjct 189 MAAMAAGNLEAVVALLHPDVMFTGDSNGKAPTAVQVIHGADKVVRFMLGLARRYGPGFYS 248
Query 239 ANQLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPL 296
A QL LVNGELG YTAGLPG DGYR M PRI A+TVR+GKVCALWDIANPDKFTGSPL
Sbjct 249 AYQLGLVNGELGIYTAGLPGGDGYREMCPRIMAMTVREGKVCALWDIANPDKFTGSPL 306
>gi|118464731|ref|YP_883440.1| RNA polymerase sigma factor SigJ [Mycobacterium avium 104]
gi|118166018|gb|ABK66915.1| RNA polymerase sigma-70 factor [Mycobacterium avium 104]
Length=318
Score = 477 bits (1228), Expect = 1e-132, Method: Compositional matrix adjust.
Identities = 239/298 (81%), Positives = 260/298 (88%), Gaps = 6/298 (2%)
Query 2 EVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLGL 61
+VSEFE+LR HLMSVAYRLTGTVADAEDIVQ+AWLRW D I D RAWLTTVVSRLGL
Sbjct 22 QVSEFESLRPHLMSVAYRLTGTVADAEDIVQDAWLRWHGQDGAITDLRAWLTTVVSRLGL 81
Query 62 DKLRSAAHRRETYTGTWLPEPVVTGL---DATDPLAAVVAAEDARFAAMVVLERLRPDQR 118
D+LRSA HRRETYTG WLPEPVVTGL DPLAAVVA EDARFAAMVVLERL PDQR
Sbjct 82 DRLRSATHRRETYTGNWLPEPVVTGLGPHSGADPLAAVVAGEDARFAAMVVLERLSPDQR 141
Query 119 VAFVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRL 178
VAFVLHDGFAVPF+EVAEVLGTSEAAARQLASRARK V+AQP +PDP+H+EVVG+L
Sbjct 142 VAFVLHDGFAVPFSEVAEVLGTSEAAARQLASRARKVVSAQP---PPEPDPSHDEVVGQL 198
Query 179 MAAMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFG 238
MAAMAAG+L+ VV+LLHPDV FTGDSNGKAPTAV+ + G+DKVVRF+LGL +RYGPG +
Sbjct 199 MAAMAAGNLEAVVALLHPDVMFTGDSNGKAPTAVQVIHGADKVVRFMLGLARRYGPGFYS 258
Query 239 ANQLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPL 296
A QL LVNGELG YTAGLPG DGYR M PRI A+TVR+GKVCALWDIANPDKFTGSPL
Sbjct 259 AYQLGLVNGELGIYTAGLPGGDGYREMCPRIMAMTVREGKVCALWDIANPDKFTGSPL 316
>gi|336459588|gb|EGO38523.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium avium
subsp. paratuberculosis S397]
Length=308
Score = 474 bits (1220), Expect = 8e-132, Method: Compositional matrix adjust.
Identities = 238/298 (80%), Positives = 259/298 (87%), Gaps = 6/298 (2%)
Query 2 EVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLGL 61
+VSEFE+LR HLMSVAYRLTGTVADAEDIVQ+AWLRW D I D RAWLTTVVSRLGL
Sbjct 12 QVSEFESLRPHLMSVAYRLTGTVADAEDIVQDAWLRWHGQDGAITDLRAWLTTVVSRLGL 71
Query 62 DKLRSAAHRRETYTGTWLPEPVVTGL---DATDPLAAVVAAEDARFAAMVVLERLRPDQR 118
D+LRSA HRRETYTG WLPEPVVTGL DPLAAVVA EDARFAAMVVLERL PDQR
Sbjct 72 DRLRSATHRRETYTGNWLPEPVVTGLGPHSGADPLAAVVAGEDARFAAMVVLERLSPDQR 131
Query 119 VAFVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRL 178
VAFVLHDGFAVPF+EVAEVLGTSEAAARQLASRARK V+AQP +PDP+H+EVVG+L
Sbjct 132 VAFVLHDGFAVPFSEVAEVLGTSEAAARQLASRARKVVSAQP---PPEPDPSHDEVVGQL 188
Query 179 MAAMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFG 238
MAAMAAG+L+ VV+LLHPDV FTGDSNGKAPTAV+ + G+DKVVRF+LGL +RYGPG +
Sbjct 189 MAAMAAGNLEAVVALLHPDVMFTGDSNGKAPTAVQVIHGADKVVRFMLGLARRYGPGFYS 248
Query 239 ANQLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPL 296
A QL LVNGELG YTAGLPG DGYR M PRI A+TVR+ KVCALWDIANPDKFTGSPL
Sbjct 249 AYQLGLVNGELGIYTAGLPGGDGYREMCPRIMAMTVRERKVCALWDIANPDKFTGSPL 306
>gi|296168855|ref|ZP_06850527.1| RNA polymerase sigma-70 factor [Mycobacterium parascrofulaceum
ATCC BAA-614]
gi|295896472|gb|EFG76122.1| RNA polymerase sigma-70 factor [Mycobacterium parascrofulaceum
ATCC BAA-614]
Length=300
Score = 468 bits (1205), Expect = 4e-130, Method: Compositional matrix adjust.
Identities = 241/298 (81%), Positives = 263/298 (89%), Gaps = 3/298 (1%)
Query 2 EVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLGL 61
+VSEF++LR HLM+VAYRLTG+VADAED+VQEAWLRW+ D I D RAWLTTVVSRLGL
Sbjct 6 QVSEFQSLRPHLMAVAYRLTGSVADAEDLVQEAWLRWEGQDAQITDLRAWLTTVVSRLGL 65
Query 62 DKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVAF 121
DKLRSAAHRRETYTG WLPEPVVTGLD +DPL+AVVA EDARFAAMVVLERL PDQRVAF
Sbjct 66 DKLRSAAHRRETYTGNWLPEPVVTGLDGSDPLSAVVAREDARFAAMVVLERLSPDQRVAF 125
Query 122 VLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAA 181
VLHDGFAVPFAEVA+VLGTSEA ARQLASRARKAV A+P DP+H+EVVGRLMAA
Sbjct 126 VLHDGFAVPFAEVADVLGTSEAGARQLASRARKAVAAEPPPAP---DPSHDEVVGRLMAA 182
Query 182 MAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGANQ 241
MAAGDLDTVVSLLHPDVTFTGDSNGKAPTAV+ ++G+DKV RF+ GL +RYGP F ANQ
Sbjct 183 MAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVQIIQGADKVARFMFGLARRYGPAFFTANQ 242
Query 242 LALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLKER 299
L LVNGELGAYTAG PG +G+ M PRI AITVRDGKVCALWDIANPDKFTGSPL+ R
Sbjct 243 LGLVNGELGAYTAGSPGDEGHWQMLPRILAITVRDGKVCALWDIANPDKFTGSPLRPR 300
>gi|342861548|ref|ZP_08718195.1| RNA polymerase sigma factor SigJ [Mycobacterium colombiense CECT
3035]
gi|342131037|gb|EGT84326.1| RNA polymerase sigma factor SigJ [Mycobacterium colombiense CECT
3035]
Length=307
Score = 454 bits (1169), Expect = 6e-126, Method: Compositional matrix adjust.
Identities = 229/305 (76%), Positives = 256/305 (84%), Gaps = 10/305 (3%)
Query 2 EVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPD----TVIADPRAWLTTVVS 57
+VSEFE+LR HLMSVAYRLTGTVADAEDIVQ+AWLRW D + I D RAWLTTVVS
Sbjct 6 QVSEFESLRPHLMSVAYRLTGTVADAEDIVQDAWLRWHRQDPGKGSEITDLRAWLTTVVS 65
Query 58 RLGLDKLRSAAHRRETYTGTWLPEPVVTGLD---ATDPLAAVVAAEDARFAAMVVLERLR 114
RLGLD+LRSAAHRRETYTG WLPEPVVTG A DPL+AVVA EDARFAAMVVLERL
Sbjct 66 RLGLDRLRSAAHRRETYTGNWLPEPVVTGFGDSAADDPLSAVVAGEDARFAAMVVLERLS 125
Query 115 PDQRVAFVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEV 174
PDQRVAFVLHDGFAVPFAEVA+VLGT+EAAARQLASRARKAV+A+ +PDPAH EV
Sbjct 126 PDQRVAFVLHDGFAVPFAEVAQVLGTNEAAARQLASRARKAVSAE---APPEPDPAHAEV 182
Query 175 VGRLMAAMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGP 234
VG+L+AAMA+GDL+ VV+LLHPDV TGD+NGKAPTA+ + G+DKV RF GL QRYGP
Sbjct 183 VGKLLAAMASGDLEAVVALLHPDVILTGDANGKAPTAINVIHGADKVARFFFGLAQRYGP 242
Query 235 GLFGANQLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGS 294
+F + QL LVNGELG YTAG+P DGYR + PRI A TVRDGKVCALWD+ANPDKF+GS
Sbjct 243 AMFTSYQLGLVNGELGGYTAGVPASDGYRELMPRIMAATVRDGKVCALWDVANPDKFSGS 302
Query 295 PLKER 299
PL+ R
Sbjct 303 PLRAR 307
>gi|41409544|ref|NP_962380.1| RNA polymerase sigma factor SigJ [Mycobacterium avium subsp.
paratuberculosis K-10]
gi|41398375|gb|AAS05996.1| SigJ [Mycobacterium avium subsp. paratuberculosis K-10]
Length=295
Score = 449 bits (1156), Expect = 2e-124, Method: Compositional matrix adjust.
Identities = 229/287 (80%), Positives = 248/287 (87%), Gaps = 6/287 (2%)
Query 13 LMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLGLDKLRSAAHRRE 72
LMSVAYRLTGTVADAEDIVQ+AWLR D I D RAWLTTVVSRLGLD+LRSA HRRE
Sbjct 10 LMSVAYRLTGTVADAEDIVQDAWLRRHGQDGAITDLRAWLTTVVSRLGLDRLRSATHRRE 69
Query 73 TYTGTWLPEPVVTGL---DATDPLAAVVAAEDARFAAMVVLERLRPDQRVAFVLHDGFAV 129
TYTG WLPEPVVTGL DPLAAVVA EDARFAAMVVLERL PDQRVAFVLHDGFAV
Sbjct 70 TYTGNWLPEPVVTGLGPHSGADPLAAVVAGEDARFAAMVVLERLSPDQRVAFVLHDGFAV 129
Query 130 PFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAAMAAGDLDT 189
PF+EVAEVLGTSEAAARQLASRARK V+AQP +PDP+H+EVVG+LMAAMAAG+L+
Sbjct 130 PFSEVAEVLGTSEAAARQLASRARKVVSAQP---PPEPDPSHDEVVGQLMAAMAAGNLEA 186
Query 190 VVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGANQLALVNGEL 249
VV+LLHPDV FTGDSNGKAPTAV+ + G+DKVVRF+LGL +RYGPG + A QL LVNGEL
Sbjct 187 VVALLHPDVMFTGDSNGKAPTAVQVIHGADKVVRFMLGLARRYGPGFYSAYQLGLVNGEL 246
Query 250 GAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPL 296
G YTAGLPG DGYR M PRI A+TVR+ KVCALWDIANPDKFTGSPL
Sbjct 247 GIYTAGLPGGDGYREMCPRIMAMTVRERKVCALWDIANPDKFTGSPL 293
>gi|254820246|ref|ZP_05225247.1| RNA polymerase sigma factor SigJ [Mycobacterium intracellulare
ATCC 13950]
Length=310
Score = 449 bits (1156), Expect = 2e-124, Method: Compositional matrix adjust.
Identities = 234/310 (76%), Positives = 252/310 (82%), Gaps = 13/310 (4%)
Query 2 EVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPD----TVIADPRAWLTTVVS 57
+VSEFE+LR HLMSVAYRLTGT+ADAEDIVQ+AWLRW D T I D RAWLTTVVS
Sbjct 6 QVSEFESLRPHLMSVAYRLTGTIADAEDIVQDAWLRWHRQDPDKGTQITDLRAWLTTVVS 65
Query 58 RLGLDKLRSAAHRRETYTGTWLPEPVVTGL----DATDPLAAVVAAEDARFAAMVVLERL 113
RLGLD+LRSAAHRRETYTG WLPEPVVTG DPL+AVVA EDARFAAMVVLERL
Sbjct 66 RLGLDRLRSAAHRRETYTGNWLPEPVVTGFGPPASEADPLSAVVAGEDARFAAMVVLERL 125
Query 114 RPDQRVAFVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNE 173
PDQRVAFVLHDGF VPFAEVAE LGTSEAAARQLASRARKAV A+P +HNE
Sbjct 126 SPDQRVAFVLHDGFDVPFAEVAEALGTSEAAARQLASRARKAVAAEPPPEPDP---SHNE 182
Query 174 VVGRLMAAMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYG 233
VVG+L+AAMAAGDL+ VVSLLHPDV FTGDSNGKAPTAV + G DKVVRF+LGL RYG
Sbjct 183 VVGKLLAAMAAGDLEAVVSLLHPDVIFTGDSNGKAPTAVHVIHGPDKVVRFMLGLANRYG 242
Query 234 PGLFGANQLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTG 293
P + + Q LVNGELG YTAG P DGYR M PRI A+TVRDGKVCALWD+ANP+KFTG
Sbjct 243 PAFYTSYQAGLVNGELGIYTAGFPAADGYREMCPRIMAMTVRDGKVCALWDVANPEKFTG 302
Query 294 SPLKERRAQP 303
SPL RR QP
Sbjct 303 SPL--RREQP 310
>gi|183981218|ref|YP_001849509.1| alternative RNA polymerase sigma factor SigJ [Mycobacterium marinum
M]
gi|183174544|gb|ACC39654.1| alternative RNA polymerase sigma factor SigJ [Mycobacterium marinum
M]
Length=309
Score = 428 bits (1100), Expect = 7e-118, Method: Compositional matrix adjust.
Identities = 232/300 (78%), Positives = 253/300 (85%), Gaps = 8/300 (2%)
Query 4 SEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTV--IADPRAWLTTVVSRLGL 61
S FE+LR HLMSVAYRLTGTVADAEDIVQEAWLRWD+ +AD RAWLTTVVSRLGL
Sbjct 10 STFESLRPHLMSVAYRLTGTVADAEDIVQEAWLRWDAAPGRDDVADLRAWLTTVVSRLGL 69
Query 62 DKLRSAAHRRETYTGTWLPEPVVTGLD---ATDPLAAVVAAEDARFAAMVVLERLRPDQR 118
DKLRSAA RRETYTG WLPEPVVTGL DPL+AVVAAEDARFA MVVLERL PDQR
Sbjct 70 DKLRSAARRRETYTGHWLPEPVVTGLGDAGGADPLSAVVAAEDARFAVMVVLERLSPDQR 129
Query 119 VAFVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRL 178
VAFVLHDGFA+PFAEVA V+G SEAAARQLASRARKAV A P DP HNEVVGRL
Sbjct 130 VAFVLHDGFAMPFAEVAGVIGASEAAARQLASRARKAVAAAPPPQP---DPTHNEVVGRL 186
Query 179 MAAMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFG 238
MAAMA+GDL +VVSLLHPDVTFTGD+NG+APTA R + G+DKV RF+LGL +RYGP +
Sbjct 187 MAAMASGDLHSVVSLLHPDVTFTGDANGRAPTAARVICGADKVARFMLGLARRYGPAFYT 246
Query 239 ANQLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLKE 298
ANQLALVNGELG+YT G G G+ AM PRITA+TVRDGKVCALWDIANPDKF+GSPL++
Sbjct 247 ANQLALVNGELGSYTLGTAGDGGHWAMLPRITAMTVRDGKVCALWDIANPDKFSGSPLRD 306
>gi|126433852|ref|YP_001069543.1| RNA polymerase sigma factor SigJ [Mycobacterium sp. JLS]
gi|126233652|gb|ABN97052.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Mycobacterium
sp. JLS]
Length=302
Score = 397 bits (1020), Expect = 1e-108, Method: Compositional matrix adjust.
Identities = 214/298 (72%), Positives = 242/298 (82%), Gaps = 6/298 (2%)
Query 3 VSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDS---PDTVIADPRAWLTTVVSRL 59
+ EFE+LR +L+SVAYRLTG+V DAED VQ+AWLRWD+ + IAD RAWLTTVVSR+
Sbjct 7 IDEFESLRPYLLSVAYRLTGSVTDAEDAVQDAWLRWDALGEDRSGIADLRAWLTTVVSRI 66
Query 60 GLDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRV 119
GLD+LRSAA RRETY G WLPEPVVTG D TDPL+AVVAAEDARFAAMVVLERL PDQRV
Sbjct 67 GLDRLRSAARRRETYVGEWLPEPVVTGFDRTDPLSAVVAAEDARFAAMVVLERLTPDQRV 126
Query 120 AFVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLM 179
AFVLHDGFA+ F E+A VLG + AAARQLASRAR+AV A DP+H+EVVGRLM
Sbjct 127 AFVLHDGFAMSFTEIAGVLGVNPAAARQLASRARRAVADAEAPAR---DPSHDEVVGRLM 183
Query 180 AAMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGA 239
AAMAAGD+ VV LLHPDVTFTGDSN KAPTA R + G+DKV RF+ GL +RYGP F A
Sbjct 184 AAMAAGDMAAVVELLHPDVTFTGDSNRKAPTAPRVIHGADKVARFVFGLARRYGPRFFEA 243
Query 240 NQLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLK 297
L LVNG+LG YTAGLP + AMAPRI A+TVRDGKVCA+WD+ANPDKFT SPL+
Sbjct 244 GDLVLVNGDLGLYTAGLPADGEWPAMAPRIQALTVRDGKVCAIWDVANPDKFTASPLR 301
>gi|118473352|ref|YP_886043.1| RNA polymerase sigma factor SigJ [Mycobacterium smegmatis str.
MC2 155]
gi|118174639|gb|ABK75535.1| RNA polymerase sigma-70 factor [Mycobacterium smegmatis str.
MC2 155]
Length=304
Score = 395 bits (1016), Expect = 3e-108, Method: Compositional matrix adjust.
Identities = 205/292 (71%), Positives = 235/292 (81%), Gaps = 3/292 (1%)
Query 5 EFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLGLDKL 64
+FEALR HL++VAYRLTGT ADAEDIVQEAW+RW + I + +AWLTTVVSRLGLD+L
Sbjct 9 QFEALRPHLLAVAYRLTGTYADAEDIVQEAWIRWAGQEAPIENLQAWLTTVVSRLGLDRL 68
Query 65 RSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVAFVLH 124
RSAAHRRE+Y G WLPEPVVTG+D DPL AVVA EDARFAAMVVLE+L PDQRVAFVL+
Sbjct 69 RSAAHRRESYYGEWLPEPVVTGIDGNDPLNAVVAGEDARFAAMVVLEQLSPDQRVAFVLY 128
Query 125 DGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAAMAA 184
DGF VPF ++A+VLG S A+ARQLASRAR+AV P + D HNE+ G LMAA+AA
Sbjct 129 DGFGVPFPDIADVLGVSAASARQLASRARRAVADAPPPVD---DNTHNEIAGALMAALAA 185
Query 185 GDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGANQLAL 244
GD+D VV LLHPDVTFTGDSN KAPTA R + G +KV RF+ GL +RYGP QLAL
Sbjct 186 GDMDGVVRLLHPDVTFTGDSNRKAPTAPRVIHGPEKVARFLFGLARRYGPNWLAGAQLAL 245
Query 245 VNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPL 296
+NGELG YT G P DGY + PRITA+TVRDGKVCA+WD+ANPDKFTGSPL
Sbjct 246 INGELGTYTPGAPAGDGYPELLPRITAMTVRDGKVCAVWDVANPDKFTGSPL 297
>gi|108798194|ref|YP_638391.1| RNA polymerase sigma factor SigJ [Mycobacterium sp. MCS]
gi|119867290|ref|YP_937242.1| RNA polymerase sigma factor SigJ [Mycobacterium sp. KMS]
gi|108768613|gb|ABG07335.1| RNA polymerase, sigma-24 subunit, RpoE [Mycobacterium sp. MCS]
gi|119693379|gb|ABL90452.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Mycobacterium
sp. KMS]
Length=307
Score = 395 bits (1014), Expect = 5e-108, Method: Compositional matrix adjust.
Identities = 214/297 (73%), Positives = 243/297 (82%), Gaps = 6/297 (2%)
Query 3 VSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPD---TVIADPRAWLTTVVSRL 59
+ EFE+LR +L+SV YRLTG+VADAED VQ+AWLRWD+ + IAD RAWLTTVVSR+
Sbjct 7 IDEFESLRPYLLSVGYRLTGSVADAEDAVQDAWLRWDALGEDWSGIADLRAWLTTVVSRI 66
Query 60 GLDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRV 119
GLD+LRSAA RRETY G WLPEPVVTGLD TDPL+AVVAAEDARFAAMVVL+RL PDQRV
Sbjct 67 GLDRLRSAARRRETYVGEWLPEPVVTGLDRTDPLSAVVAAEDARFAAMVVLDRLTPDQRV 126
Query 120 AFVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLM 179
AFVLHDGFAV F E+A VLG + AAARQLASRAR+AV A DP+H+EVVGRLM
Sbjct 127 AFVLHDGFAVSFTEIAGVLGVNPAAARQLASRARRAVADAEAPAR---DPSHDEVVGRLM 183
Query 180 AAMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGA 239
AAMAAGD+ VV LLHPDVTFTGDSN KAPTA R + G+DKV RF+ GL +RYGP F A
Sbjct 184 AAMAAGDMAAVVELLHPDVTFTGDSNRKAPTAPRVIHGADKVARFVFGLARRYGPRFFEA 243
Query 240 NQLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPL 296
+LALVNG+LG TAGLP + AMAPRI A+TVRDGKVCA+WD+ANPDKFT SP+
Sbjct 244 GELALVNGDLGLCTAGLPADGEWPAMAPRIQALTVRDGKVCAIWDVANPDKFTASPM 300
>gi|145225430|ref|YP_001136108.1| RNA polymerase sigma factor SigJ [Mycobacterium gilvum PYR-GCK]
gi|145217916|gb|ABP47320.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Mycobacterium
gilvum PYR-GCK]
Length=309
Score = 392 bits (1007), Expect = 4e-107, Method: Compositional matrix adjust.
Identities = 204/296 (69%), Positives = 233/296 (79%), Gaps = 7/296 (2%)
Query 3 VSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSP-DTVIADPRAWLTTVVSRLGL 61
V+EFE +R HL+SVAYRLTGTVADAEDIVQ+AWLRW + + D +AWLTTVVSRL L
Sbjct 17 VAEFEQMRPHLLSVAYRLTGTVADAEDIVQDAWLRWSTHRGAAVEDLKAWLTTVVSRLAL 76
Query 62 DKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVAF 121
DKLRSAAHRRETY G WLPEPVVTGLD DPL+A+VA EDARFAAMVVLE L PDQRVAF
Sbjct 77 DKLRSAAHRRETYVGEWLPEPVVTGLDGRDPLSALVADEDARFAAMVVLENLTPDQRVAF 136
Query 122 VLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAA 181
VLHDGFAVPF+ +AEVLGTS AARQLASRAR+AV++ P P H EVVG+L+AA
Sbjct 137 VLHDGFAVPFSAIAEVLGTSTQAARQLASRARRAVSSAPP-----PAADHAEVVGKLLAA 191
Query 182 MAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPG-LFGAN 240
MA+GDL VVSLLHPDVTFTGDSN +APTA R +RGSDKV RF+LGL +YGP L +
Sbjct 192 MASGDLTAVVSLLHPDVTFTGDSNRRAPTAARVIRGSDKVARFLLGLGAKYGPERLLAGS 251
Query 241 QLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPL 296
+L LVNGELG Y+ G + PRI A+ VRDG V A++D+ANPDKFT SPL
Sbjct 252 ELGLVNGELGVYSPGADATPDAPRIMPRIQALAVRDGLVVAIYDVANPDKFTASPL 307
>gi|169630757|ref|YP_001704406.1| RNA polymerase sigma factor SigJ [Mycobacterium abscessus ATCC
19977]
gi|169242724|emb|CAM63752.1| Probable alternative RNA polymerase sigma factor SigJ [Mycobacterium
abscessus]
Length=302
Score = 385 bits (990), Expect = 3e-105, Method: Compositional matrix adjust.
Identities = 193/294 (66%), Positives = 233/294 (80%), Gaps = 3/294 (1%)
Query 5 EFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLGLDKL 64
EFEALR L +VAYRLTG+VADAEDIVQ+AWLR S I D AWLTTVVSRLGLD+L
Sbjct 11 EFEALRPRLQAVAYRLTGSVADAEDIVQDAWLRLYSTTAEIEDLAAWLTTVVSRLGLDRL 70
Query 65 RSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVAFVLH 124
RSA +RRETY G WLPEPVVTGLD DPLAA+VA+EDARFAAMVVL+RL PDQRVAFVLH
Sbjct 71 RSAVYRRETYVGEWLPEPVVTGLDGDDPLAALVASEDARFAAMVVLDRLAPDQRVAFVLH 130
Query 125 DGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAAMAA 184
DGF+VPF ++A++LG S+AAARQLASRAR+ VTA P ++ D HNEVVG L+ A+ +
Sbjct 131 DGFSVPFKQIADILGISDAAARQLASRARRMVTATPEPVA---DAEHNEVVGELLEALMS 187
Query 185 GDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGANQLAL 244
G ++ VV LLHPDVT TGDS+GKAPTAVR + G DKV RF+LGL++RYGP + A AL
Sbjct 188 GSVEAVVRLLHPDVTMTGDSDGKAPTAVRVIHGPDKVARFLLGLMERYGPQMTQAINPAL 247
Query 245 VNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLKE 298
VNG+ G Y +R + PR++A TVRDG+V A+WD++NPDKF+G+PL+E
Sbjct 248 VNGQFGMYLTETDTDPNFRPVLPRVSAFTVRDGRVLAVWDVSNPDKFSGTPLRE 301
>gi|333991789|ref|YP_004524403.1| RNA polymerase sigma factor SigJ [Mycobacterium sp. JDM601]
gi|333487757|gb|AEF37149.1| alternative RNA polymerase sigma factor SigJ [Mycobacterium sp.
JDM601]
Length=296
Score = 385 bits (988), Expect = 6e-105, Method: Compositional matrix adjust.
Identities = 211/296 (72%), Positives = 240/296 (82%), Gaps = 6/296 (2%)
Query 3 VSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPD-TVIADPRAWLTTVVSRLGL 61
+ +FEALR HL++VAYRLTG ADAEDIVQ+AWLR+D+ + I D RAWLTTVVSRLGL
Sbjct 1 MDDFEALRPHLLAVAYRLTGMFADAEDIVQDAWLRFDAAERDEIVDLRAWLTTVVSRLGL 60
Query 62 DKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVAF 121
D+LRSA RRETY G WLPEPVVTG+D +PL+AVVA EDARFAAMVVLERL PDQRVAF
Sbjct 61 DRLRSAPRRRETYVGEWLPEPVVTGVD--EPLSAVVAGEDARFAAMVVLERLTPDQRVAF 118
Query 122 VLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAA 181
VLHDGFAVPF EVA VL TSEAAARQLASRAR+AV A P H E VG LMAA
Sbjct 119 VLHDGFAVPFGEVAAVLHTSEAAARQLASRARRAVAADPPPEPDP---RHAETVGTLMAA 175
Query 182 MAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGANQ 241
MAAGDLD VV+LLHP+VTFTGD+N +APTAVR + G +KV RF+ GL +RYGP L ANQ
Sbjct 176 MAAGDLDAVVALLHPEVTFTGDANRRAPTAVRTIHGPEKVARFLFGLARRYGPTLTTANQ 235
Query 242 LALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLK 297
LALVNGELGAYT G P +G+ + PR+TA+TVRDG V A+WDIANPDKF+GSPL+
Sbjct 236 LALVNGELGAYTPGAPAAEGFAELLPRVTAMTVRDGLVYAVWDIANPDKFSGSPLR 291
>gi|120402582|ref|YP_952411.1| RNA polymerase sigma factor SigJ [Mycobacterium vanbaalenii PYR-1]
gi|119955400|gb|ABM12405.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Mycobacterium
vanbaalenii PYR-1]
Length=298
Score = 384 bits (986), Expect = 9e-105, Method: Compositional matrix adjust.
Identities = 206/297 (70%), Positives = 237/297 (80%), Gaps = 7/297 (2%)
Query 3 VSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPD-TVIADPRAWLTTVVSRLGL 61
V EFE LR HL+SVAYRLTGT+ADAEDIVQ+AWLRW++ TVI D +AWLTTVVSRL L
Sbjct 7 VGEFEQLRPHLLSVAYRLTGTLADAEDIVQDAWLRWEANSATVIEDLKAWLTTVVSRLAL 66
Query 62 DKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVAF 121
D+LRSAAHRRETY G WLPEPVVTG D DPLA+VVA EDARFAAMVVLE L PDQRVAF
Sbjct 67 DRLRSAAHRRETYVGEWLPEPVVTGFDGVDPLASVVAGEDARFAAMVVLENLTPDQRVAF 126
Query 122 VLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAA 181
VLHDGFAVPFAE+AEVLG+S +ARQLASRAR+A +A P H EVVG+L+AA
Sbjct 127 VLHDGFAVPFAEIAEVLGSSPESARQLASRARRAASAAPPPAD-----EHAEVVGKLLAA 181
Query 182 MAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPG-LFGAN 240
MA+GDL VV++LHPDVTFTGDSN +APTA R + GSDKV RF+LGL +RYG FG+
Sbjct 182 MASGDLTEVVAVLHPDVTFTGDSNRRAPTAARVIHGSDKVARFLLGLARRYGEQRFFGSG 241
Query 241 QLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLK 297
L +VNGELG YT G P + A+APRI A+TV G+V A++DIANPDKFT SPL+
Sbjct 242 VLGMVNGELGVYTMGAPATEDAPAIAPRIQALTVHRGQVVAIYDIANPDKFTASPLR 298
>gi|315445778|ref|YP_004078657.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium sp.
Spyr1]
gi|315264081|gb|ADU00823.1| RNA polymerase sigma factor, sigma-70 family [Mycobacterium sp.
Spyr1]
Length=298
Score = 380 bits (977), Expect = 1e-103, Method: Compositional matrix adjust.
Identities = 195/297 (66%), Positives = 235/297 (80%), Gaps = 7/297 (2%)
Query 3 VSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSP-DTVIADPRAWLTTVVSRLGL 61
V +FE +R HL+SVAYRLTGTVADAEDIVQ+AWLRW++ + D +AWLTTVVSRL L
Sbjct 7 VGDFEQMRPHLLSVAYRLTGTVADAEDIVQDAWLRWNAHRGDAVHDLKAWLTTVVSRLAL 66
Query 62 DKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVAF 121
DKLRSAAHRRETY G WLPEPVVTG D DPLAA+VA EDARFAAMVVLE L PDQRV+F
Sbjct 67 DKLRSAAHRRETYVGEWLPEPVVTGFDGDDPLAALVAGEDARFAAMVVLENLTPDQRVSF 126
Query 122 VLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAA 181
VLHDGF VPF+++A+VLG+S +ARQLASRAR+ V+A P + H EVVG+L+AA
Sbjct 127 VLHDGFGVPFSDIADVLGSSTESARQLASRARRTVSAAPPPAAD-----HAEVVGKLLAA 181
Query 182 MAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPG-LFGAN 240
MA+GDL+ VVSLLHPDVTFTGD+N +APTA R + G DKV RF+LGL +YGP L +
Sbjct 182 MASGDLEAVVSLLHPDVTFTGDANRRAPTAARVIHGPDKVARFLLGLGAKYGPQRLLAGS 241
Query 241 QLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLK 297
+L LVNGELG Y+ G+ D ++PRI A++VRDG V A++D+ANPDKF+ SPLK
Sbjct 242 ELGLVNGELGVYSRGVDATDDGPRISPRIQALSVRDGLVVAIYDVANPDKFSASPLK 298
>gi|111021908|ref|YP_704880.1| RNA polymerase sigma factor SigJ [Rhodococcus jostii RHA1]
gi|110821438|gb|ABG96722.1| sigma factor, sigma 70 type, group 4 (ECF) [Rhodococcus jostii
RHA1]
Length=306
Score = 325 bits (834), Expect = 5e-87, Method: Compositional matrix adjust.
Identities = 175/296 (60%), Positives = 207/296 (70%), Gaps = 9/296 (3%)
Query 3 VSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTV-IADPRAWLTTVVSRLGL 61
V EFE+ R HL+SVAYRLTG+V+DAED VQE+WLR D D I D R WLTTVV R+ L
Sbjct 7 VDEFESHRPHLLSVAYRLTGSVSDAEDAVQESWLRLDDADAANIRDLRPWLTTVVGRICL 66
Query 62 DKLRSAAHRRETYTGTWLPEPVVTGLDAT---DPLAAVVAAEDARFAAMVVLERLRPDQR 118
D+LRSAA RRE Y G WLPEP+VTGL + DPL AVV ED R AA++VL+ L P QR
Sbjct 67 DRLRSAAVRREQYVGQWLPEPIVTGLSPSAEPDPLEAVVRDEDNRLAALIVLDTLTPAQR 126
Query 119 VAFVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAV-TAQPALISGDPDPAHNEVVGR 177
VAFVLHDGF VPF EVA +LG AARQLASRARKA T PA+ PD H V R
Sbjct 127 VAFVLHDGFGVPFDEVAGILGIETPAARQLASRARKAAATTTPAV----PDDEHAVAVQR 182
Query 178 LMAAMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLF 237
L+ A+AAGDLD V++ LHPD GD+NG TAV + G+DK RF LGL++RYGP +F
Sbjct 183 LLEALAAGDLDAVIAALHPDALVIGDANGTTSTAVNVIHGADKFARFFLGLIKRYGPAVF 242
Query 238 GANQLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTG 293
Q LVNG+LG ++A L G D +R+ PR+ TVRDG V A +DIANP+KF G
Sbjct 243 TVMQPVLVNGQLGFFSAALTGDDAHRSSPPRVGGFTVRDGLVYAAYDIANPEKFGG 298
>gi|226364418|ref|YP_002782200.1| RNA polymerase sigma factor SigJ [Rhodococcus opacus B4]
gi|226242907|dbj|BAH53255.1| RNA polymerase ECF-type sigma factor SigJ [Rhodococcus opacus
B4]
Length=306
Score = 316 bits (809), Expect = 4e-84, Method: Compositional matrix adjust.
Identities = 178/301 (60%), Positives = 210/301 (70%), Gaps = 7/301 (2%)
Query 3 VSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDT-VIADPRAWLTTVVSRLGL 61
V EFE+ R+HL+SVAYRLTG+V+DAED VQE+WLR D + I D AWLTTVV R+ L
Sbjct 7 VDEFESHRRHLLSVAYRLTGSVSDAEDAVQESWLRLDDANAATIRDLGAWLTTVVGRICL 66
Query 62 DKLRSAAHRRETYTGTWLPEPVVTGLDAT---DPLAAVVAAEDARFAAMVVLERLRPDQR 118
D+LRSAA RRE Y G WLPEPVVTGL + DPL AVV ED R AA++VL+ L P QR
Sbjct 67 DRLRSAAVRREQYVGQWLPEPVVTGLSPSAEPDPLEAVVQDEDNRLAALIVLDTLTPAQR 126
Query 119 VAFVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRL 178
VAFVLHDGF VPF EVA +LG AARQLASRARKA A + PD H V RL
Sbjct 127 VAFVLHDGFGVPFDEVAGILGIETPAARQLASRARKAAAATTPAV---PDEEHALAVQRL 183
Query 179 MAAMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFG 238
+ A+A GD+D VV+ LHPD GD+NG TAV +RG+D+ RF LGLVQRYGP +F
Sbjct 184 LEALAGGDVDAVVAALHPDALVIGDANGTTSTAVNVIRGADRFARFFLGLVQRYGPEVFT 243
Query 239 ANQLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLKE 298
A QL LVNG+LG +TAG G D +R+ R+ TVRDG V A +DIANP+KF G L +
Sbjct 244 AMQLVLVNGQLGYFTAGFTGDDAHRSSPARVGGFTVRDGLVYAAYDIANPEKFAGIMLPD 303
Query 299 R 299
R
Sbjct 304 R 304
>gi|312138393|ref|YP_004005729.1| sigma-70 factor [Rhodococcus equi 103S]
gi|311887732|emb|CBH47044.1| putative sigma-70 factor [Rhodococcus equi 103S]
Length=323
Score = 303 bits (777), Expect = 2e-80, Method: Compositional matrix adjust.
Identities = 170/294 (58%), Positives = 196/294 (67%), Gaps = 8/294 (2%)
Query 5 EFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDT-VIADPRAWLTTVVSRLGLDK 63
FE+ R HL+S AYRLTG+V DAED VQEAWLR D I D RAWLTTVV RL LD+
Sbjct 9 SFESHRGHLLSAAYRLTGSVTDAEDAVQEAWLRLAKSDADRIDDLRAWLTTVVGRLCLDR 68
Query 64 LRSAAHRRETYTGTWLPEPVVTGLDAT---DPLAAVVAAEDARFAAMVVLERLRPDQRVA 120
LRSAA RRE Y G WLPEP+VT L + DPL AVV ED R AA++VL+ L PDQRVA
Sbjct 69 LRSAAVRREQYVGQWLPEPIVTDLTPSAMPDPLEAVVRQEDNRLAALIVLDALTPDQRVA 128
Query 121 FVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMA 180
FVLHDGF VPF E+A+VL S A+ARQLASRAR+AV P + PD H V RLM
Sbjct 129 FVLHDGFGVPFGEIADVLSVSVASARQLASRARRAVADAPPPV---PDDEHTAAVTRLMI 185
Query 181 AMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYG-PGLFGA 239
AMAAGDLD V+ LHPD GD+NG TAV + G+D+ RF LGL +YG GA
Sbjct 186 AMAAGDLDAVLDALHPDAITIGDANGTTRTAVNIITGADRTARFFLGLAHKYGLEAFLGA 245
Query 240 NQLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTG 293
ALVNG+LG + G PG D + R+T TVRDG V A +DIANP+K G
Sbjct 246 AMPALVNGQLGFVSHGSPGDDTHPGFPGRVTGFTVRDGLVWAAYDIANPEKHRG 299
>gi|325674611|ref|ZP_08154298.1| RNA polymerase sigma factor SigJ [Rhodococcus equi ATCC 33707]
gi|325554197|gb|EGD23872.1| RNA polymerase sigma factor SigJ [Rhodococcus equi ATCC 33707]
Length=323
Score = 303 bits (775), Expect = 3e-80, Method: Compositional matrix adjust.
Identities = 170/294 (58%), Positives = 196/294 (67%), Gaps = 8/294 (2%)
Query 5 EFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDT-VIADPRAWLTTVVSRLGLDK 63
FE+ R HL+S AYRLTG+V DAED VQEAWLR D I D RAWLTTVV RL LD+
Sbjct 9 SFESHRGHLLSAAYRLTGSVTDAEDAVQEAWLRLAKSDADRIDDLRAWLTTVVGRLCLDR 68
Query 64 LRSAAHRRETYTGTWLPEPVVTGLDAT---DPLAAVVAAEDARFAAMVVLERLRPDQRVA 120
LRSAA RRE Y G WLPEP+VT L + DPL AVV ED R AA++VL+ L PDQRVA
Sbjct 69 LRSAAVRREQYVGQWLPEPIVTDLTPSAMPDPLEAVVRQEDNRLAALIVLDALTPDQRVA 128
Query 121 FVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMA 180
FVLHDGF VPF E+A+VL S A+ARQLASRAR+AV P + PD H V RLM
Sbjct 129 FVLHDGFGVPFGEIADVLSVSVASARQLASRARRAVADAPPPV---PDDEHTAAVTRLMI 185
Query 181 AMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYG-PGLFGA 239
AMAAGDLD V+ LHPD GD+NG TAV + G+D+ RF LGL +YG GA
Sbjct 186 AMAAGDLDAVLDALHPDAITIGDANGTTRTAVNIITGADRTARFFLGLAHKYGLEAFLGA 245
Query 240 NQLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTG 293
ALVNG+LG + G PG D + R+T TVRDG V A +DIANP+K G
Sbjct 246 AMPALVNGQLGFVSHGSPGDDIHPGFPGRVTGFTVRDGLVWAAYDIANPEKHRG 299
>gi|229488585|ref|ZP_04382451.1| RNA polymerase sigma factor SigJ [Rhodococcus erythropolis SK121]
gi|229324089|gb|EEN89844.1| RNA polymerase sigma factor SigJ [Rhodococcus erythropolis SK121]
Length=320
Score = 283 bits (725), Expect = 2e-74, Method: Compositional matrix adjust.
Identities = 164/306 (54%), Positives = 196/306 (65%), Gaps = 17/306 (5%)
Query 5 EFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWD------SPDTVIADPRAWLTTVVSR 58
+FE R HL SVAYRLTG+ +DA+D VQEAW+R D I + R WLTTVV R
Sbjct 9 DFEQHRGHLTSVAYRLTGSFSDAQDAVQEAWIRLQVAQSRQGSDLEIRELRGWLTTVVGR 68
Query 59 LGLDKLRSAAHRRETYTGTWLPEPVVTGLDAT--------DPLAAVVAAEDARFAAMVVL 110
+ LD L+SAA RRE+Y G WLPEP+VT +DAT DPL VV E RFAA+VVL
Sbjct 69 ICLDHLKSAAVRRESYVGQWLPEPIVTPVDATSGTPSATPDPLEYVVTLEQNRFAALVVL 128
Query 111 ERLRPDQRVAFVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPA 170
+ L P QRVAFVLHDGF VPFAEVA +L A ARQLASRARKA + P +S +
Sbjct 129 DTLTPAQRVAFVLHDGFDVPFAEVARILDIEVATARQLASRARKAAASAPVPVSSE---E 185
Query 171 HNEVVGRLMAAMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQ 230
H V RL+ A+A+GDL+ V+ L PD GD+ G TAV VRGSD+V RF LGL +
Sbjct 186 HAAAVERLVTAIASGDLNAVIGALDPDAVLIGDAGGTTRTAVNIVRGSDRVARFYLGLAR 245
Query 231 RYGPGLFGANQLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDK 290
+YGP + LVNG+LG AG PG D Y A R+ TVRDG VCA +DIANP K
Sbjct 246 KYGPAAVFSMSPVLVNGQLGGVFAGSPGDDQYPQFAARVAGFTVRDGVVCAAYDIANPAK 305
Query 291 FTGSPL 296
F+ P+
Sbjct 306 FSAVPM 311
>gi|226308144|ref|YP_002768104.1| RNA polymerase ECF-type sigma factor SigJ [Rhodococcus erythropolis
PR4]
gi|226187261|dbj|BAH35365.1| putative RNA polymerase ECF-type sigma factor SigJ [Rhodococcus
erythropolis PR4]
Length=320
Score = 282 bits (722), Expect = 4e-74, Method: Compositional matrix adjust.
Identities = 164/306 (54%), Positives = 195/306 (64%), Gaps = 17/306 (5%)
Query 5 EFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWD------SPDTVIADPRAWLTTVVSR 58
+FE R HL SVAYRLTG+ +DA+D VQEAW+R D I + R WLTTVV R
Sbjct 9 DFEQHRGHLTSVAYRLTGSFSDAQDAVQEAWIRLQVAQSRQGSDLEIRELRGWLTTVVGR 68
Query 59 LGLDKLRSAAHRRETYTGTWLPEPVVTGLDAT--------DPLAAVVAAEDARFAAMVVL 110
+ LD L+SAA RRE+Y G WLPEP+VT +DAT DPL VV E RFAA+VVL
Sbjct 69 ICLDHLKSAAVRRESYVGQWLPEPIVTPVDATAGTPSATPDPLEYVVTQEQNRFAALVVL 128
Query 111 ERLRPDQRVAFVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPA 170
+ L P QRVAFVLHDGF VPFAEVA +L A ARQLASRARKA + P +S +
Sbjct 129 DTLTPAQRVAFVLHDGFDVPFAEVARILDIEVATARQLASRARKAAASAPVPVSSE---E 185
Query 171 HNEVVGRLMAAMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQ 230
H V RL+ A+A+GDL+ V+ L PD GD+ G TAV VRGSD+V RF LGL +
Sbjct 186 HAAAVERLVTAIASGDLNAVIDALDPDAVLIGDAGGTTRTAVNIVRGSDRVARFYLGLAR 245
Query 231 RYGPGLFGANQLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDK 290
+YGP + LVNG LG AG PG D Y A R+ TVRDG VCA +DIANP K
Sbjct 246 KYGPAAVFSMSPVLVNGRLGGVFAGSPGDDQYPQFAARVAGFTVRDGVVCAAYDIANPAK 305
Query 291 FTGSPL 296
F+ P+
Sbjct 306 FSAVPM 311
>gi|229818896|ref|YP_002880422.1| RNA polymerase sigma factor SigJ [Beutenbergia cavernae DSM 12333]
gi|229564809|gb|ACQ78660.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Beutenbergia
cavernae DSM 12333]
Length=318
Score = 281 bits (720), Expect = 7e-74, Method: Compositional matrix adjust.
Identities = 171/299 (58%), Positives = 204/299 (69%), Gaps = 21/299 (7%)
Query 6 FEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTV-IADPRAWLTTVVSRLGLDKL 64
FEA R L+ VAYRLTG+VADAED VQEAWLR D ++ I D AWLTTVVSR+ LD+L
Sbjct 12 FEAERPRLLRVAYRLTGSVADAEDAVQEAWLRLDRAESAAIRDLPAWLTTVVSRICLDRL 71
Query 65 RSAAHRRETYTGTWLPEPVVTGLD-------ATDPLAAVVAAEDARFAAMVVLERLRPDQ 117
SAA RRETY G WLPEPVVT A DPL AVVA DAR+AA+V+LE L P+Q
Sbjct 72 TSAAARRETYVGNWLPEPVVTAFPTPGHASAAPDPLDAVVADADARYAALVILEALPPNQ 131
Query 118 RVAFVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHN----- 172
RVAFVLHDGF VPFA+VA+VLGTS A ARQLA+RAR V DP PA +
Sbjct 132 RVAFVLHDGFGVPFADVADVLGTSPANARQLAARARAGV--------ADPPPASDAETRL 183
Query 173 EVVGRLMAAMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRY 232
V +L AA++AGDLD +V++LHPDV GDS G TA+ AVRGSDKV RF LGL+ +Y
Sbjct 184 RAVEQLAAALSAGDLDAIVAVLHPDVVARGDSGGTTATALHAVRGSDKVARFFLGLLDKY 243
Query 233 GPGLFGANQLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKF 291
G + + LVNGELG AG PG + + PR+ A+ VRDG++ L+D+ANP K
Sbjct 244 GTHVITTARPVLVNGELGFLLAGSPGDATHDPIPPRVMALGVRDGRIAELYDLANPAKL 302
>gi|300788425|ref|YP_003768716.1| RNA polymerase sigma-70 factor, ECF subfamily [Amycolatopsis
mediterranei U32]
gi|299797939|gb|ADJ48314.1| RNA polymerase sigma-70 factor, ECF subfamily [Amycolatopsis
mediterranei U32]
gi|340530028|gb|AEK45233.1| RNA polymerase sigma-70 factor, ECF subfamily protein [Amycolatopsis
mediterranei S699]
Length=317
Score = 277 bits (708), Expect = 2e-72, Method: Compositional matrix adjust.
Identities = 151/302 (50%), Positives = 193/302 (64%), Gaps = 18/302 (5%)
Query 4 SEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRW----DSPDTVIADPRAWLTTVVSRL 59
+EF A R HL+ VAYRLTGT ADAED VQE+WLR D+ I D R WLTTVV R+
Sbjct 13 AEFAAHRSHLIGVAYRLTGTRADAEDAVQESWLRLAGLDDAGRAAIRDLRGWLTTVVGRI 72
Query 60 GLDKLRSAAHRRETYTGTWLPEPVVTGLD---ATDPLAAVVAAEDARFAAMVVLERLRPD 116
LD+L+SAA +RE Y G WLPEPVVT + DPL V + R AA+VVL++L P+
Sbjct 73 CLDRLKSAAAQRERYVGNWLPEPVVTPFGRPVSEDPLDIAVRDDGLRMAALVVLDKLTPE 132
Query 117 QRVAFVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPA-----H 171
QRVAFVLHD F+VPFAE+A+ LG S AARQ ASR RKA L DP P
Sbjct 133 QRVAFVLHDAFSVPFAEIADALGVSVDAARQYASRGRKA------LADADPAPRVPLEDQ 186
Query 172 NEVVGRLMAAMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQR 231
+++ + + A+ AGD+ + LL PDV GDSNGK T + + G+DK+ RF +GL +
Sbjct 187 AKILEKFVIALQAGDIRAITELLAPDVVLIGDSNGKGRTTRQLIVGADKIARFFVGLAGK 246
Query 232 YGPGLFGANQLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKF 291
Y PG+ LVNG+LG Y A PG DG+ A+ + A+TVRDGK+ A++D+ NP+K
Sbjct 247 YPPGVLTGGTPVLVNGDLGVYLAPQPGQDGFFALDEHVQAMTVRDGKIVAIYDVVNPEKL 306
Query 292 TG 293
G
Sbjct 307 AG 308
>gi|37954430|gb|AAP69762.1| putative ECF sigma factor [Rhodococcus sp. DS7]
Length=320
Score = 276 bits (706), Expect = 3e-72, Method: Compositional matrix adjust.
Identities = 161/307 (53%), Positives = 192/307 (63%), Gaps = 17/307 (5%)
Query 4 SEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWD------SPDTVIADPRAWLTTVVS 57
+FE R HL SVAYRLTG+ +DA+D VQEAW+R D I + R WLTTVV
Sbjct 8 QDFEQHRGHLTSVAYRLTGSFSDAQDAVQEAWIRLQVAQSRQGSDLEIRELRGWLTTVVG 67
Query 58 RLGLDKLRSAAHRRETYTGTWLPEPVVTGLDAT--------DPLAAVVAAEDARFAAMVV 109
R+ LD L+SAA RRE+Y G WLPEP+VT +DAT DPL VV E RF A+VV
Sbjct 68 RICLDHLKSAAVRRESYVGQWLPEPIVTPVDATAGTPSATPDPLEYVVRQEQNRFGALVV 127
Query 110 LERLRPDQRVAFVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDP 169
L+ L P QRVAFVLHDG VPF EVA +L A ARQLASRARKA + P +S +
Sbjct 128 LDTLTPAQRVAFVLHDGLDVPFVEVARILDIEVATARQLASRARKAAASAPVPVSSE--- 184
Query 170 AHNEVVGRLMAAMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLV 229
H V RL+ A+A+GDL+ V+ L PD GD+ G TAV VRGSD+V RF LGL
Sbjct 185 EHAAAVERLVTAIASGDLNAVIDALDPDAVLIGDAGGTTRTAVNIVRGSDRVARFYLGLA 244
Query 230 QRYGPGLFGANQLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPD 289
++YGP + LVNG LG AG PG D Y A R+ TVRDG VCA +DIANP
Sbjct 245 RKYGPAAVFSMSPVLVNGRLGGVFAGSPGDDQYPQFAARVAGFTVRDGVVCAAYDIANPA 304
Query 290 KFTGSPL 296
KF+ P+
Sbjct 305 KFSAVPM 311
>gi|302528809|ref|ZP_07281151.1| RNA polymerase sigma factor SigJ [Streptomyces sp. AA4]
gi|302437704|gb|EFL09520.1| RNA polymerase sigma factor SigJ [Streptomyces sp. AA4]
Length=307
Score = 269 bits (687), Expect = 5e-70, Method: Compositional matrix adjust.
Identities = 160/303 (53%), Positives = 198/303 (66%), Gaps = 20/303 (6%)
Query 4 SEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTV----IADPRAWLTTVVSRL 59
+EF+A R HL++ AYRLTGT ADAED QEAWLR D I D R WLT VV R+
Sbjct 6 AEFDAHRPHLIAAAYRLTGTRADAEDAAQEAWLRLSGLDDAGRAGIRDLRGWLTAVVGRI 65
Query 60 GLDKLRSAAHRRETYTGTWLPEPVVTGLDA---TDPLAAVVAAEDARFAAMVVLERLRPD 116
LD+LRSAA RRE Y G WLPEP+VT L A DPL A V + R AAMVVL+RL P+
Sbjct 66 CLDRLRSAAVRREKYVGEWLPEPIVTPLGAPASEDPLEAAVRDDGLRMAAMVVLDRLTPE 125
Query 117 QRVAFVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNE--- 173
QRVAFVLHD FAVPFAE+A+ LG S AAARQ ASR R+AV DP PA E
Sbjct 126 QRVAFVLHDAFAVPFAEIADALGCSPAAARQHASRGRRAVE------DADP-PARLELAQ 178
Query 174 ---VVGRLMAAMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQ 230
V+ + + A+ AGD+ V LLHPDV GDS+G++ T+ R + G DKV RF+LG++
Sbjct 179 QQPVLEKFVVALLAGDIRAVTELLHPDVVMIGDSDGRSRTSRRMIVGPDKVARFVLGVLA 238
Query 231 RYGPGLFGANQLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDK 290
+Y PG + LVNG+LG + GLP VDGY A+ R+ +VRDG++ ++D NP+K
Sbjct 239 KYAPGTMENGRPVLVNGDLGLWLPGLPAVDGYLALDERVQTFSVRDGRIVGVYDQVNPEK 298
Query 291 FTG 293
TG
Sbjct 299 LTG 301
>gi|331698225|ref|YP_004334464.1| ECF subfamily RNA polymerase sigma-24 subunit [Pseudonocardia
dioxanivorans CB1190]
gi|326952914|gb|AEA26611.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Pseudonocardia
dioxanivorans CB1190]
Length=287
Score = 246 bits (627), Expect = 4e-63, Method: Compositional matrix adjust.
Identities = 149/297 (51%), Positives = 186/297 (63%), Gaps = 18/297 (6%)
Query 1 MEVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPD-TVIADPRAWLTTVVSRL 59
++V FE+ R HL+ V YR+TG+ +DAED VQEAWLR+ + D I +PRAWLTTVV RL
Sbjct 3 VDVDTFESHRAHLLRVGYRITGSRSDAEDAVQEAWLRFAAQDPATIDEPRAWLTTVVGRL 62
Query 60 GLDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRV 119
LD+LRSAA RRE Y G WLPEP+VT DPLA VV E R AAMVVLERL P QRV
Sbjct 63 CLDRLRSAAARRERYVGPWLPEPLVTTPADDDPLAEVVRDEGVRMAAMVVLERLTPPQRV 122
Query 120 AFVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHN-EVVGRL 178
A VLH+ +PFA +AEVL SEA ARQ ASRAR+ V + P PA + E + L
Sbjct 123 ALVLHEALDLPFARIAEVLDCSEATARQHASRARRVVAE-----ADVPPPASSAEQLAVL 177
Query 179 MA---AMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPG 235
A A+A D D +V+LLHPDV DS+G+ A R + G V R LGL+++YG G
Sbjct 178 QAFADALARADTDGIVALLHPDVVLLADSDGRVSAARRPIVGPADVARLFLGLLRKYGDG 237
Query 236 LFGANQLALVNGELGAYTAGLPGVDGYRAMAP-RITAITVRDGKVCALWDIANPDKF 291
L + LVNGE G T P V AP + ++V DG++ A++ + NPDK
Sbjct 238 LLADWEPILVNGEPGVRT---PAV----GTAPASVAVLSVTDGRIRAMYQVVNPDKL 287
>gi|134098091|ref|YP_001103752.1| RNA polymerase sigma factor SigJ [Saccharopolyspora erythraea
NRRL 2338]
gi|133910714|emb|CAM00827.1| RNA polymerase sigma factor, putative [Saccharopolyspora erythraea
NRRL 2338]
Length=295
Score = 245 bits (626), Expect = 5e-63, Method: Compositional matrix adjust.
Identities = 135/293 (47%), Positives = 178/293 (61%), Gaps = 7/293 (2%)
Query 4 SEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLGLDK 63
+EF+ R L+ +AYRLTG + DAED VQEAWLR + + + + AWLTTVVSR+ LD+
Sbjct 10 AEFDGHRGRLVGIAYRLTGRLDDAEDAVQEAWLRLAAEKSPVRELGAWLTTVVSRICLDR 69
Query 64 LRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVAFVL 123
LRSAA RRE Y G WLPEPVVT LD+ DP VV ED R AA+ VL L +QR+AFVL
Sbjct 70 LRSAAVRREQYVGPWLPEPVVTELDSHDPQNIVVTREDMRMAALRVLHELPAEQRLAFVL 129
Query 124 HDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAAMA 183
HDGF VPF E+AE+ G + A ARQ + + A P P ++ R + A+A
Sbjct 130 HDGFDVPFTEIAEIAGCAVATARQ-HASRARRALAAAEPAPRVPLPEQRRMLDRFLIALA 188
Query 184 AGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGANQLA 243
+GD+ + LHP GDS+G+A TA R + G +K+ RF+ GL+++YG L+ +
Sbjct 189 SGDITEITRALHPRAALFGDSDGRARTARRPILGREKIARFLAGLLEKYGEALYSGLRPV 248
Query 244 LVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPL 296
LVNG+LG LP G R+ RDG V ++DI NPDK +PL
Sbjct 249 LVNGDLGLVFPALPERQG------RVVTFAYRDGAVSEVFDIVNPDKLVRAPL 295
>gi|291007450|ref|ZP_06565423.1| RNA polymerase sigma factor SigJ [Saccharopolyspora erythraea
NRRL 2338]
Length=318
Score = 245 bits (625), Expect = 8e-63, Method: Compositional matrix adjust.
Identities = 141/293 (49%), Positives = 184/293 (63%), Gaps = 7/293 (2%)
Query 4 SEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLGLDK 63
+EF+ R L+ +AYRLTG + DAED VQEAWLR + + + + AWLTTVVSR+ LD+
Sbjct 33 AEFDGHRGRLVGIAYRLTGRLDDAEDAVQEAWLRLAAEKSPVRELGAWLTTVVSRICLDR 92
Query 64 LRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVAFVL 123
LRSAA RRE Y G WLPEPVVT LD+ DP VV ED R AA+ VL L +QR+AFVL
Sbjct 93 LRSAAVRREQYVGPWLPEPVVTELDSHDPQNIVVTREDMRMAALRVLHELPAEQRLAFVL 152
Query 124 HDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAAMA 183
HDGF VPF E+AE+ G + A ARQ ASRAR+A+ A P P ++ R + A+A
Sbjct 153 HDGFDVPFTEIAEIAGCAVATARQHASRARRALAAA-EPAPRVPLPEQRRMLDRFLIALA 211
Query 184 AGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGANQLA 243
+GD+ + LHP GDS+G+A TA R + G +K+ RF+ GL+++YG L+ +
Sbjct 212 SGDITEITRALHPRAALFGDSDGRARTARRPILGREKIARFLAGLLEKYGEALYSGLRPV 271
Query 244 LVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPL 296
LVNG+LG LP G R+ RDG V ++DI NPDK +PL
Sbjct 272 LVNGDLGLVFPALPERQG------RVVTFAYRDGAVSEVFDIVNPDKLVRAPL 318
>gi|256375412|ref|YP_003099072.1| ECF subfamily RNA polymerase sigma-24 subunit [Actinosynnema
mirum DSM 43827]
gi|255919715|gb|ACU35226.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Actinosynnema
mirum DSM 43827]
Length=329
Score = 244 bits (624), Expect = 1e-62, Method: Compositional matrix adjust.
Identities = 152/286 (54%), Positives = 186/286 (66%), Gaps = 14/286 (4%)
Query 10 RQHLMSVAYRLTGTVADAEDIVQEAWLRW----DSPDTVIADPRAWLTTVVSRLGLDKLR 65
R HL+ VAYRLTG+VADAED VQEAWLR + I +PRAWLTTVV R+ LD+LR
Sbjct 25 RTHLVGVAYRLTGSVADAEDAVQEAWLRLSGLSERARAEIREPRAWLTTVVGRVCLDRLR 84
Query 66 SAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVAFVLHD 125
SAA RRE Y G+WLPEP+V G +PL AVV + R AA+VVL+RL P+QRVAFVLHD
Sbjct 85 SAAVRRERYVGSWLPEPLV-GEVVDEPLDAVVRDDGVRMAALVVLDRLTPEQRVAFVLHD 143
Query 126 GFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAAMAAG 185
F +PF E+A VLG AAARQ ASR R+A A EV+GR +AA+AAG
Sbjct 144 AFGLPFDEIAAVLGVEVAAARQHASRGRRAAAAADPPPRVAL-AEQREVLGRFVAALAAG 202
Query 186 DLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGANQLALV 245
D+ V+SLLHPD D GKA A+ V G+D+V RF++GL ++G G + LV
Sbjct 203 DVQAVLSLLHPDALVISDGGGKARAAINQVVGADRVARFMVGLALKHGG--LGDARPVLV 260
Query 246 NGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKF 291
NG+LG P V A RIT++ VRDG V AL+DI+NPDK
Sbjct 261 NGDLGLLRRASPEV------ARRITSVVVRDGLVVALYDISNPDKL 300
>gi|308406123|ref|ZP_07495207.2| alternative RNA polymerase sigma factor sigJ [Mycobacterium tuberculosis
SUMu012]
gi|308364419|gb|EFP53270.1| alternative RNA polymerase sigma factor sigJ [Mycobacterium tuberculosis
SUMu012]
Length=119
Score = 233 bits (593), Expect = 4e-59, Method: Compositional matrix adjust.
Identities = 116/116 (100%), Positives = 116/116 (100%), Gaps = 0/116 (0%)
Query 1 MEVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLG 60
MEVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLG
Sbjct 4 MEVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTVIADPRAWLTTVVSRLG 63
Query 61 LDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPD 116
LDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPD
Sbjct 64 LDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPD 119
>gi|302547996|ref|ZP_07300338.1| RNA polymerase sigma-70 factor, ECF subfamily [Streptomyces hygroscopicus
ATCC 53653]
gi|302465614|gb|EFL28707.1| RNA polymerase sigma-70 factor, ECF subfamily [Streptomyces himastatinicus
ATCC 53653]
Length=290
Score = 203 bits (517), Expect = 3e-50, Method: Compositional matrix adjust.
Identities = 131/293 (45%), Positives = 173/293 (60%), Gaps = 16/293 (5%)
Query 2 EVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDS-PDTVIADPRAWLTTVVSRLG 60
E++EFE R L +VAYR+TG+VADA+D VQE WLRW + P +ADPRA+LTTVVSR+
Sbjct 3 ELAEFEQQRDRLWAVAYRITGSVADADDAVQETWLRWQALPGDEVADPRAYLTTVVSRIC 62
Query 61 LDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVA 120
D L SA RRE Y G WLPEPVV G P V E A + VLERL P +R A
Sbjct 63 YDLLGSARVRREAYIGPWLPEPVVAG---DGPEDRVTLDESVGLALLTVLERLTPAERTA 119
Query 121 FVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMA 180
F+LHD F+VPF E+AEV+G S A RQLASR RK V A+ S D H V ++
Sbjct 120 FILHDVFSVPFPEIAEVVGRSPEAVRQLASRGRKRVRAEAPRRSVDRG-EHRRAVDAFLS 178
Query 181 AMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGAN 240
A+ GDLD ++ +L P+V + D GK + + G+++V RF QR G G F
Sbjct 179 AVMGGDLDGLLEILDPEVVWRSDGGGKVVASRVPILGNEQVARF----AQRLGRG-FDEL 233
Query 241 QLALVNGELGAYTAGLPGVD--GYRAMAPRITAITVRDGKVCALWDIANPDKF 291
+A++ ++ GL VD G R++ + A TV G++ A+ + NPDK
Sbjct 234 SMAVLRRDVNG-APGLVIVDPAGERSV---VFAFTVHHGRITAIDVVVNPDKL 282
>gi|271968354|ref|YP_003342550.1| ECF subfamily RNA polymerase sigma-24 subunit [Streptosporangium
roseum DSM 43021]
gi|270511529|gb|ACZ89807.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Streptosporangium
roseum DSM 43021]
Length=300
Score = 201 bits (510), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 128/290 (45%), Positives = 163/290 (57%), Gaps = 16/290 (5%)
Query 4 SEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTV-IADPRAWLTTVVSRLGLD 62
+EF+A+R L+ VAY L G++ +AED+VQ+AWLR D I D WL VSRL LD
Sbjct 21 TEFDAIRPRLVGVAYGLLGSLDEAEDVVQDAWLRLGRADRAEIQDVTGWLVVTVSRLALD 80
Query 63 KLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVAFV 122
LRSA RRE Y G WLPEPVVT DP V AE A +VVLE L P +R AFV
Sbjct 81 VLRSARVRREEYVGPWLPEPVVT---EADPADRVTLAESMSMAMLVVLESLSPAERTAFV 137
Query 123 LHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAAM 182
LHD F +PF EVA+ +G S AA RQLA+RARK V A+ D D H VV A
Sbjct 138 LHDVFGLPFEEVAQAVGRSPAACRQLAARARKHVAARAPRFEVDADE-HRRVVEAFARAS 196
Query 183 AAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGANQL 242
D+D +++LL PDV D G A R VRG+ +V RFI G+ +R+G G
Sbjct 197 TGRDIDALLALLDPDVVLRSDGGGLVTAARRPVRGAGRVARFIAGVAERFGAG--SRFTP 254
Query 243 ALVNGELGAYTAGLPGVDGYRAMA-PRITAITVRDGKVCALWDIANPDKF 291
+VNG PG+ +R A + A+TV G++ + + NP+K
Sbjct 255 IMVNGR--------PGLLRFRDGALSGVYALTVAGGRITEIHIVVNPEKL 296
>gi|163793316|ref|ZP_02187291.1| sigma-24 (FecI-like) protein [alpha proteobacterium BAL199]
gi|159181118|gb|EDP65633.1| sigma-24 (FecI-like) protein [alpha proteobacterium BAL199]
Length=300
Score = 199 bits (506), Expect = 5e-49, Method: Compositional matrix adjust.
Identities = 117/294 (40%), Positives = 170/294 (58%), Gaps = 13/294 (4%)
Query 3 VSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWD-SPDTVIADPRAWLTTVVSRLGL 61
V EFE R L +AYR+ G+VADA+D++Q+A+LRW + DTVI +P AWLTT+VSRL +
Sbjct 5 VGEFERHRPRLRGLAYRMLGSVADADDVLQDAYLRWHGADDTVIREPLAWLTTIVSRLCI 64
Query 62 DKLRSAAHRRETYTGTWLPEPVVT--GLDATDPLAAVVAAEDARFAAMVVLERLRPDQRV 119
D+LR+ RE Y G WLPEP + T P A A+D A +++LERL PD+R
Sbjct 65 DRLRAVKTEREAYVGPWLPEPWLDHPAPSKTRPDARQDQADDLSVAFLLLLERLSPDERA 124
Query 120 AFVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLM 179
AF+LHD F + + E+A L SEAA RQ+ RAR+ V A ++ D ++ R M
Sbjct 125 AFLLHDVFEIGYPEIAGTLNRSEAACRQMVHRARQRVRASTLRVTSSDDE-RRALLARFM 183
Query 180 AAMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGA 239
A++ GD +++LL PD T D GKA A+ +RG+ K+ R + +++ +
Sbjct 184 EAVSTGDEQRILTLLAPDATLISDGGGKAWAALNPIRGASKIARLFARVARKFVDT--PS 241
Query 240 NQLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTG 293
Q+ ++NG A G + Y T+I V DG++ AL+ + NPDK G
Sbjct 242 QQILMING--AAALVTWVGEETYAT-----TSIDVVDGRIVALYQMMNPDKLVG 288
>gi|311107419|ref|YP_003980272.1| RNA polymerase sigma factor sigma-70 family protein [Achromobacter
xylosoxidans A8]
gi|310762108|gb|ADP17557.1| RNA polymerase sigma-70 factor, sigma-70 family protein 2 [Achromobacter
xylosoxidans A8]
Length=302
Score = 197 bits (501), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 122/291 (42%), Positives = 165/291 (57%), Gaps = 13/291 (4%)
Query 3 VSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRW-DSPDTVIADPRAWLTTVVSRLGL 61
V++FE R+HL +AYR+ G+ A+AED+VQ+AWLRW D+ + PRA+L+ V+RL L
Sbjct 10 VADFEPHRRHLQGLAYRMLGSWAEAEDVVQDAWLRWRDADRGQVETPRAFLSRTVTRLCL 69
Query 62 DKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVAF 121
D+L+SA RRE Y G WLPEP+ P A +A D A M+ LERL +R AF
Sbjct 70 DQLKSARARREEYVGPWLPEPLPDAASYQAPGAGEIA-HDLSVALMLALERLSALERAAF 128
Query 122 VLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAV-TAQPALISGDPDPAHNEVVGRLMA 180
+LHD F +PFAE+A LG +EAA RQLA+RAR V A+P + + A +
Sbjct 129 LLHDVFDMPFAEIAATLGRNEAACRQLAARARSRVRDARPRFAVTEQEGAR--IADAFWQ 186
Query 181 AMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGAN 240
A AGD+D + SLL D D GK R + GSDK+ RF GL + G F
Sbjct 187 ASRAGDVDALRSLLAEDAVLHADGGGKKLAVFRPILGSDKIARFFAGLSSKPS-GQFLEA 245
Query 241 QLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKF 291
+ +NG G L G+ PR T + VRDG++ A++ + NPDK
Sbjct 246 VVTQLNGMPGVLATELDGL-------PRSTTLEVRDGRITAIYIVRNPDKL 289
>gi|297195718|ref|ZP_06913116.1| RNA polymerase ECF-subfamily sigma factor [Streptomyces pristinaespiralis
ATCC 25486]
gi|197718939|gb|EDY62847.1| RNA polymerase ECF-subfamily sigma factor [Streptomyces pristinaespiralis
ATCC 25486]
Length=292
Score = 197 bits (501), Expect = 2e-48, Method: Compositional matrix adjust.
Identities = 119/292 (41%), Positives = 163/292 (56%), Gaps = 19/292 (6%)
Query 6 FEALRQHLMSVAYRLTGTVADAEDIVQEAWLRW--DSPDTVIADPRAWLTTVVSRLGLDK 63
FE R L VAYR+ G +ADAED+VQEAWLRW D D V +PR +L + +RL +D+
Sbjct 5 FEEHRPVLTGVAYRMLGRIADAEDVVQEAWLRWSADRRDDV-KEPRGYLVRITTRLAIDR 63
Query 64 LRSAAHRRETYTGTWLPEPVVTGLDATDPLAA--VVAAEDARFAAMVVLERLRPDQRVAF 121
LR RRE+Y G WLPEP+VT + P A V AE A +VVLE L P +R F
Sbjct 64 LRHVQSRRESYVGPWLPEPIVTDFGPSVPDTAERAVLAESVSLAVLVVLESLSPLERAVF 123
Query 122 VLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAA 181
VL + F P+AE+A L SEAA RQLA RARK V + DP + + R ++A
Sbjct 124 VLREAFGFPYAEIATTLEKSEAAVRQLAGRARKHVEERKHRFDVDPAECRD-LTERFLSA 182
Query 182 MAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGANQ 241
+ GDL+ ++S+L PDV GDS GK+ +R ++ +DKV RF++ + Q+ P +
Sbjct 183 ASGGDLEGLLSILAPDVRLVGDSGGKSKAPLRVMQSADKVGRFLVAISQQSVPD--PEVR 240
Query 242 LALVNG--ELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKF 291
VNG L + G P I + V DG++ ++ + NPDK
Sbjct 241 FVEVNGAPALLVLSGGKPD---------SIMQVEVLDGRIQCVYIVRNPDKL 283
>gi|284033319|ref|YP_003383250.1| ECF subfamily RNA polymerase sigma-24 subunit [Kribbella flavida
DSM 17836]
gi|283812612|gb|ADB34451.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Kribbella flavida
DSM 17836]
Length=296
Score = 196 bits (499), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 122/300 (41%), Positives = 167/300 (56%), Gaps = 15/300 (5%)
Query 4 SEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTV-IADPRAWLTTVVSRLGLD 62
+EF R L+ AYR+ G+VADAED+VQE WLRW + + + D RA+L + +RL L+
Sbjct 8 AEFAEHRAVLVGAAYRVVGSVADAEDVVQETWLRWSTAEHAEVRDVRAYLVRITTRLALN 67
Query 63 KLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVAFV 122
+LR RRE Y G WLPEP+ DP A A+ A +VVLE L P +R AFV
Sbjct 68 RLRQQKSRREQYVGPWLPEPIAAA--DQDPAAVAEVADSVSMAMLVVLETLSPLERAAFV 125
Query 123 LHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAAM 182
L + F +PF+E+A+ LG SEAA RQLA RAR+ V A+ D H E+ R + A
Sbjct 126 LREVFDLPFSEIADTLGRSEAAVRQLAHRAREHVHARQPRHRVDK-ARHQEITSRFLTAT 184
Query 183 AAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQ-RYGPGL-FGAN 240
+GD D VV++L PDV D GK A+R V GSDKV R+++ ++ GL FG+
Sbjct 185 WSGDYDQVVAMLAPDVELVSDGGGKRRAALRPVHGSDKVGRWLIAVMSPEQTAGLEFGS- 243
Query 241 QLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLKERR 300
A++NGE P VD M +G + ++ + NPDK P +E+R
Sbjct 244 --AMLNGEQAFVAYDGPAVDTVGFMD------LDENGLISRIYVVRNPDKLKAVPGREQR 295
>gi|26541497|gb|AAN85484.1|AF484556_6 RNA polymerase ECF-type sigma factor [Streptomyces atroolivaceus]
Length=306
Score = 194 bits (493), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 126/294 (43%), Positives = 168/294 (58%), Gaps = 22/294 (7%)
Query 6 FEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPD-TVIADPRAWLTTVVSRLGLDKL 64
F R+ L SVAYRL GT ADAED+VQ+AW++W + D + +ADPRA+LT +VS L L++L
Sbjct 13 FHEYRKLLFSVAYRLLGTAADAEDVVQDAWIKWSAADRSQVADPRAYLTRIVSNLALERL 72
Query 65 RSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVAFVLH 124
RS H+RETY G WLPEP++TG DA++ AV AE A +VVLE L P +R FVL
Sbjct 73 RSTRHKRETYMGPWLPEPILTGGDASE---AVTEAESVSMAMLVVLETLSPLERAVFVLK 129
Query 125 DGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAAMAA 184
+ F AE+AE + SEAA RQ A RAR+ V A+ + D EV R AA
Sbjct 130 EVFDFSHAEIAEAVERSEAAVRQAAHRAREHVRARRPRFATDRS-RQCEVTERFFAAATG 188
Query 185 GDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRG--SDKVVRFILGLVQRYG--PGLFGAN 240
GD++T++ LL PDVT D GK A+R V G + +G V G P A
Sbjct 189 GDINTLMELLSPDVTLWTDGGGKVRQAMRPVVGAATVAAWFAAIGTVAYQGVEPADMKA- 247
Query 241 QLALVNGELGAYTAGLPGVDGYRAMAPRITAITVR---DGKVCALWDIANPDKF 291
+L +NG G +GL V I +T +G++ A+ ++ANPDK
Sbjct 248 ELVEINGGPGMVFSGLGRV---------IATVTFDFDANGRITAIHNVANPDKL 292
>gi|345011533|ref|YP_004813887.1| ECF subfamily RNA polymerase sigma-24 subunit [Streptomyces violaceusniger
Tu 4113]
gi|344037882|gb|AEM83607.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Streptomyces
violaceusniger Tu 4113]
Length=290
Score = 193 bits (491), Expect = 2e-47, Method: Compositional matrix adjust.
Identities = 123/291 (43%), Positives = 163/291 (57%), Gaps = 12/291 (4%)
Query 2 EVSEFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDS-PDTVIADPRAWLTTVVSRLG 60
E+++FE R L +VAYR+TG+VADA+D VQE WLRW + P +ADPRA+LTTV+SR+
Sbjct 3 ELTDFEQQRDRLWAVAYRITGSVADADDAVQETWLRWQALPVDEVADPRAYLTTVISRIC 62
Query 61 LDKLRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVA 120
D L SA RRE Y G WLPEPVV P V E A + VLERL P +R A
Sbjct 63 YDLLGSARVRREAYIGPWLPEPVVA---TAGPEDRVTLDESVGLALLTVLERLTPAERTA 119
Query 121 FVLHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMA 180
F+LHD F+VPF E+AEV+G S + RQLASRARK V + S D H V +
Sbjct 120 FILHDVFSVPFPEIAEVVGRSPESVRQLASRARKRVREEAPRRSVDRG-EHRRAVDAFLQ 178
Query 181 AMAAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGAN 240
A+ GD++ ++ +L P+V + D GK A V G++KV RF GL + + P +
Sbjct 179 AVLGGDMEGLLEILDPEVVWRSDGGGKVAAARVPVLGNEKVARFAQGLARGFDPATMVVH 238
Query 241 QLALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKF 291
+ A VN G A A + A +V G + + + NPDK
Sbjct 239 RCA-VNDAPGLVIA------DRTAGQAVVFAFSVHQGLITEIDVVINPDKL 282
>gi|320012102|gb|ADW06952.1| RNA polymerase, sigma-24 subunit, ECF subfamily [Streptomyces
flavogriseus ATCC 33331]
Length=302
Score = 192 bits (489), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 122/294 (42%), Positives = 160/294 (55%), Gaps = 13/294 (4%)
Query 6 FEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTV-IADPRAWLTTVVSRLGLDKL 64
FEA R L VAYR+ G VADAED+VQEAWLRW S + +PRA+L V +RL +D+L
Sbjct 10 FEAHRPFLTGVAYRMLGRVADAEDVVQEAWLRWSSAGREDVREPRAFLVRVTTRLAIDRL 69
Query 65 RSAAHRRETYTGTWLPEPVVTGLDATDPLAA--VVAAEDARFAAMVVLERLRPDQRVAFV 122
R RRE Y G WLPEPVVT P +A V A+ A +VVLE L P +R FV
Sbjct 70 RHLRSRREAYVGPWLPEPVVTEFGPAVPDSAERAVLADSVSLAVLVVLETLSPLERAVFV 129
Query 123 LHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAAM 182
L + F P+AE+ L SEAA RQLA RA++ V + DP ++ R +AA
Sbjct 130 LREAFGFPYAEIGATLDRSEAAVRQLAGRAKRHVEERKPRYEVDP-AVRRDLTERFLAAA 188
Query 183 AAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGANQL 242
+ GDL+ +++LL PD+ DS GKA R + SDKV RF+L + Q + A
Sbjct 189 SGGDLEKLLALLAPDIRLVSDSGGKAKAPRRIIETSDKVGRFLLAVAQDWST---AAEAR 245
Query 243 ALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPL 296
L EL A + VDG + + + DG + ++ I NPDK G L
Sbjct 246 VL---ELNGGPALVFSVDG---QVDTVFQVEIEDGVIRCVYIIRNPDKLAGVRL 293
>gi|149375325|ref|ZP_01893096.1| RNA polymerase sigma-70 factor [Marinobacter algicola DG893]
gi|149360361|gb|EDM48814.1| RNA polymerase sigma-70 factor [Marinobacter algicola DG893]
Length=302
Score = 192 bits (489), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 118/289 (41%), Positives = 167/289 (58%), Gaps = 13/289 (4%)
Query 5 EFEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTV-IADPRAWLTTVVSRLGLDK 63
+F+ R++L VAYR+ G+V +AED+VQ+A+LRW D + + D RA+LTTV SRL LD+
Sbjct 8 QFDHWRRYLTGVAYRMLGSVTEAEDVVQDAYLRWHHADHLSVDDVRAYLTTVTSRLCLDR 67
Query 64 LRSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVAFVL 123
LR+A +RE Y G WLPEP+V D P A A D FA M+ LERL P +R AF+L
Sbjct 68 LRAAHRQREVYDGPWLPEPIVESQDT--PAGAEALASDVSFALMLALERLSPLERAAFLL 125
Query 124 HDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQ-PALISGDPDPAHNEVVGRLMAAM 182
HD F + F++VA L SEA+ RQLASRARK V A+ P + H+++ R A
Sbjct 126 HDVFGLDFSQVAVSLERSEASCRQLASRARKRVQAERPRYEVSSSE--HSQLTDRFFDAA 183
Query 183 AAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGANQL 242
+GD+ T+ +LL D GK A R + G+D++ RF G+ ++ +
Sbjct 184 RSGDVATLKALLSESAILHTDGGGKRIAARRLILGADRISRFFEGVARKSASPSPRWVKA 243
Query 243 ALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKF 291
+VNG G T G+ P+IT + V DG + A++ + NPDK
Sbjct 244 VIVNGLPGWLTIEHDGL-------PQITTLDVVDGCIQAVYVVRNPDKL 285
>gi|126348516|emb|CAJ90240.1| putative ECF-sigma factor [Streptomyces ambofaciens ATCC 23877]
Length=295
Score = 192 bits (488), Expect = 5e-47, Method: Compositional matrix adjust.
Identities = 120/289 (42%), Positives = 161/289 (56%), Gaps = 13/289 (4%)
Query 6 FEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPD-TVIADPRAWLTTVVSRLGLDKL 64
FEA R L+ VAYR+ G +ADAED+VQEAWLRW + D + + +PR +L + +R+ +D+L
Sbjct 10 FEAHRPVLLGVAYRMLGRLADAEDVVQEAWLRWSAADRSGVHEPRGYLVRITTRVAIDRL 69
Query 65 RSAAHRRETYTGTWLPEPVVT--GLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVAFV 122
R R ETY G WLPEP T G D V A+ A +VVLE L P +R FV
Sbjct 70 RQIKSRGETYVGPWLPEPYATDFGDAVADTAERAVLADSVSLAVLVVLESLSPLERAVFV 129
Query 123 LHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAAM 182
L + F P+AE+A +L EAA RQLA RARK V + DP ++ R +AA
Sbjct 130 LREAFGYPYAEIAAMLERGEAAVRQLAGRARKHVDERRPRYEVDP-AQRRDLTERFLAAA 188
Query 183 AAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGANQL 242
GDLD +V+LL PDV GDS GKA +R V SDKV RF+LG + P + +
Sbjct 189 TEGDLDGLVALLAPDVRLVGDSGGKARVPLRVVDSSDKVARFLLGAAHKGVPDV--SFHF 246
Query 243 ALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKF 291
+NG G L G + + + V +G++ A++ I NPDK
Sbjct 247 LELNG--GPALLVLSGSE-----PDSVFQLDVAEGRIQAVYIIRNPDKL 288
>gi|302561888|ref|ZP_07314230.1| RNA polymerase ECF-subfamily sigma factor [Streptomyces griseoflavus
Tu4000]
gi|302479506|gb|EFL42599.1| RNA polymerase ECF-subfamily sigma factor [Streptomyces griseoflavus
Tu4000]
Length=295
Score = 190 bits (482), Expect = 3e-46, Method: Compositional matrix adjust.
Identities = 118/290 (41%), Positives = 158/290 (55%), Gaps = 13/290 (4%)
Query 6 FEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDTV-IADPRAWLTTVVSRLGLDKL 64
FEA R LM VAYR+ G VADAED+VQ+AWLRW + D + +PR +L V +RL +D+L
Sbjct 10 FEAHRPVLMGVAYRMLGRVADAEDVVQDAWLRWSAGDRAEVREPRGYLVRVTTRLAIDRL 69
Query 65 RSAAHRRETYTGTWLPEPVVTGLDATDPLAA--VVAAEDARFAAMVVLERLRPDQRVAFV 122
R R ETY G WLPEP VT T P A V A+ A +VV+E L P +R FV
Sbjct 70 RRIKSRGETYVGPWLPEPYVTDFGDTVPDTAERAVLADSVSLAVLVVMESLSPLERAVFV 129
Query 123 LHDGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAAM 182
L + F P+A++A VL E A RQLA RARK V + DP ++ R +AA
Sbjct 130 LREAFGYPYADIAAVLDRGEPAVRQLAGRARKHVAERRPRYQVDP-AERRDLTERFLAAA 188
Query 183 AAGDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGANQL 242
GDL ++ LL PDV GDS GK+ +R + +D V RF+LG ++ P L + +
Sbjct 189 TDGDLQGLLELLAPDVRLVGDSGGKSRAPLRVLESADHVGRFLLGAARKSVPAL--SLRF 246
Query 243 ALVNGELGAYTAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFT 292
VNG L D + + V DG++ ++ + NPDK T
Sbjct 247 LEVNGGLAVLALSGDEPDS-------VFQLDVADGRIRTVYVLRNPDKLT 289
>gi|337763590|emb|CCB72300.1| RNA polymerase ECF-type sigma factor [Streptomyces cattleya NRRL
8057]
Length=291
Score = 189 bits (479), Expect = 7e-46, Method: Compositional matrix adjust.
Identities = 129/301 (43%), Positives = 165/301 (55%), Gaps = 21/301 (6%)
Query 6 FEALRQHLMSVAYRLTGTVADAEDIVQEAWLRWDSPDT-VIADPRAWLTTVVSRLGLDKL 64
F+ R L +AYR+ G+ ADAED+VQ+AWLRW D +A+PRA+L V+ L ++KL
Sbjct 7 FQEHRPMLFGIAYRMLGSAADAEDVVQDAWLRWHGVDADSVAEPRAYLARTVTNLSINKL 66
Query 65 RSAAHRRETYTGTWLPEPVVTGLDATDPLAAVVAAEDARFAAMVVLERLRPDQRVAFVLH 124
RSAA RRE Y G WLPEP+V A D V AED A +VVLE L P +R FVL
Sbjct 67 RSAAARREAYVGPWLPEPLVEAAGAADADGGVERAEDVSLAMLVVLETLSPLERAVFVLR 126
Query 125 DGFAVPFAEVAEVLGTSEAAARQLASRARKAVTAQPALISGDPDPAHNEVVGRLMAAMAA 184
+ F E+AE SEAA RQ+A+RAR V A+ P + +AA A
Sbjct 127 EVFGFSHREIAEATDRSEAAVRQVATRARDHVRARRPRYDA-PAALRRRLTDDFLAACAG 185
Query 185 GDLDTVVSLLHPDVTFTGDSNGKAPTAVRAVRGSDKVVRFILGLVQRYGPGLFGANQLAL 244
GDL+ V++LL PDVT D GK A+R V G+DKV R+ILG++ P FGA+++
Sbjct 186 GDLNQVLALLAPDVTAWSDGGGKVRAALRPVHGADKVARWILGVMATSIPD-FGAHRVD- 243
Query 245 VNGELGAY--TAGLPGVDGYRAMAPRITAITVRDGKVCALWDIANPDKFTGSPLKERRAQ 302
VNG G + G+P A DG V AL + NP K RRAQ
Sbjct 244 VNGRPGLLITSGGVPDT--------VCCAEFAEDGTVTALHLVRNPHKL-------RRAQ 288
Query 303 P 303
P
Sbjct 289 P 289
Lambda K H
0.320 0.134 0.398
Gapped
Lambda K H
0.267 0.0410 0.140
Effective search space used: 536811074178
Database: All non-redundant GenBank CDS translations+PDB+SwissProt+PIR+PRF
excluding environmental samples from WGS projects
Posted date: Sep 5, 2011 4:36 AM
Number of letters in database: 5,219,829,388
Number of sequences in database: 15,229,318
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Neighboring words threshold: 11
Window for multiple hits: 40