Psyllid ID: psy15215
Local Sequence Feature Prediction
| Prediction and (Method) | Result |
|---|
|
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Close Homologs for Annotation Transfer
Close Homologs in SWISS-PROT Database Detected by BLAST 
Original result of BLAST against SWISS-PROT Database
| ID | Alignment graph | Length |
Definition |
RBH(Q2H) |
RBH(H2Q) |
Q cover |
H cover |
Identity |
E-value |
| Query | 1432 | 2.2.26 [Sep-21-2011] | |||||||
| P52325 | 642 | RNA polymerase sigma fact | yes | N/A | 0.421 | 0.940 | 0.537 | 0.0 | |
| P52326 | 615 | RNA polymerase sigma fact | yes | N/A | 0.416 | 0.970 | 0.514 | 1e-170 | |
| P32001 | 617 | RNA polymerase sigma fact | yes | N/A | 0.405 | 0.941 | 0.497 | 1e-167 | |
| P57163 | 612 | RNA polymerase sigma fact | yes | N/A | 0.405 | 0.949 | 0.501 | 1e-167 | |
| P0A2E3 | 615 | RNA polymerase sigma fact | yes | N/A | 0.420 | 0.978 | 0.495 | 1e-167 | |
| P0A2E4 | 615 | RNA polymerase sigma fact | N/A | N/A | 0.420 | 0.978 | 0.495 | 1e-167 | |
| P26480 | 617 | RNA polymerase sigma fact | yes | N/A | 0.416 | 0.967 | 0.518 | 1e-164 | |
| P52327 | 614 | RNA polymerase sigma fact | no | N/A | 0.414 | 0.967 | 0.514 | 1e-164 | |
| P00579 | 613 | RNA polymerase sigma fact | N/A | N/A | 0.420 | 0.982 | 0.491 | 1e-163 | |
| Q87DT7 | 618 | RNA polymerase sigma fact | yes | N/A | 0.407 | 0.943 | 0.506 | 1e-163 |
| >sp|P52325|RPOD_NEIGO RNA polymerase sigma factor RpoD OS=Neisseria gonorrhoeae GN=rpoD PE=3 SV=1 | Back alignment and function desciption |
|---|
Score = 648 bits (1672), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 334/621 (53%), Positives = 450/621 (72%), Gaps = 17/621 (2%)
Query: 826 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 885
IE R + + LI +GKERGY+T+SEIND LP+D+ D + I++I+ + I V+EH D
Sbjct: 19 IEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNIVSMISGLGIQVTEHAPD 78
Query: 886 TETLMLSN---ITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIE 942
E ++LS+ +T DD VEEA EAALS+ DS+FGRT DP++MYMREMG V+LLTR+ EI
Sbjct: 79 AEDILLSDNAAVTDDDAVEEA-EAALSSADSEFGRTTDPVRMYMREMGQVDLLTREDEII 137
Query: 943 IAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIK 1002
IAK+IE LK+M+ AIS+CP +I EIL +KI K+EI++DE+V+ +ID N N +
Sbjct: 138 IAKKIENALKNMVQAISACPGSIAEILELIEKICKDEIRVDEVVEAIIDPNEVLRNELGL 197
Query: 1003 GN-KNNNEEK------------ILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRK 1049
G+ + EK E + ++S L +LK + + F+ I + KM
Sbjct: 198 GHLETTAPEKPSNDNSDENEDDEESEEDADEISAANLAELKQKVIGHFAQIEKDYKKMIG 257
Query: 1050 AFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVN 1109
EK + Y+ + I+N++L +RF + I+ L +LR ++ + ++E++I +I ++
Sbjct: 258 CLEKHHSRHKDYLAYRDAIANKLLEVRFATRQIDSLSSSLRGKVENIRKLEREIRDICLD 317
Query: 1110 KCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVL 1169
+ M R +FI+ F NL W++ E ++ L R +I E Q +L +++ + +
Sbjct: 318 RVHMERDYFIQNFLPEITNLQWIEEEIAKGRVWSNALDRFRHAILEKQTELADMEKETRI 377
Query: 1170 PLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLM 1229
+ +L++IN+ M++ E + AK+EM +ANLRLVISIAKKYT+RGLQFLDLIQEGNIGLM
Sbjct: 378 SIEELKEINKNMVSSEKVSAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 437
Query: 1230 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQE 1289
KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ LQE
Sbjct: 438 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQE 497
Query: 1290 TGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 1349
TG EPD + +A M+MPE+KIRKIMKIAKEP+SME+P+GDD+DSHLGDFIED N +AP+D
Sbjct: 498 TGEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPAD 557
Query: 1350 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 1409
AA+ S+ V K+IL SLTPRE+KVLRMRFGI+M++DHTLEEVG+QFDVTRERIRQIEAK
Sbjct: 558 AAMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAK 617
Query: 1410 ALRKLRHPSRYYKLKIFLEGK 1430
ALRKLRHP+R +L+ FL+ +
Sbjct: 618 ALRKLRHPTRSDRLRSFLDSE 638
|
Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This is the primary sigma factor of this bacterium. Neisseria gonorrhoeae (taxid: 485) |
| >sp|P52326|RPOD_PSEFL RNA polymerase sigma factor RpoD OS=Pseudomonas fluorescens GN=rpoD PE=3 SV=1 | Back alignment and function description |
|---|
Score = 600 bits (1546), Expect = e-170, Method: Compositional matrix adjust.
Identities = 311/605 (51%), Positives = 421/605 (69%), Gaps = 8/605 (1%)
Query: 832 KFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLML 891
+ K LI G+E+GYLT++E+ND LPEDI D E +E II+ M I+V E D + L+L
Sbjct: 10 RLKELISRGREQGYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGINVFESAPDADALLL 69
Query: 892 SNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGL 951
+ +D+ E AAL+ V++D GRT DP++MYMREMG+VELLTR+GEIEIAKRIEEG+
Sbjct: 70 AEADTDEAAAEEAAAALAAVETDIGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEEGI 129
Query: 952 KDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKN-----FSSNNRVIKGNKN 1006
++++ AI+ P T+ IL +++ ++ +++ G ID + ++ K
Sbjct: 130 REVMGAIAHFPGTVDHILSEYTRVTTEGGRLSDVLSGYIDPDDGITPPAAEVPPPVDTKT 189
Query: 1007 NNEEKILIESSSADLSTEQLEKLKYESLI---KFSNISFHFDKMRKAFEKEGYNSESYIK 1063
+ + + E+ + + +I +F ++ + RKA +K G ++ I
Sbjct: 190 AKADDDSEDEEAEATEDEEEAESGPDPVIAAQRFGAVADQMEVTRKALKKHGRENKQAIA 249
Query: 1064 AHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFP 1123
++ + I+ K E L + +R+ ++++ Q E+ I+++ V MPR F++ FP
Sbjct: 250 EMLALAELFMPIKLVPKQFEGLVERVRSALDRLRQQERAIMQLCVRDARMPRADFLRQFP 309
Query: 1124 ENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIA 1183
NE++ +W D K + Y + R P I QQKL L+ + L + +++DINR+M
Sbjct: 310 GNEVDESWTDALAKGKSKYAEAIARLQPDIIRCQQKLTALEVETGLKIAEIKDINRRMSI 369
Query: 1184 GEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 1243
GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF
Sbjct: 370 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 429
Query: 1244 STYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKM 1303
STYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQE G EP P + +M
Sbjct: 430 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERM 489
Query: 1304 EMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDI 1363
EMPE+KIRK++KIAKEP+SME+P+GDDEDSHLGDFIED M +P D A S++ +++
Sbjct: 490 EMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREV 549
Query: 1364 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKL 1423
L+ LT RE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLRHP+R L
Sbjct: 550 LSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPTRSEHL 609
Query: 1424 KIFLE 1428
+ FL+
Sbjct: 610 RSFLD 614
|
Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This is the primary sigma factor of this bacterium. Pseudomonas fluorescens (taxid: 294) |
| >sp|P32001|RPOD_BUCAP RNA polymerase sigma factor RpoD OS=Buchnera aphidicola subsp. Schizaphis graminum (strain Sg) GN=rpoD PE=3 SV=1 | Back alignment and function description |
|---|
Score = 590 bits (1522), Expect = e-167, Method: Compositional matrix adjust.
Identities = 315/633 (49%), Positives = 423/633 (66%), Gaps = 52/633 (8%)
Query: 828 NLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTE 887
N + + K+L+ GKE+GYLT++E+ND LPE+IID E I+ II+ M I V E D +
Sbjct: 4 NPKSQLKLLVTHGKEQGYLTYAEVNDHLPEEIIDSEQIDDIIQMINDMGIQVVEEAPDAD 63
Query: 888 TLMLSNITSDDDVEEATEAA---LSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIA 944
L+L+ I +D D E+A EAA LS+V+S+ GRT DP++MYMREMG+VELLTR+GEI+IA
Sbjct: 64 DLILNEINTDTD-EDAVEAATQVLSSVESELGRTTDPVRMYMREMGTVELLTREGEIDIA 122
Query: 945 KRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGN 1004
KRIEEG+ + ++S P I +L D+I +I++ +I+ G +D N
Sbjct: 123 KRIEEGINQVQSSVSEYPEAITYLLEQYDRIKTGQIRLSDIITGFVDPN----------- 171
Query: 1005 KNNNEEKILIESSSA-DLSTEQLEKLKYESLI------------------------KFSN 1039
E+I S+SA + +E L+ + +S KF
Sbjct: 172 ----AEEIFSHSTSAIHIGSEILDNITNDSNENEDENEDENEDEDENSIDPELANEKFRE 227
Query: 1040 ISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQI 1099
+ + + + N + + N+S R K + L + +RN +N+V +
Sbjct: 228 LRKQYTNTSNTIKNKNRNHQDSLLEIYNLSEIFKQFRLVPKQFDHLVNNMRNMMNRVRKQ 287
Query: 1100 EKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKE---- 1155
E++I+++ + +C +P+ F+K+F E + NW E N + + IKE
Sbjct: 288 ERKIMKLCIEECKIPKKIFLKIFSGKETDQNWFKKE----QSSNQSWSKKLEEIKEKVFS 343
Query: 1156 LQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGL 1215
+KL ++ + L + ++DIN++M GE KA++AK+EM EANLRLVISIAKKYT+RGL
Sbjct: 344 SMKKLKQIEKETGLTIEQVKDINKRMSIGEAKAKRAKKEMVEANLRLVISIAKKYTNRGL 403
Query: 1216 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET 1275
QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET
Sbjct: 404 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET 463
Query: 1276 INKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHL 1335
INK++RISRQ+LQE G EP P ++ KM +PE+KIRK++KIAKEP+SME+P+GDD+DSHL
Sbjct: 464 INKLNRISRQMLQEIGREPTPEELSEKMLIPEDKIRKVLKIAKEPISMETPIGDDDDSHL 523
Query: 1336 GDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQ 1395
GDFIED + P D+A + S+RS D+L+ LT RE+KVLRMRFGI+M++DHTLEEVGKQ
Sbjct: 524 GDFIEDTTLELPLDSATSESLRSATHDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQ 583
Query: 1396 FDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
FDVTRERIRQIEAKALRKLRHPSR L+ FL+
Sbjct: 584 FDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 616
|
Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This is the primary sigma factor of this bacterium. Buchnera aphidicola subsp. Schizaphis graminum (strain Sg) (taxid: 198804) |
| >sp|P57163|RPOD_BUCAI RNA polymerase sigma factor RpoD OS=Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) GN=rpoD PE=3 SV=1 | Back alignment and function description |
|---|
Score = 590 bits (1521), Expect = e-167, Method: Compositional matrix adjust.
Identities = 316/630 (50%), Positives = 424/630 (67%), Gaps = 49/630 (7%)
Query: 827 ENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDT 886
+N + + K+L+ GKE+GYLT+SE+ND LPEDIID E I+ II+ M I V E D
Sbjct: 3 QNPQSQLKLLVTHGKEQGYLTYSEVNDHLPEDIIDSEQIDDIIQMINDMGIPVVEEAPDA 62
Query: 887 ETLMLSNITSDDDVEEATEAA---LSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEI 943
+ L+L+ I +D D E+A EAA LS+V+S+ GRT DP++MYMREMG+VELLTR+GEI+I
Sbjct: 63 DDLILNEINTDTD-EDAVEAATQVLSSVESELGRTTDPVRMYMREMGTVELLTREGEIDI 121
Query: 944 AKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKG 1003
AKRIEEG+ + ++S P I +L D++ +I++ +I+ G +D N
Sbjct: 122 AKRIEEGINQVQCSVSEYPEAITYLLEQYDRVKTGQIRLSDIITGFVDPNAEE------- 174
Query: 1004 NKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFH--------------FDKMRK 1049
+ ++ + +E L++ + + +N H F ++R
Sbjct: 175 ---------IFPPTAIHIGSELLDEQQNNEEDEENNQEDHEDDHSIDPELANEKFSELRI 225
Query: 1050 AFEKEGYNSESYIKAHN-------NISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQ 1102
+ ++ + H N+S R K + L + +R+ + +V + E+
Sbjct: 226 QYNNTNNTIKNKNRTHKDSLLEIYNLSEVFKQFRLVPKQFDHLVNNMRHMMERVRKQERI 285
Query: 1103 ILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKE----LQQ 1158
I+++ V C MP+ +FIK+FP +IN W E + N N+ +KE +
Sbjct: 286 IIKLCVEICKMPKKNFIKIFPIKKINYLWFIRE----QNTNQPWSENLKKVKEDVFISVK 341
Query: 1159 KLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFL 1218
KLI ++ + L + ++DIN++M GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFL
Sbjct: 342 KLIKIEEETGLTIEQVKDINKRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFL 401
Query: 1219 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK 1278
DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK
Sbjct: 402 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK 461
Query: 1279 ISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDF 1338
++RISRQ+LQE G EP P ++ KM +PE+KIRK++KIAKEP+SME+P+GDD+DSHLGDF
Sbjct: 462 LNRISRQMLQEIGREPTPEELSEKMLIPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDF 521
Query: 1339 IEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDV 1398
IED + P D+A + S+RS D+L+ LT RE+KVLRMRFGI+M++DHTLEEVGKQFDV
Sbjct: 522 IEDTTLELPLDSATSESLRSATHDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDV 581
Query: 1399 TRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
TRERIRQIEAKALRKLRHPSR L+ FL+
Sbjct: 582 TRERIRQIEAKALRKLRHPSRSEVLRSFLD 611
|
Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This is the primary sigma factor of this bacterium. Buchnera aphidicola subsp. Acyrthosiphon pisum (strain APS) (taxid: 107806) |
| >sp|P0A2E3|RPOD_SALTY RNA polymerase sigma factor RpoD OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=rpoD PE=3 SV=1 | Back alignment and function description |
|---|
Score = 589 bits (1519), Expect = e-167, Method: Compositional matrix adjust.
Identities = 303/612 (49%), Positives = 415/612 (67%), Gaps = 10/612 (1%)
Query: 827 ENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDT 886
+N + + K+L+ GKE+GYLT++E+ND LPEDI+D + IE II+ M I V E D
Sbjct: 3 QNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDA 62
Query: 887 ETLMLS-NITS-DDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIA 944
+ L+L+ N TS D+D EEA LS+V+S+ GRT DP++MYMREMG+VELLTR+GEI+IA
Sbjct: 63 DDLLLAENTTSTDEDAEEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIA 122
Query: 945 KRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGN 1004
KRIE+G+ + +++ P I +L D++ E ++ +++ G +D N +
Sbjct: 123 KRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDPNAEEEMAPTATH 182
Query: 1005 KNNNEEKILIESSSADLSTEQLEKLKYE--------SLIKFSNISFHFDKMRKAFEKEGY 1056
+ + ++ + + + + + KF+ + + R + +G
Sbjct: 183 VGSELSQEDLDDDEDEDEEDGDDDAADDDNSIDPELAREKFAELRAQYVVTRDTIKAKGR 242
Query: 1057 NSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRL 1116
+ + + +S R K + L +++R +++V E+ I+++ V +C MP+
Sbjct: 243 SHAAAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKK 302
Query: 1117 HFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRD 1176
+FI +F NE + W + + ++ L ++ QKL ++ + L + ++D
Sbjct: 303 NFITLFTGNETSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQKLRQIEEETGLTIEQVKD 362
Query: 1177 INRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFE 1236
INR+M GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFE
Sbjct: 363 INRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE 422
Query: 1237 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDP 1296
YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQE G EP P
Sbjct: 423 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTP 482
Query: 1297 SVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASM 1356
+A +M MPE+KIRK++KIAKEP+SME+P+GDDEDSHLGDFIED + P D+A S+
Sbjct: 483 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESL 542
Query: 1357 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 1416
R+ D+L LT RE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLRH
Sbjct: 543 RAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 602
Query: 1417 PSRYYKLKIFLE 1428
PSR L+ FL+
Sbjct: 603 PSRSEVLRSFLD 614
|
Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This is the primary sigma factor of this bacterium. Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) (taxid: 99287) |
| >sp|P0A2E4|RPOD_SALTI RNA polymerase sigma factor RpoD OS=Salmonella typhi GN=rpoD PE=3 SV=1 | Back alignment and function description |
|---|
Score = 589 bits (1519), Expect = e-167, Method: Compositional matrix adjust.
Identities = 303/612 (49%), Positives = 415/612 (67%), Gaps = 10/612 (1%)
Query: 827 ENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDT 886
+N + + K+L+ GKE+GYLT++E+ND LPEDI+D + IE II+ M I V E D
Sbjct: 3 QNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDA 62
Query: 887 ETLMLS-NITS-DDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIA 944
+ L+L+ N TS D+D EEA LS+V+S+ GRT DP++MYMREMG+VELLTR+GEI+IA
Sbjct: 63 DDLLLAENTTSTDEDAEEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIA 122
Query: 945 KRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGN 1004
KRIE+G+ + +++ P I +L D++ E ++ +++ G +D N +
Sbjct: 123 KRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDPNAEEEMAPTATH 182
Query: 1005 KNNNEEKILIESSSADLSTEQLEKLKYE--------SLIKFSNISFHFDKMRKAFEKEGY 1056
+ + ++ + + + + + KF+ + + R + +G
Sbjct: 183 VGSELSQEDLDDDEDEDEEDGDDDAADDDNSIDPELAREKFAELRAQYVVTRDTIKAKGR 242
Query: 1057 NSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRL 1116
+ + + +S R K + L +++R +++V E+ I+++ V +C MP+
Sbjct: 243 SHAAAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKK 302
Query: 1117 HFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRD 1176
+FI +F NE + W + + ++ L ++ QKL ++ + L + ++D
Sbjct: 303 NFITLFTGNETSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQKLRQIEEETGLTIEQVKD 362
Query: 1177 INRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFE 1236
INR+M GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFE
Sbjct: 363 INRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE 422
Query: 1237 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDP 1296
YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQE G EP P
Sbjct: 423 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTP 482
Query: 1297 SVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASM 1356
+A +M MPE+KIRK++KIAKEP+SME+P+GDDEDSHLGDFIED + P D+A S+
Sbjct: 483 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESL 542
Query: 1357 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 1416
R+ D+L LT RE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLRH
Sbjct: 543 RAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 602
Query: 1417 PSRYYKLKIFLE 1428
PSR L+ FL+
Sbjct: 603 PSRSEVLRSFLD 614
|
Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This is the primary sigma factor of this bacterium. Salmonella typhi (taxid: 90370) |
| >sp|P26480|RPOD_PSEAE RNA polymerase sigma factor RpoD OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228) GN=rpoD PE=3 SV=1 | Back alignment and function description |
|---|
Score = 582 bits (1499), Expect = e-164, Method: Compositional matrix adjust.
Identities = 315/607 (51%), Positives = 420/607 (69%), Gaps = 10/607 (1%)
Query: 832 KFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLML 891
+ K LI G+E+GYLT++E+ND LPEDI D E +E II+ M I+V E D + L+L
Sbjct: 10 RLKELIARGREQGYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGINVFETAPDADALLL 69
Query: 892 SNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGL 951
+ +D+ E AAL+ V+SD GRT DP++MYMREMG+VELLTR+GEIEIAKRIEEG+
Sbjct: 70 AEADTDEAAAEEAAAALAAVESDIGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEEGI 129
Query: 952 KDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSS--NNRVIKGNKNNNE 1009
++++ AI+ P T+ IL ++I ++ +++ G ID + S V N ++
Sbjct: 130 REVMSAIAQFPGTVDSILADYNRIVAEGGRLSDVLSGYIDPDDGSLPAEEVEPVNLKDDS 189
Query: 1010 --------EKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESY 1061
E+ + SS E+ ++F+ +S DK +KA +K G S+
Sbjct: 190 ADSKEKDDEEEESDDSSDSDDEGDGGPDPEEARLRFTAVSEQLDKAKKALKKHGRGSKQA 249
Query: 1062 IKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKV 1121
++ + I+ K + L +R+ + V E+ I+++ V MPR F+++
Sbjct: 250 TAELTGLAELFMPIKLVPKQFDALVARVRSALEGVRAQERAIMQLCVRDARMPRADFLRL 309
Query: 1122 FPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKM 1181
FP +E + WVD+ K + Y + R I QQKL L++++ L + ++++INR M
Sbjct: 310 FPNHETDEKWVDSVLKSKPKYAEAIERLRDDILRNQQKLAALESEVELTVAEIKEINRAM 369
Query: 1182 IAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 1241
GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGY
Sbjct: 370 SIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 429
Query: 1242 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAI 1301
KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQE G EP P +
Sbjct: 430 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGE 489
Query: 1302 KMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVK 1361
+M+MPE+KIRK++KIAKEP+SME+P+GDDEDSHLGDFIED M +P + A + S++ +
Sbjct: 490 RMDMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIEMATSESLKESTR 549
Query: 1362 DILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYY 1421
++L LT RE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR
Sbjct: 550 EVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSE 609
Query: 1422 KLKIFLE 1428
L+ FL+
Sbjct: 610 HLRSFLD 616
|
Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This is the primary sigma factor of this bacterium. Pseudomonas aeruginosa (strain ATCC 15692 / PAO1 / 1C / PRS 101 / LMG 12228) (taxid: 208964) |
| >sp|P52327|RPOD_PSEPU RNA polymerase sigma factor RpoD OS=Pseudomonas putida GN=rpoD PE=3 SV=1 | Back alignment and function description |
|---|
Score = 580 bits (1496), Expect = e-164, Method: Compositional matrix adjust.
Identities = 312/607 (51%), Positives = 419/607 (69%), Gaps = 13/607 (2%)
Query: 832 KFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLML 891
+ K LI G+E+GYLT++E+ND LPEDI D E +E II+ M I+V E D + L+L
Sbjct: 10 RIKELITRGREQGYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGINVFESAPDADALLL 69
Query: 892 SNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGL 951
+ +D+ E AAL+ V++D RT DP++MYMREMG+VELLTR+GEIEIAKRIEEG+
Sbjct: 70 AEADTDEAAAEEAAAALAAVETDIRRTTDPVRMYMREMGTVELLTREGEIEIAKRIEEGI 129
Query: 952 KDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKN----FSSNNRVIKGNKNN 1007
++++ AI+ P T+ IL D++++ ++ +++ G ID + + I G K
Sbjct: 130 REVMGAIAHFPGTVDYILGEYDRVNRG-CRLSDVLSGYIDPDDNIAAPTEEVPIPGTKAA 188
Query: 1008 NEEKILIESSSADLSTEQLEKLKYESLIKFSNISFH------FDKMRKAFEKEGYNSESY 1061
++ + + E+ K +L + S S F + EK Y +
Sbjct: 189 AAKEEADDDEEESEGGDDEEEPKA-ALTRSSQPSVSVRYPSSFSDHQGPEEKRSY-PQGK 246
Query: 1062 IKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKV 1121
+A +++ + I+ K E L + +R+ +N++ Q E+ I+++ V MPR F+++
Sbjct: 247 RRALQALADLFMPIKLVPKQFEVLVERVRDALNRLRQQERAIMQLCVRDARMPRADFLRM 306
Query: 1122 FPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKM 1181
FP NE + W + K + L +I QQKLI+L+T+ L + ++++INR+M
Sbjct: 307 FPSNETDQTWSGDLAKRNTKWAAALGEKDAAIVACQQKLIDLETETGLTVAEIKEINRRM 366
Query: 1182 IAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 1241
GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGY
Sbjct: 367 SIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 426
Query: 1242 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAI 1301
KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQE G EP P +
Sbjct: 427 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGE 486
Query: 1302 KMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVK 1361
+MEMPE+KIRK++KIAKEP+SME+P+GDDEDSHLGDFIED M +P A S++ +
Sbjct: 487 RMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIYVATVESLKEATR 546
Query: 1362 DILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYY 1421
D+L+ LT RE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKA RKLRHP+R
Sbjct: 547 DVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAWRKLRHPTRSE 606
Query: 1422 KLKIFLE 1428
L+ FL+
Sbjct: 607 HLRSFLD 613
|
Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This is the primary sigma factor of this bacterium. Pseudomonas putida (taxid: 303) |
| >sp|P00579|RPOD_ECOLI RNA polymerase sigma factor RpoD OS=Escherichia coli (strain K12) GN=rpoD PE=1 SV=2 | Back alignment and function description |
|---|
Score = 576 bits (1484), Expect = e-163, Method: Compositional matrix adjust.
Identities = 300/610 (49%), Positives = 413/610 (67%), Gaps = 8/610 (1%)
Query: 827 ENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDT 886
+N + + K+L+ GKE+GYLT++E+ND LPEDI+D + IE II+ M I V E D
Sbjct: 3 QNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDA 62
Query: 887 ETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKR 946
+ LML+ T+D+D EA LS+V+S+ GRT DP++MYMREMG+VELLTR+GEI+IAKR
Sbjct: 63 DDLMLAENTADEDAAEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKR 122
Query: 947 IEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKN 1006
IE+G+ + +++ P I +L D++ E ++ +++ G +D N + +
Sbjct: 123 IEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDPNAEEDLAPTATHVG 182
Query: 1007 NNEEKILIESSSADLSTEQLEKLKYE--------SLIKFSNISFHFDKMRKAFEKEGYNS 1058
+ + ++ + + + + + KF+ + + R + +G +
Sbjct: 183 SELSQEDLDDDEDEDEEDGDDDSADDDNSIDPELAREKFAELRAQYVVTRDTIKAKGRSH 242
Query: 1059 ESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHF 1118
+ + +S R K + L +++R +++V E+ I+++ V +C MP+ +F
Sbjct: 243 ATAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNF 302
Query: 1119 IKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDIN 1178
I +F NE + W + + ++ L + QKL ++ + L + ++DIN
Sbjct: 303 ITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETGLTIEQVKDIN 362
Query: 1179 RKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYR 1238
R+M GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYR
Sbjct: 363 RRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYR 422
Query: 1239 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSV 1298
RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQE G EP P
Sbjct: 423 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEE 482
Query: 1299 IAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRS 1358
+A +M MPE+KIRK++KIAKEP+SME+P+GDDEDSHLGDFIED + P D+A S+R+
Sbjct: 483 LAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRA 542
Query: 1359 VVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 1418
D+L LT RE+KVLRMRFGI+M++D+TLEEVGKQFDVTRERIRQIEAKALRKLRHPS
Sbjct: 543 ATHDVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 602
Query: 1419 RYYKLKIFLE 1428
R L+ FL+
Sbjct: 603 RSEVLRSFLD 612
|
Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This is the primary sigma factor of this bacterium. Escherichia coli (strain K12) (taxid: 83333) |
| >sp|Q87DT7|RPOD_XYLFT RNA polymerase sigma factor RpoD OS=Xylella fastidiosa (strain Temecula1 / ATCC 700964) GN=rpoD PE=3 SV=1 | Back alignment and function description |
|---|
Score = 575 bits (1483), Expect = e-163, Method: Compositional matrix adjust.
Identities = 313/618 (50%), Positives = 421/618 (68%), Gaps = 35/618 (5%)
Query: 833 FKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLML- 891
K LI G E+GYLT++E+ND LPED++D + IE II M I V E D ETL+L
Sbjct: 12 IKQLISKGLEQGYLTYAEVNDHLPEDLVDPDQIEDIIGMINGMGIEVHEVAPDAETLLLN 71
Query: 892 ----SNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRI 947
N DD E AALS +D++ GRT DP++MYMREMG+VELLTR+GEI IAKRI
Sbjct: 72 EGNTGNREVDDTAAEEAAAALSALDTEAGRTTDPVRMYMREMGTVELLTREGEIAIAKRI 131
Query: 948 EEGLKDMIHAISSCPTTIMEILIAADKISK-NEIKIDEIVDG---LIDKNFSSNNRVIKG 1003
EEGL ++ A+ + P + E+L++ ++ K + ++ E+V G LI+++ S + V
Sbjct: 132 EEGLSEVQAALGAFPLST-ELLLSEYELHKEGKRRLTEVVVGFNDLIEEDNSVTSSVDVT 190
Query: 1004 NKN-------------NNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKA 1050
+++ N+E+ +I A++++ + ++S + K +K
Sbjct: 191 DESIVEVDEEDDDSVGNDEDAPMIGPDPAEVAS------------RIESLSTEYAKFKKL 238
Query: 1051 FEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNK 1110
+ K G ++ IK +++ + + + + L L+N +N V E+++L + N
Sbjct: 239 YAKHGPEHKAVIKVREDVAAIFVTFKLSLPLTDLLVQQLQNMVNSVKDHERKVLHLATNV 298
Query: 1111 CGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLP 1170
MPR FI+ + N+ NL WV++ K + ++ L I QQ I+L+ L
Sbjct: 299 AKMPRKDFIRSWENNQTNLEWVEDAIKRKQKWSSALRDIKDQITAEQQASIDLEKVNSLT 358
Query: 1171 LNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMK 1230
L D+++INR M+ GE KA KAK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMK
Sbjct: 359 LADIKEINRMMVYGEAKASKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 418
Query: 1231 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQET 1290
AV KFE+RRG+KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQ+
Sbjct: 419 AVCKFEHRRGFKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQQF 478
Query: 1291 GSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 1350
G E P +A +M+MPE+KIRK+MKIAKEP+SME+P+GDDEDSHLGDFIED N+ +P D
Sbjct: 479 GREATPEELAKEMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDPNVESPVDT 538
Query: 1351 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 1410
N ++ V+++L LTPRE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKA
Sbjct: 539 TTNVNLSETVREVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 598
Query: 1411 LRKLRHPSRYYKLKIFLE 1428
LRKLRHPSR +L+ FL+
Sbjct: 599 LRKLRHPSRSEQLRSFLD 616
|
Sigma factors are initiation factors that promote the attachment of RNA polymerase to specific initiation sites and are then released. This is the primary sigma factor of this bacterium. Xylella fastidiosa (strain Temecula1 / ATCC 700964) (taxid: 183190) |
Close Homologs in the Non-Redundant Database Detected by BLAST
Original result of BLAST against Nonredundant Database
| GI | Alignment Graph | Length |
Definition |
Q cover |
H cover |
Identity |
E-value |
| Query | 1432 | ||||||
| 134093713 | 858 | sigma 70 factor of RNA polymerase [Hermi | 0.431 | 0.720 | 0.725 | 0.0 | |
| 193222233 | 800 | putative RNA polymerase sigma factor rpo | 0.431 | 0.772 | 0.725 | 0.0 | |
| 300310204 | 850 | RNA polymerase sigma-70 factor transcrip | 0.431 | 0.727 | 0.729 | 0.0 | |
| 398836332 | 845 | RNA polymerase sigma factor, sigma-70 fa | 0.431 | 0.731 | 0.729 | 0.0 | |
| 152980761 | 826 | RNA polymerase primary sigma factor [Jan | 0.431 | 0.748 | 0.713 | 0.0 | |
| 340786215 | 831 | RNA polymerase sigma factor [Collimonas | 0.431 | 0.743 | 0.729 | 0.0 | |
| 395763824 | 746 | RNA polymerase primary sigma factor [Jan | 0.431 | 0.828 | 0.721 | 0.0 | |
| 445499114 | 746 | RNA polymerase sigma factor RpoD [Janthi | 0.431 | 0.828 | 0.725 | 0.0 | |
| 409404651 | 741 | RNA polymerase sigma-70 factor transcrip | 0.431 | 0.834 | 0.731 | 0.0 | |
| 427400732 | 753 | RNA polymerase sigma factor RpoD [Massil | 0.431 | 0.820 | 0.722 | 0.0 |
| >gi|134093713|ref|YP_001098788.1| sigma 70 factor of RNA polymerase [Herminiimonas arsenicoxydans] | Back alignment and taxonomy information |
|---|
Score = 933 bits (2412), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 462/637 (72%), Positives = 533/637 (83%), Gaps = 19/637 (2%)
Query: 811 KNAFSFDIKSNSREEIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIK 870
K+AFS D ++ S EE+E R+K K LIK GKERG+LT++EIND LPE+IID E IE II
Sbjct: 222 KDAFSNDTEA-SEEELEARRQKLKTLIKFGKERGFLTYAEINDHLPENIIDPEAIEGIIG 280
Query: 871 TFRYMDISVSEHVLDTETLMLSN----ITSDDDVEEATEAALSTVDSDFGRTKDPIKMYM 926
TF M I+V E D ETL+LS+ + SDD+ E A EAALSTVDSDFGRT DP++MYM
Sbjct: 281 TFNDMGIAVYEQAPDAETLLLSDNVATVASDDEAEAAAEAALSTVDSDFGRTTDPVRMYM 340
Query: 927 REMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIV 986
REMGSVELLTR+GEI+IAKRIE+GL+DMI AIS+CPTTI EI+ AA++ISK+E KIDEIV
Sbjct: 341 REMGSVELLTREGEIDIAKRIEDGLRDMIQAISACPTTIAEIMAAAERISKDEAKIDEIV 400
Query: 987 DGLIDKNFS--------------SNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYE 1032
DGL+D N S + + EE+ S +A S+EQLE+LK +
Sbjct: 401 DGLVDMNASEPVIAPPAPAAASDEEEEEEEEEEAEEEEETPAASGAAGFSSEQLEQLKRD 460
Query: 1033 SLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQ 1092
SL KFS I+ FDKMRKAFEKEGYNS+ Y+KA ISNE+LGIRFTAK +EKLCDTLR Q
Sbjct: 461 SLAKFSTIAMQFDKMRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAKVVEKLCDTLRGQ 520
Query: 1093 INQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPS 1152
+++V QIEKQIL+I VN+C MPR HFIKVFP NE NL+WVD E + H Y+++L RN+P+
Sbjct: 521 VDEVRQIEKQILDIAVNRCEMPRNHFIKVFPGNETNLDWVDGEVEGNHPYSIVLARNVPA 580
Query: 1153 IKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTD 1212
+KELQQKLI+LQ +VLPL DLR INRKM AGEMKARKAKREMTEANLRLVISIAKKYT+
Sbjct: 581 VKELQQKLIDLQARVVLPLPDLRAINRKMAAGEMKARKAKREMTEANLRLVISIAKKYTN 640
Query: 1213 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM 1272
RGLQFLDLIQEGNIGLMKAVDKFEYRRG+KFSTYATWWIRQAITRSIADQARTIRIPVHM
Sbjct: 641 RGLQFLDLIQEGNIGLMKAVDKFEYRRGFKFSTYATWWIRQAITRSIADQARTIRIPVHM 700
Query: 1273 IETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDED 1332
IETINK++RISRQILQETG+EPDP+ +AIKMEMPE+KIRKIMKIAKEP+SME+P+GDD+D
Sbjct: 701 IETINKMNRISRQILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDD 760
Query: 1333 SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEV 1392
SHLGDFIED N LAP+DAAL+ASMR VVKD+L+SLTPRE+KVLRMRFGIEMS+DHTLEEV
Sbjct: 761 SHLGDFIEDNNTLAPADAALHASMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEV 820
Query: 1393 GKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429
GKQFDVTRERIRQIEAKALRKLRHPSR KLK FLEG
Sbjct: 821 GKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 857
|
Source: Herminiimonas arsenicoxydans Species: Herminiimonas arsenicoxydans Genus: Herminiimonas Family: Oxalobacteraceae Order: Burkholderiales Class: Betaproteobacteria Phylum: Proteobacteria Superkingdom: Bacteria |
| >gi|193222233|emb|CAL60659.2| putative RNA polymerase sigma factor rpoD (Sigma-70) [Herminiimonas arsenicoxydans] | Back alignment and taxonomy information |
|---|
Score = 932 bits (2409), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 462/637 (72%), Positives = 533/637 (83%), Gaps = 19/637 (2%)
Query: 811 KNAFSFDIKSNSREEIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIK 870
K+AFS D ++ S EE+E R+K K LIK GKERG+LT++EIND LPE+IID E IE II
Sbjct: 164 KDAFSNDTEA-SEEELEARRQKLKTLIKFGKERGFLTYAEINDHLPENIIDPEAIEGIIG 222
Query: 871 TFRYMDISVSEHVLDTETLMLSN----ITSDDDVEEATEAALSTVDSDFGRTKDPIKMYM 926
TF M I+V E D ETL+LS+ + SDD+ E A EAALSTVDSDFGRT DP++MYM
Sbjct: 223 TFNDMGIAVYEQAPDAETLLLSDNVATVASDDEAEAAAEAALSTVDSDFGRTTDPVRMYM 282
Query: 927 REMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIV 986
REMGSVELLTR+GEI+IAKRIE+GL+DMI AIS+CPTTI EI+ AA++ISK+E KIDEIV
Sbjct: 283 REMGSVELLTREGEIDIAKRIEDGLRDMIQAISACPTTIAEIMAAAERISKDEAKIDEIV 342
Query: 987 DGLIDKNFS--------------SNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYE 1032
DGL+D N S + + EE+ S +A S+EQLE+LK +
Sbjct: 343 DGLVDMNASEPVIAPPAPAAASDEEEEEEEEEEAEEEEETPAASGAAGFSSEQLEQLKRD 402
Query: 1033 SLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQ 1092
SL KFS I+ FDKMRKAFEKEGYNS+ Y+KA ISNE+LGIRFTAK +EKLCDTLR Q
Sbjct: 403 SLAKFSTIAMQFDKMRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAKVVEKLCDTLRGQ 462
Query: 1093 INQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPS 1152
+++V QIEKQIL+I VN+C MPR HFIKVFP NE NL+WVD E + H Y+++L RN+P+
Sbjct: 463 VDEVRQIEKQILDIAVNRCEMPRNHFIKVFPGNETNLDWVDGEVEGNHPYSIVLARNVPA 522
Query: 1153 IKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTD 1212
+KELQQKLI+LQ +VLPL DLR INRKM AGEMKARKAKREMTEANLRLVISIAKKYT+
Sbjct: 523 VKELQQKLIDLQARVVLPLPDLRAINRKMAAGEMKARKAKREMTEANLRLVISIAKKYTN 582
Query: 1213 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM 1272
RGLQFLDLIQEGNIGLMKAVDKFEYRRG+KFSTYATWWIRQAITRSIADQARTIRIPVHM
Sbjct: 583 RGLQFLDLIQEGNIGLMKAVDKFEYRRGFKFSTYATWWIRQAITRSIADQARTIRIPVHM 642
Query: 1273 IETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDED 1332
IETINK++RISRQILQETG+EPDP+ +AIKMEMPE+KIRKIMKIAKEP+SME+P+GDD+D
Sbjct: 643 IETINKMNRISRQILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDD 702
Query: 1333 SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEV 1392
SHLGDFIED N LAP+DAAL+ASMR VVKD+L+SLTPRE+KVLRMRFGIEMS+DHTLEEV
Sbjct: 703 SHLGDFIEDNNTLAPADAALHASMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEV 762
Query: 1393 GKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429
GKQFDVTRERIRQIEAKALRKLRHPSR KLK FLEG
Sbjct: 763 GKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 799
|
Source: Herminiimonas arsenicoxydans Species: Herminiimonas arsenicoxydans Genus: Herminiimonas Family: Oxalobacteraceae Order: Burkholderiales Class: Betaproteobacteria Phylum: Proteobacteria Superkingdom: Bacteria |
| >gi|300310204|ref|YP_003774296.1| RNA polymerase sigma-70 factor transcription regulator protein [Herbaspirillum seropedicae SmR1] gi|300072989|gb|ADJ62388.1| RNA polymerase sigma-70 factor transcription regulator protein [Herbaspirillum seropedicae SmR1] | Back alignment and taxonomy information |
|---|
Score = 927 bits (2396), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 465/637 (72%), Positives = 529/637 (83%), Gaps = 19/637 (2%)
Query: 811 KNAFSFDIKSNSREEIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIK 870
K+AFS D ++ S EE+E R+K K LIKLGKERG+LTFSEIND LPE+I+D E IE II
Sbjct: 214 KDAFSSDTEA-SEEELERRRQKLKTLIKLGKERGFLTFSEINDHLPENIVDPEAIEGIIG 272
Query: 871 TFRYMDISVSEHVLDTETLMLS----NITSDDDVEEATEAALSTVDSDFGRTKDPIKMYM 926
TF M ISV EH D ETL+LS N+ SDDD E A EAALSTVDSDFGRT DP++MYM
Sbjct: 273 TFSDMGISVYEHAPDAETLLLSDNVANVASDDDAEAAAEAALSTVDSDFGRTTDPVRMYM 332
Query: 927 REMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIV 986
REMGSVELLTR+GEIEIAKRIE+GLKDMI AIS+CPTTI EIL AA++ISK+EIK+DEIV
Sbjct: 333 REMGSVELLTREGEIEIAKRIEDGLKDMIQAISACPTTIAEILAAAERISKDEIKVDEIV 392
Query: 987 DGLIDKNFSSNN--------------RVIKGNKNNNEEKILIESSSADLSTEQLEKLKYE 1032
DGL+D N S + EE S +A S EQLE+LK +
Sbjct: 393 DGLVDPNESEQQVEAASSDSDEDDEDEEEEEEDEEEEESESTGSGAAGFSAEQLEQLKRD 452
Query: 1033 SLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQ 1092
+L KF+ I F+ MRKAFEKEGYNS+ Y+KA ISNE+LGIRFTAK +EKLCDTLR Q
Sbjct: 453 ALGKFAVIGTQFENMRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAKIVEKLCDTLRAQ 512
Query: 1093 INQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPS 1152
+++V +E+QIL++ VNKC MPR HFIKVFP NE+NL+WVD E HDY+ +L RN+P+
Sbjct: 513 VDEVRTVERQILDVAVNKCNMPRAHFIKVFPGNEVNLDWVDGEVAANHDYSAVLSRNVPA 572
Query: 1153 IKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTD 1212
IKELQQKLI+LQ +VLPL DLR IN+KM AGE KAR AKREMTEANLRLVISIAKKYT+
Sbjct: 573 IKELQQKLIDLQARVVLPLQDLRAINKKMGAGEKKARMAKREMTEANLRLVISIAKKYTN 632
Query: 1213 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM 1272
RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM
Sbjct: 633 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM 692
Query: 1273 IETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDED 1332
IETINK++RISRQILQETG+EPDP+ +AIKMEMPE+KIRKIMKIAKEP+SME+P+GDD+D
Sbjct: 693 IETINKMNRISRQILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDD 752
Query: 1333 SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEV 1392
SHLGDFIED N LAP+DAAL+ASMR+VVKDIL+SLTPRE+KVLRMRFGIEMS+DHTLEEV
Sbjct: 753 SHLGDFIEDNNTLAPADAALHASMRNVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEV 812
Query: 1393 GKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429
GKQFDVTRERIRQIEAKALRKLRHPSR KLK FLEG
Sbjct: 813 GKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 849
|
Source: Herbaspirillum seropedicae SmR1 Species: Herbaspirillum seropedicae Genus: Herbaspirillum Family: Oxalobacteraceae Order: Burkholderiales Class: Betaproteobacteria Phylum: Proteobacteria Superkingdom: Bacteria |
| >gi|398836332|ref|ZP_10593669.1| RNA polymerase sigma factor, sigma-70 family [Herbaspirillum sp. YR522] gi|398211966|gb|EJM98577.1| RNA polymerase sigma factor, sigma-70 family [Herbaspirillum sp. YR522] | Back alignment and taxonomy information |
|---|
Score = 926 bits (2394), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 465/637 (72%), Positives = 531/637 (83%), Gaps = 19/637 (2%)
Query: 811 KNAFSFDIKSNSREEIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIK 870
K+AFS D ++ S EE+E R+K K LIKLGKERG+LT+SEIND LPE+I+D E IE II
Sbjct: 209 KDAFSSDTEA-SEEELERRRQKLKTLIKLGKERGFLTYSEINDHLPENIVDPEAIEGIIG 267
Query: 871 TFRYMDISVSEHVLDTETLMLS----NITSDDDVEEATEAALSTVDSDFGRTKDPIKMYM 926
TF M IS+ EH D ETL+LS N+ SDDD E A EAALSTVDSDFGRT DP++MYM
Sbjct: 268 TFADMGISLYEHAPDAETLLLSDNVANVASDDDAEAAAEAALSTVDSDFGRTTDPVRMYM 327
Query: 927 REMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIV 986
REMGSVELLTR+GEIEIAKRIE+GLKDMI AIS+CPTTI EIL AAD+ISK+EIK+DEIV
Sbjct: 328 REMGSVELLTREGEIEIAKRIEDGLKDMIQAISACPTTIAEILAAADRISKDEIKVDEIV 387
Query: 987 DGLIDKNFSSNNRVIKGNKNNNEEKILIE--------------SSSADLSTEQLEKLKYE 1032
DGL+D N S ++ E++ E + +A S EQLE+LK +
Sbjct: 388 DGLVDLNESVQQVEAASASDDEEDEEDDEDEEDEEEESEGTGTAGAAGFSAEQLEQLKRD 447
Query: 1033 SLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQ 1092
+L KF I F+ MRKAFEKEGYNS+ Y+KA ISNE+LGIRFTAK +EKLCDTLR Q
Sbjct: 448 ALGKFGVIGTQFENMRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAKVVEKLCDTLRAQ 507
Query: 1093 INQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPS 1152
+ +V Q+E+QIL++ VNKC MPR HFIKVFP NE+NL+WVD E HDY+++L RN+P+
Sbjct: 508 VEEVRQVERQILDVAVNKCNMPRNHFIKVFPGNEVNLDWVDGEVAGNHDYSVVLARNVPA 567
Query: 1153 IKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTD 1212
IKELQQKLI+LQ +VLPL DLR INRKM AGE KAR AKREMTEANLRLVISIAKKYT+
Sbjct: 568 IKELQQKLIDLQARVVLPLPDLRAINRKMGAGEKKARMAKREMTEANLRLVISIAKKYTN 627
Query: 1213 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM 1272
RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM
Sbjct: 628 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM 687
Query: 1273 IETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDED 1332
IETINK++RISRQILQETG+EPDP+ +AIKMEMPE+KIRKIMKIAKEP+SME+P+GDD+D
Sbjct: 688 IETINKMNRISRQILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDD 747
Query: 1333 SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEV 1392
SHLGDFIED N LAP+DAAL+ASMR VVKDIL+SLTPRE+KVLRMRFGIEMS+DHTLEEV
Sbjct: 748 SHLGDFIEDNNTLAPADAALHASMRGVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEV 807
Query: 1393 GKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429
GKQFDVTRERIRQIEAKALRKLRHPSR KLK FLEG
Sbjct: 808 GKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 844
|
Source: Herbaspirillum sp. YR522 Species: Herbaspirillum sp. YR522 Genus: Herbaspirillum Family: Oxalobacteraceae Order: Burkholderiales Class: Betaproteobacteria Phylum: Proteobacteria Superkingdom: Bacteria |
| >gi|152980761|ref|YP_001352183.1| RNA polymerase primary sigma factor [Janthinobacterium sp. Marseille] gi|151280838|gb|ABR89248.1| RNA polymerase primary sigma factor [Janthinobacterium sp. Marseille] | Back alignment and taxonomy information |
|---|
Score = 926 bits (2392), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 455/638 (71%), Positives = 532/638 (83%), Gaps = 20/638 (3%)
Query: 811 KNAFSFDIKSNSREEIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIK 870
K+AFS D ++ S EE+E R+K K LIK GKERG+LT++EIND LPE+IID E IE II
Sbjct: 189 KDAFSSDTEA-SEEELEARRQKLKTLIKFGKERGFLTYAEINDHLPENIIDPEAIEGIIG 247
Query: 871 TFRYMDISVSEHVLDTETLMLSN----ITSDDDVEEATEAALSTVDSDFGRTKDPIKMYM 926
TF M I+V E D ETL+LS+ + SDD+ E A EAALSTVDSDFGRT DP++MYM
Sbjct: 248 TFNDMGIAVYEQAPDAETLLLSDNVATVASDDEAEAAAEAALSTVDSDFGRTTDPVRMYM 307
Query: 927 REMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIV 986
REMGSVELLTR+GEI+IAKRIE+GL+DMI AIS+CPTTI EI+ AA++ISK+E KIDEIV
Sbjct: 308 REMGSVELLTREGEIDIAKRIEDGLRDMIQAISACPTTIAEIIAAAERISKDEAKIDEIV 367
Query: 987 DGLIDKNFSSNNRVIKGNKNNNEEK---------------ILIESSSADLSTEQLEKLKY 1031
DGL+D + + +++++ S +A S+EQLE+LK
Sbjct: 368 DGLVDMDAAEPVVAPPAPAASSDDEEDEEEEEEEEEEEEETTAASGAAGFSSEQLEQLKR 427
Query: 1032 ESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRN 1091
+SL KFS I+ FDKMRKAFEKEGYNS+ Y+KA ISNE+L IRFTAK +EKLCDTLR
Sbjct: 428 DSLAKFSTIAQQFDKMRKAFEKEGYNSKPYVKAQEIISNELLSIRFTAKVVEKLCDTLRG 487
Query: 1092 QINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIP 1151
Q+++V IEKQIL++ VN+CGMPR HFIKVFP NE NL+WVD E +H Y+++L RN+P
Sbjct: 488 QVDEVRHIEKQILDVAVNRCGMPRGHFIKVFPGNETNLDWVDGEVNGKHAYSVVLARNVP 547
Query: 1152 SIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYT 1211
++KELQQKLI+LQ +VLPL DLR IN+KM AGEMKARKAKREMTEANLRLVISIAKKYT
Sbjct: 548 TVKELQQKLIDLQARVVLPLPDLRAINKKMAAGEMKARKAKREMTEANLRLVISIAKKYT 607
Query: 1212 DRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 1271
+RGLQFLDLIQEGNIGLMKAVDKFEYRRG+KFSTYATWWIRQAITRSIADQARTIRIPVH
Sbjct: 608 NRGLQFLDLIQEGNIGLMKAVDKFEYRRGFKFSTYATWWIRQAITRSIADQARTIRIPVH 667
Query: 1272 MIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDE 1331
MIETINK++RISRQILQETG+EPDP+ +AIKMEMPE+KIRKIMKIAKEP+SME+P+GDD+
Sbjct: 668 MIETINKMNRISRQILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDD 727
Query: 1332 DSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEE 1391
DSHLGDFIED N LAP+DAAL+ASMR VVKD+L+SLTPRE+KVLRMRFGIEMS+DHTLEE
Sbjct: 728 DSHLGDFIEDNNTLAPADAALHASMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEE 787
Query: 1392 VGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429
VGKQFDVTRERIRQIEAKALRKLRHPSR KLK FLEG
Sbjct: 788 VGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 825
|
Source: Janthinobacterium sp. Marseille Species: Janthinobacterium sp. Marseille Genus: Janthinobacterium Family: Oxalobacteraceae Order: Burkholderiales Class: Betaproteobacteria Phylum: Proteobacteria Superkingdom: Bacteria |
| >gi|340786215|ref|YP_004751680.1| RNA polymerase sigma factor [Collimonas fungivorans Ter331] gi|340551482|gb|AEK60857.1| RNA polymerase sigma factor [Collimonas fungivorans Ter331] | Back alignment and taxonomy information |
|---|
Score = 925 bits (2390), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 466/639 (72%), Positives = 532/639 (83%), Gaps = 21/639 (3%)
Query: 811 KNAFSFDIKSNSREEIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIK 870
K+AFS D ++ S EE+E R+K K LIK+GKERG+LTFSEIND LPE+IID E IE II
Sbjct: 193 KDAFSSDTEA-SEEELEARRQKLKTLIKMGKERGFLTFSEINDHLPENIIDPEAIEGIIG 251
Query: 871 TFRYMDISVSEHVLDTETLMLSN----ITSDDDVEEATEAALSTVDSDFGRTKDPIKMYM 926
TF M I+V E D ETL+LS+ + SDDD E A EAALSTVDSDFGRT DP++MYM
Sbjct: 252 TFSDMGIAVYEQAPDAETLLLSDNVATVASDDDAEAAAEAALSTVDSDFGRTTDPVRMYM 311
Query: 927 REMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIV 986
REMGSVELLTR+GEIEIAKRIE+GLKDMI AIS+CPTTI EIL+AADKI K+EIKIDEIV
Sbjct: 312 REMGSVELLTREGEIEIAKRIEDGLKDMIQAISACPTTIAEILLAADKIGKDEIKIDEIV 371
Query: 987 DGLIDKN----------------FSSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLK 1030
DGL+D N S++ + ++ E+ S +A S EQLE+LK
Sbjct: 372 DGLVDPNQTDEAATASAAATAADEDSDDEEEEEEEDAEEDDASSTSGAAGFSAEQLEQLK 431
Query: 1031 YESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLR 1090
++L KF IS FDKMRKAFEKEGYNS+ Y+KA ISNE+LGIRFTAK +EKLCDTLR
Sbjct: 432 RDALGKFETISTQFDKMRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAKVVEKLCDTLR 491
Query: 1091 NQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNI 1150
Q+++V QIE+QIL++ VNKCGMPR HFIKVFP NE NL+WVD E H Y+ +L RN+
Sbjct: 492 GQVDEVRQIERQILDVAVNKCGMPRPHFIKVFPGNETNLDWVDGEVSGNHAYSTVLSRNV 551
Query: 1151 PSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKY 1210
P++KELQQ+LI+LQ +VLPL DLR IN+KM AGE KAR AKREMTEANLRLVISIAKKY
Sbjct: 552 PAVKELQQRLIDLQARVVLPLPDLRGINKKMGAGEKKARMAKREMTEANLRLVISIAKKY 611
Query: 1211 TDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 1270
T+RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV
Sbjct: 612 TNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 671
Query: 1271 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDD 1330
HMIETINK++RISRQILQETG+EPDP+ +AIKMEMPE+KIRKIMKIAKEP+SME+P+GDD
Sbjct: 672 HMIETINKMNRISRQILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDD 731
Query: 1331 EDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLE 1390
+DSHLGDFIED N LAP+DAAL+ASMR VVKDIL+SLTPRE+KVLRMRFGIEMS+DHTLE
Sbjct: 732 DDSHLGDFIEDNNTLAPADAALHASMRGVVKDILDSLTPREAKVLRMRFGIEMSTDHTLE 791
Query: 1391 EVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429
EVGKQFDVTRERIRQIEAKALRKLRHPSR KLK FLEG
Sbjct: 792 EVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 830
|
Source: Collimonas fungivorans Ter331 Species: Collimonas fungivorans Genus: Collimonas Family: Oxalobacteraceae Order: Burkholderiales Class: Betaproteobacteria Phylum: Proteobacteria Superkingdom: Bacteria |
| >gi|395763824|ref|ZP_10444493.1| RNA polymerase primary sigma factor [Janthinobacterium lividum PAMC 25724] | Back alignment and taxonomy information |
|---|
Score = 924 bits (2389), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 459/636 (72%), Positives = 527/636 (82%), Gaps = 18/636 (2%)
Query: 811 KNAFSFDIKSNSREEIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIK 870
K+AFS D ++ S EE+E R+K K LIK GKERG+LT++EIND LPE+I+D E IE II
Sbjct: 111 KDAFSSDTEA-SEEELERRRQKLKTLIKFGKERGFLTYAEINDHLPENIVDPEAIEGIIG 169
Query: 871 TFRYMDISVSEHVLDTETLMLSN----ITSDDDVEEATEAALSTVDSDFGRTKDPIKMYM 926
TF M I+V EH D ETL+LS+ +TSDD+ E A EAALSTVDSDFGRT DP++MYM
Sbjct: 170 TFNDMGIAVYEHAPDAETLLLSDNVAVVTSDDEAEAAAEAALSTVDSDFGRTTDPVRMYM 229
Query: 927 REMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIV 986
REMGSVELLTR+GEIEIAKRIE+GLKDMI AIS+CP TI EI+ AAD+I+ EIKIDEIV
Sbjct: 230 REMGSVELLTREGEIEIAKRIEDGLKDMIQAISACPVTIAEIIAAADRIANEEIKIDEIV 289
Query: 987 DGLIDKNFSSNNRVIKGNKNNNEEKILIE-------------SSSADLSTEQLEKLKYES 1033
DGL+D+N + ++E+ S +A S EQLE LK +
Sbjct: 290 DGLVDENEPVAAAPVVAAAVEDDEEEGEAEEEEVGEEEEASVSGAAGFSAEQLETLKRTA 349
Query: 1034 LIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQI 1093
L KF+ IS FDKMR+AFEKEGYNS+ Y KA IS E+LGIRFTAK +EKLCDTLR Q+
Sbjct: 350 LEKFAVISQQFDKMRRAFEKEGYNSKPYAKAQQAISQELLGIRFTAKVVEKLCDTLRGQV 409
Query: 1094 NQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSI 1153
++V IEKQIL++ VN+CGMPR HFIKVFP NE NL+WVD E H Y+ IL RNIP++
Sbjct: 410 DEVRHIEKQILDVAVNRCGMPRAHFIKVFPGNETNLDWVDGEVNAGHAYSAILGRNIPTV 469
Query: 1154 KELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDR 1213
KELQQ+LI+LQ +VLPL DLR+INR+M AGEMKARKAKREMTEANLRLVISIAKKYT+R
Sbjct: 470 KELQQRLIDLQARVVLPLPDLRNINRQMAAGEMKARKAKREMTEANLRLVISIAKKYTNR 529
Query: 1214 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 1273
GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI
Sbjct: 530 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 589
Query: 1274 ETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS 1333
ETINK++RISRQILQETG+EPDP+ +A+KMEMPEEKIRKIMKIAKEP+SME+P+GDD+DS
Sbjct: 590 ETINKMNRISRQILQETGAEPDPATLAVKMEMPEEKIRKIMKIAKEPISMETPIGDDDDS 649
Query: 1334 HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVG 1393
HLGDFIED N LAP+DAAL+ASMR VVKD+L+SLTPRE+KVLRMRFGIEMS+DHTLEEVG
Sbjct: 650 HLGDFIEDNNTLAPADAALHASMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVG 709
Query: 1394 KQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429
KQFDVTRERIRQIEAKALRKLRHPSR KLK FLEG
Sbjct: 710 KQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 745
|
Source: Janthinobacterium lividum PAMC 25724 Species: Janthinobacterium lividum Genus: Janthinobacterium Family: Oxalobacteraceae Order: Burkholderiales Class: Betaproteobacteria Phylum: Proteobacteria Superkingdom: Bacteria |
| >gi|445499114|ref|ZP_21465969.1| RNA polymerase sigma factor RpoD [Janthinobacterium sp. HH01] gi|444789109|gb|ELX10657.1| RNA polymerase sigma factor RpoD [Janthinobacterium sp. HH01] | Back alignment and taxonomy information |
|---|
Score = 923 bits (2386), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 461/635 (72%), Positives = 527/635 (82%), Gaps = 17/635 (2%)
Query: 811 KNAFSFDIKSNSREEIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIK 870
K+AFS D ++ + EE+E R+K K LIK GKERG+LT++EIND LPE+I+D E IE II
Sbjct: 112 KDAFSSDTEA-TEEELERRRQKLKTLIKFGKERGFLTYAEINDHLPENIVDPEAIEGIIG 170
Query: 871 TFRYMDISVSEHVLDTETLMLSN----ITSDDDVEEATEAALSTVDSDFGRTKDPIKMYM 926
TF M I+V EH D ETL+LS+ +TSDD+ E A EAALSTVDSDFGRT DP++MYM
Sbjct: 171 TFNDMGIAVYEHAPDAETLLLSDNVATVTSDDEAEAAAEAALSTVDSDFGRTTDPVRMYM 230
Query: 927 REMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIV 986
REMGSVELLTR+GEIEIAKRIE+GLKDMI AIS+CP TI EI+ A+D+I +EIKIDEIV
Sbjct: 231 REMGSVELLTREGEIEIAKRIEDGLKDMIQAISACPVTIAEIIAASDRIRADEIKIDEIV 290
Query: 987 DGLIDKNFSSNNRVIKGNKNNNEEKILI------------ESSSADLSTEQLEKLKYESL 1034
DGL+D + V+ +EE+ S +A S EQLE LK +L
Sbjct: 291 DGLVDDSEEVAAPVVAAPAEEDEEEEEEEEEEEEEEEEASASGAAGFSAEQLEALKNAAL 350
Query: 1035 IKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQIN 1094
KF IS FDKMR+AFEKEGYNS++Y+KA IS E+LGIRFTAK +EKLCDTLR Q++
Sbjct: 351 EKFDVISLQFDKMRRAFEKEGYNSKAYVKAQEAISYELLGIRFTAKVVEKLCDTLRGQVD 410
Query: 1095 QVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIK 1154
+V IEKQIL++ VNKCGMPR HFIKVFP NE NL WVD E H Y+ IL RNIP+IK
Sbjct: 411 EVRHIEKQILDVAVNKCGMPRAHFIKVFPGNETNLEWVDGEVAAGHAYSAILGRNIPTIK 470
Query: 1155 ELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRG 1214
ELQQ+LI+LQ +VLPL DLR+INR+M AGEMKARKAKREMTEANLRLVISIAKKYT+RG
Sbjct: 471 ELQQRLIDLQARVVLPLPDLRNINRQMAAGEMKARKAKREMTEANLRLVISIAKKYTNRG 530
Query: 1215 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 1274
LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE
Sbjct: 531 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 590
Query: 1275 TINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSH 1334
TINK++RISRQILQETG+EPDP+ +AIKMEMPE+KIRKIMKIAKEP+SME+P+GDD+DSH
Sbjct: 591 TINKMNRISRQILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSH 650
Query: 1335 LGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGK 1394
LGDFIED N LAPSDAAL+ASMR VVKD+L+SLTPRE+KVLRMRFGIEMS+DHTLEEVGK
Sbjct: 651 LGDFIEDNNTLAPSDAALHASMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHTLEEVGK 710
Query: 1395 QFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429
QFDVTRERIRQIEAKALRKLRHPSR KLK FLEG
Sbjct: 711 QFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 745
|
Source: Janthinobacterium sp. HH01 Species: Janthinobacterium sp. HH01 Genus: Janthinobacterium Family: Oxalobacteraceae Order: Burkholderiales Class: Betaproteobacteria Phylum: Proteobacteria Superkingdom: Bacteria |
| >gi|409404651|ref|ZP_11253130.1| RNA polymerase sigma-70 factor transcription regulator protein [Herbaspirillum sp. GW103] gi|386436170|gb|EIJ48993.1| RNA polymerase sigma-70 factor transcription regulator protein [Herbaspirillum sp. GW103] | Back alignment and taxonomy information |
|---|
Score = 921 bits (2380), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 466/637 (73%), Positives = 529/637 (83%), Gaps = 19/637 (2%)
Query: 811 KNAFSFDIKSNSREEIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIK 870
K+AFS D ++ S EE+E R+K K LIKLGKERG+LTFSEIND LPE+I+D E IE II
Sbjct: 105 KDAFSSDTEA-SEEELERRRQKLKTLIKLGKERGFLTFSEINDHLPENIVDPEAIEGIIG 163
Query: 871 TFRYMDISVSEHVLDTETLMLS----NITSDDDVEEATEAALSTVDSDFGRTKDPIKMYM 926
TF M ISV EH D ETL+LS N+ SDDD E A EAALSTVDSDFGRT DP++MYM
Sbjct: 164 TFSDMGISVYEHAPDAETLLLSDNVANVASDDDAEAAAEAALSTVDSDFGRTTDPVRMYM 223
Query: 927 REMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIV 986
REMGSVELLTR+GEIEIAKRIE+GLKDMI AIS+CPTTI EIL AAD+ISK+EIK+DEIV
Sbjct: 224 REMGSVELLTREGEIEIAKRIEDGLKDMIQAISACPTTIAEILAAADRISKDEIKVDEIV 283
Query: 987 DGLIDKNFSSNN--------------RVIKGNKNNNEEKILIESSSADLSTEQLEKLKYE 1032
DGL+D N S + EE S +A S EQLE+LK +
Sbjct: 284 DGLVDPNESEQQVEAASSDSDEDDEEEEEEEEDEEEEENESSGSGAAGFSAEQLEQLKRD 343
Query: 1033 SLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQ 1092
+L KF+ I F+ MRKAFEKEGYNS+ Y+KA ISNE+LGIRFTAK +EKLCDTLR Q
Sbjct: 344 ALGKFAVIGTQFENMRKAFEKEGYNSKPYVKAQEIISNELLGIRFTAKIVEKLCDTLRAQ 403
Query: 1093 INQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPS 1152
+++V +E+QIL++ VNKC MPR HFIKVFP NE+NL+WVD E HDY+ +L RN+P+
Sbjct: 404 VDEVRTVERQILDVAVNKCNMPRAHFIKVFPGNEVNLDWVDGEVAANHDYSAVLSRNVPA 463
Query: 1153 IKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTD 1212
IKELQQKLI+LQ +VLPL DLR IN+KM AGE KAR AKREMTEANLRLVISIAKKYT+
Sbjct: 464 IKELQQKLIDLQARVVLPLPDLRAINKKMGAGEKKARMAKREMTEANLRLVISIAKKYTN 523
Query: 1213 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM 1272
RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM
Sbjct: 524 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM 583
Query: 1273 IETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDED 1332
IETINK++RISRQILQETG+EPDP+ +AIKMEMPE+KIRKIMKIAKEP+SME+P+GDD+D
Sbjct: 584 IETINKMNRISRQILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIGDDDD 643
Query: 1333 SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEV 1392
SHLGDFIED N LAP+DAAL+ASMR+VVKDIL+SLTPRE+KVLRMRFGIEMS+DHTLEEV
Sbjct: 644 SHLGDFIEDNNTLAPADAALHASMRNVVKDILDSLTPREAKVLRMRFGIEMSTDHTLEEV 703
Query: 1393 GKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429
GKQFDVTRERIRQIEAKALRKLRHPSR KLK FLEG
Sbjct: 704 GKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 740
|
Source: Herbaspirillum sp. GW103 Species: Herbaspirillum sp. GW103 Genus: Herbaspirillum Family: Oxalobacteraceae Order: Burkholderiales Class: Betaproteobacteria Phylum: Proteobacteria Superkingdom: Bacteria |
| >gi|427400732|ref|ZP_18891970.1| RNA polymerase sigma factor RpoD [Massilia timonae CCUG 45783] gi|425720245|gb|EKU83168.1| RNA polymerase sigma factor RpoD [Massilia timonae CCUG 45783] | Back alignment and taxonomy information |
|---|
Score = 921 bits (2380), Expect = 0.0, Method: Compositional matrix adjust.
Identities = 463/641 (72%), Positives = 532/641 (82%), Gaps = 23/641 (3%)
Query: 811 KNAFSFDIKSNSREEIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIK 870
K+AFS D ++ S EE+E R K K LIK GKERG+LT+SEIND LPE+I+D E IE II
Sbjct: 112 KDAFSSDTEA-SEEELELRRNKLKALIKSGKERGFLTYSEINDHLPENIVDPEAIEGIIG 170
Query: 871 TFRYMDISVSEHVLDTETLMLS----NITSDDDVEEATEAALSTVDSDFGRTKDPIKMYM 926
TF M I+V EH D ETL+LS N+TSDD+ E A EAALSTVDSDFGRT DP++MYM
Sbjct: 171 TFNDMGIAVYEHAPDAETLLLSDNVPNVTSDDEAEAAAEAALSTVDSDFGRTTDPVRMYM 230
Query: 927 REMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIV 986
REMGSVELLTR+GEIEIAKRIE+GLKDMI AIS+CP TI EI+ AA+KI ++EIKIDEIV
Sbjct: 231 REMGSVELLTREGEIEIAKRIEDGLKDMIQAISACPVTIAEIIDAANKIERDEIKIDEIV 290
Query: 987 DGLIDKNF---SSNNRVIKGNKNNNEEKILIE---------------SSSADLSTEQLEK 1028
DG++D +S + V + +++E++ E ++A S EQLE
Sbjct: 291 DGMVDPEEGEETSPSAVAPTSTDSDEDEEDEEDAEEEEEEEEASTGTGAAAGYSAEQLEA 350
Query: 1029 LKYESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDT 1088
LK +L KF I FDKMRKAFEK+GYNS++Y+KA ISNE+LGIRFTAK +EKLCDT
Sbjct: 351 LKAAALGKFDEIGQQFDKMRKAFEKDGYNSKAYVKAQEAISNELLGIRFTAKVVEKLCDT 410
Query: 1089 LRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCR 1148
LR Q+++V IEKQIL++ VN+CGMPR HFIKVFP NE NL WVD E H Y+ IL R
Sbjct: 411 LRGQVDEVRHIEKQILDVAVNRCGMPRAHFIKVFPGNETNLEWVDGEVDAGHAYSAILGR 470
Query: 1149 NIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAK 1208
NIP+IKELQQ+LI+LQ +VLPL DLR+INR+M AGEMKARKAKREMTEANLRLVISIAK
Sbjct: 471 NIPTIKELQQRLIDLQARVVLPLPDLRNINRQMAAGEMKARKAKREMTEANLRLVISIAK 530
Query: 1209 KYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 1268
KYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI
Sbjct: 531 KYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 590
Query: 1269 PVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVG 1328
PVHMIETINK++RISRQILQETG+EPDP+ +AIKMEMPE+KIRKIMKIAKEP+SME+P+G
Sbjct: 591 PVHMIETINKMNRISRQILQETGAEPDPATLAIKMEMPEDKIRKIMKIAKEPISMETPIG 650
Query: 1329 DDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHT 1388
DD+DSHLGDFIED N LAPSDAAL+ASMR VVKD+L+SLTPRE+KVLRMRFGIEMS+DHT
Sbjct: 651 DDDDSHLGDFIEDNNTLAPSDAALHASMRGVVKDVLDSLTPREAKVLRMRFGIEMSTDHT 710
Query: 1389 LEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429
LEEVGKQFDVTRERIRQIEAKALRKLRHPSR KLK FLEG
Sbjct: 711 LEEVGKQFDVTRERIRQIEAKALRKLRHPSRSDKLKSFLEG 751
|
Source: Massilia timonae CCUG 45783 Species: Massilia timonae Genus: Massilia Family: Oxalobacteraceae Order: Burkholderiales Class: Betaproteobacteria Phylum: Proteobacteria Superkingdom: Bacteria |
Prediction of Gene Ontology (GO) Terms
Close Homologs with Gene Ontology terms Detected by BLAST
Original result of BLAST against Gene Ontology (AMIGO)
| ID |
Alignment graph |
Length |
Definition |
Q cover |
H cover |
Identity |
E-value |
| Query | 1432 | ||||||
| UNIPROTKB|Q9KUK1 | 625 | VC_0517 "RNA polymerase sigma | 0.274 | 0.628 | 0.587 | 1.6e-155 | |
| TIGR_CMR|VC_0517 | 625 | VC_0517 "RNA polymerase sigma | 0.274 | 0.628 | 0.587 | 1.6e-155 | |
| TIGR_CMR|SO_1284 | 616 | SO_1284 "RNA polymerase sigma- | 0.277 | 0.644 | 0.576 | 3.6e-150 | |
| TIGR_CMR|CPS_4334 | 616 | CPS_4334 "RNA polymerase sigma | 0.418 | 0.974 | 0.491 | 8.1e-147 | |
| UNIPROTKB|P00579 | 613 | rpoD [Escherichia coli K-12 (t | 0.420 | 0.982 | 0.483 | 1.5e-145 | |
| TIGR_CMR|CBU_1596 | 698 | CBU_1596 "RNA polymerase sigma | 0.418 | 0.858 | 0.471 | 5.2e-136 | |
| TIGR_CMR|SPO_1750 | 660 | SPO_1750 "RNA polymerase sigma | 0.285 | 0.619 | 0.511 | 2.1e-124 | |
| TIGR_CMR|GSU_3089 | 577 | GSU_3089 "RNA polymerase sigma | 0.192 | 0.478 | 0.655 | 2.9e-123 | |
| TIGR_CMR|ECH_0760 | 622 | ECH_0760 "RNA polymerase sigma | 0.25 | 0.575 | 0.501 | 9.6e-108 | |
| TIGR_CMR|APH_0576 | 627 | APH_0576 "RNA polymerase sigma | 0.260 | 0.594 | 0.477 | 5.1e-105 |
| UNIPROTKB|Q9KUK1 VC_0517 "RNA polymerase sigma factor" [Vibrio cholerae O1 biovar El Tor str. N16961 (taxid:243277)] | Back alignment and assigned GO terms |
|---|
Score = 1151 (410.2 bits), Expect = 1.6e-155, Sum P(3) = 1.6e-155
Identities = 231/393 (58%), Positives = 291/393 (74%)
Query: 1036 KFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQ 1095
KF+ + F ++ A + G +S +A + + + R T K + L +TLR +++
Sbjct: 232 KFNELRGKFQNLQLAVNEFGRDSHQASEASDLVLDIFREFRLTPKQFDHLVETLRTSMDR 291
Query: 1096 VTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKE 1155
V E+ +++ VV MP+ FI +F NE N W+D Y + I+
Sbjct: 292 VRTQERLVMKAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASDKPYVAKVREQEEEIRR 351
Query: 1156 LQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGL 1215
QKL ++ + L + ++DI+R+M GE KAR+AK+EM EANLRLVISIAKKYT+RGL
Sbjct: 352 SIQKLQMIEQETSLSVERIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGL 411
Query: 1216 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET 1275
QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET
Sbjct: 412 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET 471
Query: 1276 INKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHL 1335
INK++RISRQ+LQE G EP P +A +M+MPE+KIRK++KIAKEP+SME+P+GDDEDSHL
Sbjct: 472 INKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHL 531
Query: 1336 GDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQ 1395
GDFIED + P D+A S+++ +D+L LTPRE+KVLRMRFGI+M++DHTLEEVGKQ
Sbjct: 532 GDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQ 591
Query: 1396 FDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
FDVTRERIRQIEAKALRKLRHPSR L+ FL+
Sbjct: 592 FDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 624
|
|
| TIGR_CMR|VC_0517 VC_0517 "RNA polymerase sigma factor RpoD" [Vibrio cholerae O1 biovar El Tor (taxid:686)] | Back alignment and assigned GO terms |
|---|
Score = 1151 (410.2 bits), Expect = 1.6e-155, Sum P(3) = 1.6e-155
Identities = 231/393 (58%), Positives = 291/393 (74%)
Query: 1036 KFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQ 1095
KF+ + F ++ A + G +S +A + + + R T K + L +TLR +++
Sbjct: 232 KFNELRGKFQNLQLAVNEFGRDSHQASEASDLVLDIFREFRLTPKQFDHLVETLRTSMDR 291
Query: 1096 VTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKE 1155
V E+ +++ VV MP+ FI +F NE N W+D Y + I+
Sbjct: 292 VRTQERLVMKAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASDKPYVAKVREQEEEIRR 351
Query: 1156 LQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGL 1215
QKL ++ + L + ++DI+R+M GE KAR+AK+EM EANLRLVISIAKKYT+RGL
Sbjct: 352 SIQKLQMIEQETSLSVERIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGL 411
Query: 1216 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET 1275
QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET
Sbjct: 412 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET 471
Query: 1276 INKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHL 1335
INK++RISRQ+LQE G EP P +A +M+MPE+KIRK++KIAKEP+SME+P+GDDEDSHL
Sbjct: 472 INKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHL 531
Query: 1336 GDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQ 1395
GDFIED + P D+A S+++ +D+L LTPRE+KVLRMRFGI+M++DHTLEEVGKQ
Sbjct: 532 GDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQ 591
Query: 1396 FDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
FDVTRERIRQIEAKALRKLRHPSR L+ FL+
Sbjct: 592 FDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 624
|
|
| TIGR_CMR|SO_1284 SO_1284 "RNA polymerase sigma-70 factor" [Shewanella oneidensis MR-1 (taxid:211586)] | Back alignment and assigned GO terms |
|---|
Score = 1143 (407.4 bits), Expect = 3.6e-150, Sum P(2) = 3.6e-150
Identities = 229/397 (57%), Positives = 292/397 (73%)
Query: 1032 ESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRN 1091
E+ +FS + ++ K + +G I+A I R K ++L ++R+
Sbjct: 219 EARERFSQLRTAYESALKIIDAKGREHPESIQALFEIGEIFKEFRLVPKQFDRLVKSMRS 278
Query: 1092 QINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIP 1151
+++V E+ ++++ V + MP+ +F+K F NE NL+W + E Y L
Sbjct: 279 MMDRVRVQERLLMKLCVEQAKMPKKNFVKFFTGNETNLDWFEAEKTSNKPYAEGLRMVEE 338
Query: 1152 SIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYT 1211
++ + KL ++ + L + ++DINR+M GE KAR+AK+EM EANLRLVISIAKKYT
Sbjct: 339 DVQRCRSKLAAIEEETGLVIAAIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYT 398
Query: 1212 DRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 1271
+RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH
Sbjct: 399 NRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 458
Query: 1272 MIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDE 1331
MIETINK++RISRQ+LQE G EP P +A +M MPE+KIRK++KIAKEP+SME+P+GDDE
Sbjct: 459 MIETINKLNRISRQMLQEMGREPSPEELAERMMMPEDKIRKVLKIAKEPISMETPIGDDE 518
Query: 1332 DSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEE 1391
DSHLGDFIED + P D+A + S++S ++L LT RE+KVLRMRFGI+M++DHTLEE
Sbjct: 519 DSHLGDFIEDTTLELPLDSATSESLKSATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEE 578
Query: 1392 VGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
VGKQFDVTRERIRQIEAKALRKLRHPSR LK FL+
Sbjct: 579 VGKQFDVTRERIRQIEAKALRKLRHPSRSEILKSFLD 615
|
|
| TIGR_CMR|CPS_4334 CPS_4334 "RNA polymerase sigma-70 factor" [Colwellia psychrerythraea 34H (taxid:167879)] | Back alignment and assigned GO terms |
|---|
Score = 1434 (509.9 bits), Expect = 8.1e-147, P = 8.1e-147
Identities = 301/612 (49%), Positives = 402/612 (65%)
Query: 830 RKKFKILIKLGKERGYLTFSEINDFLPXXXXXXXXXXXXXKTFRYMDISVSEHVLDTETL 889
+ + K LI GKE+GYLTF+++ND LP M I V E+ D +TL
Sbjct: 6 QSRLKDLITKGKEQGYLTFAQVNDHLPQDIIDSDQVEDIVSMINDMGIQVFENAPDQDTL 65
Query: 890 MLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEE 949
M++ +D+D EA AL+TV+S+ GRT DP++MYMREMG+VELLTR GEI IAKRIEE
Sbjct: 66 MMAEANTDEDAAEAAAQALATVESEIGRTTDPVRMYMREMGTVELLTRKGEIVIAKRIEE 125
Query: 950 GLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSXXXXXXXXXXXXX 1009
G+K++ ++S P I +L D E+++ +I+ G +D +
Sbjct: 126 GIKEVQRSVSEYPPAINYLLDMWDNFEAEEVRLTDIIIGFLDPDAEDDDVAAAATHVGSE 185
Query: 1010 XXXXXXXXX--------ADLSTEQLEKLKYESLI---KFSNISFHFDKMRKAFEKEGYNS 1058
A+ E+ E + + KF+ + + K +K+G
Sbjct: 186 LSKEDLANEDSEKKEGDAEEEDEEEEDTGPDPELAREKFTLLREAHENATKVVKKKGRGH 245
Query: 1059 ESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHF 1118
+ +A + ++ R K +KL +R ++++ E+ I++ V+ GMP+ F
Sbjct: 246 KDAQEAIDAVAEVFKEFRLIPKLFDKLVKNMRGMMDRLRVQERLIMKHCVS-AGMPKTTF 304
Query: 1119 IKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDIN 1178
IK+FP NE + W + E + Y+ L ++ KL ++ + L ++ ++DIN
Sbjct: 305 IKIFPGNETSKEWFEAEKAAGNPYSTKLGDIEHDVERCIYKLNQIEEETHLNIHGIKDIN 364
Query: 1179 RKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYR 1238
R+M GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYR
Sbjct: 365 RRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYR 424
Query: 1239 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSV 1298
RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++R+SRQ+LQE G EP P
Sbjct: 425 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRVSRQMLQEMGREPTPEE 484
Query: 1299 IAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRS 1358
+A +M MPE+KIRK++KIAKEP+SME+P+GDDEDSHLGDFIED + P D+A + +++
Sbjct: 485 LAERMVMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDGSGELPVDSATSENLKG 544
Query: 1359 VVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 1418
++L LT RE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS
Sbjct: 545 ATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 604
Query: 1419 RYYKLKIFLEGK 1430
R +LK FL+G+
Sbjct: 605 RSEQLKSFLDGE 616
|
|
| UNIPROTKB|P00579 rpoD [Escherichia coli K-12 (taxid:83333)] | Back alignment and assigned GO terms |
|---|
Score = 1422 (505.6 bits), Expect = 1.5e-145, P = 1.5e-145
Identities = 295/610 (48%), Positives = 398/610 (65%)
Query: 827 ENLRKKFKILIKLGKERGYLTFSEINDFLPXXXXXXXXXXXXXKTFRYMDISVSEHVLDT 886
+N + + K+L+ GKE+GYLT++E+ND LP + M I V E D
Sbjct: 3 QNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDA 62
Query: 887 ETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKR 946
+ LML+ T+D+D EA LS+V+S+ GRT DP++MYMREMG+VELLTR+GEI+IAKR
Sbjct: 63 DDLMLAENTADEDAAEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKR 122
Query: 947 IEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSXXXXXXXXXX 1006
IE+G+ + +++ P I +L D++ E ++ +++ G +D N
Sbjct: 123 IEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDPNAEEDLAPTATHVG 182
Query: 1007 XXXXXXXXXXXXA-------DLSTEQLEKLKYE-SLIKFSNISFHFDKMRKAFEKEGYNS 1058
D S + + E + KF+ + + R + +G +
Sbjct: 183 SELSQEDLDDDEDEDEEDGDDDSADDDNSIDPELAREKFAELRAQYVVTRDTIKAKGRSH 242
Query: 1059 ESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHF 1118
+ + +S R K + L +++R +++V E+ I+++ V +C MP+ +F
Sbjct: 243 ATAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNF 302
Query: 1119 IKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDIN 1178
I +F NE + W + + ++ L + QKL ++ + L + ++DIN
Sbjct: 303 ITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETGLTIEQVKDIN 362
Query: 1179 RKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYR 1238
R+M GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYR
Sbjct: 363 RRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYR 422
Query: 1239 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSV 1298
RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQE G EP P
Sbjct: 423 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEE 482
Query: 1299 IAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRS 1358
+A +M MPE+KIRK++KIAKEP+SME+P+GDDEDSHLGDFIED + P D+A S+R+
Sbjct: 483 LAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRA 542
Query: 1359 VVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 1418
D+L LT RE+KVLRMRFGI+M++D+TLEEVGKQFDVTRERIRQIEAKALRKLRHPS
Sbjct: 543 ATHDVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 602
Query: 1419 RYYKLKIFLE 1428
R L+ FL+
Sbjct: 603 RSEVLRSFLD 612
|
|
| TIGR_CMR|CBU_1596 CBU_1596 "RNA polymerase sigma factor RpoD" [Coxiella burnetii RSA 493 (taxid:227377)] | Back alignment and assigned GO terms |
|---|
Score = 1332 (473.9 bits), Expect = 5.2e-136, P = 5.2e-136
Identities = 285/605 (47%), Positives = 381/605 (62%)
Query: 827 ENLRKKFKILIKLGKERGYLTFSEINDFLPXXXXXXXXXXXXXKTFRYMDISVSEHVLDT 886
E+ R F L++ K +GYL ++ + LP M I V E D
Sbjct: 94 ESQRLGFGALLEEAKNKGYLVHEDLINLLPNDYADPSQMEGIIGRLTEMGIKVFEIPPDA 153
Query: 887 ETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKR 946
++L+L T DD +E E + ++ RT DP++MYMREMGSVELLTR+GEI IAKR
Sbjct: 154 DSLLLEEDTQSDD-DEINEDVAEVLATET-RTTDPVRMYMREMGSVELLTREGEIVIAKR 211
Query: 947 IEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSXXXXXXXXXX 1006
IEEG++ ++ A+ P I + + D I E ++ +++ G D+ S
Sbjct: 212 IEEGIRQVMGAVVQYPELIEKFIKEYDTIVATEGRLSDLLIGFFDEE-ESTASPVAPEAR 270
Query: 1007 XXXXXXXXXXXXADLSTEQLEKLKYESLIK---FSNISFHFDKMRKAFEKEGYNSESYIK 1063
+ +++ + + LI + + + + A ++ G + + +K
Sbjct: 271 DKEAETSDEDDGGEGGSDEFGESGPDPLITQQHMEELKKLYGRYQNAIKRYGKKAPATLK 330
Query: 1064 AHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFP 1123
++ + + K +L LR + E+ I+ V K PR FI FP
Sbjct: 331 HQKALAELFSTFKLSIKQFNRLTGQLRRMLRAARAQERLIMSYCVVKAKTPRKKFIASFP 390
Query: 1124 ENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIA 1183
NE N+ W++ + L + I Q+ L L+ L + ++++INR++
Sbjct: 391 HNETNMKWLEQYKNENKEQAKRLEKYSKEIYRAQRNLAQLEEQNNLNIQEIKEINRRVAI 450
Query: 1184 GEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 1243
GE K+R+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF
Sbjct: 451 GEAKSRRAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 510
Query: 1244 STYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKM 1303
STYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQILQETG E P + +M
Sbjct: 511 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQETGIEATPEELGRRM 570
Query: 1304 EMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDI 1363
+MPEEK+RK++KIAKEP+SME+P+G+DEDS+LGDFIED NM +P D A +A + ++I
Sbjct: 571 DMPEEKVRKVLKIAKEPISMETPIGEDEDSNLGDFIEDINMESPVDFATSAGLMEATREI 630
Query: 1364 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKL 1423
L++LTPRE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR KL
Sbjct: 631 LSTLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRAEKL 690
Query: 1424 KIFLE 1428
F+E
Sbjct: 691 HSFIE 695
|
|
| TIGR_CMR|SPO_1750 SPO_1750 "RNA polymerase sigma-70 factor RpoD" [Ruegeria pomeroyi DSS-3 (taxid:246200)] | Back alignment and assigned GO terms |
|---|
Score = 1019 (363.8 bits), Expect = 2.1e-124, Sum P(2) = 2.1e-124
Identities = 217/424 (51%), Positives = 291/424 (68%)
Query: 1019 ADLSTEQLEK-LKYESLIKFSNISFHF---DKMRKAFEKEGYNSESYIKAHNNISNEMLG 1074
A++S +E LK + LI IS + +M+ + N + AH+ + + L
Sbjct: 237 ANMSLAAMEAALKDKVLITLERISSDYAQLSEMQDSRISATLNEDGSFSAHDEATYQSLR 296
Query: 1075 ---------IRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPEN 1125
+ IE L D L +V I+ ++++ ++ + R FI +
Sbjct: 297 SEIVLLVNELHLHNNRIEALIDQLYGINKRVMSIDSSMVKLA-DQARINRREFIDAYRGR 355
Query: 1126 EINLNWV-DNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAG 1184
E++ NW+ + K + + + R+ ++EL+ + + + L +++ R I +++ G
Sbjct: 356 ELDPNWLAEMAEKPGRGWQMFIERSSDKVEELRADMAQVGQYVGLDISEFRRIVQQVQKG 415
Query: 1185 EMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 1244
E +AR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS
Sbjct: 416 EKEARQAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 475
Query: 1245 TYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKME 1304
TYATWWIRQAITRSIADQARTIRIPVHMIETINK+ R RQ+L E G EP P +A K++
Sbjct: 476 TYATWWIRQAITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAEKLQ 535
Query: 1305 MPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDIL 1364
MP EK+RK+MKIAKEP+S+E+P+GD+EDS LGDFIED+N + P D+A+ +++ +L
Sbjct: 536 MPLEKVRKVMKIAKEPISLETPIGDEEDSQLGDFIEDKNAVLPLDSAIQENLKETTTRVL 595
Query: 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424
SLTPRE +VLRMRFGI M++DHTLEEVG+QF VTRERIRQIEAKALRKL+HPSR KL+
Sbjct: 596 ASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLR 655
Query: 1425 IFLE 1428
FL+
Sbjct: 656 SFLD 659
|
|
| TIGR_CMR|GSU_3089 GSU_3089 "RNA polymerase sigma factor RpoD" [Geobacter sulfurreducens PCA (taxid:243231)] | Back alignment and assigned GO terms |
|---|
Score = 945 (337.7 bits), Expect = 2.9e-123, Sum P(3) = 2.9e-123
Identities = 181/276 (65%), Positives = 226/276 (81%)
Query: 1153 IKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTD 1212
++ ++KL ++ + +L D R + GE K++ AK E+ EANLRLV+SIAKKYT+
Sbjct: 302 VRSAEKKLKKVEEESGFKARELSDALRAIDRGEAKSKLAKSELVEANLRLVVSIAKKYTN 361
Query: 1213 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM 1272
RGLQFLDLIQEGNIGLMKAVDKFEY+RGYKFSTYATWWIRQAITR+IADQARTIRIPVHM
Sbjct: 362 RGLQFLDLIQEGNIGLMKAVDKFEYQRGYKFSTYATWWIRQAITRAIADQARTIRIPVHM 421
Query: 1273 IETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDED 1332
IETINK+ R SRQ++QE G EP P IA +M +P +K+RK++KIAKEP+S+E+P+G++ED
Sbjct: 422 IETINKLIRTSRQLVQEIGREPSPEEIAERMNLPLDKVRKVLKIAKEPISLETPIGEEED 481
Query: 1333 SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEV 1392
SHLGDFIED+ +++P +A + A++ +L +LTPRE KVLRMRFGI SDHTLEEV
Sbjct: 482 SHLGDFIEDKGVVSPLEAVIKANLSEQTARVLATLTPREEKVLRMRFGIGEKSDHTLEEV 541
Query: 1393 GKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
G+ F+VTRERIRQIEAKALRKLRHPSR KL+ F+E
Sbjct: 542 GQDFEVTRERIRQIEAKALRKLRHPSRAKKLRSFVE 577
|
|
| TIGR_CMR|ECH_0760 ECH_0760 "RNA polymerase sigma factor RpoD" [Ehrlichia chaffeensis str. Arkansas (taxid:205920)] | Back alignment and assigned GO terms |
|---|
Score = 870 (311.3 bits), Expect = 9.6e-108, Sum P(3) = 9.6e-108
Identities = 186/371 (50%), Positives = 256/371 (69%)
Query: 1059 ESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHF 1118
+ Y H++I + I+ + ++ + + + + E +I+ + G+ R F
Sbjct: 261 KQYNDLHDSIWEMIYQIKLSNSAVLSITQQIYSLSKSIAAEEAKIISLA-ESYGIQRKDF 319
Query: 1119 IKVFPENEINLNWVDNETKIQHDYNLILCR--NIPSIKELQQKLINLQTDIVLPLNDLRD 1176
+ + N + L T Q D N++L NI S+ + KL++ + + L + +
Sbjct: 320 LDAYNTNSV-LQ--KKGTSPQWD-NMLLNEESNIVSMYS-KIKLLSGENN----LTEFKA 370
Query: 1177 INRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFE 1236
+ K+ E A +AK+EM +ANLRLV+SIAKKY++RGLQFLDL+QEGNIGLMKAVDKF+
Sbjct: 371 LVTKIQKHERAANQAKQEMIKANLRLVVSIAKKYSNRGLQFLDLVQEGNIGLMKAVDKFD 430
Query: 1237 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDP 1296
Y+RGYKFSTYATWW+RQAITR+IADQARTIRIPVHMIET+NKI+R RQ+L E G EP
Sbjct: 431 YKRGYKFSTYATWWVRQAITRAIADQARTIRIPVHMIETVNKINRTLRQMLHEMGREPTL 490
Query: 1297 SVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASM 1356
++ ++ + +KIRK+MKI K+PVS+ESP+GDD+ S GD IED+ + P DAA+ A +
Sbjct: 491 EELSARLNINVDKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIEDKRAVKPEDAAVLADL 550
Query: 1357 RSVVKDILNSLTPRESKVLRMRFGI-EMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415
R + +L++LTP+E ++LRMRFGI + DHTLEEVGK F+VTRERIRQIEAKALRKLR
Sbjct: 551 REITTKVLSTLTPKEERILRMRFGIGKGGKDHTLEEVGKLFNVTRERIRQIEAKALRKLR 610
Query: 1416 HPSRYYKLKIF 1426
HPSR KL+ F
Sbjct: 611 HPSRARKLRGF 621
|
|
| TIGR_CMR|APH_0576 APH_0576 "RNA polymerase sigma factor RpoD" [Anaplasma phagocytophilum HZ (taxid:212042)] | Back alignment and assigned GO terms |
|---|
Score = 882 (315.5 bits), Expect = 5.1e-105, Sum P(2) = 5.1e-105
Identities = 183/383 (47%), Positives = 259/383 (67%)
Query: 1046 KMRKAFEKEG-YNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQIL 1104
+M+K G Y+ +Y + H++I + ++ + ++ + + + E ++
Sbjct: 252 EMKKKKRDGGEYDENAYNELHDSIWEMVSQMKLSDSAVASVTQQIYALSKSIAAEESSLI 311
Query: 1105 EIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQ 1164
+ G+ R F+ + N N + + K ++ +L + ++ E+Q + + L
Sbjct: 312 SLA-ESYGVDRKSFLDAY-----NNNTIAEQAKTSFEWQNLLDKEGDTLLEMQNR-VKLL 364
Query: 1165 TDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEG 1224
+ P + + K+ E A +AK+EM +ANLRLV+SIAKKY++RGLQFLDL+QEG
Sbjct: 365 SGEDCP-GSFKALVAKIQKHERTANRAKQEMIKANLRLVVSIAKKYSNRGLQFLDLVQEG 423
Query: 1225 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISR 1284
NIGLMKAVDKF+Y+RGYKFSTYATWW+RQAITR+IADQARTIRIPVHMIET+NKI+R R
Sbjct: 424 NIGLMKAVDKFDYKRGYKFSTYATWWVRQAITRAIADQARTIRIPVHMIETVNKINRTLR 483
Query: 1285 QILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENM 1344
Q+L E G EP ++ ++ + EKIRK+MKI K+PVS+ESP+GDD+ S GD IED+
Sbjct: 484 QMLHEIGREPTLEELSARLNINVEKIRKVMKIVKDPVSLESPIGDDDSSTFGDCIEDKRA 543
Query: 1345 LAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSS-DHTLEEVGKQFDVTRERI 1403
+ P +AA+ A +R + +L++LTP+E ++LRMRFGI S DHTLEEVG+ F+VTRERI
Sbjct: 544 VKPENAAVLADLREITTKVLSTLTPKEERILRMRFGIGKSGKDHTLEEVGRLFNVTRERI 603
Query: 1404 RQIEAKALRKLRHPSRYYKLKIF 1426
RQIEAKALRKLRHPSR KL+ F
Sbjct: 604 RQIEAKALRKLRHPSRARKLRGF 626
|
|
Prediction of Enzyme Commission (EC) Number
EC Number Prediction by Annotation Transfer from SWISS-PROT Entries
Original result of BLAST against SWISS-PROT
| ID | Name | Annotated EC number | Identity | Query coverage | Hit coverage | RBH(Q2H) | RBH(H2Q) |
| O24744 | RPOD_SHEVD | No assigned EC number | 0.5033 | 0.4168 | 0.9723 | yes | N/A |
| Q5HFJ9 | RPOD_STAAC | No assigned EC number | 0.6386 | 0.1550 | 0.6032 | yes | N/A |
| P26480 | RPOD_PSEAE | No assigned EC number | 0.5189 | 0.4168 | 0.9675 | yes | N/A |
| Q8CP24 | RPOD_STAES | No assigned EC number | 0.6386 | 0.1550 | 0.6032 | yes | N/A |
| P0A0J0 | RPOD_STAA8 | No assigned EC number | 0.6386 | 0.1550 | 0.6032 | yes | N/A |
| Q99TT5 | RPOD_STAAN | No assigned EC number | 0.6344 | 0.1550 | 0.6032 | yes | N/A |
| Q87DT7 | RPOD_XYLFT | No assigned EC number | 0.5064 | 0.4071 | 0.9433 | yes | N/A |
| Q9PDM9 | RPOD_XYLFA | No assigned EC number | 0.5140 | 0.4148 | 0.9611 | yes | N/A |
| Q6GGD8 | RPOD_STAAR | No assigned EC number | 0.6386 | 0.1550 | 0.6032 | yes | N/A |
| O66381 | RPOD_BACHD | No assigned EC number | 0.6652 | 0.1599 | 0.6155 | yes | N/A |
| Q6G905 | RPOD_STAAS | No assigned EC number | 0.6386 | 0.1550 | 0.6032 | yes | N/A |
| Q5HNY7 | RPOD_STAEQ | No assigned EC number | 0.6386 | 0.1550 | 0.6032 | yes | N/A |
| P52331 | RPOD_LISMO | No assigned EC number | 0.6150 | 0.1738 | 0.6657 | yes | N/A |
| P57163 | RPOD_BUCAI | No assigned EC number | 0.5015 | 0.4057 | 0.9493 | yes | N/A |
| Q8P4H2 | RPOD_XANCP | No assigned EC number | 0.5057 | 0.4162 | 0.9551 | yes | N/A |
| P52329 | RPOD_ENTFA | No assigned EC number | 0.6583 | 0.1627 | 0.6331 | yes | N/A |
| O33662 | RPOD_STRMU | No assigned EC number | 0.6396 | 0.1710 | 0.6603 | yes | N/A |
| P52325 | RPOD_NEIGO | No assigned EC number | 0.5378 | 0.4217 | 0.9408 | yes | N/A |
| P52326 | RPOD_PSEFL | No assigned EC number | 0.5140 | 0.4168 | 0.9707 | yes | N/A |
| P0A0I9 | RPOD_STAAW | No assigned EC number | 0.6386 | 0.1550 | 0.6032 | yes | N/A |
| P0A0I8 | RPOD_STAAM | No assigned EC number | 0.6386 | 0.1550 | 0.6032 | yes | N/A |
| P0A4J0 | RPOD_STRR6 | No assigned EC number | 0.6443 | 0.1620 | 0.6287 | yes | N/A |
| P06224 | RPOD_BACSU | No assigned EC number | 0.6652 | 0.1627 | 0.6280 | yes | N/A |
| Q92BQ6 | RPOD_LISIN | No assigned EC number | 0.6150 | 0.1738 | 0.6657 | yes | N/A |
| P0A4I9 | RPOD_STRPN | No assigned EC number | 0.6443 | 0.1620 | 0.6287 | yes | N/A |
EC Number Prediction by EFICAz Software
| Prediction Level | EC number | Confidence of Prediction |
| 3rd Layer | 2.7.7 | LOW CONFIDENCE prediction! |
Prediction of Functionally Associated Proteins
Conserved Domains and Related Protein Families
Conserved Domains Detected by RPS-BLAST
Original result of RPS-BLAST against CDD database
| ID | Alignment Graph | Length |
Definition |
E-value |
| Query | 1432 | |||
| PRK05658 | 619 | PRK05658, PRK05658, RNA polymerase sigma factor Rp | 0.0 | |
| PRK05658 | 619 | PRK05658, PRK05658, RNA polymerase sigma factor Rp | 0.0 | |
| PRK09210 | 367 | PRK09210, PRK09210, RNA polymerase sigma factor Rp | 1e-133 | |
| TIGR02393 | 238 | TIGR02393, RpoD_Cterm, RNA polymerase sigma factor | 1e-132 | |
| PRK09210 | 367 | PRK09210, PRK09210, RNA polymerase sigma factor Rp | 1e-126 | |
| TIGR02393 | 238 | TIGR02393, RpoD_Cterm, RNA polymerase sigma factor | 1e-126 | |
| PRK05901 | 509 | PRK05901, PRK05901, RNA polymerase sigma factor; P | 1e-123 | |
| PRK05901 | 509 | PRK05901, PRK05901, RNA polymerase sigma factor; P | 1e-117 | |
| COG0568 | 342 | COG0568, RpoD, DNA-directed RNA polymerase, sigma | 1e-114 | |
| COG0568 | 342 | COG0568, RpoD, DNA-directed RNA polymerase, sigma | 1e-112 | |
| TIGR02997 | 298 | TIGR02997, Sig70-cyanoRpoD, RNA polymerase sigma f | 1e-101 | |
| TIGR02997 | 298 | TIGR02997, Sig70-cyanoRpoD, RNA polymerase sigma f | 1e-101 | |
| PRK07406 | 373 | PRK07406, PRK07406, RNA polymerase sigma factor Rp | 1e-95 | |
| PRK07921 | 324 | PRK07921, PRK07921, RNA polymerase sigma factor Si | 2e-93 | |
| PRK07406 | 373 | PRK07406, PRK07406, RNA polymerase sigma factor Rp | 7e-92 | |
| PRK07921 | 324 | PRK07921, PRK07921, RNA polymerase sigma factor Si | 3e-91 | |
| PRK07598 | 415 | PRK07598, PRK07598, RNA polymerase sigma factor Si | 3e-79 | |
| TIGR02394 | 285 | TIGR02394, rpoS_proteo, RNA polymerase sigma facto | 2e-78 | |
| TIGR02394 | 285 | TIGR02394, rpoS_proteo, RNA polymerase sigma facto | 8e-78 | |
| PRK07598 | 415 | PRK07598, PRK07598, RNA polymerase sigma factor Si | 2e-75 | |
| PRK05949 | 327 | PRK05949, PRK05949, RNA polymerase sigma factor; V | 8e-74 | |
| PRK05949 | 327 | PRK05949, PRK05949, RNA polymerase sigma factor; V | 8e-74 | |
| PRK07405 | 317 | PRK07405, PRK07405, RNA polymerase sigma factor Si | 1e-70 | |
| PRK07405 | 317 | PRK07405, PRK07405, RNA polymerase sigma factor Si | 1e-70 | |
| PRK05657 | 325 | PRK05657, PRK05657, RNA polymerase sigma factor Rp | 8e-69 | |
| PRK05657 | 325 | PRK05657, PRK05657, RNA polymerase sigma factor Rp | 8e-69 | |
| pfam04546 | 211 | pfam04546, Sigma70_ner, Sigma-70, non-essential re | 2e-48 | |
| pfam04546 | 211 | pfam04546, Sigma70_ner, Sigma-70, non-essential re | 2e-48 | |
| PRK05667 | 580 | PRK05667, dnaG, DNA primase; Validated | 6e-35 | |
| TIGR02980 | 227 | TIGR02980, SigBFG, RNA polymerase sigma-70 factor, | 7e-34 | |
| TIGR02980 | 227 | TIGR02980, SigBFG, RNA polymerase sigma-70 factor, | 7e-34 | |
| COG1191 | 247 | COG1191, FliA, DNA-directed RNA polymerase special | 2e-29 | |
| COG1191 | 247 | COG1191, FliA, DNA-directed RNA polymerase special | 4e-29 | |
| PRK07500 | 289 | PRK07500, rpoH2, RNA polymerase factor sigma-32; R | 6e-29 | |
| PRK07500 | 289 | PRK07500, rpoH2, RNA polymerase factor sigma-32; R | 6e-29 | |
| TIGR02392 | 270 | TIGR02392, rpoH_proteo, alternative sigma factor R | 1e-28 | |
| TIGR02392 | 270 | TIGR02392, rpoH_proteo, alternative sigma factor R | 1e-28 | |
| TIGR01391 | 415 | TIGR01391, dnaG, DNA primase, catalytic core | 2e-26 | |
| TIGR02479 | 224 | TIGR02479, FliA_WhiG, RNA polymerase sigma factor, | 5e-25 | |
| TIGR02479 | 224 | TIGR02479, FliA_WhiG, RNA polymerase sigma factor, | 5e-25 | |
| pfam04539 | 78 | pfam04539, Sigma70_r3, Sigma-70 region 3 | 1e-23 | |
| pfam04539 | 78 | pfam04539, Sigma70_r3, Sigma-70 region 3 | 1e-23 | |
| TIGR02850 | 254 | TIGR02850, spore_sigG, RNA polymerase sigma-G fact | 3e-23 | |
| TIGR02850 | 254 | TIGR02850, spore_sigG, RNA polymerase sigma-G fact | 3e-23 | |
| pfam04542 | 71 | pfam04542, Sigma70_r2, Sigma-70 region 2 | 3e-23 | |
| pfam04542 | 71 | pfam04542, Sigma70_r2, Sigma-70 region 2 | 3e-23 | |
| COG0358 | 568 | COG0358, DnaG, DNA primase (bacterial type) [DNA r | 7e-23 | |
| PRK08215 | 258 | PRK08215, PRK08215, sporulation sigma factor SigG; | 3e-21 | |
| PRK08215 | 258 | PRK08215, PRK08215, sporulation sigma factor SigG; | 3e-21 | |
| PRK07122 | 264 | PRK07122, PRK07122, RNA polymerase sigma factor Si | 8e-21 | |
| PRK07122 | 264 | PRK07122, PRK07122, RNA polymerase sigma factor Si | 8e-21 | |
| TIGR02885 | 231 | TIGR02885, spore_sigF, RNA polymerase sigma-F fact | 1e-19 | |
| TIGR02885 | 231 | TIGR02885, spore_sigF, RNA polymerase sigma-F fact | 1e-19 | |
| PRK06288 | 268 | PRK06288, PRK06288, RNA polymerase sigma factor Wh | 2e-19 | |
| PRK06288 | 268 | PRK06288, PRK06288, RNA polymerase sigma factor Wh | 2e-19 | |
| PRK06596 | 284 | PRK06596, PRK06596, RNA polymerase factor sigma-32 | 7e-18 | |
| PRK06596 | 284 | PRK06596, PRK06596, RNA polymerase factor sigma-32 | 7e-18 | |
| PRK07670 | 251 | PRK07670, PRK07670, RNA polymerase sigma factor Si | 8e-18 | |
| PRK05803 | 233 | PRK05803, PRK05803, sporulation sigma factor SigK; | 1e-17 | |
| PRK05803 | 233 | PRK05803, PRK05803, sporulation sigma factor SigK; | 3e-17 | |
| PRK07670 | 251 | PRK07670, PRK07670, RNA polymerase sigma factor Si | 4e-17 | |
| PRK05572 | 252 | PRK05572, PRK05572, sporulation sigma factor SigF; | 4e-17 | |
| PRK05572 | 252 | PRK05572, PRK05572, sporulation sigma factor SigF; | 4e-17 | |
| pfam04545 | 50 | pfam04545, Sigma70_r4, Sigma-70, region 4 | 2e-15 | |
| PRK07408 | 256 | PRK07408, PRK07408, RNA polymerase sigma factor Si | 3e-15 | |
| PRK07408 | 256 | PRK07408, PRK07408, RNA polymerase sigma factor Si | 3e-15 | |
| PRK06986 | 236 | PRK06986, fliA, flagellar biosynthesis sigma facto | 3e-15 | |
| PRK06986 | 236 | PRK06986, fliA, flagellar biosynthesis sigma facto | 3e-15 | |
| TIGR02941 | 255 | TIGR02941, Sigma_B, RNA polymerase sigma-B factor | 4e-15 | |
| PRK09210 | 367 | PRK09210, PRK09210, RNA polymerase sigma factor Rp | 6e-15 | |
| PRK09210 | 367 | PRK09210, PRK09210, RNA polymerase sigma factor Rp | 6e-15 | |
| pfam04545 | 50 | pfam04545, Sigma70_r4, Sigma-70, region 4 | 8e-15 | |
| TIGR02846 | 227 | TIGR02846, spore_sigmaK, RNA polymerase sigma-K fa | 9e-15 | |
| TIGR02941 | 255 | TIGR02941, Sigma_B, RNA polymerase sigma-B factor | 2e-14 | |
| TIGR02846 | 227 | TIGR02846, spore_sigmaK, RNA polymerase sigma-K fa | 2e-14 | |
| pfam03979 | 79 | pfam03979, Sigma70_r1_1, Sigma-70 factor, region 1 | 3e-13 | |
| pfam03979 | 79 | pfam03979, Sigma70_r1_1, Sigma-70 factor, region 1 | 3e-13 | |
| cd06171 | 55 | cd06171, Sigma70_r4, Sigma70, region (SR) 4 refers | 2e-12 | |
| cd06171 | 55 | cd06171, Sigma70_r4, Sigma70, region (SR) 4 refers | 2e-12 | |
| PRK08583 | 257 | PRK08583, PRK08583, RNA polymerase sigma factor Si | 7e-12 | |
| PRK08583 | 257 | PRK08583, PRK08583, RNA polymerase sigma factor Si | 7e-12 | |
| cd03364 | 79 | cd03364, TOPRIM_DnaG_primases, TOPRIM_DnaG_primase | 7e-11 | |
| pfam00140 | 37 | pfam00140, Sigma70_r1_2, Sigma-70 factor, region 1 | 2e-10 | |
| pfam00140 | 37 | pfam00140, Sigma70_r1_2, Sigma-70 factor, region 1 | 2e-10 | |
| TIGR02835 | 234 | TIGR02835, spore_sigmaE, RNA polymerase sigma-E fa | 4e-10 | |
| TIGR02835 | 234 | TIGR02835, spore_sigmaE, RNA polymerase sigma-E fa | 4e-10 | |
| PRK05901 | 509 | PRK05901, PRK05901, RNA polymerase sigma factor; P | 7e-10 | |
| TIGR02937 | 158 | TIGR02937, sigma70-ECF, RNA polymerase sigma facto | 8e-10 | |
| TIGR02937 | 158 | TIGR02937, sigma70-ECF, RNA polymerase sigma facto | 8e-10 | |
| PRK05911 | 257 | PRK05911, PRK05911, RNA polymerase sigma factor si | 2e-09 | |
| PRK05911 | 257 | PRK05911, PRK05911, RNA polymerase sigma factor si | 2e-09 | |
| cd01029 | 79 | cd01029, TOPRIM_primases, TOPRIM_primases: The top | 3e-09 | |
| PRK06596 | 284 | PRK06596, PRK06596, RNA polymerase factor sigma-32 | 8e-09 | |
| PRK06596 | 284 | PRK06596, PRK06596, RNA polymerase factor sigma-32 | 8e-09 | |
| PRK05901 | 509 | PRK05901, PRK05901, RNA polymerase sigma factor; P | 4e-08 | |
| PRK08301 | 234 | PRK08301, PRK08301, sporulation sigma factor SigE; | 3e-07 | |
| PRK08301 | 234 | PRK08301, PRK08301, sporulation sigma factor SigE; | 3e-07 | |
| TIGR02937 | 158 | TIGR02937, sigma70-ECF, RNA polymerase sigma facto | 5e-07 | |
| TIGR02937 | 158 | TIGR02937, sigma70-ECF, RNA polymerase sigma facto | 5e-07 | |
| pfam13155 | 90 | pfam13155, Toprim_2, Toprim-like | 7e-05 | |
| pfam13662 | 81 | pfam13662, Toprim_4, Toprim domain | 0.001 | |
| PRK07598 | 415 | PRK07598, PRK07598, RNA polymerase sigma factor Si | 0.002 | |
| PRK07598 | 415 | PRK07598, PRK07598, RNA polymerase sigma factor Si | 0.002 |
| >gnl|CDD|235549 PRK05658, PRK05658, RNA polymerase sigma factor RpoD; Validated | Back alignment and domain information |
|---|
Score = 854 bits (2209), Expect = 0.0
Identities = 332/616 (53%), Positives = 438/616 (71%), Gaps = 12/616 (1%)
Query: 824 EEIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHV 883
++N + + K LIK GKERGYLT++E+ND LPEDI+D E IE II M I V E
Sbjct: 4 PMLDNPQSQLKKLIKRGKERGYLTYAELNDHLPEDIVDSEQIEDIIAMLNDMGIQVVEEA 63
Query: 884 LDTETLMLSN----ITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDG 939
D + L+L+ +D+D EE AALS+V+S+ GRT DP++MY+REMG+VELLTR+G
Sbjct: 64 PDADDLLLAENEADAQTDEDAEEEAAAALSSVESEIGRTDDPVRMYLREMGTVELLTREG 123
Query: 940 EIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNR 999
EIEIAKRIE G MI A+ P TI IL D++ E ++ E++DG +D N +
Sbjct: 124 EIEIAKRIEAGENIMIAALCESPLTIDAILEWYDRLENGERRLRELIDGFVDPNAEEDPA 183
Query: 1000 VI---KGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGY 1056
+ +++E++ E + D +L + L KF ++ + K+RKA EK+
Sbjct: 184 HVGSELEELDDDEDEEEEEDENDDSLAADESELPEKVLEKFKALAKQYKKLRKAQEKKVE 243
Query: 1057 N----SESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCG 1112
+ Y K + E+ +R T+K I++L + LR+ +V E+++L +V +
Sbjct: 244 GRLAQHKKYAKLREKLKEELKSLRLTSKQIDELVEQLRDINKRVRGQERELLRLV-ERLK 302
Query: 1113 MPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLN 1172
MPR F+K+F NE+++ W++ E ++ L R IK+LQQ+L ++ + L +
Sbjct: 303 MPRKDFLKLFQGNELDITWLEKEIASGKPWSEFLVRVYDEIKKLQQELEAIEEETGLTIE 362
Query: 1173 DLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAV 1232
+L++INR++ GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAV
Sbjct: 363 ELKEINRQISKGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 422
Query: 1233 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGS 1292
DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQE G
Sbjct: 423 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGR 482
Query: 1293 EPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAAL 1352
EP P +A ++ MPE+K+RK++KIAKEP+S+E+P+GDDEDSHLGDFIED+N P DAA+
Sbjct: 483 EPTPEELAERLGMPEDKVRKVLKIAKEPISLETPIGDDEDSHLGDFIEDKNAELPIDAAI 542
Query: 1353 NASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALR 1412
S+R D+L SLTPRE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALR
Sbjct: 543 QESLREATTDVLASLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 602
Query: 1413 KLRHPSRYYKLKIFLE 1428
KLRHPSR KL+ FL+
Sbjct: 603 KLRHPSRSRKLRSFLD 618
|
Length = 619 |
| >gnl|CDD|235549 PRK05658, PRK05658, RNA polymerase sigma factor RpoD; Validated | Back alignment and domain information |
|---|
Score = 835 bits (2161), Expect = 0.0
Identities = 324/603 (53%), Positives = 428/603 (70%), Gaps = 12/603 (1%)
Query: 34 EEIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHV 93
++N + + K LIK GKERGYLT++E+ND LPEDI+D E IE II M I V E
Sbjct: 4 PMLDNPQSQLKKLIKRGKERGYLTYAELNDHLPEDIVDSEQIEDIIAMLNDMGIQVVEEA 63
Query: 94 LDTETLMLSN----ITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDG 149
D + L+L+ +D+D EE AALS+V+S+ GRT DP++MY+REMG+VELLTR+G
Sbjct: 64 PDADDLLLAENEADAQTDEDAEEEAAAALSSVESEIGRTDDPVRMYLREMGTVELLTREG 123
Query: 150 EIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNR 209
EIEIAKRIE G MI A+ P TI IL D++ E ++ E++DG +D N +
Sbjct: 124 EIEIAKRIEAGENIMIAALCESPLTIDAILEWYDRLENGERRLRELIDGFVDPNAEEDPA 183
Query: 210 VI---KGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGY 266
+ +++E++ E + D +L + L KF ++ + K+RKA EK+
Sbjct: 184 HVGSELEELDDDEDEEEEEDENDDSLAADESELPEKVLEKFKALAKQYKKLRKAQEKKVE 243
Query: 267 N----SESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCG 322
+ Y K + E+ +R T+K I++L + LR+ +V E+++L +V +
Sbjct: 244 GRLAQHKKYAKLREKLKEELKSLRLTSKQIDELVEQLRDINKRVRGQERELLRLV-ERLK 302
Query: 323 MPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLN 382
MPR F+K+F NE+++ W++ E ++ L R IK+LQQ+L ++ + L +
Sbjct: 303 MPRKDFLKLFQGNELDITWLEKEIASGKPWSEFLVRVYDEIKKLQQELEAIEEETGLTIE 362
Query: 383 DLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAV 442
+L++INR++ GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAV
Sbjct: 363 ELKEINRQISKGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAV 422
Query: 443 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGS 502
DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQE G
Sbjct: 423 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGR 482
Query: 503 EPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAAL 562
EP P +A ++ MPE+K+RK++KIAKEP+S+E+P+GDDEDSHLGDFIED+N P DAA+
Sbjct: 483 EPTPEELAERLGMPEDKVRKVLKIAKEPISLETPIGDDEDSHLGDFIEDKNAELPIDAAI 542
Query: 563 NASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALR 622
S+R D+L SLTPRE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALR
Sbjct: 543 QESLREATTDVLASLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALR 602
Query: 623 KLR 625
KLR
Sbjct: 603 KLR 605
|
Length = 619 |
| >gnl|CDD|236413 PRK09210, PRK09210, RNA polymerase sigma factor RpoD; Validated | Back alignment and domain information |
|---|
Score = 414 bits (1067), Expect = e-133
Identities = 161/244 (65%), Positives = 204/244 (83%)
Query: 1185 EMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 1244
E +AK+ + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GLMKAV+KF+YR+G+KFS
Sbjct: 124 EEGDEEAKQRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGFKFS 183
Query: 1245 TYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKME 1304
TYATWWIRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQE G EP P IA +M+
Sbjct: 184 TYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQELGREPTPEEIAEEMD 243
Query: 1305 MPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDIL 1364
MP EK+R+I+KIA+EPVS+E+P+G+++DSHLGDFIED++ +P+D A ++ ++D+L
Sbjct: 244 MPPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPADHAAYELLKEQLEDVL 303
Query: 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424
++LT RE VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLRHPSR +LK
Sbjct: 304 DTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLK 363
Query: 1425 IFLE 1428
FLE
Sbjct: 364 DFLE 367
|
Length = 367 |
| >gnl|CDD|213709 TIGR02393, RpoD_Cterm, RNA polymerase sigma factor RpoD, C-terminal domain | Back alignment and domain information |
|---|
Score = 406 bits (1045), Expect = e-132
Identities = 160/238 (67%), Positives = 199/238 (83%)
Query: 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 1250
AK+++ E+NLRLV+SIAKKYT+RGL FLDLIQEGNIGLMKAV+KF+YR+GYKFSTYATWW
Sbjct: 1 AKKQLVESNLRLVVSIAKKYTNRGLSFLDLIQEGNIGLMKAVEKFDYRKGYKFSTYATWW 60
Query: 1251 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 1310
IRQAITR+IADQARTIRIPVHM+ETINK+ + RQ+ QE G EP +A +M MP EK+
Sbjct: 61 IRQAITRAIADQARTIRIPVHMVETINKLIKAERQLTQELGREPTDEELAERMGMPAEKV 120
Query: 1311 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 1370
R+I KIA+EP+S+E+P+G++EDS LGDFIED ++ +P D A +R + ++L +LT R
Sbjct: 121 REIKKIAQEPISLETPIGEEEDSFLGDFIEDTSIESPDDYAAKELLREQLDEVLETLTER 180
Query: 1371 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
E KVLRMR+G+ HTLEEVGK+F+VTRERIRQIE+KALRKLRHPSR KLK FL+
Sbjct: 181 EEKVLRMRYGLLDGQPHTLEEVGKEFNVTRERIRQIESKALRKLRHPSRSKKLKSFLD 238
|
This model represents the well-conserved C-terminal region of the major, essential sigma factor of most bacteria. Members of this clade show considerable variability in domain architecture and molecular weight, as well as in nomenclature: RpoD in E. coli and other Proteobacteria, SigA in Bacillus subtilis and many other Gram-positive bacteria, HrdB in Streptomyces, MysA in Mycobacterium smegmatis, etc [Transcription, Transcription factors]. Length = 238 |
| >gnl|CDD|236413 PRK09210, PRK09210, RNA polymerase sigma factor RpoD; Validated | Back alignment and domain information |
|---|
Score = 395 bits (1016), Expect = e-126
Identities = 152/231 (65%), Positives = 194/231 (83%)
Query: 395 EMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 454
E +AK+ + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GLMKAV+KF+YR+G+KFS
Sbjct: 124 EEGDEEAKQRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGFKFS 183
Query: 455 TYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKME 514
TYATWWIRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQE G EP P IA +M+
Sbjct: 184 TYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQELGREPTPEEIAEEMD 243
Query: 515 MPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDIL 574
MP EK+R+I+KIA+EPVS+E+P+G+++DSHLGDFIED++ +P+D A ++ ++D+L
Sbjct: 244 MPPEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPADHAAYELLKEQLEDVL 303
Query: 575 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
++LT RE VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLR
Sbjct: 304 DTLTDREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 354
|
Length = 367 |
| >gnl|CDD|213709 TIGR02393, RpoD_Cterm, RNA polymerase sigma factor RpoD, C-terminal domain | Back alignment and domain information |
|---|
Score = 390 bits (1003), Expect = e-126
Identities = 151/225 (67%), Positives = 189/225 (84%)
Query: 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460
AK+++ E+NLRLV+SIAKKYT+RGL FLDLIQEGNIGLMKAV+KF+YR+GYKFSTYATWW
Sbjct: 1 AKKQLVESNLRLVVSIAKKYTNRGLSFLDLIQEGNIGLMKAVEKFDYRKGYKFSTYATWW 60
Query: 461 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 520
IRQAITR+IADQARTIRIPVHM+ETINK+ + RQ+ QE G EP +A +M MP EK+
Sbjct: 61 IRQAITRAIADQARTIRIPVHMVETINKLIKAERQLTQELGREPTDEELAERMGMPAEKV 120
Query: 521 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 580
R+I KIA+EP+S+E+P+G++EDS LGDFIED ++ +P D A +R + ++L +LT R
Sbjct: 121 REIKKIAQEPISLETPIGEEEDSFLGDFIEDTSIESPDDYAAKELLREQLDEVLETLTER 180
Query: 581 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
E KVLRMR+G+ HTLEEVGK+F+VTRERIRQIE+KALRKLR
Sbjct: 181 EEKVLRMRYGLLDGQPHTLEEVGKEFNVTRERIRQIESKALRKLR 225
|
This model represents the well-conserved C-terminal region of the major, essential sigma factor of most bacteria. Members of this clade show considerable variability in domain architecture and molecular weight, as well as in nomenclature: RpoD in E. coli and other Proteobacteria, SigA in Bacillus subtilis and many other Gram-positive bacteria, HrdB in Streptomyces, MysA in Mycobacterium smegmatis, etc [Transcription, Transcription factors]. Length = 238 |
| >gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Score = 392 bits (1009), Expect = e-123
Identities = 140/254 (55%), Positives = 191/254 (75%)
Query: 1175 RDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDK 1234
++ R + ++AK + EANLRLV+S+AK+YT+RGL FLDLIQEGN+GL+KAV+K
Sbjct: 256 PELRRDLQWIGRDGKRAKNHLLEANLRLVVSLAKRYTNRGLSFLDLIQEGNLGLIKAVEK 315
Query: 1235 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEP 1294
F+Y +GYKFSTYATWWIRQAITR++ADQARTIRIPVHM+ETINK+ RI R++LQE G EP
Sbjct: 316 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVETINKLGRIERELLQELGREP 375
Query: 1295 DPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNA 1354
P +A +M EK+R+I K +EP+S++ +G + DS GDFIED ++P DA
Sbjct: 376 TPEELAKEMGFTPEKVREIQKYNREPISLDKTIGKEGDSQFGDFIEDSEAVSPVDAVSFT 435
Query: 1355 SMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKL 1414
++ ++++L +L+ RE+ V+RMRFG+ TL+E+G+ + VTRERIRQIE+K LRKL
Sbjct: 436 LLQDQLQEVLETLSEREAGVIRMRFGLTDGQPKTLDEIGQVYGVTRERIRQIESKTLRKL 495
Query: 1415 RHPSRYYKLKIFLE 1428
RHPSR L+ FL+
Sbjct: 496 RHPSRSQVLRDFLD 509
|
Length = 509 |
| >gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Score = 377 bits (970), Expect = e-117
Identities = 133/241 (55%), Positives = 182/241 (75%)
Query: 385 RDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDK 444
++ R + ++AK + EANLRLV+S+AK+YT+RGL FLDLIQEGN+GL+KAV+K
Sbjct: 256 PELRRDLQWIGRDGKRAKNHLLEANLRLVVSLAKRYTNRGLSFLDLIQEGNLGLIKAVEK 315
Query: 445 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEP 504
F+Y +GYKFSTYATWWIRQAITR++ADQARTIRIPVHM+ETINK+ RI R++LQE G EP
Sbjct: 316 FDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPVHMVETINKLGRIERELLQELGREP 375
Query: 505 DPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNA 564
P +A +M EK+R+I K +EP+S++ +G + DS GDFIED ++P DA
Sbjct: 376 TPEELAKEMGFTPEKVREIQKYNREPISLDKTIGKEGDSQFGDFIEDSEAVSPVDAVSFT 435
Query: 565 SMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKL 624
++ ++++L +L+ RE+ V+RMRFG+ TL+E+G+ + VTRERIRQIE+K LRKL
Sbjct: 436 LLQDQLQEVLETLSEREAGVIRMRFGLTDGQPKTLDEIGQVYGVTRERIRQIESKTLRKL 495
Query: 625 R 625
R
Sbjct: 496 R 496
|
Length = 509 |
| >gnl|CDD|223642 COG0568, RpoD, DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription] | Back alignment and domain information |
|---|
Score = 362 bits (930), Expect = e-114
Identities = 147/283 (51%), Positives = 208/283 (73%), Gaps = 3/283 (1%)
Query: 1148 RNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIA 1207
R L + ++ +L + + + R++ GE + AK+++ E+NLRLV+SIA
Sbjct: 61 RARRPAGRLSFYIRAIEAAPLLTPEEEKALARRLKRGE-RDLDAKKKLVESNLRLVVSIA 119
Query: 1208 KKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIR 1267
KKYT RGL FLDLIQEGNIGLMKAV+KF+ +G+KFSTYATWWIRQAITR+IADQARTIR
Sbjct: 120 KKYTGRGLPFLDLIQEGNIGLMKAVEKFDPEKGFKFSTYATWWIRQAITRAIADQARTIR 179
Query: 1268 IPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPV 1327
IPVH +E INK+ R+ R++LQE G EP P IA ++ + +K+R+++K A EP+S+++P+
Sbjct: 180 IPVHQVELINKLRRVKRELLQELGREPTPEEIAEELGVSPDKVREMLKRASEPISLDTPI 239
Query: 1328 GDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNS-LTPRESKVLRMRFGIEMSSD 1386
GDDEDS LGDF+ED+ ++P DA S++ + ++L LT RE +V+R+RFG++
Sbjct: 240 GDDEDSELGDFLEDDKSVSPEDAVERESLKEDLNEVLAEALTERERRVIRLRFGLDDGEP 299
Query: 1387 HTLEEVGKQFDVTRERIRQIEAKALRKLR-HPSRYYKLKIFLE 1428
TLEE+G++F ++RER+RQIEAKALRKLR HP R L+ +L+
Sbjct: 300 KTLEELGEEFGISRERVRQIEAKALRKLRRHPERSALLRSYLD 342
|
Length = 342 |
| >gnl|CDD|223642 COG0568, RpoD, DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription] | Back alignment and domain information |
|---|
Score = 356 bits (917), Expect = e-112
Identities = 142/269 (52%), Positives = 200/269 (74%), Gaps = 2/269 (0%)
Query: 358 RNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIA 417
R L + ++ +L + + + R++ GE + AK+++ E+NLRLV+SIA
Sbjct: 61 RARRPAGRLSFYIRAIEAAPLLTPEEEKALARRLKRGE-RDLDAKKKLVESNLRLVVSIA 119
Query: 418 KKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIR 477
KKYT RGL FLDLIQEGNIGLMKAV+KF+ +G+KFSTYATWWIRQAITR+IADQARTIR
Sbjct: 120 KKYTGRGLPFLDLIQEGNIGLMKAVEKFDPEKGFKFSTYATWWIRQAITRAIADQARTIR 179
Query: 478 IPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPV 537
IPVH +E INK+ R+ R++LQE G EP P IA ++ + +K+R+++K A EP+S+++P+
Sbjct: 180 IPVHQVELINKLRRVKRELLQELGREPTPEEIAEELGVSPDKVREMLKRASEPISLDTPI 239
Query: 538 GDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNS-LTPRESKVLRMRFGIEMSSD 596
GDDEDS LGDF+ED+ ++P DA S++ + ++L LT RE +V+R+RFG++
Sbjct: 240 GDDEDSELGDFLEDDKSVSPEDAVERESLKEDLNEVLAEALTERERRVIRLRFGLDDGEP 299
Query: 597 HTLEEVGKQFDVTRERIRQIEAKALRKLR 625
TLEE+G++F ++RER+RQIEAKALRKLR
Sbjct: 300 KTLEELGEEFGISRERVRQIEAKALRKLR 328
|
Length = 342 |
| >gnl|CDD|234082 TIGR02997, Sig70-cyanoRpoD, RNA polymerase sigma factor, cyanobacterial RpoD-like family | Back alignment and domain information |
|---|
Score = 324 bits (834), Expect = e-101
Identities = 118/227 (51%), Positives = 177/227 (77%), Gaps = 1/227 (0%)
Query: 399 RKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 458
++AK +M +ANLRLV+S+AKKY +RGL+ LDLIQEG++GL +AV+KF+ RGYKFSTYA
Sbjct: 73 QRAKEKMIKANLRLVVSVAKKYQNRGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAY 132
Query: 459 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEE 518
WWIRQ ITR+IA+Q+RTIR+P+H+ E +NKI ++ R++ Q+ G P + IA +E+ E
Sbjct: 133 WWIRQGITRAIANQSRTIRLPIHITEKLNKIKKVQRELSQKLGRTPSEAEIAEALELEPE 192
Query: 519 KIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLT 578
++R++++ A++PVS+++PVGD+ED+ LGD +ED+ P + S+R ++ +L LT
Sbjct: 193 QVRELLQRARQPVSLDAPVGDEEDTELGDLLEDDGES-PEEQVERESLRQDLESLLAELT 251
Query: 579 PRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
PRE +VLR+RFG++ TL E+G++ +++RER+RQIEAKALRKLR
Sbjct: 252 PRERQVLRLRFGLDGGEPLTLAEIGRRLNLSRERVRQIEAKALRKLR 298
|
This family includes a number of closely related sigma-70 (TIGR02937) factors in the cyanobacteria. All appear most closely related to the essential sigma-70 factor RpoD, and some score above trusted to the RpoD C-terminal domain model (TIGR02393). Length = 298 |
| >gnl|CDD|234082 TIGR02997, Sig70-cyanoRpoD, RNA polymerase sigma factor, cyanobacterial RpoD-like family | Back alignment and domain information |
|---|
Score = 324 bits (834), Expect = e-101
Identities = 118/227 (51%), Positives = 177/227 (77%), Gaps = 1/227 (0%)
Query: 1189 RKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 1248
++AK +M +ANLRLV+S+AKKY +RGL+ LDLIQEG++GL +AV+KF+ RGYKFSTYA
Sbjct: 73 QRAKEKMIKANLRLVVSVAKKYQNRGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAY 132
Query: 1249 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEE 1308
WWIRQ ITR+IA+Q+RTIR+P+H+ E +NKI ++ R++ Q+ G P + IA +E+ E
Sbjct: 133 WWIRQGITRAIANQSRTIRLPIHITEKLNKIKKVQRELSQKLGRTPSEAEIAEALELEPE 192
Query: 1309 KIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLT 1368
++R++++ A++PVS+++PVGD+ED+ LGD +ED+ P + S+R ++ +L LT
Sbjct: 193 QVRELLQRARQPVSLDAPVGDEEDTELGDLLEDDGES-PEEQVERESLRQDLESLLAELT 251
Query: 1369 PRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415
PRE +VLR+RFG++ TL E+G++ +++RER+RQIEAKALRKLR
Sbjct: 252 PRERQVLRLRFGLDGGEPLTLAEIGRRLNLSRERVRQIEAKALRKLR 298
|
This family includes a number of closely related sigma-70 (TIGR02937) factors in the cyanobacteria. All appear most closely related to the essential sigma-70 factor RpoD, and some score above trusted to the RpoD C-terminal domain model (TIGR02393). Length = 298 |
| >gnl|CDD|236012 PRK07406, PRK07406, RNA polymerase sigma factor RpoD; Validated | Back alignment and domain information |
|---|
Score = 312 bits (801), Expect = 1e-95
Identities = 136/245 (55%), Positives = 184/245 (75%), Gaps = 5/245 (2%)
Query: 1186 MKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 1245
M R+AK +M ++NLRLV+SIAKKY +RGL F DLIQEG++GL++A +KF++ +GYKFST
Sbjct: 132 MLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 191
Query: 1246 YATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEM 1305
YATWWIRQAITR+IADQ+RTIR+PVH+ ETI++I + ++ + QE G +P IA MEM
Sbjct: 192 YATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEM 251
Query: 1306 PEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIED--ENMLAPSDAALNASMRSVVKDI 1363
EK+R I K A+ P+S+E+P+G +EDS LGDFIE E P D +R ++ +
Sbjct: 252 TIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGET---PEDDVAKNLLREDLEGV 308
Query: 1364 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKL 1423
L +L+PRE VLR+R+G++ TLEE+G+ F+VTRERIRQIEAKALRKLRHP+R L
Sbjct: 309 LATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHPNRNSVL 368
Query: 1424 KIFLE 1428
K ++
Sbjct: 369 KEYIR 373
|
Length = 373 |
| >gnl|CDD|181169 PRK07921, PRK07921, RNA polymerase sigma factor SigB; Reviewed | Back alignment and domain information |
|---|
Score = 304 bits (781), Expect = 2e-93
Identities = 116/255 (45%), Positives = 184/255 (72%), Gaps = 2/255 (0%)
Query: 1170 PLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLM 1229
L++ R + + + A+R + EANLRLV+S+AK+YT RG+ LDLIQEGN+GL+
Sbjct: 68 RLSEARKRDLAAVVRD--GEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLI 125
Query: 1230 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQE 1289
+A++KF+Y +G+KFSTYATWWIRQAITR +ADQ+RTIR+PVH++E +NK++RI R++ Q+
Sbjct: 126 RAMEKFDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQ 185
Query: 1290 TGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 1349
G E +A + +PEEKI +++ +++PVS++ PVG DE++ LGDFIED + +
Sbjct: 186 LGREATDEELAEESGIPEEKIADLLEHSRDPVSLDMPVGSDEEAPLGDFIEDSEATSAEN 245
Query: 1350 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 1409
A + + + ++ +L +L RE +V+R+RFG++ TL+++GK F ++RER+RQIE +
Sbjct: 246 AVIAGLLHTDIRSVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 305
Query: 1410 ALRKLRHPSRYYKLK 1424
+ KLR+ R +L+
Sbjct: 306 VMSKLRNGERADRLR 320
|
Length = 324 |
| >gnl|CDD|236012 PRK07406, PRK07406, RNA polymerase sigma factor RpoD; Validated | Back alignment and domain information |
|---|
Score = 302 bits (774), Expect = 7e-92
Identities = 131/232 (56%), Positives = 176/232 (75%), Gaps = 5/232 (2%)
Query: 396 MKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 455
M R+AK +M ++NLRLV+SIAKKY +RGL F DLIQEG++GL++A +KF++ +GYKFST
Sbjct: 132 MLGRRAKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFST 191
Query: 456 YATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEM 515
YATWWIRQAITR+IADQ+RTIR+PVH+ ETI++I + ++ + QE G +P IA MEM
Sbjct: 192 YATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEM 251
Query: 516 PEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIED--ENMLAPSDAALNASMRSVVKDI 573
EK+R I K A+ P+S+E+P+G +EDS LGDFIE E P D +R ++ +
Sbjct: 252 TIEKLRFIAKSAQLPISLETPIGKEEDSRLGDFIEADGET---PEDDVAKNLLREDLEGV 308
Query: 574 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
L +L+PRE VLR+R+G++ TLEE+G+ F+VTRERIRQIEAKALRKLR
Sbjct: 309 LATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLR 360
|
Length = 373 |
| >gnl|CDD|181169 PRK07921, PRK07921, RNA polymerase sigma factor SigB; Reviewed | Back alignment and domain information |
|---|
Score = 298 bits (764), Expect = 3e-91
Identities = 114/246 (46%), Positives = 179/246 (72%), Gaps = 2/246 (0%)
Query: 380 PLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLM 439
L++ R + + + A+R + EANLRLV+S+AK+YT RG+ LDLIQEGN+GL+
Sbjct: 68 RLSEARKRDLAAVVRD--GEAARRHLLEANLRLVVSLAKRYTGRGMPLLDLIQEGNLGLI 125
Query: 440 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQE 499
+A++KF+Y +G+KFSTYATWWIRQAITR +ADQ+RTIR+PVH++E +NK++RI R++ Q+
Sbjct: 126 RAMEKFDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQ 185
Query: 500 TGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 559
G E +A + +PEEKI +++ +++PVS++ PVG DE++ LGDFIED + +
Sbjct: 186 LGREATDEELAEESGIPEEKIADLLEHSRDPVSLDMPVGSDEEAPLGDFIEDSEATSAEN 245
Query: 560 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 619
A + + + ++ +L +L RE +V+R+RFG++ TL+++GK F ++RER+RQIE +
Sbjct: 246 AVIAGLLHTDIRSVLATLDEREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIERE 305
Query: 620 ALRKLR 625
+ KLR
Sbjct: 306 VMSKLR 311
|
Length = 324 |
| >gnl|CDD|236067 PRK07598, PRK07598, RNA polymerase sigma factor SigC; Validated | Back alignment and domain information |
|---|
Score = 267 bits (685), Expect = 3e-79
Identities = 114/239 (47%), Positives = 172/239 (71%), Gaps = 1/239 (0%)
Query: 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 1249
+AK M +ANLRLV+S+AKKY +RGL+ LDL+QEG +GL +AV+KF+ +GY+FSTYA W
Sbjct: 175 RAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYW 234
Query: 1250 WIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEK 1309
WIRQ ITR+IA Q+RTIR+PVH+ E +NKI + R+I QE G P IA ++EM +
Sbjct: 235 WIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTPTIEDIAQELEMTPTQ 294
Query: 1310 IRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTP 1369
+R+++ VS+E+ VG D+D+ LGD +E ++ ++P + + S++ ++ +L LT
Sbjct: 295 VREVLLRVPRSVSLETKVGKDKDTELGDLLETDD-ISPEEMLMRESLQRDLQHLLADLTS 353
Query: 1370 RESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
RE V+RMRFG+ ++L E+G+ D++RER+RQIE+KAL+KLR P R +++ +LE
Sbjct: 354 RERDVIRMRFGLADGHTYSLAEIGRALDLSRERVRQIESKALQKLRQPKRRNRIRDYLE 412
|
Length = 415 |
| >gnl|CDD|131447 TIGR02394, rpoS_proteo, RNA polymerase sigma factor RpoS | Back alignment and domain information |
|---|
Score = 260 bits (665), Expect = 2e-78
Identities = 108/238 (45%), Positives = 158/238 (66%), Gaps = 3/238 (1%)
Query: 1179 RKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYR 1238
R+ +AG+ +ARK M E+NLRLV+SIAK Y +RGL LDLI+EGN+GLM AV+KF+
Sbjct: 38 RRALAGDFEARKV---MIESNLRLVVSIAKHYVNRGLPLLDLIEEGNLGLMHAVEKFDPE 94
Query: 1239 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSV 1298
RG++FSTYATWWIRQ I R+I +QARTIR+PVH+I+ +N R +RQ+ ++ G EP
Sbjct: 95 RGFRFSTYATWWIRQTIERAIMNQARTIRLPVHVIKELNVYLRAARQLEKKLGREPSVEE 154
Query: 1299 IAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRS 1358
IA ++ P E + +++ + + S+++P+ DD L D I DE + P N ++
Sbjct: 155 IAELLDKPVEDVSRVLALNERITSLDAPLDDDSSKSLLDTIADEQSIDPESLVQNDDLKQ 214
Query: 1359 VVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 1416
+++ L L R+ +VL RFG+ TLEEV + +TRER+RQI+ +AL+KLR
Sbjct: 215 LIEAWLAELNERQREVLARRFGLLGYEPATLEEVAAEVGLTRERVRQIQVEALKKLRR 272
|
A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoS (also called sigma-38, KatF, etc.), found only in Proteobacteria. This sigma factor is induced in stationary phase (in response to the stress of nutrient limitation) and becomes the second prinicipal sigma factor at that time. RpoS is a member of the larger Sigma-70 subfamily (TIGR02937) and most closely related to RpoD (TIGR02393) [Cellular processes, Adaptations to atypical conditions, Transcription, Transcription factors]. Length = 285 |
| >gnl|CDD|131447 TIGR02394, rpoS_proteo, RNA polymerase sigma factor RpoS | Back alignment and domain information |
|---|
Score = 258 bits (662), Expect = 8e-78
Identities = 108/237 (45%), Positives = 158/237 (66%), Gaps = 3/237 (1%)
Query: 389 RKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYR 448
R+ +AG+ +ARK M E+NLRLV+SIAK Y +RGL LDLI+EGN+GLM AV+KF+
Sbjct: 38 RRALAGDFEARKV---MIESNLRLVVSIAKHYVNRGLPLLDLIEEGNLGLMHAVEKFDPE 94
Query: 449 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSV 508
RG++FSTYATWWIRQ I R+I +QARTIR+PVH+I+ +N R +RQ+ ++ G EP
Sbjct: 95 RGFRFSTYATWWIRQTIERAIMNQARTIRLPVHVIKELNVYLRAARQLEKKLGREPSVEE 154
Query: 509 IAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRS 568
IA ++ P E + +++ + + S+++P+ DD L D I DE + P N ++
Sbjct: 155 IAELLDKPVEDVSRVLALNERITSLDAPLDDDSSKSLLDTIADEQSIDPESLVQNDDLKQ 214
Query: 569 VVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
+++ L L R+ +VL RFG+ TLEEV + +TRER+RQI+ +AL+KLR
Sbjct: 215 LIEAWLAELNERQREVLARRFGLLGYEPATLEEVAAEVGLTRERVRQIQVEALKKLR 271
|
A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoS (also called sigma-38, KatF, etc.), found only in Proteobacteria. This sigma factor is induced in stationary phase (in response to the stress of nutrient limitation) and becomes the second prinicipal sigma factor at that time. RpoS is a member of the larger Sigma-70 subfamily (TIGR02937) and most closely related to RpoD (TIGR02393) [Cellular processes, Adaptations to atypical conditions, Transcription, Transcription factors]. Length = 285 |
| >gnl|CDD|236067 PRK07598, PRK07598, RNA polymerase sigma factor SigC; Validated | Back alignment and domain information |
|---|
Score = 257 bits (657), Expect = 2e-75
Identities = 110/226 (48%), Positives = 164/226 (72%), Gaps = 1/226 (0%)
Query: 400 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 459
+AK M +ANLRLV+S+AKKY +RGL+ LDL+QEG +GL +AV+KF+ +GY+FSTYA W
Sbjct: 175 RAKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYW 234
Query: 460 WIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEK 519
WIRQ ITR+IA Q+RTIR+PVH+ E +NKI + R+I QE G P IA ++EM +
Sbjct: 235 WIRQGITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTPTIEDIAQELEMTPTQ 294
Query: 520 IRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTP 579
+R+++ VS+E+ VG D+D+ LGD +E ++ ++P + + S++ ++ +L LT
Sbjct: 295 VREVLLRVPRSVSLETKVGKDKDTELGDLLETDD-ISPEEMLMRESLQRDLQHLLADLTS 353
Query: 580 RESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
RE V+RMRFG+ ++L E+G+ D++RER+RQIE+KAL+KLR
Sbjct: 354 RERDVIRMRFGLADGHTYSLAEIGRALDLSRERVRQIESKALQKLR 399
|
Length = 415 |
| >gnl|CDD|180321 PRK05949, PRK05949, RNA polymerase sigma factor; Validated | Back alignment and domain information |
|---|
Score = 248 bits (636), Expect = 8e-74
Identities = 106/229 (46%), Positives = 167/229 (72%), Gaps = 1/229 (0%)
Query: 397 KARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 456
+ ++AK++M EANLRLV++IAKKY R ++FLDLIQEG +GL + V+KF+ RGYKFSTY
Sbjct: 88 QGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPTRGYKFSTY 147
Query: 457 ATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMP 516
A WWIRQAITR+IA QARTIR+P+H+ E +NKI + R++ Q+ G P+ IA ++E+
Sbjct: 148 AYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQKLGRSATPAEIAKELELE 207
Query: 517 EEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNS 576
+IR+ + +A++P+S++ VGD++D+ L + +EDE +P +R + ++L
Sbjct: 208 PSQIREYLSMARQPISLDVRVGDNQDTELSELLEDEG-PSPDQYITQELLRQDLNNLLAE 266
Query: 577 LTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
LTP++ +VL +RFG+E + +L +VG++ +++RER+RQ+E +AL LR
Sbjct: 267 LTPQQREVLTLRFGLEDGKELSLAKVGERLNLSRERVRQLEHQALAHLR 315
|
Length = 327 |
| >gnl|CDD|180321 PRK05949, PRK05949, RNA polymerase sigma factor; Validated | Back alignment and domain information |
|---|
Score = 248 bits (636), Expect = 8e-74
Identities = 106/229 (46%), Positives = 167/229 (72%), Gaps = 1/229 (0%)
Query: 1187 KARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 1246
+ ++AK++M EANLRLV++IAKKY R ++FLDLIQEG +GL + V+KF+ RGYKFSTY
Sbjct: 88 QGKRAKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPTRGYKFSTY 147
Query: 1247 ATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMP 1306
A WWIRQAITR+IA QARTIR+P+H+ E +NKI + R++ Q+ G P+ IA ++E+
Sbjct: 148 AYWWIRQAITRAIAQQARTIRLPIHITEKLNKIKKTQRELSQKLGRSATPAEIAKELELE 207
Query: 1307 EEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNS 1366
+IR+ + +A++P+S++ VGD++D+ L + +EDE +P +R + ++L
Sbjct: 208 PSQIREYLSMARQPISLDVRVGDNQDTELSELLEDEG-PSPDQYITQELLRQDLNNLLAE 266
Query: 1367 LTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415
LTP++ +VL +RFG+E + +L +VG++ +++RER+RQ+E +AL LR
Sbjct: 267 LTPQQREVLTLRFGLEDGKELSLAKVGERLNLSRERVRQLEHQALAHLR 315
|
Length = 327 |
| >gnl|CDD|180963 PRK07405, PRK07405, RNA polymerase sigma factor SigD; Validated | Back alignment and domain information |
|---|
Score = 239 bits (612), Expect = 1e-70
Identities = 104/241 (43%), Positives = 171/241 (70%), Gaps = 5/241 (2%)
Query: 385 RDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDK 444
++ + GE AKR+M EANLRLV+S+AKKY R + LDLIQEG IG+ + V+K
Sbjct: 70 EELRSAIAEGE----AAKRKMVEANLRLVVSVAKKYLKRNVDLLDLIQEGTIGMQRGVEK 125
Query: 445 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEP 504
F+ +GY+FSTYA WWIRQAITR+IA+++RTIR+P+H+ E +NKI + RQ+ Q+ G
Sbjct: 126 FDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQQLGRAA 185
Query: 505 DPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNA 564
+A ++E+ +++R+ ++ A++P+S++ VGD++D+ LG+ +ED +P D A +
Sbjct: 186 TIGELAEELELTPKQVREYLERARQPLSLDLRVGDNQDTELGELLEDTG-ASPEDFATQS 244
Query: 565 SMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKL 624
S++ ++ ++ LTP++ +V+ +RFG+E TL ++G++ +++RER+RQIE +AL KL
Sbjct: 245 SLQLDLERLMEDLTPQQKEVIALRFGLEDGQPLTLAKIGERLNISRERVRQIEREALSKL 304
Query: 625 R 625
R
Sbjct: 305 R 305
|
Length = 317 |
| >gnl|CDD|180963 PRK07405, PRK07405, RNA polymerase sigma factor SigD; Validated | Back alignment and domain information |
|---|
Score = 239 bits (612), Expect = 1e-70
Identities = 104/241 (43%), Positives = 171/241 (70%), Gaps = 5/241 (2%)
Query: 1175 RDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDK 1234
++ + GE AKR+M EANLRLV+S+AKKY R + LDLIQEG IG+ + V+K
Sbjct: 70 EELRSAIAEGE----AAKRKMVEANLRLVVSVAKKYLKRNVDLLDLIQEGTIGMQRGVEK 125
Query: 1235 FEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEP 1294
F+ +GY+FSTYA WWIRQAITR+IA+++RTIR+P+H+ E +NKI + RQ+ Q+ G
Sbjct: 126 FDPTKGYRFSTYAYWWIRQAITRAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQQLGRAA 185
Query: 1295 DPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNA 1354
+A ++E+ +++R+ ++ A++P+S++ VGD++D+ LG+ +ED +P D A +
Sbjct: 186 TIGELAEELELTPKQVREYLERARQPLSLDLRVGDNQDTELGELLEDTG-ASPEDFATQS 244
Query: 1355 SMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKL 1414
S++ ++ ++ LTP++ +V+ +RFG+E TL ++G++ +++RER+RQIE +AL KL
Sbjct: 245 SLQLDLERLMEDLTPQQKEVIALRFGLEDGQPLTLAKIGERLNISRERVRQIEREALSKL 304
Query: 1415 R 1415
R
Sbjct: 305 R 305
|
Length = 317 |
| >gnl|CDD|235548 PRK05657, PRK05657, RNA polymerase sigma factor RpoS; Validated | Back alignment and domain information |
|---|
Score = 234 bits (599), Expect = 8e-69
Identities = 97/237 (40%), Positives = 154/237 (64%), Gaps = 3/237 (1%)
Query: 389 RKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYR 448
R+ + G+ AR+ M E+NLRLV+ IAK+Y +RGL LDLI+EGN+GL++AV+KF+
Sbjct: 78 RRALRGDFAARQ---RMIESNLRLVVKIAKRYLNRGLALLDLIEEGNLGLIRAVEKFDPE 134
Query: 449 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSV 508
RG++FSTYATWWIRQ I R+I +Q RTIR+PVH+++ +N R +R++ + EP
Sbjct: 135 RGFRFSTYATWWIRQTIERAIMNQTRTIRLPVHVVKELNVYLRAARELEHKLDHEPSAEE 194
Query: 509 IAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRS 568
IA ++ P + + +++ + + S+++P+G D + L D + DE P D + M+
Sbjct: 195 IAELLDKPVDDVSRMLALNERITSLDTPLGGDPEKSLLDILADEQENGPEDTTQDDDMKQ 254
Query: 569 VVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
+ L L ++ +VL RFG+ TLE+V ++ +TRER+RQI+ +ALR+LR
Sbjct: 255 SIVKWLFELNDKQREVLARRFGLLGYEAATLEDVAREIGLTRERVRQIQVEALRRLR 311
|
Length = 325 |
| >gnl|CDD|235548 PRK05657, PRK05657, RNA polymerase sigma factor RpoS; Validated | Back alignment and domain information |
|---|
Score = 234 bits (599), Expect = 8e-69
Identities = 97/237 (40%), Positives = 154/237 (64%), Gaps = 3/237 (1%)
Query: 1179 RKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYR 1238
R+ + G+ AR+ M E+NLRLV+ IAK+Y +RGL LDLI+EGN+GL++AV+KF+
Sbjct: 78 RRALRGDFAARQ---RMIESNLRLVVKIAKRYLNRGLALLDLIEEGNLGLIRAVEKFDPE 134
Query: 1239 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSV 1298
RG++FSTYATWWIRQ I R+I +Q RTIR+PVH+++ +N R +R++ + EP
Sbjct: 135 RGFRFSTYATWWIRQTIERAIMNQTRTIRLPVHVVKELNVYLRAARELEHKLDHEPSAEE 194
Query: 1299 IAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRS 1358
IA ++ P + + +++ + + S+++P+G D + L D + DE P D + M+
Sbjct: 195 IAELLDKPVDDVSRMLALNERITSLDTPLGGDPEKSLLDILADEQENGPEDTTQDDDMKQ 254
Query: 1359 VVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415
+ L L ++ +VL RFG+ TLE+V ++ +TRER+RQI+ +ALR+LR
Sbjct: 255 SIVKWLFELNDKQREVLARRFGLLGYEAATLEDVAREIGLTRERVRQIQVEALRRLR 311
|
Length = 325 |
| >gnl|CDD|203043 pfam04546, Sigma70_ner, Sigma-70, non-essential region | Back alignment and domain information |
|---|
Score = 171 bits (436), Expect = 2e-48
Identities = 59/211 (27%), Positives = 100/211 (47%), Gaps = 7/211 (3%)
Query: 171 CPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVI-------KGNKNNNEEKIL 223
P I +L D++ E ++ +++ G ID N ++ +++
Sbjct: 1 YPGAIAYLLEQYDRVEAGEGRLSDLISGFIDPNAAAAAATAAAIESELDEEDLEDDDDDD 60
Query: 224 IESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEML 283
+ D L E+ +F+ + ++K RKA EK G S+ KA ++ E +
Sbjct: 61 EDEDEDDEEEADLGPDPEEARERFAELREQYEKTRKAIEKHGRGSKKAQKAREALAEEFM 120
Query: 284 GIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVD 343
R K ++L D LR +++V E+QI+++ V + MPR FIK FP NE NL+W+D
Sbjct: 121 QFRLVPKQFDRLVDNLRGMVDRVRAQERQIMKLCVERAKMPRKDFIKSFPGNETNLDWLD 180
Query: 344 NETKIQHDYNLILCRNIPSIKELQQKLINLQ 374
+ Y L R P I+ QQKLI+++
Sbjct: 181 ELLAAKKPYAEALERVKPDIQRAQQKLIDIE 211
|
The domain is found in the primary vegetative sigma factor. The function of this domain is unclear and can be removed without loss of function. Length = 211 |
| >gnl|CDD|203043 pfam04546, Sigma70_ner, Sigma-70, non-essential region | Back alignment and domain information |
|---|
Score = 171 bits (436), Expect = 2e-48
Identities = 59/211 (27%), Positives = 100/211 (47%), Gaps = 7/211 (3%)
Query: 961 CPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVI-------KGNKNNNEEKIL 1013
P I +L D++ E ++ +++ G ID N ++ +++
Sbjct: 1 YPGAIAYLLEQYDRVEAGEGRLSDLISGFIDPNAAAAAATAAAIESELDEEDLEDDDDDD 60
Query: 1014 IESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEML 1073
+ D L E+ +F+ + ++K RKA EK G S+ KA ++ E +
Sbjct: 61 EDEDEDDEEEADLGPDPEEARERFAELREQYEKTRKAIEKHGRGSKKAQKAREALAEEFM 120
Query: 1074 GIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVD 1133
R K ++L D LR +++V E+QI+++ V + MPR FIK FP NE NL+W+D
Sbjct: 121 QFRLVPKQFDRLVDNLRGMVDRVRAQERQIMKLCVERAKMPRKDFIKSFPGNETNLDWLD 180
Query: 1134 NETKIQHDYNLILCRNIPSIKELQQKLINLQ 1164
+ Y L R P I+ QQKLI+++
Sbjct: 181 ELLAAKKPYAEALERVKPDIQRAQQKLIDIE 211
|
The domain is found in the primary vegetative sigma factor. The function of this domain is unclear and can be removed without loss of function. Length = 211 |
| >gnl|CDD|235551 PRK05667, dnaG, DNA primase; Validated | Back alignment and domain information |
|---|
Score = 142 bits (360), Expect = 6e-35
Identities = 53/120 (44%), Positives = 64/120 (53%), Gaps = 21/120 (17%)
Query: 706 ETPLFHKSNELYGLFEAKNAIGKSGYVLITEGYMDVIGLSQFGF---------------- 749
ETPLFHK LYGL EA+ AI K V++ EGYMDVI L Q G
Sbjct: 230 ETPLFHKGRVLYGLDEARKAIAKKKQVIVVEGYMDVIALHQAGITNAVASLGTALTEEHL 289
Query: 750 -----FANSSYTCFDGDQAGRRAARRALEVCLLYATDDKIIKFLFLPDKYDPDSYIRKFG 804
+ CFDGD+AGR+AA RALE+ L D + ++ FLPD DPD +RK G
Sbjct: 290 KLLRRLTDEVILCFDGDKAGRKAALRALELALPLLKDGRQVRVAFLPDGKDPDDLVRKEG 349
|
Length = 580 |
| >gnl|CDD|234078 TIGR02980, SigBFG, RNA polymerase sigma-70 factor, sigma-B/F/G subfamily | Back alignment and domain information |
|---|
Score = 130 bits (328), Expect = 7e-34
Identities = 73/233 (31%), Positives = 126/233 (54%), Gaps = 17/233 (7%)
Query: 399 RKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 458
++A+ ++ E NL LV SIA+++ +RG DL+Q G IGL+KA+D+F+ G KFST+A
Sbjct: 2 KEAREKLVELNLPLVRSIARRFRNRGEPHEDLVQVGTIGLVKAIDRFDPSYGVKFSTFAV 61
Query: 459 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEE 518
I I R D +R+P + E KI++ + ++ Q G P + IA ++ + EE
Sbjct: 62 PTIMGEIKRFFRDDTWAVRVPRRLKELGVKINKATEELTQRLGRSPTIAEIAERLGVSEE 121
Query: 519 KIRKIMKIAK--EPVSMESPVGDDEDS--HLGDFIEDENMLAPSDAALN-ASMRSVVKDI 573
++ + ++ + +S+++ + DD+ L D + DE D AL R +K +
Sbjct: 122 EVVEALEAGNAYQALSLDASIEDDDGDPIALLDTLGDE------DDALETVEDRLALKPL 175
Query: 574 LNSLTPRESKVLRMRFGIEMSSDHTLEEVG-KQFDVTRERIRQIEAKALRKLR 625
L +L RE ++L +RF + + E +G Q V+R + +AL+KLR
Sbjct: 176 LAALPERERRILLLRFFEDKTQSEIAERLGISQMHVSR-----LLRRALKKLR 223
|
This group of similar sigma-70 factors includes clades found in Bacilli (including the sporulation factors SigF:TIGR02885 and SigG:TIGR02850 as well as SigB:TIGR02941), and the high GC gram positive bacteria (Actinobacteria) where a variable number of them are found depending on the lineage. Length = 227 |
| >gnl|CDD|234078 TIGR02980, SigBFG, RNA polymerase sigma-70 factor, sigma-B/F/G subfamily | Back alignment and domain information |
|---|
Score = 130 bits (328), Expect = 7e-34
Identities = 73/233 (31%), Positives = 126/233 (54%), Gaps = 17/233 (7%)
Query: 1189 RKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 1248
++A+ ++ E NL LV SIA+++ +RG DL+Q G IGL+KA+D+F+ G KFST+A
Sbjct: 2 KEAREKLVELNLPLVRSIARRFRNRGEPHEDLVQVGTIGLVKAIDRFDPSYGVKFSTFAV 61
Query: 1249 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEE 1308
I I R D +R+P + E KI++ + ++ Q G P + IA ++ + EE
Sbjct: 62 PTIMGEIKRFFRDDTWAVRVPRRLKELGVKINKATEELTQRLGRSPTIAEIAERLGVSEE 121
Query: 1309 KIRKIMKIAK--EPVSMESPVGDDEDS--HLGDFIEDENMLAPSDAALN-ASMRSVVKDI 1363
++ + ++ + +S+++ + DD+ L D + DE D AL R +K +
Sbjct: 122 EVVEALEAGNAYQALSLDASIEDDDGDPIALLDTLGDE------DDALETVEDRLALKPL 175
Query: 1364 LNSLTPRESKVLRMRFGIEMSSDHTLEEVG-KQFDVTRERIRQIEAKALRKLR 1415
L +L RE ++L +RF + + E +G Q V+R + +AL+KLR
Sbjct: 176 LAALPERERRILLLRFFEDKTQSEIAERLGISQMHVSR-----LLRRALKKLR 223
|
This group of similar sigma-70 factors includes clades found in Bacilli (including the sporulation factors SigF:TIGR02885 and SigG:TIGR02850 as well as SigB:TIGR02941), and the high GC gram positive bacteria (Actinobacteria) where a variable number of them are found depending on the lineage. Length = 227 |
| >gnl|CDD|224112 COG1191, FliA, DNA-directed RNA polymerase specialized sigma subunit [Transcription] | Back alignment and domain information |
|---|
Score = 118 bits (297), Expect = 2e-29
Identities = 68/248 (27%), Positives = 126/248 (50%), Gaps = 17/248 (6%)
Query: 1172 NDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFL-DLIQEGNIGLMK 1230
+ + G+ +AR+ + E L LV SIA+K+ +RG DLIQ G IGL+K
Sbjct: 9 EEEEKLLEYYAEGDEEARR----LIERYLPLVKSIARKFENRGPSEYDDLIQIGMIGLIK 64
Query: 1231 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQET 1290
A+++++ +G KFSTYA IR I + ++++P + E +I ++ QE
Sbjct: 65 AIERYDPSKGTKFSTYAVRRIRGEILDYLRKND-SVKVPRSLRELGRRIEEAIDELEQEL 123
Query: 1291 GSEPDPSVIAIKMEMPEEKIRKIMKIAK--EPVSMESPVGDDEDSHLGDFIEDENMLAPS 1348
G EP IA ++ + +E+ + + + +S++ V D+D + D IE+ +
Sbjct: 124 GREPTDEEIAEELGIDKEEYIEALLAINGSQLLSLDEDVLKDDDDDVDDQIENPD----- 178
Query: 1349 DAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEA 1408
D + ++K+ + L RE VL +R+ E+ T +E+ + ++ R+ ++
Sbjct: 179 DGVEKEELLEILKEAIEPLPEREKLVLVLRYKEEL----TQKEIAEVLGISESRVSRLHK 234
Query: 1409 KALRKLRH 1416
KA++KLR
Sbjct: 235 KAIKKLRK 242
|
Length = 247 |
| >gnl|CDD|224112 COG1191, FliA, DNA-directed RNA polymerase specialized sigma subunit [Transcription] | Back alignment and domain information |
|---|
Score = 117 bits (294), Expect = 4e-29
Identities = 68/247 (27%), Positives = 126/247 (51%), Gaps = 17/247 (6%)
Query: 382 NDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFL-DLIQEGNIGLMK 440
+ + G+ +AR+ + E L LV SIA+K+ +RG DLIQ G IGL+K
Sbjct: 9 EEEEKLLEYYAEGDEEARR----LIERYLPLVKSIARKFENRGPSEYDDLIQIGMIGLIK 64
Query: 441 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQET 500
A+++++ +G KFSTYA IR I + ++++P + E +I ++ QE
Sbjct: 65 AIERYDPSKGTKFSTYAVRRIRGEILDYLRKND-SVKVPRSLRELGRRIEEAIDELEQEL 123
Query: 501 GSEPDPSVIAIKMEMPEEKIRKIMKIAK--EPVSMESPVGDDEDSHLGDFIEDENMLAPS 558
G EP IA ++ + +E+ + + + +S++ V D+D + D IE+ +
Sbjct: 124 GREPTDEEIAEELGIDKEEYIEALLAINGSQLLSLDEDVLKDDDDDVDDQIENPD----- 178
Query: 559 DAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEA 618
D + ++K+ + L RE VL +R+ E+ T +E+ + ++ R+ ++
Sbjct: 179 DGVEKEELLEILKEAIEPLPEREKLVLVLRYKEEL----TQKEIAEVLGISESRVSRLHK 234
Query: 619 KALRKLR 625
KA++KLR
Sbjct: 235 KAIKKLR 241
|
Length = 247 |
| >gnl|CDD|236033 PRK07500, rpoH2, RNA polymerase factor sigma-32; Reviewed | Back alignment and domain information |
|---|
Score = 118 bits (297), Expect = 6e-29
Identities = 75/252 (29%), Positives = 125/252 (49%), Gaps = 41/252 (16%)
Query: 399 RKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 458
A + A++RLVIS+A K+ GL DLIQEG +GL++A +FE R +FSTYAT
Sbjct: 39 EDALHRIISAHMRLVISMAGKFRRFGLPMNDLIQEGYVGLLEAAARFEPDREVRFSTYAT 98
Query: 459 WWIRQAITRSI-------------ADQA-----RTIRIPVHMIETINKISRISRQILQET 500
WWIR +I I A +A R +R +R+++ + T
Sbjct: 99 WWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLR------------ARLAQADEELT 146
Query: 501 GSEPDPSVIAIKMEMPEEKIRKIM--KIAKEPVSMESPVGDDEDSHLG--DFIEDENMLA 556
E IA + + + ++M +++ S+ +P ++++ DF+ D++ L
Sbjct: 147 KQEIHRE-IATALGVSLSDV-EMMDARLSGPDASLNAPQSEEDEGRSERMDFLVDDSPLP 204
Query: 557 P---SDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERI 613
+ R + L +L RE +++R R E + TLE +G++ +++ER+
Sbjct: 205 DEQVESSIDGERRRRWLTQALQTLNERELRIIRERRLREDGA--TLEALGEELGISKERV 262
Query: 614 RQIEAKALRKLR 625
RQIEA+AL KLR
Sbjct: 263 RQIEARALEKLR 274
|
Length = 289 |
| >gnl|CDD|236033 PRK07500, rpoH2, RNA polymerase factor sigma-32; Reviewed | Back alignment and domain information |
|---|
Score = 118 bits (297), Expect = 6e-29
Identities = 75/252 (29%), Positives = 125/252 (49%), Gaps = 41/252 (16%)
Query: 1189 RKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 1248
A + A++RLVIS+A K+ GL DLIQEG +GL++A +FE R +FSTYAT
Sbjct: 39 EDALHRIISAHMRLVISMAGKFRRFGLPMNDLIQEGYVGLLEAAARFEPDREVRFSTYAT 98
Query: 1249 WWIRQAITRSI-------------ADQA-----RTIRIPVHMIETINKISRISRQILQET 1290
WWIR +I I A +A R +R +R+++ + T
Sbjct: 99 WWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLR------------ARLAQADEELT 146
Query: 1291 GSEPDPSVIAIKMEMPEEKIRKIM--KIAKEPVSMESPVGDDEDSHLG--DFIEDENMLA 1346
E IA + + + ++M +++ S+ +P ++++ DF+ D++ L
Sbjct: 147 KQEIHRE-IATALGVSLSDV-EMMDARLSGPDASLNAPQSEEDEGRSERMDFLVDDSPLP 204
Query: 1347 P---SDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERI 1403
+ R + L +L RE +++R R E + TLE +G++ +++ER+
Sbjct: 205 DEQVESSIDGERRRRWLTQALQTLNERELRIIRERRLREDGA--TLEALGEELGISKERV 262
Query: 1404 RQIEAKALRKLR 1415
RQIEA+AL KLR
Sbjct: 263 RQIEARALEKLR 274
|
Length = 289 |
| >gnl|CDD|233844 TIGR02392, rpoH_proteo, alternative sigma factor RpoH | Back alignment and domain information |
|---|
Score = 116 bits (293), Expect = 1e-28
Identities = 72/240 (30%), Positives = 124/240 (51%), Gaps = 21/240 (8%)
Query: 399 RKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 458
A +++ ++LR V+ IA+ Y GL DLIQEGNIGLMKAV +F+ RG + ++A
Sbjct: 34 LDAAKKLVLSHLRFVVKIARGYRGYGLPQADLIQEGNIGLMKAVKRFDPERGVRLVSFAV 93
Query: 459 WWIRQAITRSIADQARTIRIPVHMIETINKIS-----RISRQILQETGSEPDPSVIAIKM 513
WI+ I I R R+ V + T + R ++ LQ + + IA ++
Sbjct: 94 HWIKAEIHEYI---LRNWRL-VKVATTKAQRKLFFNLRKMKKRLQGWLNPEEVEAIAEEL 149
Query: 514 EMPEEKIRKI-MKIAKEPVSMESPVGDDEDS------HLGDFIED-ENMLAPSDAALNAS 565
+ E ++R++ +++ + +S+ + + DDED +L D D E+ L
Sbjct: 150 GVSEREVREMESRLSGQDMSLNASIDDDEDDGGAPIAYLVDKRSDPEDTLEEEQWEELQ- 208
Query: 566 MRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
R + + L SL R +++ R+ + TL+E+ ++ V+ ERIRQIE A++KL+
Sbjct: 209 -RQALANALGSLDARSRRIIEARWLDDDKL--TLQELAAEYGVSAERIRQIEKNAMKKLK 265
|
A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoH and further restricted to the Proteobacteria. This protein may be called sigma-32, sigma factor H, heat shock sigma factor, and alternative sigma factor RpoH. Note that in some species the single locus rpoH may be replaced by two or more differentially regulated stress response sigma factors [Cellular processes, Adaptations to atypical conditions, Transcription, Transcription factors]. Length = 270 |
| >gnl|CDD|233844 TIGR02392, rpoH_proteo, alternative sigma factor RpoH | Back alignment and domain information |
|---|
Score = 116 bits (293), Expect = 1e-28
Identities = 72/240 (30%), Positives = 124/240 (51%), Gaps = 21/240 (8%)
Query: 1189 RKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 1248
A +++ ++LR V+ IA+ Y GL DLIQEGNIGLMKAV +F+ RG + ++A
Sbjct: 34 LDAAKKLVLSHLRFVVKIARGYRGYGLPQADLIQEGNIGLMKAVKRFDPERGVRLVSFAV 93
Query: 1249 WWIRQAITRSIADQARTIRIPVHMIETINKIS-----RISRQILQETGSEPDPSVIAIKM 1303
WI+ I I R R+ V + T + R ++ LQ + + IA ++
Sbjct: 94 HWIKAEIHEYI---LRNWRL-VKVATTKAQRKLFFNLRKMKKRLQGWLNPEEVEAIAEEL 149
Query: 1304 EMPEEKIRKI-MKIAKEPVSMESPVGDDEDS------HLGDFIED-ENMLAPSDAALNAS 1355
+ E ++R++ +++ + +S+ + + DDED +L D D E+ L
Sbjct: 150 GVSEREVREMESRLSGQDMSLNASIDDDEDDGGAPIAYLVDKRSDPEDTLEEEQWEELQ- 208
Query: 1356 MRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415
R + + L SL R +++ R+ + TL+E+ ++ V+ ERIRQIE A++KL+
Sbjct: 209 -RQALANALGSLDARSRRIIEARWLDDDKL--TLQELAAEYGVSAERIRQIEKNAMKKLK 265
|
A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoH and further restricted to the Proteobacteria. This protein may be called sigma-32, sigma factor H, heat shock sigma factor, and alternative sigma factor RpoH. Note that in some species the single locus rpoH may be replaced by two or more differentially regulated stress response sigma factors [Cellular processes, Adaptations to atypical conditions, Transcription, Transcription factors]. Length = 270 |
| >gnl|CDD|233392 TIGR01391, dnaG, DNA primase, catalytic core | Back alignment and domain information |
|---|
Score = 113 bits (285), Expect = 2e-26
Identities = 59/167 (35%), Positives = 79/167 (47%), Gaps = 36/167 (21%)
Query: 706 ETPLFHKSNELYGLFEAKNAIGKSGYVLITEGYMDVIGLSQFGF---------------- 749
ETPLF KS LYGL +A+ I K +++ EGYMDVI L Q G
Sbjct: 234 ETPLFKKSELLYGLHKARKEIRKEKELILVEGYMDVIALHQAGIKNAVASLGTALTEEHI 293
Query: 750 -----FANSSYTCFDGDQAGRRAARRALEVCLLYATDDKIIKFLFLPDKYDPDSYIRKFG 804
+A+ CFDGD+AGR+AA RA+E+ L +K + LP DPD Y+RK G
Sbjct: 294 KLLKRYADEIILCFDGDKAGRKAALRAIELLLPLG---INVKVIKLPGGKDPDEYLRKEG 350
Query: 805 YKIFSK-----KNAFSFDIKS-------NSREEIENLRKKFKILIKL 839
+ K K+ F I ++ EE L ++ LIK
Sbjct: 351 VEALKKLLENSKSLIEFLIARLLSNYNLDTPEEKAKLVEELLPLIKK 397
|
Members of this family are DNA primase, a ubiquitous bacteria protein. Most members of this family contain nearly two hundred additional residues C-terminal to the region represented here, but conservation between species is poor and the C-terminal region was not included in the seed alignment. This protein contains a CHC2 zinc finger (pfam01807) and a Toprim domain (pfam01751) [DNA metabolism, DNA replication, recombination, and repair]. Length = 415 |
| >gnl|CDD|233885 TIGR02479, FliA_WhiG, RNA polymerase sigma factor, FliA/WhiG family | Back alignment and domain information |
|---|
Score = 104 bits (262), Expect = 5e-25
Identities = 61/203 (30%), Positives = 102/203 (50%), Gaps = 16/203 (7%)
Query: 429 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI---TRSIADQARTIRIPVHMIET 485
DLIQ G GL+ A+++++ RG KF TYA IR A+ R + R++R +E
Sbjct: 28 DLIQAGMFGLLDAIERYDPSRGAKFETYAVQRIRGAMLDELRRLDWVPRSLRQKARKLE- 86
Query: 486 INKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMK--IAKEPVSMESPVGDDEDS 543
R R++ G EP IA ++ M ++ R+ + A VS++ + +D
Sbjct: 87 -----RAIRELEARLGREPTEEEIAEELGMDLKEYRQALNEINALSLVSLDELLESGDDG 141
Query: 544 H-LGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEV 602
L D IED+ P + +R + + + SL+ RE VL + + E+ L+E+
Sbjct: 142 GSLIDRIEDDKSEDPEEELEREELREALAEAIESLSEREQLVLSLYYYEEL----NLKEI 197
Query: 603 GKQFDVTRERIRQIEAKALRKLR 625
G+ +T R+ QI ++AL+KLR
Sbjct: 198 GEVLGLTESRVSQIHSQALKKLR 220
|
Most members of this family are the flagellar operon sigma factor FliA, controlling transcription of bacterial flagellar genes by RNA polymerase. An exception is the sigma factor WhiG in the genus Streptomyces, involved in the production of sporulating aerial mycelium. Length = 224 |
| >gnl|CDD|233885 TIGR02479, FliA_WhiG, RNA polymerase sigma factor, FliA/WhiG family | Back alignment and domain information |
|---|
Score = 104 bits (262), Expect = 5e-25
Identities = 61/203 (30%), Positives = 102/203 (50%), Gaps = 16/203 (7%)
Query: 1219 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI---TRSIADQARTIRIPVHMIET 1275
DLIQ G GL+ A+++++ RG KF TYA IR A+ R + R++R +E
Sbjct: 28 DLIQAGMFGLLDAIERYDPSRGAKFETYAVQRIRGAMLDELRRLDWVPRSLRQKARKLE- 86
Query: 1276 INKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMK--IAKEPVSMESPVGDDEDS 1333
R R++ G EP IA ++ M ++ R+ + A VS++ + +D
Sbjct: 87 -----RAIRELEARLGREPTEEEIAEELGMDLKEYRQALNEINALSLVSLDELLESGDDG 141
Query: 1334 H-LGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEV 1392
L D IED+ P + +R + + + SL+ RE VL + + E+ L+E+
Sbjct: 142 GSLIDRIEDDKSEDPEEELEREELREALAEAIESLSEREQLVLSLYYYEEL----NLKEI 197
Query: 1393 GKQFDVTRERIRQIEAKALRKLR 1415
G+ +T R+ QI ++AL+KLR
Sbjct: 198 GEVLGLTESRVSQIHSQALKKLR 220
|
Most members of this family are the flagellar operon sigma factor FliA, controlling transcription of bacterial flagellar genes by RNA polymerase. An exception is the sigma factor WhiG in the genus Streptomyces, involved in the production of sporulating aerial mycelium. Length = 224 |
| >gnl|CDD|146934 pfam04539, Sigma70_r3, Sigma-70 region 3 | Back alignment and domain information |
|---|
Score = 95.4 bits (238), Expect = 1e-23
Identities = 36/78 (46%), Positives = 56/78 (71%)
Query: 484 ETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS 543
E +NKI R R++ QE G EP P IA ++ + EEK+R++++ A+EPVS++ PVG++ED
Sbjct: 1 ELLNKIKRAQRELEQELGREPTPEEIAEELGISEEKVREVLEAAREPVSLDLPVGEEEDG 60
Query: 544 HLGDFIEDENMLAPSDAA 561
LGD +ED++ +P DA
Sbjct: 61 ELGDLLEDDDAESPEDAV 78
|
Region 3 forms a discrete compact three helical domain within the sigma-factor. Region is not normally involved in the recognition of promoter DNA, but as some specific bacterial promoters containing an extended -10 promoter element, residues within region 3 play an important role. Region 3 primarily is involved in binding the core RNA polymerase in the holoenzyme. Length = 78 |
| >gnl|CDD|146934 pfam04539, Sigma70_r3, Sigma-70 region 3 | Back alignment and domain information |
|---|
Score = 95.4 bits (238), Expect = 1e-23
Identities = 36/78 (46%), Positives = 56/78 (71%)
Query: 1274 ETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS 1333
E +NKI R R++ QE G EP P IA ++ + EEK+R++++ A+EPVS++ PVG++ED
Sbjct: 1 ELLNKIKRAQRELEQELGREPTPEEIAEELGISEEKVREVLEAAREPVSLDLPVGEEEDG 60
Query: 1334 HLGDFIEDENMLAPSDAA 1351
LGD +ED++ +P DA
Sbjct: 61 ELGDLLEDDDAESPEDAV 78
|
Region 3 forms a discrete compact three helical domain within the sigma-factor. Region is not normally involved in the recognition of promoter DNA, but as some specific bacterial promoters containing an extended -10 promoter element, residues within region 3 play an important role. Region 3 primarily is involved in binding the core RNA polymerase in the holoenzyme. Length = 78 |
| >gnl|CDD|131897 TIGR02850, spore_sigG, RNA polymerase sigma-G factor | Back alignment and domain information |
|---|
Score = 100 bits (250), Expect = 3e-23
Identities = 71/250 (28%), Positives = 132/250 (52%), Gaps = 15/250 (6%)
Query: 378 VLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIG 437
VL ++R++ +M +G+ AR+ ++ NLRLV+S+ +++ +RG DL Q G IG
Sbjct: 15 VLKNQEMRELFIRMQSGDTTARE---KLINGNLRLVLSVIQRFNNRGEYVDDLFQVGCIG 71
Query: 438 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQIL 497
LMK++D F+ + KFSTYA I I R + D IR+ + + K ++ +++
Sbjct: 72 LMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDN-NPIRVSRSLRDIAYKALQVRDKLI 130
Query: 498 QETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDD--EDSHLGDFIEDENML 555
E EP S IA ++++P+E++ + ++PVS+ P+ +D + ++ D I DE
Sbjct: 131 SENSKEPTVSEIAKELKVPQEEVVFALDAIQDPVSLFEPIYNDGGDPIYVMDQISDE--- 187
Query: 556 APSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQ 615
+ +K+ + L RE +L MRF T EV ++ +++ ++ +
Sbjct: 188 --KNKDSQWLEGIALKEAMKRLNEREKMILNMRF----FEGKTQMEVAEEIGISQAQVSR 241
Query: 616 IEAKALRKLR 625
+E AL+ +R
Sbjct: 242 LEKAALKHMR 251
|
Members of this family comprise the Firmicutes lineage endospore formation-specific sigma factor SigG. It is also desginated stage III sporulation protein G (SpoIIIG). This protein is rather closely related to sigma-F (SpoIIAC), another sporulation sigma factor [Transcription, Transcription factors, Cellular processes, Sporulation and germination]. Length = 254 |
| >gnl|CDD|131897 TIGR02850, spore_sigG, RNA polymerase sigma-G factor | Back alignment and domain information |
|---|
Score = 100 bits (250), Expect = 3e-23
Identities = 71/250 (28%), Positives = 132/250 (52%), Gaps = 15/250 (6%)
Query: 1168 VLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIG 1227
VL ++R++ +M +G+ AR+ ++ NLRLV+S+ +++ +RG DL Q G IG
Sbjct: 15 VLKNQEMRELFIRMQSGDTTARE---KLINGNLRLVLSVIQRFNNRGEYVDDLFQVGCIG 71
Query: 1228 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQIL 1287
LMK++D F+ + KFSTYA I I R + D IR+ + + K ++ +++
Sbjct: 72 LMKSIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDN-NPIRVSRSLRDIAYKALQVRDKLI 130
Query: 1288 QETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDD--EDSHLGDFIEDENML 1345
E EP S IA ++++P+E++ + ++PVS+ P+ +D + ++ D I DE
Sbjct: 131 SENSKEPTVSEIAKELKVPQEEVVFALDAIQDPVSLFEPIYNDGGDPIYVMDQISDE--- 187
Query: 1346 APSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQ 1405
+ +K+ + L RE +L MRF T EV ++ +++ ++ +
Sbjct: 188 --KNKDSQWLEGIALKEAMKRLNEREKMILNMRF----FEGKTQMEVAEEIGISQAQVSR 241
Query: 1406 IEAKALRKLR 1415
+E AL+ +R
Sbjct: 242 LEKAALKHMR 251
|
Members of this family comprise the Firmicutes lineage endospore formation-specific sigma factor SigG. It is also desginated stage III sporulation protein G (SpoIIIG). This protein is rather closely related to sigma-F (SpoIIAC), another sporulation sigma factor [Transcription, Transcription factors, Cellular processes, Sporulation and germination]. Length = 254 |
| >gnl|CDD|218138 pfam04542, Sigma70_r2, Sigma-70 region 2 | Back alignment and domain information |
|---|
Score = 94.2 bits (235), Expect = 3e-23
Identities = 30/71 (42%), Positives = 44/71 (61%)
Query: 405 MTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 464
+ E L LV S+A++Y G DL+QEG +GL++AV++F+ RG FST+ IR A
Sbjct: 1 LVERYLPLVYSLARRYLGDGADAEDLVQEGFLGLLRAVERFDPERGVSFSTWLYTIIRNA 60
Query: 465 ITRSIADQART 475
I ++ Q RT
Sbjct: 61 IIDALRKQRRT 71
|
Region 2 of sigma-70 is the most conserved region of the entire protein. All members of this class of sigma-factor contain region 2. The high conservation is due to region 2 containing both the -10 promoter recognition helix and the primary core RNA polymerase binding determinant. The core binding helix, interacts with the clamp domain of the largest polymerase subunit, beta prime. The aromatic residues of the recognition helix, found at the C-terminus of this domain are though to mediate strand separation, thereby allowing transcription initiation. Length = 71 |
| >gnl|CDD|218138 pfam04542, Sigma70_r2, Sigma-70 region 2 | Back alignment and domain information |
|---|
Score = 94.2 bits (235), Expect = 3e-23
Identities = 30/71 (42%), Positives = 44/71 (61%)
Query: 1195 MTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 1254
+ E L LV S+A++Y G DL+QEG +GL++AV++F+ RG FST+ IR A
Sbjct: 1 LVERYLPLVYSLARRYLGDGADAEDLVQEGFLGLLRAVERFDPERGVSFSTWLYTIIRNA 60
Query: 1255 ITRSIADQART 1265
I ++ Q RT
Sbjct: 61 IIDALRKQRRT 71
|
Region 2 of sigma-70 is the most conserved region of the entire protein. All members of this class of sigma-factor contain region 2. The high conservation is due to region 2 containing both the -10 promoter recognition helix and the primary core RNA polymerase binding determinant. The core binding helix, interacts with the clamp domain of the largest polymerase subunit, beta prime. The aromatic residues of the recognition helix, found at the C-terminus of this domain are though to mediate strand separation, thereby allowing transcription initiation. Length = 71 |
| >gnl|CDD|223435 COG0358, DnaG, DNA primase (bacterial type) [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
Score = 104 bits (261), Expect = 7e-23
Identities = 76/354 (21%), Positives = 130/354 (36%), Gaps = 37/354 (10%)
Query: 706 ETPLFHKSNELYGLFEAKNAIGKSGYVLITEGYMDVIGLSQFGF---------------- 749
ET LF K ELYGL A+ I K+ +++ EGYMDVI L + G
Sbjct: 224 ETELFKKGEELYGLDPARKKIAKADQIIVVEGYMDVIALHKAGIKNAVASLGTALTEEHI 283
Query: 750 -----FANSSYTCFDGDQAGRRAARRALEVCLLYATDDKIIKFLFLPDKYDPDSYIRKFG 804
CFDGD+AGR+AA+RAL++ L + + LPD DPD IRK G
Sbjct: 284 KLLSRGKKKVILCFDGDRAGRKAAKRALQLVLPLDFV--GVFVILLPDGKDPDELIRKEG 341
Query: 805 YKIFSKKNAFSFDIKSNSREEIENLRKKFK--ILIKLGKERGYLTFSEINDFLPEDIIDH 862
A + + IE L + L GK R + +P++++
Sbjct: 342 ------AEALRKKLPNERLPLIEFLIEYLIPSNLDTEGKARLVEEAVPLIKVIPDEVLRD 395
Query: 863 EIIESIIKTFRYMD--ISVSEHVLDTETLMLSNITSDDDVEEATEAALSTVDSDFG-RTK 919
++ + + D + + + + + + A +
Sbjct: 396 YYLQKLAELLGISDDALLQLQVQPEKKATQSPFKQNPGRIAIALLVQNPVLAPKQPILKA 455
Query: 920 DPIKMYMREMGSVELLTRD-GEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKN 978
+ ++ + ELL G EI R + L + + ++E+L +SK
Sbjct: 456 LLERPLLKLLLFEELLLELFGTPEIDARFLDELFQSLFEVLL--EELVELLDINLLVSKA 513
Query: 979 EIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYE 1032
I D ++ L + + +K ++ L + DL+ +
Sbjct: 514 AIVFDGVITLLQRLLDQALEKGLKNLIGAKKKSGLNKKPKEDLNVLTKDLQLEL 567
|
Length = 568 |
| >gnl|CDD|181296 PRK08215, PRK08215, sporulation sigma factor SigG; Reviewed | Back alignment and domain information |
|---|
Score = 94.6 bits (236), Expect = 3e-21
Identities = 74/259 (28%), Positives = 129/259 (49%), Gaps = 33/259 (12%)
Query: 378 VLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIG 437
VL ++R++ +M G+ +AR+ ++ NLRLV+S+ +++ +RG DL Q G IG
Sbjct: 18 VLKNEEMRELFERMQNGDKEARE---KLINGNLRLVLSVIQRFNNRGENVDDLFQVGCIG 74
Query: 438 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQIL 497
LMKA+D F+ + KFSTYA I I R + D IR+ + + K ++ +++
Sbjct: 75 LMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDN-NPIRVSRSLRDIAYKALQVREKLI 133
Query: 498 QETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFI-------- 549
E EP IA ++E+P E++ + ++PVS+ P+ D GD I
Sbjct: 134 NENSKEPTVEEIAKELEVPREEVVFALDAIQDPVSLFEPIYHDG----GDPIYVMDQISD 189
Query: 550 ---EDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQF 606
+DEN L +K+ + L RE +L +RF T EV ++
Sbjct: 190 EKNKDENWLE----------EIALKEAMKKLNDREKLILNLRF----FQGKTQMEVAEEI 235
Query: 607 DVTRERIRQIEAKALRKLR 625
+++ ++ ++E AL+ +R
Sbjct: 236 GISQAQVSRLEKAALKHMR 254
|
Length = 258 |
| >gnl|CDD|181296 PRK08215, PRK08215, sporulation sigma factor SigG; Reviewed | Back alignment and domain information |
|---|
Score = 94.6 bits (236), Expect = 3e-21
Identities = 74/259 (28%), Positives = 129/259 (49%), Gaps = 33/259 (12%)
Query: 1168 VLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIG 1227
VL ++R++ +M G+ +AR+ ++ NLRLV+S+ +++ +RG DL Q G IG
Sbjct: 18 VLKNEEMRELFERMQNGDKEARE---KLINGNLRLVLSVIQRFNNRGENVDDLFQVGCIG 74
Query: 1228 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQIL 1287
LMKA+D F+ + KFSTYA I I R + D IR+ + + K ++ +++
Sbjct: 75 LMKAIDNFDLSQNVKFSTYAVPMIIGEIRRYLRDN-NPIRVSRSLRDIAYKALQVREKLI 133
Query: 1288 QETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFI-------- 1339
E EP IA ++E+P E++ + ++PVS+ P+ D GD I
Sbjct: 134 NENSKEPTVEEIAKELEVPREEVVFALDAIQDPVSLFEPIYHDG----GDPIYVMDQISD 189
Query: 1340 ---EDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQF 1396
+DEN L +K+ + L RE +L +RF T EV ++
Sbjct: 190 EKNKDENWLE----------EIALKEAMKKLNDREKLILNLRF----FQGKTQMEVAEEI 235
Query: 1397 DVTRERIRQIEAKALRKLR 1415
+++ ++ ++E AL+ +R
Sbjct: 236 GISQAQVSRLEKAALKHMR 254
|
Length = 258 |
| >gnl|CDD|168831 PRK07122, PRK07122, RNA polymerase sigma factor SigF; Reviewed | Back alignment and domain information |
|---|
Score = 93.7 bits (233), Expect = 8e-21
Identities = 64/243 (26%), Positives = 115/243 (47%), Gaps = 17/243 (6%)
Query: 389 RKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYR 448
+ AG + ++ + + L L IA+++ RG DL+Q +GL+ AV++F+
Sbjct: 29 AGLPAGSPEFQRQRDRIVTRCLPLADHIARRFDGRGEPRDDLVQVARVGLVNAVNRFDVE 88
Query: 449 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSV 508
G F ++A I + R D + ++++P + E ++ R + ++ Q G P S
Sbjct: 89 TGSDFVSFAVPTIMGEVRRHFRDNSWSVKVPRRLKELHLRLGRATAELSQRLGRAPTASE 148
Query: 509 IAIKMEMPEEKIRK--IMKIAKEPVSMESPVG--DDEDSHLGDFIEDENMLAPSDAAL-N 563
+A ++ M E++ + + A +S++S G DD+ + D + D DA L
Sbjct: 149 LAAELGMDREEVVEGLVAGSAYNTLSIDSGGGSGDDDARAIADTLGDV------DAGLDQ 202
Query: 564 ASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVG-KQFDVTRERIRQIEAKALR 622
R ++ +L +L RE VL +RF M+ E VG Q V+R + AK L
Sbjct: 203 IENREALRPLLAALPERERTVLVLRFFESMTQTQIAERVGISQMHVSR-----LLAKTLA 257
Query: 623 KLR 625
+LR
Sbjct: 258 RLR 260
|
Length = 264 |
| >gnl|CDD|168831 PRK07122, PRK07122, RNA polymerase sigma factor SigF; Reviewed | Back alignment and domain information |
|---|
Score = 93.7 bits (233), Expect = 8e-21
Identities = 64/243 (26%), Positives = 115/243 (47%), Gaps = 17/243 (6%)
Query: 1179 RKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYR 1238
+ AG + ++ + + L L IA+++ RG DL+Q +GL+ AV++F+
Sbjct: 29 AGLPAGSPEFQRQRDRIVTRCLPLADHIARRFDGRGEPRDDLVQVARVGLVNAVNRFDVE 88
Query: 1239 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSV 1298
G F ++A I + R D + ++++P + E ++ R + ++ Q G P S
Sbjct: 89 TGSDFVSFAVPTIMGEVRRHFRDNSWSVKVPRRLKELHLRLGRATAELSQRLGRAPTASE 148
Query: 1299 IAIKMEMPEEKIRK--IMKIAKEPVSMESPVG--DDEDSHLGDFIEDENMLAPSDAAL-N 1353
+A ++ M E++ + + A +S++S G DD+ + D + D DA L
Sbjct: 149 LAAELGMDREEVVEGLVAGSAYNTLSIDSGGGSGDDDARAIADTLGDV------DAGLDQ 202
Query: 1354 ASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVG-KQFDVTRERIRQIEAKALR 1412
R ++ +L +L RE VL +RF M+ E VG Q V+R + AK L
Sbjct: 203 IENREALRPLLAALPERERTVLVLRFFESMTQTQIAERVGISQMHVSR-----LLAKTLA 257
Query: 1413 KLR 1415
+LR
Sbjct: 258 RLR 260
|
Length = 264 |
| >gnl|CDD|131931 TIGR02885, spore_sigF, RNA polymerase sigma-F factor | Back alignment and domain information |
|---|
Score = 89.0 bits (221), Expect = 1e-19
Identities = 67/228 (29%), Positives = 120/228 (52%), Gaps = 10/228 (4%)
Query: 399 RKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 458
++A+ ++ E NLRLV SI K++ +RG + DL Q G IGL+KA+DKF+ KFSTYA
Sbjct: 10 KEARDKLIECNLRLVWSIVKRFLNRGYEPEDLFQIGCIGLVKAIDKFDLSYDVKFSTYAV 69
Query: 459 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEE 518
I I R + D I++ + E KI + ++ +E G EP + +A + + E
Sbjct: 70 PMIMGEIKRFLRDDG-IIKVSRSLKELARKIRYMKEELSKELGREPTINELAEALGVSPE 128
Query: 519 KIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLA-PSDAALNASMRSVVKDILNSL 577
+I ++ A+ P S+ V D+ GD I + +A + + +K+ ++ L
Sbjct: 129 EIVMALESARSPQSLYDTVHQDD----GDPIYLLDQIADKGSEDSDWLEKIALKEAISKL 184
Query: 578 TPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
RE +++ +R+ D T EV +++ ++ ++E K L+K++
Sbjct: 185 DERERQIIMLRY----FKDKTQTEVANMLGISQVQVSRLEKKVLKKMK 228
|
Members of this protein family are the RNA polymerase sigma factor F. Sigma-F is specifically and universally a component of the Firmicutes lineage endospore formation program, and is expressed in the forespore to turn on expression of dozens of genes. It is closely homologous to sigma-G, which is also expressed in the forespore [Transcription, Transcription factors, Cellular processes, Sporulation and germination]. Length = 231 |
| >gnl|CDD|131931 TIGR02885, spore_sigF, RNA polymerase sigma-F factor | Back alignment and domain information |
|---|
Score = 89.0 bits (221), Expect = 1e-19
Identities = 67/228 (29%), Positives = 120/228 (52%), Gaps = 10/228 (4%)
Query: 1189 RKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 1248
++A+ ++ E NLRLV SI K++ +RG + DL Q G IGL+KA+DKF+ KFSTYA
Sbjct: 10 KEARDKLIECNLRLVWSIVKRFLNRGYEPEDLFQIGCIGLVKAIDKFDLSYDVKFSTYAV 69
Query: 1249 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEE 1308
I I R + D I++ + E KI + ++ +E G EP + +A + + E
Sbjct: 70 PMIMGEIKRFLRDDG-IIKVSRSLKELARKIRYMKEELSKELGREPTINELAEALGVSPE 128
Query: 1309 KIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLA-PSDAALNASMRSVVKDILNSL 1367
+I ++ A+ P S+ V D+ GD I + +A + + +K+ ++ L
Sbjct: 129 EIVMALESARSPQSLYDTVHQDD----GDPIYLLDQIADKGSEDSDWLEKIALKEAISKL 184
Query: 1368 TPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415
RE +++ +R+ D T EV +++ ++ ++E K L+K++
Sbjct: 185 DERERQIIMLRY----FKDKTQTEVANMLGISQVQVSRLEKKVLKKMK 228
|
Members of this protein family are the RNA polymerase sigma factor F. Sigma-F is specifically and universally a component of the Firmicutes lineage endospore formation program, and is expressed in the forespore to turn on expression of dozens of genes. It is closely homologous to sigma-G, which is also expressed in the forespore [Transcription, Transcription factors, Cellular processes, Sporulation and germination]. Length = 231 |
| >gnl|CDD|235770 PRK06288, PRK06288, RNA polymerase sigma factor WhiG; Reviewed | Back alignment and domain information |
|---|
Score = 89.7 bits (223), Expect = 2e-19
Identities = 65/215 (30%), Positives = 100/215 (46%), Gaps = 32/215 (14%)
Query: 426 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI----------TRSIADQART 475
+F DL+ G GL+ A++KF+ R KF TYA IR AI RS+ +AR
Sbjct: 60 EFDDLVSYGVFGLIDAIEKFDPEREIKFKTYAVTRIRGAIFDELRSIDWIPRSVRQKARQ 119
Query: 476 IRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMK--IAKEPVSM 533
I + M+E +R+ R P IA ++ + E+ ++ VS+
Sbjct: 120 IERAIAMLE-----ARLGRT--------PSDEEIADELGISLEEYNSLLSKLSGTSVVSL 166
Query: 534 ES--PVGDDEDS-HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFG 590
GD+ D L D +E L P + A ++ V+ + + +L RE KVL + +
Sbjct: 167 NDLWFGGDEGDEVSLMDTLESPAALNPDEIAEREEIKRVIVEAIKTLPEREKKVLILYY- 225
Query: 591 IEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
D TL+E+GK VT RI Q+ KA+ +LR
Sbjct: 226 ---YEDLTLKEIGKVLGVTESRISQLHTKAVLQLR 257
|
Length = 268 |
| >gnl|CDD|235770 PRK06288, PRK06288, RNA polymerase sigma factor WhiG; Reviewed | Back alignment and domain information |
|---|
Score = 89.7 bits (223), Expect = 2e-19
Identities = 65/215 (30%), Positives = 100/215 (46%), Gaps = 32/215 (14%)
Query: 1216 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI----------TRSIADQART 1265
+F DL+ G GL+ A++KF+ R KF TYA IR AI RS+ +AR
Sbjct: 60 EFDDLVSYGVFGLIDAIEKFDPEREIKFKTYAVTRIRGAIFDELRSIDWIPRSVRQKARQ 119
Query: 1266 IRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMK--IAKEPVSM 1323
I + M+E +R+ R P IA ++ + E+ ++ VS+
Sbjct: 120 IERAIAMLE-----ARLGRT--------PSDEEIADELGISLEEYNSLLSKLSGTSVVSL 166
Query: 1324 ES--PVGDDEDS-HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFG 1380
GD+ D L D +E L P + A ++ V+ + + +L RE KVL + +
Sbjct: 167 NDLWFGGDEGDEVSLMDTLESPAALNPDEIAEREEIKRVIVEAIKTLPEREKKVLILYY- 225
Query: 1381 IEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415
D TL+E+GK VT RI Q+ KA+ +LR
Sbjct: 226 ---YEDLTLKEIGKVLGVTESRISQLHTKAVLQLR 257
|
Length = 268 |
| >gnl|CDD|235838 PRK06596, PRK06596, RNA polymerase factor sigma-32; Reviewed | Back alignment and domain information |
|---|
Score = 85.2 bits (212), Expect = 7e-18
Identities = 29/67 (43%), Positives = 43/67 (64%)
Query: 399 RKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 458
+A +++ ++LR V+ IA+ Y GL DLIQEGNIGLMKAV +F+ G + ++A
Sbjct: 47 LEAAKQLVLSHLRFVVHIARGYRGYGLPQADLIQEGNIGLMKAVKRFDPEVGVRLVSFAV 106
Query: 459 WWIRQAI 465
WI+ I
Sbjct: 107 HWIKAEI 113
|
Length = 284 |
| >gnl|CDD|235838 PRK06596, PRK06596, RNA polymerase factor sigma-32; Reviewed | Back alignment and domain information |
|---|
Score = 85.2 bits (212), Expect = 7e-18
Identities = 29/67 (43%), Positives = 43/67 (64%)
Query: 1189 RKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 1248
+A +++ ++LR V+ IA+ Y GL DLIQEGNIGLMKAV +F+ G + ++A
Sbjct: 47 LEAAKQLVLSHLRFVVHIARGYRGYGLPQADLIQEGNIGLMKAVKRFDPEVGVRLVSFAV 106
Query: 1249 WWIRQAI 1255
WI+ I
Sbjct: 107 HWIKAEI 113
|
Length = 284 |
| >gnl|CDD|181075 PRK07670, PRK07670, RNA polymerase sigma factor SigD; Validated | Back alignment and domain information |
|---|
Score = 84.3 bits (209), Expect = 8e-18
Identities = 55/202 (27%), Positives = 94/202 (46%), Gaps = 12/202 (5%)
Query: 1219 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTI-RIPVHMIETIN 1277
DL G +GL A++KF+ R KF TYA++ IR AI D R +P M E
Sbjct: 54 DLKSLGMLGLYDALEKFDPSRDLKFDTYASFRIRGAII----DGLRKEDWLPRSMREKTK 109
Query: 1278 KISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMK--IAKEPVSM-ESPVGDDEDSH 1334
K+ ++ Q P +A ++ M EE++ M +S+ E D+ +
Sbjct: 110 KVEAAIEKLEQRYMRNVTPKEVAAELGMTEEEVEATMNEGFFANLLSIDEKTHDQDDGEN 169
Query: 1335 LGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGK 1394
+ I D+ P + L + + + + L+ +E V+ + + E+ TL E+G+
Sbjct: 170 VSVTIRDDKTPTPEEKLLKEELIEELAEKIKQLSEKEQLVISLFYKEEL----TLTEIGQ 225
Query: 1395 QFDVTRERIRQIEAKALRKLRH 1416
+++ RI QI +KAL KL+
Sbjct: 226 VLNLSTSRISQIHSKALFKLKK 247
|
Length = 251 |
| >gnl|CDD|180266 PRK05803, PRK05803, sporulation sigma factor SigK; Reviewed | Back alignment and domain information |
|---|
Score = 83.1 bits (206), Expect = 1e-17
Identities = 60/230 (26%), Positives = 96/230 (41%), Gaps = 58/230 (25%)
Query: 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 1250
A+ + E NLRLV I KK+ + G DLI G IGL+KA++ F+ +G K +TYA
Sbjct: 50 ARNILIERNLRLVAHIVKKFENTGEDVDDLISIGTIGLIKAIESFDAGKGTKLATYA--- 106
Query: 1251 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 1310
AR I + M +
Sbjct: 107 ------------ARCIENEILMH------------------------------------L 118
Query: 1311 RKIMKIAKEPVSMESPVGDDEDSH---LGDFIEDENMLAPSDAALNASMR-SVVKDILNS 1366
R + K KE VS++ P+G D++ + L D + E + M + ++
Sbjct: 119 RNLKKTKKE-VSLQDPIGVDKEGNEISLIDILGSEE--DDVIEQVELKMEVEKLYKKIDI 175
Query: 1367 LTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 1416
L RE +V+ MR+G+ + T E+ K ++R + +IE +AL+KL
Sbjct: 176 LDEREKEVIEMRYGLGNGKEKTQREIAKALGISRSYVSRIEKRALKKLFK 225
|
Length = 233 |
| >gnl|CDD|180266 PRK05803, PRK05803, sporulation sigma factor SigK; Reviewed | Back alignment and domain information |
|---|
Score = 82.3 bits (204), Expect = 3e-17
Identities = 60/228 (26%), Positives = 96/228 (42%), Gaps = 58/228 (25%)
Query: 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460
A+ + E NLRLV I KK+ + G DLI G IGL+KA++ F+ +G K +TYA
Sbjct: 50 ARNILIERNLRLVAHIVKKFENTGEDVDDLISIGTIGLIKAIESFDAGKGTKLATYA--- 106
Query: 461 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 520
AR I + M +
Sbjct: 107 ------------ARCIENEILMH------------------------------------L 118
Query: 521 RKIMKIAKEPVSMESPVGDDEDSH---LGDFIEDENMLAPSDAALNASMR-SVVKDILNS 576
R + K KE VS++ P+G D++ + L D + E + M + ++
Sbjct: 119 RNLKKTKKE-VSLQDPIGVDKEGNEISLIDILGSEE--DDVIEQVELKMEVEKLYKKIDI 175
Query: 577 LTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKL 624
L RE +V+ MR+G+ + T E+ K ++R + +IE +AL+KL
Sbjct: 176 LDEREKEVIEMRYGLGNGKEKTQREIAKALGISRSYVSRIEKRALKKL 223
|
Length = 233 |
| >gnl|CDD|181075 PRK07670, PRK07670, RNA polymerase sigma factor SigD; Validated | Back alignment and domain information |
|---|
Score = 82.4 bits (204), Expect = 4e-17
Identities = 56/203 (27%), Positives = 95/203 (46%), Gaps = 12/203 (5%)
Query: 429 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTI-RIPVHMIETIN 487
DL G +GL A++KF+ R KF TYA++ IR AI D R +P M E
Sbjct: 54 DLKSLGMLGLYDALEKFDPSRDLKFDTYASFRIRGAII----DGLRKEDWLPRSMREKTK 109
Query: 488 KISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMK--IAKEPVSM-ESPVGDDEDSH 544
K+ ++ Q P +A ++ M EE++ M +S+ E D+ +
Sbjct: 110 KVEAAIEKLEQRYMRNVTPKEVAAELGMTEEEVEATMNEGFFANLLSIDEKTHDQDDGEN 169
Query: 545 LGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGK 604
+ I D+ P + L + + + + L+ +E V+ + + E+ TL E+G+
Sbjct: 170 VSVTIRDDKTPTPEEKLLKEELIEELAEKIKQLSEKEQLVISLFYKEEL----TLTEIGQ 225
Query: 605 QFDVTRERIRQIEAKALRKLRPL 627
+++ RI QI +KAL KL+ L
Sbjct: 226 VLNLSTSRISQIHSKALFKLKKL 248
|
Length = 251 |
| >gnl|CDD|180137 PRK05572, PRK05572, sporulation sigma factor SigF; Validated | Back alignment and domain information |
|---|
Score = 82.7 bits (205), Expect = 4e-17
Identities = 71/252 (28%), Positives = 130/252 (51%), Gaps = 23/252 (9%)
Query: 380 PLNDLRDINRKMIA----GEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGN 435
L D + N+++I G+ +AR + E NLRLV S+ +++ +RG + DL Q G
Sbjct: 13 QLKD--EENKELIKKSQDGDQEARD---TLVEKNLRLVWSVVQRFLNRGYEPDDLFQIGC 67
Query: 436 IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQ 495
IGL+KAVDKF+ KFSTYA I I R + D T+++ + ET NKI + +
Sbjct: 68 IGLLKAVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSLKETANKIRKDKDE 126
Query: 496 ILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS--HLGDFIEDEN 553
+ +E G EP +A + + E++ + ++ P S+ V +++ L D I D+
Sbjct: 127 LSKELGREPTIEELAEYLGVTPEEVVLAQEASRSPQSIHETVHENDGDPITLLDQIADQ- 185
Query: 554 MLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERI 613
+ + + +K+ + L RE ++ +R+ D T EV K+ +++ ++
Sbjct: 186 ---SEEDWFD---KIALKEAIRELDERERLIVYLRY----FKDKTQSEVAKRLGISQVQV 235
Query: 614 RQIEAKALRKLR 625
++E K L++++
Sbjct: 236 SRLEKKILKQMK 247
|
Length = 252 |
| >gnl|CDD|180137 PRK05572, PRK05572, sporulation sigma factor SigF; Validated | Back alignment and domain information |
|---|
Score = 82.7 bits (205), Expect = 4e-17
Identities = 71/252 (28%), Positives = 130/252 (51%), Gaps = 23/252 (9%)
Query: 1170 PLNDLRDINRKMIA----GEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGN 1225
L D + N+++I G+ +AR + E NLRLV S+ +++ +RG + DL Q G
Sbjct: 13 QLKD--EENKELIKKSQDGDQEARD---TLVEKNLRLVWSVVQRFLNRGYEPDDLFQIGC 67
Query: 1226 IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQ 1285
IGL+KAVDKF+ KFSTYA I I R + D T+++ + ET NKI + +
Sbjct: 68 IGLLKAVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSLKETANKIRKDKDE 126
Query: 1286 ILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS--HLGDFIEDEN 1343
+ +E G EP +A + + E++ + ++ P S+ V +++ L D I D+
Sbjct: 127 LSKELGREPTIEELAEYLGVTPEEVVLAQEASRSPQSIHETVHENDGDPITLLDQIADQ- 185
Query: 1344 MLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERI 1403
+ + + +K+ + L RE ++ +R+ D T EV K+ +++ ++
Sbjct: 186 ---SEEDWFD---KIALKEAIRELDERERLIVYLRY----FKDKTQSEVAKRLGISQVQV 235
Query: 1404 RQIEAKALRKLR 1415
++E K L++++
Sbjct: 236 SRLEKKILKQMK 247
|
Length = 252 |
| >gnl|CDD|218139 pfam04545, Sigma70_r4, Sigma-70, region 4 | Back alignment and domain information |
|---|
Score = 70.9 bits (175), Expect = 2e-15
Identities = 29/53 (54%), Positives = 38/53 (71%), Gaps = 4/53 (7%)
Query: 1364 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 1416
L SL PRE +VL +RFG TLEE+G++ ++RER+RQIE +ALRKLR
Sbjct: 2 LASLPPREREVLVLRFG----EGLTLEEIGERLGISRERVRQIEKRALRKLRK 50
|
Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives. Length = 50 |
| >gnl|CDD|180965 PRK07408, PRK07408, RNA polymerase sigma factor SigF; Reviewed | Back alignment and domain information |
|---|
Score = 77.3 bits (191), Expect = 3e-15
Identities = 48/151 (31%), Positives = 93/151 (61%), Gaps = 7/151 (4%)
Query: 407 EANLRLVISIAKKYTDRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI 465
E NL LV A +++++ + + DL+Q G++GL++A+++F+ +G+ FS++A +IR I
Sbjct: 32 ELNLGLVRKEAHRWSNQCSEPYEDLVQVGSLGLIRAIERFDPSKGHAFSSFAIPYIRGEI 91
Query: 466 TRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMK 525
+ D++ T+RIP E + ++ +++ QE G +P IA +++ E+ ++I K
Sbjct: 92 QHYLRDKSPTVRIPRRWQELQRQAKKVRQELRQELGRQPTDQEIAQALDISLEEWQEI-K 150
Query: 526 IA---KEPVSMESPVGDDEDSH--LGDFIED 551
+A + P+S+++PV DED LGD + D
Sbjct: 151 LALQNRTPLSLDAPVNQDEDGSTSLGDLLPD 181
|
Length = 256 |
| >gnl|CDD|180965 PRK07408, PRK07408, RNA polymerase sigma factor SigF; Reviewed | Back alignment and domain information |
|---|
Score = 77.3 bits (191), Expect = 3e-15
Identities = 48/151 (31%), Positives = 93/151 (61%), Gaps = 7/151 (4%)
Query: 1197 EANLRLVISIAKKYTDRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI 1255
E NL LV A +++++ + + DL+Q G++GL++A+++F+ +G+ FS++A +IR I
Sbjct: 32 ELNLGLVRKEAHRWSNQCSEPYEDLVQVGSLGLIRAIERFDPSKGHAFSSFAIPYIRGEI 91
Query: 1256 TRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMK 1315
+ D++ T+RIP E + ++ +++ QE G +P IA +++ E+ ++I K
Sbjct: 92 QHYLRDKSPTVRIPRRWQELQRQAKKVRQELRQELGRQPTDQEIAQALDISLEEWQEI-K 150
Query: 1316 IA---KEPVSMESPVGDDEDSH--LGDFIED 1341
+A + P+S+++PV DED LGD + D
Sbjct: 151 LALQNRTPLSLDAPVNQDEDGSTSLGDLLPD 181
|
Length = 256 |
| >gnl|CDD|235901 PRK06986, fliA, flagellar biosynthesis sigma factor; Validated | Back alignment and domain information |
|---|
Score = 76.4 bits (189), Expect = 3e-15
Identities = 56/215 (26%), Positives = 96/215 (44%), Gaps = 35/215 (16%)
Query: 425 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI----------TRSIADQAR 474
+ DLIQ G IGL++A +++ +G F TYA IR A+ RS+ AR
Sbjct: 36 VDLDDLIQAGMIGLLEAARRYDGEQGASFETYAGQRIRGAMLDELRSLDWVPRSVRRNAR 95
Query: 475 TIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSME 534
+ + RQ+ QE G EP + +A K+ + E+ R+ M + ++
Sbjct: 96 EVAQAI-------------RQLEQELGREPTDTEVAEKLGLSLEEYRE-MLLD---TNIS 138
Query: 535 SPVG-DDEDSHLGDFIEDENMLA---PSDAALNASMRSVVKDILNSLTPRESKVLRMRFG 590
D+ GD I P + +R + + + SL RE VL + +
Sbjct: 139 QLFSIDELRGEHGDSILVTEDHQDEDPLQQLEDEELREALVEAIESLPEREQLVLSLYYQ 198
Query: 591 IEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
E++ L+E+G V+ R+ QI ++A+++LR
Sbjct: 199 EELN----LKEIGAVLGVSESRVSQIHSQAIKRLR 229
|
Length = 236 |
| >gnl|CDD|235901 PRK06986, fliA, flagellar biosynthesis sigma factor; Validated | Back alignment and domain information |
|---|
Score = 76.4 bits (189), Expect = 3e-15
Identities = 56/215 (26%), Positives = 96/215 (44%), Gaps = 35/215 (16%)
Query: 1215 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI----------TRSIADQAR 1264
+ DLIQ G IGL++A +++ +G F TYA IR A+ RS+ AR
Sbjct: 36 VDLDDLIQAGMIGLLEAARRYDGEQGASFETYAGQRIRGAMLDELRSLDWVPRSVRRNAR 95
Query: 1265 TIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSME 1324
+ + RQ+ QE G EP + +A K+ + E+ R+ M + ++
Sbjct: 96 EVAQAI-------------RQLEQELGREPTDTEVAEKLGLSLEEYRE-MLLD---TNIS 138
Query: 1325 SPVG-DDEDSHLGDFIEDENMLA---PSDAALNASMRSVVKDILNSLTPRESKVLRMRFG 1380
D+ GD I P + +R + + + SL RE VL + +
Sbjct: 139 QLFSIDELRGEHGDSILVTEDHQDEDPLQQLEDEELREALVEAIESLPEREQLVLSLYYQ 198
Query: 1381 IEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415
E++ L+E+G V+ R+ QI ++A+++LR
Sbjct: 199 EELN----LKEIGAVLGVSESRVSQIHSQAIKRLR 229
|
Length = 236 |
| >gnl|CDD|131987 TIGR02941, Sigma_B, RNA polymerase sigma-B factor | Back alignment and domain information |
|---|
Score = 76.5 bits (188), Expect = 4e-15
Identities = 57/222 (25%), Positives = 104/222 (46%), Gaps = 10/222 (4%)
Query: 411 RLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 470
LV SIA KY+ G DL+Q G +GL+ A+ +++Y G F +A I I R +
Sbjct: 40 NLVYSIAYKYSKGGPMHEDLVQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIIGEIKRYLR 99
Query: 471 DQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAK-- 528
D+ ++ +P + E KI + ++ P IA + + EE++ +IM++ +
Sbjct: 100 DKTWSVHVPRRIKELGPKIKKAIDELTDHLQRSPKIIEIADHLGLSEEEVLEIMEMGQSY 159
Query: 529 EPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMR 588
+S++ + D D + +++ D R V++ IL L+ RE ++
Sbjct: 160 RALSVDDVIEADSDGSTVARL--DSVGEVEDGYDQTERRMVLEKILPILSEREKSIIHCT 217
Query: 589 FGIEMSSDHTLEEVG-KQFDVTRERIRQIEAKALRKLRPLAH 629
F +S T E +G Q V+R ++ +A+ KL+ A
Sbjct: 218 FEENLSQKETGERLGISQMHVSR-----LQRQAISKLKEAAF 254
|
This sigma factor is restricted to certain lineages of the order Bacillales including Staphylococcus , Listeria and Bacillus. Length = 255 |
| >gnl|CDD|236413 PRK09210, PRK09210, RNA polymerase sigma factor RpoD; Validated | Back alignment and domain information |
|---|
Score = 77.7 bits (192), Expect = 6e-15
Identities = 39/132 (29%), Positives = 69/132 (52%), Gaps = 6/132 (4%)
Query: 29 KSNSREEIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDIS 88
K ++E L + K LI+ GK+RG LT+ EI + L +D + I+ + + IS
Sbjct: 1 KKTKKKETTTLEQVVKELIEKGKKRGTLTYDEIAEKLIPFELDSDQIDDLYERLEDAGIS 60
Query: 89 VSEHVLDTETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRD 148
+ + + + + +++++ + DP++MY++E+G V LLT +
Sbjct: 61 IVDEEGNPSSAQVVEEEEEEELDNDLSVPPGV------KINDPVRMYLKEIGRVPLLTAE 114
Query: 149 GEIEIAKRIEEG 160
EIE+AKRIEEG
Sbjct: 115 EEIELAKRIEEG 126
|
Length = 367 |
| >gnl|CDD|236413 PRK09210, PRK09210, RNA polymerase sigma factor RpoD; Validated | Back alignment and domain information |
|---|
Score = 77.7 bits (192), Expect = 6e-15
Identities = 39/132 (29%), Positives = 69/132 (52%), Gaps = 6/132 (4%)
Query: 819 KSNSREEIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDIS 878
K ++E L + K LI+ GK+RG LT+ EI + L +D + I+ + + IS
Sbjct: 1 KKTKKKETTTLEQVVKELIEKGKKRGTLTYDEIAEKLIPFELDSDQIDDLYERLEDAGIS 60
Query: 879 VSEHVLDTETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRD 938
+ + + + + +++++ + DP++MY++E+G V LLT +
Sbjct: 61 IVDEEGNPSSAQVVEEEEEEELDNDLSVPPGV------KINDPVRMYLKEIGRVPLLTAE 114
Query: 939 GEIEIAKRIEEG 950
EIE+AKRIEEG
Sbjct: 115 EEIELAKRIEEG 126
|
Length = 367 |
| >gnl|CDD|218139 pfam04545, Sigma70_r4, Sigma-70, region 4 | Back alignment and domain information |
|---|
Score = 69.4 bits (171), Expect = 8e-15
Identities = 29/52 (55%), Positives = 38/52 (73%), Gaps = 4/52 (7%)
Query: 574 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
L SL PRE +VL +RFG TLEE+G++ ++RER+RQIE +ALRKLR
Sbjct: 2 LASLPPREREVLVLRFG----EGLTLEEIGERLGISRERVRQIEKRALRKLR 49
|
Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives. Length = 50 |
| >gnl|CDD|131893 TIGR02846, spore_sigmaK, RNA polymerase sigma-K factor | Back alignment and domain information |
|---|
Score = 74.8 bits (184), Expect = 9e-15
Identities = 59/234 (25%), Positives = 97/234 (41%), Gaps = 62/234 (26%)
Query: 1189 RKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 1248
+A+ + E NLRLV I KK+++ G DLI G IGL+KA+D F+ +G + +TYA
Sbjct: 47 EEARNVLIERNLRLVAHIVKKFSNTGEDVDDLISIGTIGLIKAIDSFDPDKGTRLATYAA 106
Query: 1249 WWIRQAITRSIADQARTIRIPVHMIETI------NKISRISRQILQETGSEPDPSVIAIK 1302
I I + +T + V + + I N+IS I IL GS+ D + ++
Sbjct: 107 RCIENEILMHLRALKKT-KGEVSLQDPIGVDKEGNEISLID--IL---GSDGDSVIEQVE 160
Query: 1303 MEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKD 1362
+ + +K+ K + +
Sbjct: 161 LNLEIKKLYKKLSV---------------------------------------------- 174
Query: 1363 ILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 1416
L RE +V+ MR+G+ T E+ K ++R + +IE +AL KL
Sbjct: 175 ----LDGREREVIEMRYGLGDGRRKTQREIAKILGISRSYVSRIEKRALMKLYK 224
|
The sporulation-specific transcription factor sigma-K (also called sigma-27) is expressed in the mother cell compartment of endospore-forming bacteria such as Bacillus subtilis. Like its close homolog sigma-E (sigma-29) (see TIGR02835), also specific to the mother cell compartment, it must be activated by a proteolytic cleavage. Note that in Bacillus subtilis (and apparently also Clostridium tetani), but not in other endospore forming species such as Bacillus anthracis, the sigK gene is generated by a non-germline (mother cell only) chromosomal rearrangement that recombines coding regions for the N-terminal and C-terminal regions of sigma-K [Transcription, Transcription factors, Cellular processes, Sporulation and germination]. Length = 227 |
| >gnl|CDD|131987 TIGR02941, Sigma_B, RNA polymerase sigma-B factor | Back alignment and domain information |
|---|
Score = 74.6 bits (183), Expect = 2e-14
Identities = 56/218 (25%), Positives = 103/218 (47%), Gaps = 10/218 (4%)
Query: 1201 RLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 1260
LV SIA KY+ G DL+Q G +GL+ A+ +++Y G F +A I I R +
Sbjct: 40 NLVYSIAYKYSKGGPMHEDLVQVGMLGLLGAIRRYDYSIGNAFEPFAIPTIIGEIKRYLR 99
Query: 1261 DQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAK-- 1318
D+ ++ +P + E KI + ++ P IA + + EE++ +IM++ +
Sbjct: 100 DKTWSVHVPRRIKELGPKIKKAIDELTDHLQRSPKIIEIADHLGLSEEEVLEIMEMGQSY 159
Query: 1319 EPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMR 1378
+S++ + D D + +++ D R V++ IL L+ RE ++
Sbjct: 160 RALSVDDVIEADSDGSTVARL--DSVGEVEDGYDQTERRMVLEKILPILSEREKSIIHCT 217
Query: 1379 FGIEMSSDHTLEEVG-KQFDVTRERIRQIEAKALRKLR 1415
F +S T E +G Q V+R ++ +A+ KL+
Sbjct: 218 FEENLSQKETGERLGISQMHVSR-----LQRQAISKLK 250
|
This sigma factor is restricted to certain lineages of the order Bacillales including Staphylococcus , Listeria and Bacillus. Length = 255 |
| >gnl|CDD|131893 TIGR02846, spore_sigmaK, RNA polymerase sigma-K factor | Back alignment and domain information |
|---|
Score = 74.0 bits (182), Expect = 2e-14
Identities = 59/232 (25%), Positives = 97/232 (41%), Gaps = 62/232 (26%)
Query: 399 RKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 458
+A+ + E NLRLV I KK+++ G DLI G IGL+KA+D F+ +G + +TYA
Sbjct: 47 EEARNVLIERNLRLVAHIVKKFSNTGEDVDDLISIGTIGLIKAIDSFDPDKGTRLATYAA 106
Query: 459 WWIRQAITRSIADQARTIRIPVHMIETI------NKISRISRQILQETGSEPDPSVIAIK 512
I I + +T + V + + I N+IS I IL GS+ D + ++
Sbjct: 107 RCIENEILMHLRALKKT-KGEVSLQDPIGVDKEGNEISLID--IL---GSDGDSVIEQVE 160
Query: 513 MEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKD 572
+ + +K+ K + +
Sbjct: 161 LNLEIKKLYKKLSV---------------------------------------------- 174
Query: 573 ILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKL 624
L RE +V+ MR+G+ T E+ K ++R + +IE +AL KL
Sbjct: 175 ----LDGREREVIEMRYGLGDGRRKTQREIAKILGISRSYVSRIEKRALMKL 222
|
The sporulation-specific transcription factor sigma-K (also called sigma-27) is expressed in the mother cell compartment of endospore-forming bacteria such as Bacillus subtilis. Like its close homolog sigma-E (sigma-29) (see TIGR02835), also specific to the mother cell compartment, it must be activated by a proteolytic cleavage. Note that in Bacillus subtilis (and apparently also Clostridium tetani), but not in other endospore forming species such as Bacillus anthracis, the sigK gene is generated by a non-germline (mother cell only) chromosomal rearrangement that recombines coding regions for the N-terminal and C-terminal regions of sigma-K [Transcription, Transcription factors, Cellular processes, Sporulation and germination]. Length = 227 |
| >gnl|CDD|217827 pfam03979, Sigma70_r1_1, Sigma-70 factor, region 1 | Back alignment and domain information |
|---|
Score = 65.8 bits (161), Expect = 3e-13
Identities = 32/80 (40%), Positives = 44/80 (55%), Gaps = 1/80 (1%)
Query: 35 EIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVL 94
+ + + K LI+ GK+RGYLT+ EIN+ LP D +D E I+ II M I V E
Sbjct: 1 LEDLSQAQVKKLIEQGKKRGYLTYDEINEALPPDDVDSEQIDDIISMLEDMGIEVVE-EA 59
Query: 95 DTETLMLSNITSDDDVEEAT 114
D+E L + +D EEA
Sbjct: 60 DSEELDEETSSDEDAEEEAE 79
|
1. Region 1.1 modulates DNA binding by region 2 and 4 when sigma is unbound by the core RNA polymerase. Region 1.1 is also involved in promoter binding. Length = 79 |
| >gnl|CDD|217827 pfam03979, Sigma70_r1_1, Sigma-70 factor, region 1 | Back alignment and domain information |
|---|
Score = 65.8 bits (161), Expect = 3e-13
Identities = 32/80 (40%), Positives = 44/80 (55%), Gaps = 1/80 (1%)
Query: 825 EIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVL 884
+ + + K LI+ GK+RGYLT+ EIN+ LP D +D E I+ II M I V E
Sbjct: 1 LEDLSQAQVKKLIEQGKKRGYLTYDEINEALPPDDVDSEQIDDIISMLEDMGIEVVE-EA 59
Query: 885 DTETLMLSNITSDDDVEEAT 904
D+E L + +D EEA
Sbjct: 60 DSEELDEETSSDEDAEEEAE 79
|
1. Region 1.1 modulates DNA binding by region 2 and 4 when sigma is unbound by the core RNA polymerase. Region 1.1 is also involved in promoter binding. Length = 79 |
| >gnl|CDD|100119 cd06171, Sigma70_r4, Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs) | Back alignment and domain information |
|---|
Score = 62.5 bits (153), Expect = 2e-12
Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 4/59 (6%)
Query: 567 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
R +++ L+ L RE +V+ +RFG + EE+ + ++R +RQ +AL+KLR
Sbjct: 1 RERLEEALDKLPEREREVILLRFG----EGLSYEEIAEILGISRSTVRQRLHRALKKLR 55
|
A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplasmic stress and pathogenesis. Ec sigmaE SR4 also contacts the -35 element, but recognizes a different consensus (a 7-base-pair GGAACTT). Plant SFs recognize sigma70 type promoters and direct transcription of the major plastid RNA polymerase, plastid-encoded RNA polymerase (PEP). Length = 55 |
| >gnl|CDD|100119 cd06171, Sigma70_r4, Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs) | Back alignment and domain information |
|---|
Score = 62.5 bits (153), Expect = 2e-12
Identities = 19/59 (32%), Positives = 34/59 (57%), Gaps = 4/59 (6%)
Query: 1357 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415
R +++ L+ L RE +V+ +RFG + EE+ + ++R +RQ +AL+KLR
Sbjct: 1 RERLEEALDKLPEREREVILLRFG----EGLSYEEIAEILGISRSTVRQRLHRALKKLR 55
|
A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplasmic stress and pathogenesis. Ec sigmaE SR4 also contacts the -35 element, but recognizes a different consensus (a 7-base-pair GGAACTT). Plant SFs recognize sigma70 type promoters and direct transcription of the major plastid RNA polymerase, plastid-encoded RNA polymerase (PEP). Length = 55 |
| >gnl|CDD|236306 PRK08583, PRK08583, RNA polymerase sigma factor SigB; Validated | Back alignment and domain information |
|---|
Score = 67.0 bits (164), Expect = 7e-12
Identities = 57/220 (25%), Positives = 106/220 (48%), Gaps = 16/220 (7%)
Query: 412 LVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD 471
LV S+A KY+ DL+Q G +GL+ A+ +++ G F +A I I R + D
Sbjct: 41 LVESLAYKYSKGQSHHEDLVQVGMVGLLGAIRRYDPSFGRSFEAFAVPTIIGEIKRYLRD 100
Query: 472 QARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAK--E 529
+ ++ +P + E KI + ++ E P S IA ++ + EE++ + M++ K +
Sbjct: 101 KTWSVHVPRRIKELGPKIKKAVDELTTELQRSPKISEIADRLGVSEEEVLEAMEMGKSYQ 160
Query: 530 PVSMESPVGDDEDSH---LGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLR 586
+S++ + D D L D + + D R +++ IL L+ RE +++
Sbjct: 161 ALSVDHSIEADSDGSTVTLLDIVGQQE-----DGYELTEQRMILEKILPVLSDREKSIIQ 215
Query: 587 MRFGIEMSSDHTLEEVG-KQFDVTRERIRQIEAKALRKLR 625
F +S T E +G Q V+R ++ +A++KLR
Sbjct: 216 CTFIENLSQKETGERLGISQMHVSR-----LQRQAIKKLR 250
|
Length = 257 |
| >gnl|CDD|236306 PRK08583, PRK08583, RNA polymerase sigma factor SigB; Validated | Back alignment and domain information |
|---|
Score = 67.0 bits (164), Expect = 7e-12
Identities = 57/220 (25%), Positives = 106/220 (48%), Gaps = 16/220 (7%)
Query: 1202 LVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD 1261
LV S+A KY+ DL+Q G +GL+ A+ +++ G F +A I I R + D
Sbjct: 41 LVESLAYKYSKGQSHHEDLVQVGMVGLLGAIRRYDPSFGRSFEAFAVPTIIGEIKRYLRD 100
Query: 1262 QARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAK--E 1319
+ ++ +P + E KI + ++ E P S IA ++ + EE++ + M++ K +
Sbjct: 101 KTWSVHVPRRIKELGPKIKKAVDELTTELQRSPKISEIADRLGVSEEEVLEAMEMGKSYQ 160
Query: 1320 PVSMESPVGDDEDSH---LGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLR 1376
+S++ + D D L D + + D R +++ IL L+ RE +++
Sbjct: 161 ALSVDHSIEADSDGSTVTLLDIVGQQE-----DGYELTEQRMILEKILPVLSDREKSIIQ 215
Query: 1377 MRFGIEMSSDHTLEEVG-KQFDVTRERIRQIEAKALRKLR 1415
F +S T E +G Q V+R ++ +A++KLR
Sbjct: 216 CTFIENLSQKETGERLGISQMHVSR-----LQRQAIKKLR 250
|
Length = 257 |
| >gnl|CDD|173784 cd03364, TOPRIM_DnaG_primases, TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG | Back alignment and domain information |
|---|
Score = 59.1 bits (144), Expect = 7e-11
Identities = 27/80 (33%), Positives = 35/80 (43%), Gaps = 24/80 (30%)
Query: 732 VLITEGYMDVIGLSQFGF---------------------FANSSYTCFDGDQAGRRAARR 770
V++ EGYMDVI L Q G A FDGD+AG++AA R
Sbjct: 3 VILVEGYMDVIALHQAGIKNVVASLGTALTEEQAELLKRLAKEVILAFDGDEAGQKAALR 62
Query: 771 ALEVCLLYATDDKIIKFLFL 790
ALE+ L ++ L L
Sbjct: 63 ALELLL---KLGLNVRVLTL 79
|
Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. E. coli DnaG is a single subunit enzyme. Length = 79 |
| >gnl|CDD|201030 pfam00140, Sigma70_r1_2, Sigma-70 factor, region 1 | Back alignment and domain information |
|---|
Score = 56.3 bits (137), Expect = 2e-10
Identities = 16/33 (48%), Positives = 26/33 (78%)
Query: 130 DPIKMYMREMGSVELLTRDGEIEIAKRIEEGLK 162
D +++Y+RE+G V LLT + E+E+A+RIE G +
Sbjct: 2 DSVRLYLREIGRVPLLTAEEEVELARRIEAGDE 34
|
2. Length = 37 |
| >gnl|CDD|201030 pfam00140, Sigma70_r1_2, Sigma-70 factor, region 1 | Back alignment and domain information |
|---|
Score = 56.3 bits (137), Expect = 2e-10
Identities = 16/33 (48%), Positives = 26/33 (78%)
Query: 920 DPIKMYMREMGSVELLTRDGEIEIAKRIEEGLK 952
D +++Y+RE+G V LLT + E+E+A+RIE G +
Sbjct: 2 DSVRLYLREIGRVPLLTAEEEVELARRIEAGDE 34
|
2. Length = 37 |
| >gnl|CDD|131882 TIGR02835, spore_sigmaE, RNA polymerase sigma-E factor | Back alignment and domain information |
|---|
Score = 61.4 bits (149), Expect = 4e-10
Identities = 55/226 (24%), Positives = 97/226 (42%), Gaps = 52/226 (23%)
Query: 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460
AK + E NLRLV+ IA+K+ + G+ DL+ G IGL+KAV+ F + K +TYA+
Sbjct: 53 AKSTLIERNLRLVVYIARKFENTGIGIEDLVSIGTIGLIKAVNTFNPSKKIKLATYASRC 112
Query: 461 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQET-GSEPDPSVIAIKMEMPEEK 519
I I + +T R V E +N + +L + G++ D + + EE
Sbjct: 113 IENEILMYLRRNNKT-RSEVSFDEPLNVDWDGNELLLSDVLGTDSD----IVYKYLEEEV 167
Query: 520 IRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTP 579
R++++ A L L
Sbjct: 168 DRELLRKA----------------------------------------------LAKLND 181
Query: 580 RESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
RE K++ +RFG+ ++ T +EV +++ I ++E + L++L+
Sbjct: 182 REKKIMELRFGLVGGTEKTQKEVADMLGISQSYISRLEKRILKRLK 227
|
Members of this family comprise the Firmicutes lineage endospore formation-specific sigma factor SigE, also called SpoIIGB and sigma-29. As characterized in Bacillus subtilis, this protein is synthesized as a precursor, specifically in the mother cell compartment, and must cleaved by the SpoIIGA protein to be made active [Transcription, Transcription factors, Cellular processes, Sporulation and germination]. Length = 234 |
| >gnl|CDD|131882 TIGR02835, spore_sigmaE, RNA polymerase sigma-E factor | Back alignment and domain information |
|---|
Score = 61.4 bits (149), Expect = 4e-10
Identities = 55/226 (24%), Positives = 97/226 (42%), Gaps = 52/226 (23%)
Query: 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 1250
AK + E NLRLV+ IA+K+ + G+ DL+ G IGL+KAV+ F + K +TYA+
Sbjct: 53 AKSTLIERNLRLVVYIARKFENTGIGIEDLVSIGTIGLIKAVNTFNPSKKIKLATYASRC 112
Query: 1251 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQET-GSEPDPSVIAIKMEMPEEK 1309
I I + +T R V E +N + +L + G++ D + + EE
Sbjct: 113 IENEILMYLRRNNKT-RSEVSFDEPLNVDWDGNELLLSDVLGTDSD----IVYKYLEEEV 167
Query: 1310 IRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTP 1369
R++++ A L L
Sbjct: 168 DRELLRKA----------------------------------------------LAKLND 181
Query: 1370 RESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415
RE K++ +RFG+ ++ T +EV +++ I ++E + L++L+
Sbjct: 182 REKKIMELRFGLVGGTEKTQKEVADMLGISQSYISRLEKRILKRLK 227
|
Members of this family comprise the Firmicutes lineage endospore formation-specific sigma factor SigE, also called SpoIIGB and sigma-29. As characterized in Bacillus subtilis, this protein is synthesized as a precursor, specifically in the mother cell compartment, and must cleaved by the SpoIIGA protein to be made active [Transcription, Transcription factors, Cellular processes, Sporulation and germination]. Length = 234 |
| >gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Score = 63.1 bits (154), Expect = 7e-10
Identities = 39/160 (24%), Positives = 65/160 (40%), Gaps = 5/160 (3%)
Query: 6 KKTKIKNKKTKETLLKNAFSFDIKSNSREEIENLRKKFKILIKLGKERGYLTFSEINDFL 65
K K K+ + S + + + ++ K + L + + +D
Sbjct: 84 KAAAAKAPAKKKLKDELDSSKKAEKKNALDKDDDLNYVKDIDVLNQADDDDDDDDDDDLD 143
Query: 66 PEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNITSDDDVEEATE--AALSTVDS 123
+DI D + E + D E E L ++ DDD + AL
Sbjct: 144 DDDIDDDDDDEDDDEDDD-DDDVDDEDEEKKEAKELEKLSDDDDFVWDEDDSEALRQARK 202
Query: 124 DFGRTK--DPIKMYMREMGSVELLTRDGEIEIAKRIEEGL 161
D T DP+K Y++++G V+LL + E+E+AKRIE GL
Sbjct: 203 DAKLTATADPVKAYLKQIGKVKLLNAEEEVELAKRIEAGL 242
|
Length = 509 |
| >gnl|CDD|234065 TIGR02937, sigma70-ECF, RNA polymerase sigma factor, sigma-70 family | Back alignment and domain information |
|---|
Score = 58.5 bits (142), Expect = 8e-10
Identities = 24/100 (24%), Positives = 43/100 (43%), Gaps = 2/100 (2%)
Query: 400 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 459
+A E+ E L LV A++Y DL+QE + L++A+D+F+ F +
Sbjct: 1 EAFEELYERYLPLVYRYARRYLGDDADAEDLVQEAFLKLLEALDRFDPE--GSFKAWLFR 58
Query: 460 WIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQE 499
R I + + R R + E ++ ++ QE
Sbjct: 59 IARNLILDYLRRKRRLRRELDLLEELLDSDPSPEEELEQE 98
|
This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs. Length = 158 |
| >gnl|CDD|234065 TIGR02937, sigma70-ECF, RNA polymerase sigma factor, sigma-70 family | Back alignment and domain information |
|---|
Score = 58.5 bits (142), Expect = 8e-10
Identities = 24/100 (24%), Positives = 43/100 (43%), Gaps = 2/100 (2%)
Query: 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 1249
+A E+ E L LV A++Y DL+QE + L++A+D+F+ F +
Sbjct: 1 EAFEELYERYLPLVYRYARRYLGDDADAEDLVQEAFLKLLEALDRFDPE--GSFKAWLFR 58
Query: 1250 WIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQE 1289
R I + + R R + E ++ ++ QE
Sbjct: 59 IARNLILDYLRRKRRLRRELDLLEELLDSDPSPEEELEQE 98
|
This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs. Length = 158 |
| >gnl|CDD|235644 PRK05911, PRK05911, RNA polymerase sigma factor sigma-28; Reviewed | Back alignment and domain information |
|---|
Score = 59.6 bits (144), Expect = 2e-09
Identities = 52/203 (25%), Positives = 97/203 (47%), Gaps = 13/203 (6%)
Query: 429 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK 488
DL G GL++AV++F+ + +F YA + I+ AI I D + +P + + NK
Sbjct: 55 DLYASGVEGLVRAVERFDPEKSRRFEGYALFLIKAAI---IDDLRKQDWVPRSVHQKANK 111
Query: 489 ISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSM----ESPVGDDEDS- 543
++ + Q G EP + + + ++++ A+ + + E P D+++
Sbjct: 112 LADAMDSLRQSLGKEPTDGELCEYLNISQQELSGWFSSARPALILSLNEEFPCQSDDEAG 171
Query: 544 -HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEV 602
L + I DE D S++ + + +L +E KV+ + + E+ L+E+
Sbjct: 172 LALEERIADERAETGYDVVDKKEFSSILAEAILALEEKERKVMALYYYEEL----VLKEI 227
Query: 603 GKQFDVTRERIRQIEAKALRKLR 625
GK V+ R+ QI +KAL KLR
Sbjct: 228 GKILGVSESRVSQIHSKALLKLR 250
|
Length = 257 |
| >gnl|CDD|235644 PRK05911, PRK05911, RNA polymerase sigma factor sigma-28; Reviewed | Back alignment and domain information |
|---|
Score = 59.6 bits (144), Expect = 2e-09
Identities = 52/203 (25%), Positives = 97/203 (47%), Gaps = 13/203 (6%)
Query: 1219 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK 1278
DL G GL++AV++F+ + +F YA + I+ AI I D + +P + + NK
Sbjct: 55 DLYASGVEGLVRAVERFDPEKSRRFEGYALFLIKAAI---IDDLRKQDWVPRSVHQKANK 111
Query: 1279 ISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSM----ESPVGDDEDS- 1333
++ + Q G EP + + + ++++ A+ + + E P D+++
Sbjct: 112 LADAMDSLRQSLGKEPTDGELCEYLNISQQELSGWFSSARPALILSLNEEFPCQSDDEAG 171
Query: 1334 -HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEV 1392
L + I DE D S++ + + +L +E KV+ + + E+ L+E+
Sbjct: 172 LALEERIADERAETGYDVVDKKEFSSILAEAILALEEKERKVMALYYYEEL----VLKEI 227
Query: 1393 GKQFDVTRERIRQIEAKALRKLR 1415
GK V+ R+ QI +KAL KLR
Sbjct: 228 GKILGVSESRVSQIHSKALLKLR 250
|
Length = 257 |
| >gnl|CDD|173779 cd01029, TOPRIM_primases, TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs | Back alignment and domain information |
|---|
Score = 54.6 bits (132), Expect = 3e-09
Identities = 26/80 (32%), Positives = 35/80 (43%), Gaps = 24/80 (30%)
Query: 732 VLITEGYMDVIGLSQFGFF--------ANSSYT-------------CFDGDQAGRRAARR 770
V+I EGYMDV+ L Q G AN+ FD D+AG++AA R
Sbjct: 3 VIIVEGYMDVLALHQAGIKNVVAALGTANTEEQLRLLKRFARTVILAFDNDEAGKKAAAR 62
Query: 771 ALEVCLLYATDDKIIKFLFL 790
ALE+ L ++ L
Sbjct: 63 ALELLLAL---GGRVRVPPL 79
|
Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. The prototypical bacterial primase. Escherichia coli DnaG is a single subunit enzyme. Length = 79 |
| >gnl|CDD|235838 PRK06596, PRK06596, RNA polymerase factor sigma-32; Reviewed | Back alignment and domain information |
|---|
Score = 58.3 bits (142), Expect = 8e-09
Identities = 31/116 (26%), Positives = 56/116 (48%), Gaps = 22/116 (18%)
Query: 528 KEPVSMES-----------PVGDDEDSH--LGDFIED-----ENMLAPSDAALNASMRSV 569
+E MES P+ DD++ D++ED ++L + R++
Sbjct: 166 EEVREMESRLSGQDASLDAPIDDDDEESGAPQDYLEDKSSDPADVLEEDNWEDQR--RAL 223
Query: 570 VKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
+ D L L R ++ R+ + S TL+E+ ++ V+ ER+RQIE A++KL+
Sbjct: 224 LADALEGLDERSRDIIEARWLDDDKS--TLQELAAEYGVSAERVRQIEKNAMKKLK 277
|
Length = 284 |
| >gnl|CDD|235838 PRK06596, PRK06596, RNA polymerase factor sigma-32; Reviewed | Back alignment and domain information |
|---|
Score = 58.3 bits (142), Expect = 8e-09
Identities = 31/116 (26%), Positives = 56/116 (48%), Gaps = 22/116 (18%)
Query: 1318 KEPVSMES-----------PVGDDEDSH--LGDFIED-----ENMLAPSDAALNASMRSV 1359
+E MES P+ DD++ D++ED ++L + R++
Sbjct: 166 EEVREMESRLSGQDASLDAPIDDDDEESGAPQDYLEDKSSDPADVLEEDNWEDQR--RAL 223
Query: 1360 VKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415
+ D L L R ++ R+ + S TL+E+ ++ V+ ER+RQIE A++KL+
Sbjct: 224 LADALEGLDERSRDIIEARWLDDDKS--TLQELAAEYGVSAERVRQIEKNAMKKLK 277
|
Length = 284 |
| >gnl|CDD|235640 PRK05901, PRK05901, RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Score = 57.3 bits (139), Expect = 4e-08
Identities = 35/137 (25%), Positives = 59/137 (43%), Gaps = 5/137 (3%)
Query: 819 KSNSREEIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDIS 878
+ + + ++ K + L + + +D +DI D + E + D
Sbjct: 107 EKKNALDKDDDLNYVKDIDVLNQADDDDDDDDDDDLDDDDIDDDDDDEDDDEDDD-DDDV 165
Query: 879 VSEHVLDTETLMLSNITSDDDVEEATE--AALSTVDSDFGRTK--DPIKMYMREMGSVEL 934
E E L ++ DDD + AL D T DP+K Y++++G V+L
Sbjct: 166 DDEDEEKKEAKELEKLSDDDDFVWDEDDSEALRQARKDAKLTATADPVKAYLKQIGKVKL 225
Query: 935 LTRDGEIEIAKRIEEGL 951
L + E+E+AKRIE GL
Sbjct: 226 LNAEEEVELAKRIEAGL 242
|
Length = 509 |
| >gnl|CDD|236228 PRK08301, PRK08301, sporulation sigma factor SigE; Reviewed | Back alignment and domain information |
|---|
Score = 52.9 bits (128), Expect = 3e-07
Identities = 28/68 (41%), Positives = 40/68 (58%), Gaps = 3/68 (4%)
Query: 390 KMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRR 449
K+ G+ R + E NLRLV+ IA+K+ + G+ DLI G IGL+KAV+ F +
Sbjct: 45 KLPKGDEAVRS---LLIERNLRLVVYIARKFENTGINIEDLISIGTIGLIKAVNTFNPEK 101
Query: 450 GYKFSTYA 457
K +TYA
Sbjct: 102 KIKLATYA 109
|
Length = 234 |
| >gnl|CDD|236228 PRK08301, PRK08301, sporulation sigma factor SigE; Reviewed | Back alignment and domain information |
|---|
Score = 52.9 bits (128), Expect = 3e-07
Identities = 28/68 (41%), Positives = 40/68 (58%), Gaps = 3/68 (4%)
Query: 1180 KMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRR 1239
K+ G+ R + E NLRLV+ IA+K+ + G+ DLI G IGL+KAV+ F +
Sbjct: 45 KLPKGDEAVRS---LLIERNLRLVVYIARKFENTGINIEDLISIGTIGLIKAVNTFNPEK 101
Query: 1240 GYKFSTYA 1247
K +TYA
Sbjct: 102 KIKLATYA 109
|
Length = 234 |
| >gnl|CDD|234065 TIGR02937, sigma70-ECF, RNA polymerase sigma factor, sigma-70 family | Back alignment and domain information |
|---|
Score = 50.4 bits (121), Expect = 5e-07
Identities = 15/76 (19%), Positives = 36/76 (47%), Gaps = 4/76 (5%)
Query: 550 EDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVT 609
++ +P + R +++ L L RE +VL +R+ +S +E+ + ++
Sbjct: 84 LLDSDPSPEEELEQEEEREALREALEKLPEREREVLVLRYLEGLS----YKEIAEILGIS 139
Query: 610 RERIRQIEAKALRKLR 625
+++ +A +KLR
Sbjct: 140 VGTVKRRLKRARKKLR 155
|
This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs. Length = 158 |
| >gnl|CDD|234065 TIGR02937, sigma70-ECF, RNA polymerase sigma factor, sigma-70 family | Back alignment and domain information |
|---|
Score = 50.4 bits (121), Expect = 5e-07
Identities = 15/76 (19%), Positives = 36/76 (47%), Gaps = 4/76 (5%)
Query: 1340 EDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVT 1399
++ +P + R +++ L L RE +VL +R+ +S +E+ + ++
Sbjct: 84 LLDSDPSPEEELEQEEEREALREALEKLPEREREVLVLRYLEGLS----YKEIAEILGIS 139
Query: 1400 RERIRQIEAKALRKLR 1415
+++ +A +KLR
Sbjct: 140 VGTVKRRLKRARKKLR 155
|
This model encompasses all varieties of the sigma-70 type sigma factors including the ECF subfamily. A number of sigma factors have names with a different number than 70 (i.e. sigma-38), but in fact, all except for the Sigma-54 family (TIGR02395) are included within this family. Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs. Length = 158 |
| >gnl|CDD|221942 pfam13155, Toprim_2, Toprim-like | Back alignment and domain information |
|---|
Score = 42.6 bits (101), Expect = 7e-05
Identities = 22/92 (23%), Positives = 35/92 (38%), Gaps = 28/92 (30%)
Query: 734 ITEGYMDVIGLSQFGF------FANSSYT-------------------CFDGDQAGRRAA 768
+ EG +D + L Q G + T FD D+AGR+AA
Sbjct: 2 VFEGAIDALSLYQLGQENNKAVVVATLGTALTEAQAKLLKRYAKEVILAFDNDKAGRKAA 61
Query: 769 RRALEVCLLYATDDKIIKFLFLPDKYDPDSYI 800
R + + + +K + LPD D + Y+
Sbjct: 62 ERLQK---ILKEEGLEVKVVLLPDGKDWNDYL 90
|
This is a family or Toprim-like proteins. Length = 90 |
| >gnl|CDD|222298 pfam13662, Toprim_4, Toprim domain | Back alignment and domain information |
|---|
Score = 39.1 bits (92), Expect = 0.001
Identities = 20/80 (25%), Positives = 28/80 (35%), Gaps = 24/80 (30%)
Query: 730 GYVLITEGYMDVIGLSQFGF-----FANSSYT-------------------CFDGDQAGR 765
+ I EGY DV+ L Q G+ + + FDGD AG
Sbjct: 1 STICIVEGYADVLALEQAGYKGVVAVLGGALSPLDGIGPEDLNIDVKEVILAFDGDVAGE 60
Query: 766 RAARRALEVCLLYATDDKII 785
+AA R E+ L +
Sbjct: 61 KAALRLAELLLALGVKVTRL 80
|
The toprim domain is found in a wide variety of enzymes involved in nucleic acid manipulation. Length = 81 |
| >gnl|CDD|236067 PRK07598, PRK07598, RNA polymerase sigma factor SigC; Validated | Back alignment and domain information |
|---|
Score = 42.2 bits (99), Expect = 0.002
Identities = 17/63 (26%), Positives = 35/63 (55%), Gaps = 6/63 (9%)
Query: 106 SDDDVEEATEAALSTVDSDF------GRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEE 159
DD +++ E ++ D R+ D +++Y++E+G V LL RD E+ A++++
Sbjct: 30 PDDSLDDVQELEIAAADEAVETAARNRRSTDLVRLYLQEIGRVRLLGRDEEVSEAQKVQR 89
Query: 160 GLK 162
+K
Sbjct: 90 YMK 92
|
Length = 415 |
| >gnl|CDD|236067 PRK07598, PRK07598, RNA polymerase sigma factor SigC; Validated | Back alignment and domain information |
|---|
Score = 42.2 bits (99), Expect = 0.002
Identities = 17/63 (26%), Positives = 35/63 (55%), Gaps = 6/63 (9%)
Query: 896 SDDDVEEATEAALSTVDSDF------GRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEE 949
DD +++ E ++ D R+ D +++Y++E+G V LL RD E+ A++++
Sbjct: 30 PDDSLDDVQELEIAAADEAVETAARNRRSTDLVRLYLQEIGRVRLLGRDEEVSEAQKVQR 89
Query: 950 GLK 952
+K
Sbjct: 90 YMK 92
|
Length = 415 |
Conserved Domains Detected by HHsearch
Original result of HHsearch against CDD database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 1432 | |||
| PRK05658 | 619 | RNA polymerase sigma factor RpoD; Validated | 100.0 | |
| PRK05658 | 619 | RNA polymerase sigma factor RpoD; Validated | 100.0 | |
| COG0568 | 342 | RpoD DNA-directed RNA polymerase, sigma subunit (s | 100.0 | |
| COG0568 | 342 | RpoD DNA-directed RNA polymerase, sigma subunit (s | 100.0 | |
| PRK09210 | 367 | RNA polymerase sigma factor RpoD; Validated | 100.0 | |
| PRK07598 | 415 | RNA polymerase sigma factor SigC; Validated | 100.0 | |
| PRK05901 | 509 | RNA polymerase sigma factor; Provisional | 100.0 | |
| PRK09210 | 367 | RNA polymerase sigma factor RpoD; Validated | 100.0 | |
| PRK05901 | 509 | RNA polymerase sigma factor; Provisional | 100.0 | |
| PRK07598 | 415 | RNA polymerase sigma factor SigC; Validated | 100.0 | |
| PRK07406 | 373 | RNA polymerase sigma factor RpoD; Validated | 100.0 | |
| PRK05949 | 327 | RNA polymerase sigma factor; Validated | 100.0 | |
| PRK07406 | 373 | RNA polymerase sigma factor RpoD; Validated | 100.0 | |
| PRK07405 | 317 | RNA polymerase sigma factor SigD; Validated | 100.0 | |
| PRK07921 | 324 | RNA polymerase sigma factor SigB; Reviewed | 100.0 | |
| PRK05949 | 327 | RNA polymerase sigma factor; Validated | 100.0 | |
| TIGR02997 | 298 | Sig70-cyanoRpoD RNA polymerase sigma factor, cyano | 100.0 | |
| PRK07405 | 317 | RNA polymerase sigma factor SigD; Validated | 100.0 | |
| PRK07921 | 324 | RNA polymerase sigma factor SigB; Reviewed | 100.0 | |
| TIGR02997 | 298 | Sig70-cyanoRpoD RNA polymerase sigma factor, cyano | 100.0 | |
| TIGR02393 | 238 | RpoD_Cterm RNA polymerase sigma factor RpoD, C-ter | 100.0 | |
| TIGR02393 | 238 | RpoD_Cterm RNA polymerase sigma factor RpoD, C-ter | 100.0 | |
| PRK07122 | 264 | RNA polymerase sigma factor SigF; Reviewed | 100.0 | |
| PRK07122 | 264 | RNA polymerase sigma factor SigF; Reviewed | 100.0 | |
| PRK05657 | 325 | RNA polymerase sigma factor RpoS; Validated | 100.0 | |
| PRK06596 | 284 | RNA polymerase factor sigma-32; Reviewed | 100.0 | |
| PRK05657 | 325 | RNA polymerase sigma factor RpoS; Validated | 100.0 | |
| PRK07500 | 289 | rpoH2 RNA polymerase factor sigma-32; Reviewed | 100.0 | |
| PRK07408 | 256 | RNA polymerase sigma factor SigF; Reviewed | 100.0 | |
| PRK06596 | 284 | RNA polymerase factor sigma-32; Reviewed | 100.0 | |
| PRK07500 | 289 | rpoH2 RNA polymerase factor sigma-32; Reviewed | 100.0 | |
| TIGR02392 | 270 | rpoH_proteo alternative sigma factor RpoH. A sigma | 100.0 | |
| PRK07408 | 256 | RNA polymerase sigma factor SigF; Reviewed | 100.0 | |
| PRK05667 | 580 | dnaG DNA primase; Validated | 100.0 | |
| TIGR02392 | 270 | rpoH_proteo alternative sigma factor RpoH. A sigma | 100.0 | |
| PRK05911 | 257 | RNA polymerase sigma factor sigma-28; Reviewed | 100.0 | |
| PRK05911 | 257 | RNA polymerase sigma factor sigma-28; Reviewed | 100.0 | |
| TIGR02850 | 254 | spore_sigG RNA polymerase sigma-G factor. Members | 100.0 | |
| TIGR02394 | 285 | rpoS_proteo RNA polymerase sigma factor RpoS. A si | 100.0 | |
| COG1191 | 247 | FliA DNA-directed RNA polymerase specialized sigma | 100.0 | |
| COG1191 | 247 | FliA DNA-directed RNA polymerase specialized sigma | 100.0 | |
| COG0358 | 568 | DnaG DNA primase (bacterial type) [DNA replication | 100.0 | |
| TIGR02394 | 285 | rpoS_proteo RNA polymerase sigma factor RpoS. A si | 100.0 | |
| TIGR02850 | 254 | spore_sigG RNA polymerase sigma-G factor. Members | 100.0 | |
| TIGR01391 | 415 | dnaG DNA primase, catalytic core. This protein con | 100.0 | |
| PRK08215 | 258 | sporulation sigma factor SigG; Reviewed | 100.0 | |
| PRK08215 | 258 | sporulation sigma factor SigG; Reviewed | 100.0 | |
| TIGR02885 | 231 | spore_sigF RNA polymerase sigma-F factor. Members | 100.0 | |
| TIGR02941 | 255 | Sigma_B RNA polymerase sigma-B factor. This sigma | 100.0 | |
| TIGR02941 | 255 | Sigma_B RNA polymerase sigma-B factor. This sigma | 100.0 | |
| TIGR02885 | 231 | spore_sigF RNA polymerase sigma-F factor. Members | 100.0 | |
| TIGR02980 | 227 | SigBFG RNA polymerase sigma-70 factor, sigma-B/F/G | 100.0 | |
| PRK07670 | 251 | RNA polymerase sigma factor SigD; Validated | 100.0 | |
| PRK06288 | 268 | RNA polymerase sigma factor WhiG; Reviewed | 99.98 | |
| PRK06288 | 268 | RNA polymerase sigma factor WhiG; Reviewed | 99.98 | |
| PRK07670 | 251 | RNA polymerase sigma factor SigD; Validated | 99.97 | |
| TIGR02980 | 227 | SigBFG RNA polymerase sigma-70 factor, sigma-B/F/G | 99.97 | |
| PRK05572 | 252 | sporulation sigma factor SigF; Validated | 99.97 | |
| PRK08583 | 257 | RNA polymerase sigma factor SigB; Validated | 99.97 | |
| TIGR02479 | 224 | FliA_WhiG RNA polymerase sigma factor, FliA/WhiG f | 99.97 | |
| PRK12427 | 231 | flagellar biosynthesis sigma factor; Provisional | 99.97 | |
| PRK05572 | 252 | sporulation sigma factor SigF; Validated | 99.97 | |
| TIGR02479 | 224 | FliA_WhiG RNA polymerase sigma factor, FliA/WhiG f | 99.97 | |
| TIGR00646 | 218 | MG010 DNA primase-related protein. The DNA primase | 99.97 | |
| PRK08583 | 257 | RNA polymerase sigma factor SigB; Validated | 99.97 | |
| PRK12427 | 231 | flagellar biosynthesis sigma factor; Provisional | 99.97 | |
| PRK06986 | 236 | fliA flagellar biosynthesis sigma factor; Validate | 99.97 | |
| PRK06986 | 236 | fliA flagellar biosynthesis sigma factor; Validate | 99.97 | |
| PF04546 | 211 | Sigma70_ner: Sigma-70, non-essential region; Inter | 99.97 | |
| PF04546 | 211 | Sigma70_ner: Sigma-70, non-essential region; Inter | 99.96 | |
| PHA02540 | 337 | 61 DNA primase; Provisional | 99.95 | |
| PHA02031 | 266 | putative DnaG-like primase | 99.94 | |
| PRK05803 | 233 | sporulation sigma factor SigK; Reviewed | 99.9 | |
| PRK05803 | 233 | sporulation sigma factor SigK; Reviewed | 99.9 | |
| PRK08624 | 373 | hypothetical protein; Provisional | 99.89 | |
| TIGR02846 | 227 | spore_sigmaK RNA polymerase sigma-K factor. The sp | 99.88 | |
| PRK08301 | 234 | sporulation sigma factor SigE; Reviewed | 99.87 | |
| TIGR02846 | 227 | spore_sigmaK RNA polymerase sigma-K factor. The sp | 99.86 | |
| PRK08301 | 234 | sporulation sigma factor SigE; Reviewed | 99.86 | |
| TIGR02835 | 234 | spore_sigmaE RNA polymerase sigma-E factor. Member | 99.85 | |
| TIGR02835 | 234 | spore_sigmaE RNA polymerase sigma-E factor. Member | 99.84 | |
| PRK08295 | 208 | RNA polymerase factor sigma-70; Validated | 99.84 | |
| PRK09648 | 189 | RNA polymerase sigma factor SigD; Reviewed | 99.83 | |
| PRK09646 | 194 | RNA polymerase sigma factor SigK; Reviewed | 99.83 | |
| PRK05602 | 186 | RNA polymerase sigma factor; Reviewed | 99.82 | |
| PRK08295 | 208 | RNA polymerase factor sigma-70; Validated | 99.82 | |
| PRK12519 | 194 | RNA polymerase sigma factor; Provisional | 99.81 | |
| TIGR02859 | 198 | spore_sigH RNA polymerase sigma-H factor. Members | 99.81 | |
| PRK12513 | 194 | RNA polymerase sigma factor; Provisional | 99.81 | |
| PRK09648 | 189 | RNA polymerase sigma factor SigD; Reviewed | 99.81 | |
| TIGR02948 | 187 | SigW_bacill RNA polymerase sigma-W factor. This si | 99.81 | |
| PRK09641 | 187 | RNA polymerase sigma factor SigW; Provisional | 99.81 | |
| PRK09646 | 194 | RNA polymerase sigma factor SigK; Reviewed | 99.81 | |
| TIGR02952 | 170 | Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02 | 99.8 | |
| PRK09652 | 182 | RNA polymerase sigma factor RpoE; Provisional | 99.8 | |
| PRK11923 | 193 | algU RNA polymerase sigma factor AlgU; Provisional | 99.8 | |
| PRK05602 | 186 | RNA polymerase sigma factor; Reviewed | 99.8 | |
| TIGR02859 | 198 | spore_sigH RNA polymerase sigma-H factor. Members | 99.8 | |
| PRK12514 | 179 | RNA polymerase sigma factor; Provisional | 99.8 | |
| PRK11923 | 193 | algU RNA polymerase sigma factor AlgU; Provisional | 99.79 | |
| PRK13919 | 186 | putative RNA polymerase sigma E protein; Provision | 99.79 | |
| PRK06811 | 189 | RNA polymerase factor sigma-70; Validated | 99.79 | |
| PRK12524 | 196 | RNA polymerase sigma factor; Provisional | 99.79 | |
| PRK12542 | 185 | RNA polymerase sigma factor; Provisional | 99.79 | |
| PRK09652 | 182 | RNA polymerase sigma factor RpoE; Provisional | 99.79 | |
| PRK12538 | 233 | RNA polymerase sigma factor; Provisional | 99.79 | |
| PRK11922 | 231 | RNA polymerase sigma factor; Provisional | 99.79 | |
| PRK12519 | 194 | RNA polymerase sigma factor; Provisional | 99.79 | |
| TIGR02939 | 190 | RpoE_Sigma70 RNA polymerase sigma factor RpoE. A s | 99.79 | |
| TIGR02948 | 187 | SigW_bacill RNA polymerase sigma-W factor. This si | 99.79 | |
| PRK12537 | 182 | RNA polymerase sigma factor; Provisional | 99.78 | |
| PRK06759 | 154 | RNA polymerase factor sigma-70; Validated | 99.78 | |
| PRK09641 | 187 | RNA polymerase sigma factor SigW; Provisional | 99.78 | |
| PRK12513 | 194 | RNA polymerase sigma factor; Provisional | 99.78 | |
| PRK12534 | 187 | RNA polymerase sigma factor; Provisional | 99.78 | |
| PRK12526 | 206 | RNA polymerase sigma factor; Provisional | 99.78 | |
| TIGR02952 | 170 | Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02 | 99.77 | |
| PRK13919 | 186 | putative RNA polymerase sigma E protein; Provision | 99.77 | |
| PRK12531 | 194 | RNA polymerase sigma factor; Provisional | 99.77 | |
| PRK09643 | 192 | RNA polymerase sigma factor SigM; Reviewed | 99.77 | |
| TIGR02984 | 189 | Sig-70_plancto1 RNA polymerase sigma-70 factor, Pl | 99.77 | |
| PRK12514 | 179 | RNA polymerase sigma factor; Provisional | 99.77 | |
| PRK12524 | 196 | RNA polymerase sigma factor; Provisional | 99.77 | |
| PRK11924 | 179 | RNA polymerase sigma factor; Provisional | 99.77 | |
| PRK09640 | 188 | RNA polymerase sigma factor SigX; Reviewed | 99.77 | |
| PRK11922 | 231 | RNA polymerase sigma factor; Provisional | 99.76 | |
| PRK12538 | 233 | RNA polymerase sigma factor; Provisional | 99.76 | |
| PRK12515 | 189 | RNA polymerase sigma factor; Provisional | 99.76 | |
| TIGR02939 | 190 | RpoE_Sigma70 RNA polymerase sigma factor RpoE. A s | 99.76 | |
| PRK06811 | 189 | RNA polymerase factor sigma-70; Validated | 99.76 | |
| PRK12537 | 182 | RNA polymerase sigma factor; Provisional | 99.75 | |
| PRK12543 | 179 | RNA polymerase sigma factor; Provisional | 99.75 | |
| TIGR03001 | 244 | Sig-70_gmx1 RNA polymerase sigma-70 factor, Myxoco | 99.75 | |
| PRK09649 | 185 | RNA polymerase sigma factor SigC; Reviewed | 99.75 | |
| PRK12526 | 206 | RNA polymerase sigma factor; Provisional | 99.75 | |
| PRK12536 | 181 | RNA polymerase sigma factor; Provisional | 99.75 | |
| PRK12534 | 187 | RNA polymerase sigma factor; Provisional | 99.75 | |
| PRK12539 | 184 | RNA polymerase sigma factor; Provisional | 99.75 | |
| PRK12522 | 173 | RNA polymerase sigma factor; Provisional | 99.74 | |
| PRK12520 | 191 | RNA polymerase sigma factor; Provisional | 99.74 | |
| TIGR02954 | 169 | Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02 | 99.74 | |
| PRK06759 | 154 | RNA polymerase factor sigma-70; Validated | 99.74 | |
| PRK09640 | 188 | RNA polymerase sigma factor SigX; Reviewed | 99.74 | |
| PRK09643 | 192 | RNA polymerase sigma factor SigM; Reviewed | 99.74 | |
| PRK09638 | 176 | RNA polymerase sigma factor SigY; Reviewed | 99.74 | |
| PRK09645 | 173 | RNA polymerase sigma factor SigL; Provisional | 99.74 | |
| PRK12529 | 178 | RNA polymerase sigma factor; Provisional | 99.74 | |
| PRK11924 | 179 | RNA polymerase sigma factor; Provisional | 99.73 | |
| PRK09415 | 179 | RNA polymerase factor sigma C; Reviewed | 99.73 | |
| TIGR02984 | 189 | Sig-70_plancto1 RNA polymerase sigma-70 factor, Pl | 99.73 | |
| PRK12512 | 184 | RNA polymerase sigma factor; Provisional | 99.73 | |
| TIGR02999 | 183 | Sig-70_X6 RNA polymerase sigma factor, TIGR02999 f | 99.73 | |
| PRK12531 | 194 | RNA polymerase sigma factor; Provisional | 99.73 | |
| TIGR02989 | 159 | Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodop | 99.73 | |
| PRK12542 | 185 | RNA polymerase sigma factor; Provisional | 99.73 | |
| PRK12533 | 216 | RNA polymerase sigma factor; Provisional | 99.73 | |
| PRK12518 | 175 | RNA polymerase sigma factor; Provisional | 99.72 | |
| PRK12535 | 196 | RNA polymerase sigma factor; Provisional | 99.72 | |
| PRK12543 | 179 | RNA polymerase sigma factor; Provisional | 99.72 | |
| TIGR02985 | 161 | Sig70_bacteroi1 RNA polymerase sigma-70 factor, Ba | 99.72 | |
| PRK12515 | 189 | RNA polymerase sigma factor; Provisional | 99.72 | |
| COG1595 | 182 | RpoE DNA-directed RNA polymerase specialized sigma | 99.72 | |
| TIGR02947 | 193 | SigH_actino RNA polymerase sigma-70 factor, TIGR02 | 99.71 | |
| PRK12536 | 181 | RNA polymerase sigma factor; Provisional | 99.71 | |
| PRK12522 | 173 | RNA polymerase sigma factor; Provisional | 99.71 | |
| PF08275 | 128 | Toprim_N: DNA primase catalytic core, N-terminal d | 99.71 | |
| PRK09647 | 203 | RNA polymerase sigma factor SigE; Reviewed | 99.71 | |
| PRK09642 | 160 | RNA polymerase sigma factor SigW; Reviewed | 99.71 | |
| PRK08241 | 339 | RNA polymerase factor sigma-70; Validated | 99.71 | |
| PRK12523 | 172 | RNA polymerase sigma factor; Reviewed | 99.71 | |
| PRK12539 | 184 | RNA polymerase sigma factor; Provisional | 99.7 | |
| PRK09649 | 185 | RNA polymerase sigma factor SigC; Reviewed | 99.7 | |
| PRK09638 | 176 | RNA polymerase sigma factor SigY; Reviewed | 99.7 | |
| TIGR02954 | 169 | Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02 | 99.7 | |
| TIGR03001 | 244 | Sig-70_gmx1 RNA polymerase sigma-70 factor, Myxoco | 99.7 | |
| PRK12528 | 161 | RNA polymerase sigma factor; Provisional | 99.7 | |
| TIGR02937 | 158 | sigma70-ECF RNA polymerase sigma factor, sigma-70 | 99.7 | |
| PRK12516 | 187 | RNA polymerase sigma factor; Provisional | 99.7 | |
| TIGR02943 | 188 | Sig70_famx1 RNA polymerase sigma-70 factor, TIGR02 | 99.7 | |
| PRK09644 | 165 | RNA polymerase sigma factor SigM; Provisional | 99.7 | |
| PRK09639 | 166 | RNA polymerase sigma factor SigX; Provisional | 99.7 | |
| PRK12529 | 178 | RNA polymerase sigma factor; Provisional | 99.7 | |
| PRK12512 | 184 | RNA polymerase sigma factor; Provisional | 99.69 | |
| TIGR02999 | 183 | Sig-70_X6 RNA polymerase sigma factor, TIGR02999 f | 99.69 | |
| PRK12520 | 191 | RNA polymerase sigma factor; Provisional | 99.69 | |
| TIGR02983 | 162 | SigE-fam_strep RNA polymerase sigma-70 factor, sig | 99.69 | |
| PRK12530 | 189 | RNA polymerase sigma factor; Provisional | 99.69 | |
| PRK09645 | 173 | RNA polymerase sigma factor SigL; Provisional | 99.69 | |
| PRK09415 | 179 | RNA polymerase factor sigma C; Reviewed | 99.69 | |
| PRK12544 | 206 | RNA polymerase sigma factor; Provisional | 99.69 | |
| PRK12545 | 201 | RNA polymerase sigma factor; Provisional | 99.69 | |
| PRK12533 | 216 | RNA polymerase sigma factor; Provisional | 99.69 | |
| PRK12518 | 175 | RNA polymerase sigma factor; Provisional | 99.68 | |
| PRK12532 | 195 | RNA polymerase sigma factor; Provisional | 99.68 | |
| PRK12547 | 164 | RNA polymerase sigma factor; Provisional | 99.68 | |
| PRK12541 | 161 | RNA polymerase sigma factor; Provisional | 99.68 | |
| PRK12535 | 196 | RNA polymerase sigma factor; Provisional | 99.68 | |
| TIGR02960 | 324 | SigX5 RNA polymerase sigma-70 factor, TIGR02960 fa | 99.68 | |
| COG1595 | 182 | RpoE DNA-directed RNA polymerase specialized sigma | 99.68 | |
| TIGR02947 | 193 | SigH_actino RNA polymerase sigma-70 factor, TIGR02 | 99.67 | |
| TIGR02985 | 161 | Sig70_bacteroi1 RNA polymerase sigma-70 factor, Ba | 99.67 | |
| TIGR02989 | 159 | Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodop | 99.67 | |
| PRK12540 | 182 | RNA polymerase sigma factor; Provisional | 99.67 | |
| TIGR02895 | 218 | spore_sigI RNA polymerase sigma-I factor. Members | 99.67 | |
| PRK09647 | 203 | RNA polymerase sigma factor SigE; Reviewed | 99.66 | |
| TIGR02937 | 158 | sigma70-ECF RNA polymerase sigma factor, sigma-70 | 99.66 | |
| PRK09637 | 181 | RNA polymerase sigma factor SigZ; Provisional | 99.66 | |
| PRK12523 | 172 | RNA polymerase sigma factor; Reviewed | 99.65 | |
| PRK09639 | 166 | RNA polymerase sigma factor SigX; Provisional | 99.65 | |
| PRK09642 | 160 | RNA polymerase sigma factor SigW; Reviewed | 99.65 | |
| PRK12527 | 159 | RNA polymerase sigma factor; Reviewed | 99.65 | |
| PRK08241 | 339 | RNA polymerase factor sigma-70; Validated | 99.64 | |
| PRK07037 | 163 | extracytoplasmic-function sigma-70 factor; Validat | 99.64 | |
| PRK12530 | 189 | RNA polymerase sigma factor; Provisional | 99.64 | |
| PRK09651 | 172 | RNA polymerase sigma factor FecI; Provisional | 99.64 | |
| PRK12532 | 195 | RNA polymerase sigma factor; Provisional | 99.64 | |
| PRK12528 | 161 | RNA polymerase sigma factor; Provisional | 99.64 | |
| PRK09644 | 165 | RNA polymerase sigma factor SigM; Provisional | 99.64 | |
| TIGR02950 | 154 | SigM_subfam RNA polymerase sigma factor, SigM fami | 99.64 | |
| TIGR02895 | 218 | spore_sigI RNA polymerase sigma-I factor. Members | 99.64 | |
| PRK12516 | 187 | RNA polymerase sigma factor; Provisional | 99.64 | |
| PRK12511 | 182 | RNA polymerase sigma factor; Provisional | 99.64 | |
| TIGR02943 | 188 | Sig70_famx1 RNA polymerase sigma-70 factor, TIGR02 | 99.64 | |
| PRK12517 | 188 | RNA polymerase sigma factor; Provisional | 99.64 | |
| TIGR02983 | 162 | SigE-fam_strep RNA polymerase sigma-70 factor, sig | 99.63 | |
| PRK12546 | 188 | RNA polymerase sigma factor; Provisional | 99.63 | |
| PRK12544 | 206 | RNA polymerase sigma factor; Provisional | 99.62 | |
| PRK12547 | 164 | RNA polymerase sigma factor; Provisional | 99.62 | |
| TIGR02959 | 170 | SigZ RNA polymerase sigma factor, SigZ family. Thi | 99.62 | |
| PRK12541 | 161 | RNA polymerase sigma factor; Provisional | 99.62 | |
| TIGR02960 | 324 | SigX5 RNA polymerase sigma-70 factor, TIGR02960 fa | 99.62 | |
| PRK12545 | 201 | RNA polymerase sigma factor; Provisional | 99.62 | |
| PRK12525 | 168 | RNA polymerase sigma factor; Provisional | 99.62 | |
| PRK09637 | 181 | RNA polymerase sigma factor SigZ; Provisional | 99.6 | |
| PRK12527 | 159 | RNA polymerase sigma factor; Reviewed | 99.6 | |
| PRK12540 | 182 | RNA polymerase sigma factor; Provisional | 99.59 | |
| TIGR02950 | 154 | SigM_subfam RNA polymerase sigma factor, SigM fami | 99.58 | |
| PRK09651 | 172 | RNA polymerase sigma factor FecI; Provisional | 99.58 | |
| PRK07037 | 163 | extracytoplasmic-function sigma-70 factor; Validat | 99.58 | |
| PRK12517 | 188 | RNA polymerase sigma factor; Provisional | 99.58 | |
| PRK09636 | 293 | RNA polymerase sigma factor SigJ; Provisional | 99.57 | |
| PRK12511 | 182 | RNA polymerase sigma factor; Provisional | 99.57 | |
| TIGR02959 | 170 | SigZ RNA polymerase sigma factor, SigZ family. Thi | 99.57 | |
| PRK12546 | 188 | RNA polymerase sigma factor; Provisional | 99.57 | |
| PRK09047 | 161 | RNA polymerase factor sigma-70; Validated | 99.56 | |
| PRK06704 | 228 | RNA polymerase factor sigma-70; Validated | 99.56 | |
| PRK12525 | 168 | RNA polymerase sigma factor; Provisional | 99.55 | |
| PRK09635 | 290 | sigI RNA polymerase sigma factor SigI; Provisional | 99.55 | |
| TIGR02957 | 281 | SigX4 RNA polymerase sigma-70 factor, TIGR02957 fa | 99.53 | |
| PRK09047 | 161 | RNA polymerase factor sigma-70; Validated | 99.49 | |
| PRK09636 | 293 | RNA polymerase sigma factor SigJ; Provisional | 99.49 | |
| PRK06704 | 228 | RNA polymerase factor sigma-70; Validated | 99.49 | |
| PRK09635 | 290 | sigI RNA polymerase sigma factor SigI; Provisional | 99.46 | |
| TIGR02957 | 281 | SigX4 RNA polymerase sigma-70 factor, TIGR02957 fa | 99.44 | |
| TIGR03209 | 142 | P21_Cbot clostridium toxin-associated regulator Bo | 99.39 | |
| PF03979 | 82 | Sigma70_r1_1: Sigma-70 factor, region 1.1; InterPr | 99.33 | |
| TIGR03209 | 142 | P21_Cbot clostridium toxin-associated regulator Bo | 99.31 | |
| PRK08311 | 237 | putative RNA polymerase sigma factor SigI; Reviewe | 99.3 | |
| PRK09191 | 261 | two-component response regulator; Provisional | 99.29 | |
| PF07638 | 185 | Sigma70_ECF: ECF sigma factor | 99.25 | |
| PRK08311 | 237 | putative RNA polymerase sigma factor SigI; Reviewe | 99.2 | |
| PF07638 | 185 | Sigma70_ECF: ECF sigma factor | 99.2 | |
| PRK09191 | 261 | two-component response regulator; Provisional | 99.15 | |
| PF04542 | 71 | Sigma70_r2: Sigma-70 region 2 ; InterPro: IPR00762 | 99.02 | |
| PF13155 | 96 | Toprim_2: Toprim-like | 99.02 | |
| TIGR02760 | 1960 | TraI_TIGR conjugative transfer relaxase protein Tr | 99.02 | |
| PF04545 | 50 | Sigma70_r4: Sigma-70, region 4; InterPro: IPR00763 | 98.99 | |
| PF04539 | 78 | Sigma70_r3: Sigma-70 region 3; InterPro: IPR007624 | 98.99 | |
| PF04542 | 71 | Sigma70_r2: Sigma-70 region 2 ; InterPro: IPR00762 | 98.98 | |
| PF04539 | 78 | Sigma70_r3: Sigma-70 region 3; InterPro: IPR007624 | 98.97 | |
| PF03979 | 82 | Sigma70_r1_1: Sigma-70 factor, region 1.1; InterPr | 98.95 | |
| PRK04031 | 408 | DNA primase; Provisional | 98.93 | |
| PHA02415 | 930 | DNA primase domain-containing protein | 98.88 | |
| PF00140 | 37 | Sigma70_r1_2: Sigma-70 factor, region 1.2; InterPr | 98.85 | |
| PF00140 | 37 | Sigma70_r1_2: Sigma-70 factor, region 1.2; InterPr | 98.83 | |
| cd03364 | 79 | TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The top | 98.8 | |
| PF04545 | 50 | Sigma70_r4: Sigma-70, region 4; InterPro: IPR00763 | 98.79 | |
| PF13662 | 81 | Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B | 98.72 | |
| PF08281 | 54 | Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013 | 98.67 | |
| PF13362 | 96 | Toprim_3: Toprim domain | 98.5 | |
| PF08281 | 54 | Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013 | 98.47 | |
| cd01027 | 81 | TOPRIM_RNase_M5_like TOPRIM_ RNase M5_like: The to | 98.42 | |
| cd01029 | 79 | TOPRIM_primases TOPRIM_primases: The topoisomerase | 98.4 | |
| PRK06930 | 170 | positive control sigma-like factor; Validated | 98.26 | |
| PRK06930 | 170 | positive control sigma-like factor; Validated | 98.11 | |
| PRK00118 | 104 | putative DNA-binding protein; Validated | 98.08 | |
| smart00493 | 76 | TOPRIM topoisomerases, DnaG-type primases, OLD fam | 98.08 | |
| cd06171 | 55 | Sigma70_r4 Sigma70, region (SR) 4 refers to the mo | 97.87 | |
| PRK00118 | 104 | putative DNA-binding protein; Validated | 97.85 | |
| TIGR00721 | 137 | tfx DNA-binding protein, Tfx family. Tfx from Meth | 97.64 | |
| PRK04217 | 110 | hypothetical protein; Provisional | 97.61 | |
| PRK07078 | 759 | hypothetical protein; Validated | 97.6 | |
| PRK03975 | 141 | tfx putative transcriptional regulator; Provisiona | 97.59 | |
| PF04297 | 101 | UPF0122: Putative helix-turn-helix protein, YlxM / | 97.56 | |
| cd06171 | 55 | Sigma70_r4 Sigma70, region (SR) 4 refers to the mo | 97.51 | |
| PF12965 | 130 | DUF3854: Domain of unknown function (DUF3854); Int | 97.5 | |
| PF04967 | 53 | HTH_10: HTH DNA binding domain; InterPro: IPR00705 | 97.41 | |
| smart00421 | 58 | HTH_LUXR helix_turn_helix, Lux Regulon. lux regulo | 97.25 | |
| PRK03975 | 141 | tfx putative transcriptional regulator; Provisiona | 97.2 | |
| TIGR01636 | 134 | phage_rinA phage transcriptional activator, RinA f | 97.2 | |
| TIGR03879 | 73 | near_KaiC_dom probable regulatory domain. This mod | 97.19 | |
| PF04297 | 101 | UPF0122: Putative helix-turn-helix protein, YlxM / | 97.18 | |
| PRK04217 | 110 | hypothetical protein; Provisional | 97.17 | |
| PF07374 | 100 | DUF1492: Protein of unknown function (DUF1492); In | 97.01 | |
| TIGR01636 | 134 | phage_rinA phage transcriptional activator, RinA f | 97.01 | |
| cd06170 | 57 | LuxR_C_like C-terminal DNA-binding domain of LuxR- | 96.99 | |
| TIGR01321 | 94 | TrpR trp operon repressor, proteobacterial. This m | 96.94 | |
| TIGR00721 | 137 | tfx DNA-binding protein, Tfx family. Tfx from Meth | 96.94 | |
| PF00196 | 58 | GerE: Bacterial regulatory proteins, luxR family; | 96.85 | |
| cd00188 | 83 | TOPRIM Topoisomerase-primase domain. This is a nuc | 96.79 | |
| PF04967 | 53 | HTH_10: HTH DNA binding domain; InterPro: IPR00705 | 96.75 | |
| TIGR03879 | 73 | near_KaiC_dom probable regulatory domain. This mod | 96.72 | |
| PRK15201 | 198 | fimbriae regulatory protein FimW; Provisional | 96.68 | |
| COG4941 | 415 | Predicted RNA polymerase sigma factor containing a | 96.68 | |
| COG4566 | 202 | TtrR Response regulator [Signal transduction mecha | 96.66 | |
| PF07374 | 100 | DUF1492: Protein of unknown function (DUF1492); In | 96.62 | |
| PRK01381 | 99 | Trp operon repressor; Provisional | 96.54 | |
| smart00421 | 58 | HTH_LUXR helix_turn_helix, Lux Regulon. lux regulo | 96.53 | |
| PRK13719 | 217 | conjugal transfer transcriptional regulator TraJ; | 96.45 | |
| PF00196 | 58 | GerE: Bacterial regulatory proteins, luxR family; | 96.42 | |
| TIGR01321 | 94 | TrpR trp operon repressor, proteobacterial. This m | 96.31 | |
| PRK15201 | 198 | fimbriae regulatory protein FimW; Provisional | 96.24 | |
| TIGR03020 | 247 | EpsA transcriptional regulator EpsA. Proteins in t | 96.14 | |
| PRK15411 | 207 | rcsA colanic acid capsular biosynthesis activation | 96.13 | |
| PF13936 | 44 | HTH_38: Helix-turn-helix domain; PDB: 2W48_A. | 96.1 | |
| TIGR03541 | 232 | reg_near_HchA LuxR family transcriptional regulato | 96.07 | |
| PRK11475 | 207 | DNA-binding transcriptional activator BglJ; Provis | 95.98 | |
| PRK10100 | 216 | DNA-binding transcriptional regulator CsgD; Provis | 95.97 | |
| PF02001 | 106 | DUF134: Protein of unknown function DUF134; InterP | 95.97 | |
| COG2739 | 105 | Uncharacterized protein conserved in bacteria [Fun | 95.95 | |
| PRK13719 | 217 | conjugal transfer transcriptional regulator TraJ; | 95.95 | |
| COG4566 | 202 | TtrR Response regulator [Signal transduction mecha | 95.94 | |
| cd06170 | 57 | LuxR_C_like C-terminal DNA-binding domain of LuxR- | 95.91 | |
| COG2771 | 65 | CsgD DNA-binding HTH domain-containing proteins [T | 95.89 | |
| COG3413 | 215 | Predicted DNA binding protein [General function pr | 95.85 | |
| PRK15411 | 207 | rcsA colanic acid capsular biosynthesis activation | 95.81 | |
| COG2197 | 211 | CitB Response regulator containing a CheY-like rec | 95.79 | |
| PRK01381 | 99 | Trp operon repressor; Provisional | 95.74 | |
| COG4941 | 415 | Predicted RNA polymerase sigma factor containing a | 95.69 | |
| TIGR01637 | 132 | phage_arpU phage transcriptional regulator, ArpU f | 95.67 | |
| PRK10840 | 216 | transcriptional regulator RcsB; Provisional | 95.67 | |
| PF02001 | 106 | DUF134: Protein of unknown function DUF134; InterP | 95.66 | |
| PRK11475 | 207 | DNA-binding transcriptional activator BglJ; Provis | 95.58 | |
| TIGR01637 | 132 | phage_arpU phage transcriptional regulator, ArpU f | 95.55 | |
| PRK13870 | 234 | transcriptional regulator TraR; Provisional | 95.5 | |
| PRK10188 | 240 | DNA-binding transcriptional activator SdiA; Provis | 95.3 | |
| COG2197 | 211 | CitB Response regulator containing a CheY-like rec | 95.24 | |
| PRK10840 | 216 | transcriptional regulator RcsB; Provisional | 95.19 | |
| PF13936 | 44 | HTH_38: Helix-turn-helix domain; PDB: 2W48_A. | 95.11 | |
| COG1356 | 143 | tfx Transcriptional regulator [DNA replication, re | 95.11 | |
| PRK15369 | 211 | two component system sensor kinase SsrB; Provision | 95.05 | |
| PRK13870 | 234 | transcriptional regulator TraR; Provisional | 94.88 | |
| TIGR03020 | 247 | EpsA transcriptional regulator EpsA. Proteins in t | 94.8 | |
| PRK10100 | 216 | DNA-binding transcriptional regulator CsgD; Provis | 94.8 | |
| COG2771 | 65 | CsgD DNA-binding HTH domain-containing proteins [T | 94.62 | |
| TIGR03541 | 232 | reg_near_HchA LuxR family transcriptional regulato | 94.57 | |
| PRK09390 | 202 | fixJ response regulator FixJ; Provisional | 94.52 | |
| COG1342 | 99 | Predicted DNA-binding proteins [General function p | 94.42 | |
| COG3413 | 215 | Predicted DNA binding protein [General function pr | 94.39 | |
| PRK04017 | 132 | hypothetical protein; Provisional | 94.38 | |
| COG1342 | 99 | Predicted DNA-binding proteins [General function p | 94.36 | |
| COG1356 | 143 | tfx Transcriptional regulator [DNA replication, re | 94.34 | |
| COG2739 | 105 | Uncharacterized protein conserved in bacteria [Fun | 94.26 | |
| PRK10651 | 216 | transcriptional regulator NarL; Provisional | 94.23 | |
| PF12645 | 65 | HTH_16: Helix-turn-helix domain; InterPro: IPR0247 | 94.22 | |
| PRK09483 | 217 | response regulator; Provisional | 94.17 | |
| PRK10188 | 240 | DNA-binding transcriptional activator SdiA; Provis | 94.03 | |
| PRK15320 | 251 | transcriptional activator SprB; Provisional | 93.92 | |
| PRK10360 | 196 | DNA-binding transcriptional activator UhpA; Provis | 93.91 | |
| PF12645 | 65 | HTH_16: Helix-turn-helix domain; InterPro: IPR0247 | 93.52 | |
| PRK09483 | 217 | response regulator; Provisional | 93.27 | |
| PF01751 | 100 | Toprim: Toprim domain; InterPro: IPR006171 This is | 93.06 | |
| PRK15320 | 251 | transcriptional activator SprB; Provisional | 93.0 | |
| PF05263 | 130 | DUF722: Protein of unknown function (DUF722); Inte | 92.94 | |
| PF09862 | 113 | DUF2089: Protein of unknown function (DUF2089); In | 92.62 | |
| PRK10403 | 215 | transcriptional regulator NarP; Provisional | 92.6 | |
| PRK15369 | 211 | two component system sensor kinase SsrB; Provision | 92.48 | |
| PF01726 | 65 | LexA_DNA_bind: LexA DNA binding domain; InterPro: | 92.42 | |
| PRK13558 | 665 | bacterio-opsin activator; Provisional | 91.8 | |
| TIGR02531 | 88 | yecD_yerC TrpR-related protein YerC/YecD. This mod | 91.74 | |
| PRK10651 | 216 | transcriptional regulator NarL; Provisional | 91.11 | |
| PRK15418 | 318 | transcriptional regulator LsrR; Provisional | 91.07 | |
| PF13613 | 53 | HTH_Tnp_4: Helix-turn-helix of DDE superfamily end | 90.85 | |
| PF13384 | 50 | HTH_23: Homeodomain-like domain; PDB: 2X48_C. | 90.71 | |
| PF09862 | 113 | DUF2089: Protein of unknown function (DUF2089); In | 90.54 | |
| PRK09935 | 210 | transcriptional regulator FimZ; Provisional | 90.31 | |
| PF05263 | 130 | DUF722: Protein of unknown function (DUF722); Inte | 90.26 | |
| COG1658 | 127 | Small primase-like proteins (Toprim domain) [DNA r | 90.24 | |
| PRK09390 | 202 | fixJ response regulator FixJ; Provisional | 90.18 | |
| PHA00675 | 78 | hypothetical protein | 90.05 | |
| PF00325 | 32 | Crp: Bacterial regulatory proteins, crp family; In | 89.87 | |
| PRK14719 | 360 | bifunctional RNAse/5-amino-6-(5-phosphoribosylamin | 89.87 | |
| PRK09958 | 204 | DNA-binding transcriptional activator EvgA; Provis | 89.44 | |
| PRK04841 | 903 | transcriptional regulator MalT; Provisional | 89.01 | |
| PF02796 | 45 | HTH_7: Helix-turn-helix domain of resolvase; Inter | 88.51 | |
| PF04218 | 53 | CENP-B_N: CENP-B N-terminal DNA-binding domain; In | 88.11 | |
| TIGR02531 | 88 | yecD_yerC TrpR-related protein YerC/YecD. This mod | 87.64 | |
| cd00569 | 42 | HTH_Hin_like Helix-turn-helix domain of Hin and re | 87.54 | |
| PF13412 | 48 | HTH_24: Winged helix-turn-helix DNA-binding; PDB: | 87.31 | |
| PRK13558 | 665 | bacterio-opsin activator; Provisional | 86.53 | |
| PF13613 | 53 | HTH_Tnp_4: Helix-turn-helix of DDE superfamily end | 86.47 | |
| PF10668 | 60 | Phage_terminase: Phage terminase small subunit; In | 86.41 | |
| PHA02547 | 179 | 55 RNA polymerase sigma factor; Provisional | 86.24 | |
| TIGR00334 | 174 | 5S_RNA_mat_M5 ribonuclease M5. This family of orth | 85.74 | |
| PRK10403 | 215 | transcriptional regulator NarP; Provisional | 85.7 | |
| PHA02547 | 179 | 55 RNA polymerase sigma factor; Provisional | 85.62 | |
| PF13404 | 42 | HTH_AsnC-type: AsnC-type helix-turn-helix domain; | 85.33 | |
| PF06530 | 125 | Phage_antitermQ: Phage antitermination protein Q; | 84.86 | |
| PF00325 | 32 | Crp: Bacterial regulatory proteins, crp family; In | 84.81 | |
| PF01726 | 65 | LexA_DNA_bind: LexA DNA binding domain; InterPro: | 84.79 | |
| PF03444 | 78 | HrcA_DNA-bdg: Winged helix-turn-helix transcriptio | 84.7 | |
| PRK10360 | 196 | DNA-binding transcriptional activator UhpA; Provis | 84.67 | |
| PRK09935 | 210 | transcriptional regulator FimZ; Provisional | 84.66 | |
| COG2390 | 321 | DeoR Transcriptional regulator, contains sigma fac | 84.61 | |
| PRK15418 | 318 | transcriptional regulator LsrR; Provisional | 84.6 | |
| PRK09958 | 204 | DNA-binding transcriptional activator EvgA; Provis | 84.19 | |
| PF13518 | 52 | HTH_28: Helix-turn-helix domain | 84.12 | |
| PRK10430 | 239 | DNA-binding transcriptional activator DcuR; Provis | 83.74 | |
| COG4026 | 290 | Uncharacterized protein containing TOPRIM domain, | 83.09 | |
| PF01371 | 87 | Trp_repressor: Trp repressor protein; InterPro: IP | 82.95 | |
| PRK04841 | 903 | transcriptional regulator MalT; Provisional | 82.94 | |
| PHA00675 | 78 | hypothetical protein | 82.63 | |
| smart00351 | 125 | PAX Paired Box domain. | 82.5 | |
| PF08279 | 55 | HTH_11: HTH domain; InterPro: IPR013196 Winged hel | 82.47 | |
| PF13384 | 50 | HTH_23: Homeodomain-like domain; PDB: 2X48_C. | 81.16 | |
| PF06056 | 58 | Terminase_5: Putative ATPase subunit of terminase | 81.03 | |
| PF13730 | 55 | HTH_36: Helix-turn-helix domain | 80.46 | |
| PF02796 | 45 | HTH_7: Helix-turn-helix domain of resolvase; Inter | 80.1 |
| >PRK05658 RNA polymerase sigma factor RpoD; Validated | Back alignment and domain information |
|---|
Probab=100.00 E-value=9.3e-110 Score=1048.44 Aligned_cols=601 Identities=56% Similarity=0.871 Sum_probs=543.5
Q ss_pred HHHHHHHHHHHHhccccCccchHHHhhhCCCCCCCHHHHHHHHHHHHhcCccccccccchhhhhccCCCC----CchhHH
Q psy15215 827 ENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNITS----DDDVEE 902 (1432)
Q Consensus 827 ~~~~~~~~~Li~~gk~~g~lT~~ei~~~lp~~~~~~e~ie~i~~~l~~~gI~v~e~~~~~e~~~~~~~~~----de~~~e 902 (1432)
...++.++.||..||++|||||+|||++||++.++++++++++.+|+++||+|+|.+++.+.+.+++... +++..+
T Consensus 7 ~~~~~~~~~li~~~k~~g~~t~~ei~~~lp~d~~~~d~~~~~~~~~~~~gi~v~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (619)
T PRK05658 7 DNPQSQLKKLIKRGKERGYLTYAELNDHLPEDIVDSEQIEDIIAMLNDMGIQVVEEAPDADDLLLAENEADAQTDEDAEE 86 (619)
T ss_pred hhhHHHHHHHHHhCcccCCccHHHHHHhCCCcCCCHHHHHHHHHHHHHcCceEEecCcchhhhcccccccccccchhhhh
Confidence 3344579999999999999999999999999999999999999999999999999998866554444221 333344
Q ss_pred HHHhhhccCCCCCCCCCChHHHHHHccCCccCCCchHHHHHHHHHHHhHHHHHHHHhhChHHHHHHHHHHHHhhhcccch
Q psy15215 903 ATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKI 982 (1432)
Q Consensus 903 ~~~~~~~~~~~~~grt~DPVRmYLREMG~v~LLTREgEIeIAKRIE~G~~~v~~al~~~P~~v~~il~~~e~l~~ge~~l 982 (1432)
+++.+++.+++++|+|||||||||||||+||||||||||+||||||+|+++|+++||.||+++++|++|+++|.+|+++|
T Consensus 87 ~~~~~~~~~~~~~~rt~DPVRMYLREMG~V~LLTREgEIeIAKRIE~G~~~v~~al~~~P~~i~~il~~~e~v~~ge~rl 166 (619)
T PRK05658 87 EAAAALSSVESEIGRTDDPVRMYLREMGTVELLTREGEIEIAKRIEAGENIMIAALCESPLTIDAILEWYDRLENGERRL 166 (619)
T ss_pred hhHHhhcccccccCCCCChHHHHHHHhccCcCCCcHHHHHHHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhCCCcH
Confidence 45556667788899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhccccCCCCCCchh-h--c-cCCCCCchhhhhhhccCCCCCHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHh--CC
Q psy15215 983 DEIVDGLIDKNFSSNNR-V--I-KGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKE--GY 1056 (1432)
Q Consensus 983 ~dii~g~~d~~~~~~~~-~--~-~~~~~~e~~~d~~~~~~~~~~~~~l~~l~~~~~~~f~~l~~~~~~~~~~~~~~--~~ 1056 (1432)
+|||+||.||+.+...+ . + ++.++++++++ ++.............+++.+.++|..|++.|.++.+++.++ |.
T Consensus 167 ~diI~~~~d~~~~~~~~~~~~e~~~~~~d~de~~-~e~~~~~~~~~~~~~~~~~v~~~~~~i~~~~~~~~~~~~k~~~g~ 245 (619)
T PRK05658 167 RELIDGFVDPNAEEDPAHVGSELEELDDDEDEEE-EEDENDDSLAADESELPEKVLEKFKALAKQYKKLRKAQEKKVEGR 245 (619)
T ss_pred HHHHhcccCCCccccccccccccccccccccccc-cccccccchhcccccCHHHHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence 99999999886321110 0 0 00000000000 00000001111223456888999999999999999999998 88
Q ss_pred C--cHHHHHHHHHHHHHhhccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHhcCCCccchhhHHH
Q psy15215 1057 N--SESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDN 1134 (1432)
Q Consensus 1057 ~--~~~~~k~~~~i~~~l~~irl~~k~i~~l~~~l~~~~~~ir~~Er~i~~~~~~~~~m~r~~fl~~f~~~e~~~~wl~~ 1134 (1432)
. ++.+.+.+..|++.|++|+|++++|++|++.|+..+++|+.+|+.|++ |++++||||++|++.|+||++|..|+.+
T Consensus 246 ~~~~~~~~~~r~~i~~~l~~lkL~~k~id~Lv~~lr~~~~rIr~~Er~i~~-~~~~~~m~R~~Fi~~f~gnEt~~~w~~~ 324 (619)
T PRK05658 246 LAQHKKYAKLREKLKEELKSLRLTSKQIDELVEQLRDINKRVRGQERELLR-LVERLKMPRKDFLKLFQGNELDITWLEK 324 (619)
T ss_pred chhhHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHcCCCHHHHHHHccCCcCCHHHHHH
Confidence 7 889999999999999999999999999999999999999999999999 9999999999999999999999999999
Q ss_pred HhhhcCchhHHHhhchHHHHHHHHHHHHhhhhcCCChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCC
Q psy15215 1135 ETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRG 1214 (1432)
Q Consensus 1135 ~~~~~~~~~~~L~~~~~~I~~~q~~L~~ie~~~~l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~ 1214 (1432)
.++.+++|++++.++.++|..+|++|.+++..+++++.+++.++++++.|+..+..|+++||.+|+|||++||++|.++|
T Consensus 325 ~~~~~~~~a~~l~~~~~~I~~lq~~L~~ie~~~~Ls~eElk~l~~~i~~g~~~~~~a~~~Li~~nlrlV~~iA~ky~~~g 404 (619)
T PRK05658 325 EIASGKPWSEFLVRVYDEIKKLQQELEAIEEETGLTIEELKEINRQISKGEAKARRAKKEMVEANLRLVISIAKKYTNRG 404 (619)
T ss_pred HHhccCchHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHhccchhhhHHHHHHHHHHHHHHHHHHHHHhhCC
Confidence 99989999999999999999999999999999999999999999999999988888999999999999999999999999
Q ss_pred CChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCC
Q psy15215 1215 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEP 1294 (1432)
Q Consensus 1215 ~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~p 1294 (1432)
++++|||||||||||+|+++|||++|++|||||+||||++|+++|++++|+||+|+|+.+++++++++.+++.+++||+|
T Consensus 405 l~~~DLiQeG~iGL~~Av~kfd~~~G~~FstYA~~wIr~aI~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~gr~p 484 (619)
T PRK05658 405 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGREP 484 (619)
T ss_pred CCHHHHHHHHHHHHHHHHHhcCccCCCchHHHhHHHHHHHHHHHHHHcCCceecCHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHH
Q psy15215 1295 DPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKV 1374 (1432)
Q Consensus 1295 t~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~V 1374 (1432)
|++|||+.||+|+++|+.+++.+..++||+.|++++++++++++++|....+|.+.+....++..|..+|++||+||+.|
T Consensus 485 t~~eiA~~l~~~~~~v~~~~~~~~~~~Sld~~i~~~~~~~l~d~i~d~~~~~p~~~~~~~~~~~~l~~~l~~L~~rE~~V 564 (619)
T PRK05658 485 TPEELAERLGMPEDKVRKVLKIAKEPISLETPIGDDEDSHLGDFIEDKNAELPIDAAIQESLREATTDVLASLTPREAKV 564 (619)
T ss_pred CHHHHHHHhCCCHHHHHHHHHhcCCCCcCCCCCCCCCCCchhhhcCCCCCCChHHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence 99999999999999999999999999999999999988899999999988899999999999999999999999999999
Q ss_pred HHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHhhhcc
Q psy15215 1375 LRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429 (1432)
Q Consensus 1375 l~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~~~~~ 1429 (1432)
|++|||+++++++|++|||+.||||++||||++++|++|||++.++..|++||++
T Consensus 565 l~~r~g~~~~~~~tl~ei~~~lgvs~eRVrQie~~al~kLr~~~~~~~l~~~~~~ 619 (619)
T PRK05658 565 LRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSRKLRSFLDN 619 (619)
T ss_pred HHHhcCCCCCCCccHHHHHHHhCCCHHHHHHHHHHHHHHHhchHHHHHHHHHhcC
Confidence 9999999988999999999999999999999999999999999999999999973
|
|
| >PRK05658 RNA polymerase sigma factor RpoD; Validated | Back alignment and domain information |
|---|
Probab=100.00 E-value=1.4e-109 Score=1046.89 Aligned_cols=589 Identities=55% Similarity=0.859 Sum_probs=532.9
Q ss_pred HHHHHHHHHhccccCcccHHHHHhhCCCCCCCHHHHHHHHHHHhhCCCcccccCCchhhhhccCCCC----CchhhHHHH
Q psy15215 40 RKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNITS----DDDVEEATE 115 (1432)
Q Consensus 40 ~~~l~~Li~~Gke~G~lTy~EInd~LP~~~~~~d~id~ii~~L~~~gI~v~d~~~~~~~~~~~~~~~----de~~~~~~~ 115 (1432)
++.+++||++||++|||||+||||+||+++++||+||+|+.+|+++||+|+|.+++.+++.+++... +++..++++
T Consensus 10 ~~~~~~li~~~k~~g~~t~~ei~~~lp~d~~~~d~~~~~~~~~~~~gi~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 89 (619)
T PRK05658 10 QSQLKKLIKRGKERGYLTYAELNDHLPEDIVDSEQIEDIIAMLNDMGIQVVEEAPDADDLLLAENEADAQTDEDAEEEAA 89 (619)
T ss_pred HHHHHHHHHhCcccCCccHHHHHHhCCCcCCCHHHHHHHHHHHHHcCceEEecCcchhhhcccccccccccchhhhhhhH
Confidence 4579999999999999999999999999999999999999999999999999998876654444321 333444455
Q ss_pred hhhccCCCCCCCCCChHHHHHHhcCCccCCCchHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHhhhcccchhhh
Q psy15215 116 AALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEI 195 (1432)
Q Consensus 116 ~~l~~~~~~~grt~DPVRmYLREMG~V~LLTREgEIeIAKRIE~G~~~v~~al~~~P~~v~~il~~~e~l~~ge~rl~di 195 (1432)
.+++.+++++|+|||||||||||||+||||||||||+||||||+|+++|+++||.||+++.+|++|+++|.+|+++++||
T Consensus 90 ~~~~~~~~~~~rt~DPVRMYLREMG~V~LLTREgEIeIAKRIE~G~~~v~~al~~~P~~i~~il~~~e~v~~ge~rl~di 169 (619)
T PRK05658 90 AALSSVESEIGRTDDPVRMYLREMGTVELLTREGEIEIAKRIEAGENIMIAALCESPLTIDAILEWYDRLENGERRLREL 169 (619)
T ss_pred HhhcccccccCCCCChHHHHHHHhccCcCCCcHHHHHHHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhCCCcHHHH
Confidence 56677788899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccccCCCCCCcch---hccCCCCCChhhhhhhcCCCCCCHHHHHHhHHHHHHHHHhHHHHHHHHHHHHHHc--CCC--c
Q psy15215 196 VDGLIDKNFSSNNR---VIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKE--GYN--S 268 (1432)
Q Consensus 196 i~g~~d~~~~~~~~---~~~~~~~~~e~~d~~~~~~~~~~~~~~~~l~~~~~~~f~~l~~~~~~~~~~~~~~--g~~--~ 268 (1432)
|+||.||+.+.... .+.++.+++++++++++............+++.+.++|..|++.|.+++++++++ |.. +
T Consensus 170 I~~~~d~~~~~~~~~~~~e~~~~~~d~de~~~e~~~~~~~~~~~~~~~~~v~~~~~~i~~~~~~~~~~~~k~~~g~~~~~ 249 (619)
T PRK05658 170 IDGFVDPNAEEDPAHVGSELEELDDDEDEEEEEDENDDSLAADESELPEKVLEKFKALAKQYKKLRKAQEKKVEGRLAQH 249 (619)
T ss_pred HhcccCCCccccccccccccccccccccccccccccccchhcccccCHHHHHHHHHHHHHHHHHHHHHHHhhccccchhh
Confidence 99999886321110 0000000000100000000001112223466889999999999999999999998 888 8
Q ss_pred HHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCChHHHHHhcCCCccchhhhhhHhhh
Q psy15215 269 ESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKI 348 (1432)
Q Consensus 269 ~~~~k~~~~i~~~l~~ikl~~k~ie~l~~~l~~~~~~ir~~Er~i~~~~v~~~gmpr~~fi~~f~~~e~~~~wl~~~~~~ 348 (1432)
+.+.+.+.+|++.|++|+|++++|++|++.|+..+++|+.+|+.|++ |++++||||++|++.|+||++|+.|+.+..+.
T Consensus 250 ~~~~~~r~~i~~~l~~lkL~~k~id~Lv~~lr~~~~rIr~~Er~i~~-~~~~~~m~R~~Fi~~f~gnEt~~~w~~~~~~~ 328 (619)
T PRK05658 250 KKYAKLREKLKEELKSLRLTSKQIDELVEQLRDINKRVRGQERELLR-LVERLKMPRKDFLKLFQGNELDITWLEKEIAS 328 (619)
T ss_pred HHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHcCCCHHHHHHHccCCcCCHHHHHHHHhc
Confidence 99999999999999999999999999999999999999999999999 99999999999999999999999999999998
Q ss_pred cCchHHHHhhchHHHHHHHHHHHhhhhccCCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChh
Q psy15215 349 QHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFL 428 (1432)
Q Consensus 349 ~~~~~~~L~~~~~~i~~~q~~L~~iE~~~~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~ 428 (1432)
+++|++.+....++|+.+|++|.+++..+++++.+++.++++++.|+..+..|+++||.+|+|||++||++|.++|++++
T Consensus 329 ~~~~a~~l~~~~~~I~~lq~~L~~ie~~~~Ls~eElk~l~~~i~~g~~~~~~a~~~Li~~nlrlV~~iA~ky~~~gl~~~ 408 (619)
T PRK05658 329 GKPWSEFLVRVYDEIKKLQQELEAIEEETGLTIEELKEINRQISKGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFL 408 (619)
T ss_pred cCchHHHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHhccchhhhHHHHHHHHHHHHHHHHHHHHHhhCCCCHH
Confidence 99999999999999999999999999999999999999999999999877789999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHH
Q psy15215 429 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSV 508 (1432)
Q Consensus 429 DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~e 508 (1432)
|||||||||||+|+++|||.+|++|||||+||||++|+++|++++|+||+|+|+.+++++++++.+++.+++|++||++|
T Consensus 409 DLiQeG~iGL~~Av~kfd~~~G~~FstYA~~wIr~aI~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~gr~pt~~e 488 (619)
T PRK05658 409 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEIGREPTPEE 488 (619)
T ss_pred HHHHHHHHHHHHHHHhcCccCCCchHHHhHHHHHHHHHHHHHHcCCceecCHHHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHH
Q psy15215 509 IAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMR 588 (1432)
Q Consensus 509 ia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr 588 (1432)
||+.||+|+++|+.+++++..++||+.|+++++++++++++++....+|.+.+....+...|..+|++||+||+.||++|
T Consensus 489 iA~~l~~~~~~v~~~~~~~~~~~Sld~~i~~~~~~~l~d~i~d~~~~~p~~~~~~~~~~~~l~~~l~~L~~rE~~Vl~~r 568 (619)
T PRK05658 489 LAERLGMPEDKVRKVLKIAKEPISLETPIGDDEDSHLGDFIEDKNAELPIDAAIQESLREATTDVLASLTPREAKVLRMR 568 (619)
T ss_pred HHHHhCCCHHHHHHHHHhcCCCCcCCCCCCCCCCCchhhhcCCCCCCChHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence 99999999999999999999999999999998888999999998888999999999999999999999999999999999
Q ss_pred hhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHH
Q psy15215 589 FGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 589 ~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~ 629 (1432)
||+|++.++|++|||+.||||+++|+|++.+|++|||++..
T Consensus 569 ~g~~~~~~~tl~ei~~~lgvs~eRVrQie~~al~kLr~~~~ 609 (619)
T PRK05658 569 FGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 609 (619)
T ss_pred cCCCCCCCccHHHHHHHhCCCHHHHHHHHHHHHHHHhchHH
Confidence 99998899999999999999999999999999999999864
|
|
| >COG0568 RpoD DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription] | Back alignment and domain information |
|---|
Probab=100.00 E-value=2.3e-58 Score=520.01 Aligned_cols=337 Identities=45% Similarity=0.730 Sum_probs=307.2
Q ss_pred ccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHhcCCCccchhhHHHHhhhcCc-hhHHHhhchHH
Q psy15215 1074 GIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHD-YNLILCRNIPS 1152 (1432)
Q Consensus 1074 ~irl~~k~i~~l~~~l~~~~~~ir~~Er~i~~~~~~~~~m~r~~fl~~f~~~e~~~~wl~~~~~~~~~-~~~~L~~~~~~ 1152 (1432)
..++++..+..+++.+......++..+..+.+.+.....+ .|+...+...+. |..... ....
T Consensus 3 ~~~~~~d~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~~~~~~-~~~~ 65 (342)
T COG0568 3 RVRLSADAVRAYLDEIGRIPLLVREAEVELAKQLEDEQLL----------------VELGEDLTDLKLGREPSER-ARRP 65 (342)
T ss_pred ccccchhHHHHHHHHhcchhhhhHHHHHHHHHHHhHhhhh----------------hHHHHHHHhcccccccchh-hhhh
Confidence 4678888899999999999999999998888776544333 344444443222 322222 4556
Q ss_pred HHHHHHHHHHhhhhcCCChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHH
Q psy15215 1153 IKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAV 1232 (1432)
Q Consensus 1153 I~~~q~~L~~ie~~~~l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav 1232 (1432)
+..++..+..++..+.+++++...+..++..|.. +..|+.+||++|+|+|++||++|.++|+++.|||||||||||+||
T Consensus 66 ~~~~~~~~~~~~~~~~l~~~Ee~~la~~~~~g~~-~~~Ak~klv~snLRlVvsIAk~Y~~rGL~~~DLIQEGniGLmkAV 144 (342)
T COG0568 66 AGRLSFYIRAIEAAPLLTPEEEKALARRLKRGER-DLDAKKKLVESNLRLVVSIAKKYTGRGLPFLDLIQEGNIGLMKAV 144 (342)
T ss_pred hhhHHHHHHHHhhhcccChHHHHHHHHHHHcCCc-cHHHHHHHHHHHHHHHHHHHHHhhcCCCcHHHHHhcccHHHHHHH
Confidence 7788899999999999999999999999999943 344999999999999999999999999999999999999999999
Q ss_pred HhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHH
Q psy15215 1233 DKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRK 1312 (1432)
Q Consensus 1233 ~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~ 1312 (1432)
++|||.+||+|||||+||||++|+++|.+|+|+||+|+||++++|+++|+.+++.|++|++||++|||+.+|+++++|+.
T Consensus 145 ekFdp~rG~kFsTYA~wWIrqaI~raI~~q~rtIRipvh~~e~~nkl~r~~r~l~q~~~r~p~~eeia~~l~~~~~~V~~ 224 (342)
T COG0568 145 EKFDPEKGFKFSTYATWWIRQAITRAIADQARTIRIPVHQVELINKLRRVKRELLQELGREPTPEEIAEELGVSPDKVRE 224 (342)
T ss_pred HhcCcccCCcchhHHHHHHHHHHHHHHHHhcchhhHhHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHhCCCHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHcc-CCHHHHHHHHHHhcccCCCCCCHHH
Q psy15215 1313 IMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNS-LTPRESKVLRMRFGIEMSSDHTLEE 1391 (1432)
Q Consensus 1313 ~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~-L~~rer~Vl~lr~~~~~~~~~t~~E 1391 (1432)
+++.+..|+||++|+|+++++.++||++|....+|++.+....+...+...|+. |||||+.||++|||.+++.++|++|
T Consensus 225 m~~~~~~~~SLd~~ig~ded~~l~d~leD~~~~~p~~~~~~~~~~~~~~~~L~~~Lt~rE~~Vi~~R~gl~~~~~~TLee 304 (342)
T COG0568 225 MLKRASEPISLDTPIGDDEDSELGDFLEDDKSVSPEDAVERESLKEDLNEVLAEALTERERRVIRLRFGLDDGEPKTLEE 304 (342)
T ss_pred HHHhcccCcccCCcCCCCcccHHHHHhhcCCcCCHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhccCCCCcchHHH
Confidence 999999999999999999999999999999988999999999999999999999 9999999999999999999999999
Q ss_pred HHHHhCCCHHHHHHHHHHHHHHhh-CchhhhhHHhhhc
Q psy15215 1392 VGKQFDVTRERIRQIEAKALRKLR-HPSRYYKLKIFLE 1428 (1432)
Q Consensus 1392 Ia~~l~vs~~~Vrq~~~rAl~kLr-~~~~~~~l~~~~~ 1428 (1432)
||..||||++|||||+.+|++||| |+.+...+++|++
T Consensus 305 vg~~~~isrERvRQIE~kAl~KLr~~~~~~~~~~~~l~ 342 (342)
T COG0568 305 LGEEFGISRERVRQIEAKALRKLRRHPERSALLRSYLD 342 (342)
T ss_pred HHHHhCCcHHHHHHHHHHHHHHHHHhhhhhhHHHHhhC
Confidence 999999999999999999999999 9999999999974
|
|
| >COG0568 RpoD DNA-directed RNA polymerase, sigma subunit (sigma70/sigma32) [Transcription] | Back alignment and domain information |
|---|
Probab=100.00 E-value=3.8e-55 Score=493.91 Aligned_cols=326 Identities=45% Similarity=0.722 Sum_probs=294.5
Q ss_pred hcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCChHHHHHhcCCCccchhhhhhHhhhcCc-hHHHHhhchH
Q psy15215 283 LGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHD-YNLILCRNIP 361 (1432)
Q Consensus 283 ~~ikl~~k~ie~l~~~l~~~~~~ir~~Er~i~~~~v~~~gmpr~~fi~~f~~~e~~~~wl~~~~~~~~~-~~~~L~~~~~ 361 (1432)
...++++..+..+++.+......++..+..+.+.+.....+ .|+...+...+. |..... ...
T Consensus 2 ~~~~~~~d~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~l~~~~~~~~~~~~-~~~ 64 (342)
T COG0568 2 KRVRLSADAVRAYLDEIGRIPLLVREAEVELAKQLEDEQLL----------------VELGEDLTDLKLGREPSER-ARR 64 (342)
T ss_pred CccccchhHHHHHHHHhcchhhhhHHHHHHHHHHHhHhhhh----------------hHHHHHHHhcccccccchh-hhh
Confidence 34678888899999999998889999988887776444333 334443333221 222222 455
Q ss_pred HHHHHHHHHHhhhhccCCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHH
Q psy15215 362 SIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKA 441 (1432)
Q Consensus 362 ~i~~~q~~L~~iE~~~~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~ka 441 (1432)
.+..++.++..++..+.+++++...+..++..|+. ...|+.+||++|+|+|++||++|.++|+++.|||||||||||+|
T Consensus 65 ~~~~~~~~~~~~~~~~~l~~~Ee~~la~~~~~g~~-~~~Ak~klv~snLRlVvsIAk~Y~~rGL~~~DLIQEGniGLmkA 143 (342)
T COG0568 65 PAGRLSFYIRAIEAAPLLTPEEEKALARRLKRGER-DLDAKKKLVESNLRLVVSIAKKYTGRGLPFLDLIQEGNIGLMKA 143 (342)
T ss_pred hhhhHHHHHHHHhhhcccChHHHHHHHHHHHcCCc-cHHHHHHHHHHHHHHHHHHHHHhhcCCCcHHHHHhcccHHHHHH
Confidence 67788899999999999999999999999999942 23399999999999999999999999999999999999999999
Q ss_pred HhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHH
Q psy15215 442 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIR 521 (1432)
Q Consensus 442 v~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~ 521 (1432)
|++|||.+||+|||||+||||++|+++|.+++|+||+|+||++++|+++|+.+++.|++|++||++|||+.+|+++++|+
T Consensus 144 VekFdp~rG~kFsTYA~wWIrqaI~raI~~q~rtIRipvh~~e~~nkl~r~~r~l~q~~~r~p~~eeia~~l~~~~~~V~ 223 (342)
T COG0568 144 VEKFDPEKGFKFSTYATWWIRQAITRAIADQARTIRIPVHQVELINKLRRVKRELLQELGREPTPEEIAEELGVSPDKVR 223 (342)
T ss_pred HHhcCcccCCcchhHHHHHHHHHHHHHHHHhcchhhHhHHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHhCCCHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhc-CCHHHHHHHHHHhhcccCCCCcHH
Q psy15215 522 KIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNS-LTPRESKVLRMRFGIEMSSDHTLE 600 (1432)
Q Consensus 522 ~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~-L~~rer~Vl~lr~~~~~~~~~t~~ 600 (1432)
.++..+..|+||+.|+|+++++.++||++|....+|++.+....+.+.+...|+. |||||+.||++|||.+++.++|++
T Consensus 224 ~m~~~~~~~~SLd~~ig~ded~~l~d~leD~~~~~p~~~~~~~~~~~~~~~~L~~~Lt~rE~~Vi~~R~gl~~~~~~TLe 303 (342)
T COG0568 224 EMLKRASEPISLDTPIGDDEDSELGDFLEDDKSVSPEDAVERESLKEDLNEVLAEALTERERRVIRLRFGLDDGEPKTLE 303 (342)
T ss_pred HHHHhcccCcccCCcCCCCcccHHHHHhhcCCcCCHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhccCCCCcchHH
Confidence 9999999999999999999999999999999888999999999999999999999 999999999999999999999999
Q ss_pred HHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 601 EVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 601 EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
|||+.+|||+++|||++.+|++|||.
T Consensus 304 evg~~~~isrERvRQIE~kAl~KLr~ 329 (342)
T COG0568 304 ELGEEFGISRERVRQIEAKALRKLRR 329 (342)
T ss_pred HHHHHhCCcHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999993
|
|
| >PRK09210 RNA polymerase sigma factor RpoD; Validated | Back alignment and domain information |
|---|
Probab=100.00 E-value=5.4e-54 Score=508.57 Aligned_cols=359 Identities=56% Similarity=0.889 Sum_probs=316.9
Q ss_pred HHHHHHHHHHHHhccccCccchHHHhhhCCCCCCCHHHHHHHHHHHHhcCccccccccchhhhhccCCCCCchhHHHHHh
Q psy15215 827 ENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNITSDDDVEEATEA 906 (1432)
Q Consensus 827 ~~~~~~~~~Li~~gk~~g~lT~~ei~~~lp~~~~~~e~ie~i~~~l~~~gI~v~e~~~~~e~~~~~~~~~de~~~e~~~~ 906 (1432)
....+.++.++..|+.+|++|+++|.+++++...+++.++.++..|...||.|.+..++.+..... +++..++...
T Consensus 9 ~~~~~~l~~l~~~~~~~~~it~eei~~~~~~~~~~~~~~~~i~~~l~~~gi~v~~~~~~~~~~~~~----e~~~~~~~~~ 84 (367)
T PRK09210 9 TTLEQVVKELIEKGKKRGTLTYDEIAEKLIPFELDSDQIDDLYERLEDAGISIVDEEGNPSSAQVV----EEEEEEELDN 84 (367)
T ss_pred hhHHHHHHHHHHhhhccCCCCHHHHHHhhcccCCCHHHHHHHHHHHHHcCCcccCCCccccccccc----cccchhhhhh
Confidence 345567888999999999999999999999988899999999999999999998654322211100 0011111111
Q ss_pred hhccCCCCCCCCCChHHHHHHccCCccCCCchHHHHHHHHHHHhHHHHHHHHhhChHHHHHHHHHHHHhhhcccchhhhh
Q psy15215 907 ALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIV 986 (1432)
Q Consensus 907 ~~~~~~~~~grt~DPVRmYLREMG~v~LLTREgEIeIAKRIE~G~~~v~~al~~~P~~v~~il~~~e~l~~ge~~l~dii 986 (1432)
.++. .+...++|||++||+|||.+||||.++|+++++++..|-
T Consensus 85 ~~~~--~~~~~~~d~~~~yl~~i~~~~~l~~~ee~~L~~~~~~Gd----------------------------------- 127 (367)
T PRK09210 85 DLSV--PPGVKINDPVRMYLKEIGRVPLLTAEEEIELAKRIEEGD----------------------------------- 127 (367)
T ss_pred hhhc--ccccccCcHHHHHHHHhhccCCCCHHHHHHHHHHHHhhH-----------------------------------
Confidence 1111 123467999999999999999999999988887765441
Q ss_pred ccccCCCCCCchhhccCCCCCchhhhhhhccCCCCCHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHHH
Q psy15215 987 DGLIDKNFSSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHN 1066 (1432)
Q Consensus 987 ~g~~d~~~~~~~~~~~~~~~~e~~~d~~~~~~~~~~~~~l~~l~~~~~~~f~~l~~~~~~~~~~~~~~~~~~~~~~k~~~ 1066 (1432)
T Consensus 128 -------------------------------------------------------------------------------- 127 (367)
T PRK09210 128 -------------------------------------------------------------------------------- 127 (367)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred HHHHHhhccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHhcCCCccchhhHHHHhhhcCchhHHH
Q psy15215 1067 NISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLIL 1146 (1432)
Q Consensus 1067 ~i~~~l~~irl~~k~i~~l~~~l~~~~~~ir~~Er~i~~~~~~~~~m~r~~fl~~f~~~e~~~~wl~~~~~~~~~~~~~L 1146 (1432)
T Consensus 128 -------------------------------------------------------------------------------- 127 (367)
T PRK09210 128 -------------------------------------------------------------------------------- 127 (367)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred hhchHHHHHHHHHHHHhhhhcCCChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHH
Q psy15215 1147 CRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNI 1226 (1432)
Q Consensus 1147 ~~~~~~I~~~q~~L~~ie~~~~l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~i 1226 (1432)
.. |++.|+..|+++|+++|++|++++.+++||+||||+
T Consensus 128 ---------------------------------------~~---A~~~Li~~~~~lV~~iA~~~~~~~~~~eDLiQEg~i 165 (367)
T PRK09210 128 ---------------------------------------EE---AKQRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNM 165 (367)
T ss_pred ---------------------------------------HH---HHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence 11 677899999999999999999999999999999999
Q ss_pred HHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCC
Q psy15215 1227 GLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMP 1306 (1432)
Q Consensus 1227 gl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~ 1306 (1432)
|||+|+++|+|.+|++|+|||+||||++|.++|++++|++|+|+|+++.+|++.++.+.+.+++||+||++|||+.||++
T Consensus 166 gL~~a~~~fd~~~g~~FsTyA~~wIr~aI~~~i~~~~r~irip~~~~~~~~~~~~~~~~l~~~lgr~pt~~EiA~~l~~~ 245 (367)
T PRK09210 166 GLMKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQELGREPTPEEIAEEMDMP 245 (367)
T ss_pred HHHHHHHhcCCCCCCchHHHHHHHHHHHHHHHHHHcCCceeccHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCcC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCC
Q psy15215 1307 EEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSD 1386 (1432)
Q Consensus 1307 ~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~ 1386 (1432)
+++|+.+++....++||+.|+++++++.++++++|....+|++.+....++..|..+|.+||++||.||.+|||+++|.+
T Consensus 246 ~~~v~~~~~~~~~~~SLd~~~~~~~~~~l~d~i~d~~~~~p~~~~~~~~~~~~l~~~l~~L~~rEr~Vl~lrygl~~~~~ 325 (367)
T PRK09210 246 PEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRT 325 (367)
T ss_pred HHHHHHHHHHhcCCCCcCCCCCCCCcchhhhhccCCCCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHhccCCCCC
Confidence 99999999999999999999998888889999999888899999999999999999999999999999999999988889
Q ss_pred CCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHhhhc
Q psy15215 1387 HTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428 (1432)
Q Consensus 1387 ~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~~~~ 1428 (1432)
+|++|||+.||||++||||++.+||+|||++.++..|++|++
T Consensus 326 ~tl~EIa~~lgvs~erVrQi~~~Al~kLr~~~~~~~l~~~~~ 367 (367)
T PRK09210 326 RTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 367 (367)
T ss_pred ccHHHHHHHHCCCHHHHHHHHHHHHHHHhChHHHhHHHHhhC
Confidence 999999999999999999999999999999999999999974
|
|
| >PRK07598 RNA polymerase sigma factor SigC; Validated | Back alignment and domain information |
|---|
Probab=100.00 E-value=8e-54 Score=501.29 Aligned_cols=250 Identities=46% Similarity=0.817 Sum_probs=238.4
Q ss_pred HHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHH
Q psy15215 1175 RDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 1254 (1432)
Q Consensus 1175 ~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~ 1254 (1432)
.+|.+.++.| .. |++.||.+|+++|+++|++|.++|+.++||||||++|||+|+++|||.+|++|||||+||||++
T Consensus 164 ~eL~~~l~~G-~~---A~e~LI~~nlrLVvsiAkky~~~g~~~eDLiQEG~iGL~ravekFDp~rG~rFSTYa~wwIRqa 239 (415)
T PRK07598 164 EELEQIQKQG-LR---AKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQG 239 (415)
T ss_pred HHHHHHHHCC-HH---HHHHHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHHH
Confidence 4567778888 34 9999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCC
Q psy15215 1255 ITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSH 1334 (1432)
Q Consensus 1255 i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~ 1334 (1432)
|++++++++++||+|+|+.+.++++++..+++.+++||.||++|||+.+||++++|+.++..+..++||+.|++++++..
T Consensus 240 I~r~i~~~srtIrlP~~i~e~l~~lrk~~r~L~~~lgR~pt~~EiA~~l~is~~~vr~~l~~~~~~~SLd~~vg~~~d~~ 319 (415)
T PRK07598 240 ITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTPTIEDIAQELEMTPTQVREVLLRVPRSVSLETKVGKDKDTE 319 (415)
T ss_pred HHHHHHHcCCceehhHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHHHccCCcccccccCCCcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999998888
Q ss_pred cCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHh
Q psy15215 1335 LGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKL 1414 (1432)
Q Consensus 1335 ~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kL 1414 (1432)
+.+++++. ..+|++.+....+...|..+|..|||+||.||.||||++.+.++|++|||+.||+|++||||++++|++||
T Consensus 320 l~d~l~~~-~~~pee~~~~~~l~~~L~~~L~~L~~reR~VI~LRygl~d~~~~Tl~EIA~~LGvS~erVRqie~rAl~KL 398 (415)
T PRK07598 320 LGDLLETD-DISPEEMLMRESLQRDLQHLLADLTSRERDVIRMRFGLADGHTYSLAEIGRALDLSRERVRQIESKALQKL 398 (415)
T ss_pred HHHhccCC-CCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHhcCCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence 88888754 46899999999999999999999999999999999998888889999999999999999999999999999
Q ss_pred hCchhhhhHHhhhcc
Q psy15215 1415 RHPSRYYKLKIFLEG 1429 (1432)
Q Consensus 1415 r~~~~~~~l~~~~~~ 1429 (1432)
|+|.++..|++|+++
T Consensus 399 R~~~~~~~l~~y~~~ 413 (415)
T PRK07598 399 RQPKRRNRIRDYLEL 413 (415)
T ss_pred hchhHHHHHHHHHHh
Confidence 999999999999964
|
|
| >PRK05901 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=100.00 E-value=1.3e-53 Score=511.34 Aligned_cols=238 Identities=58% Similarity=0.983 Sum_probs=231.9
Q ss_pred hHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccc
Q psy15215 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 1270 (1432)
Q Consensus 1191 A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 1270 (1432)
|++.||.+|+|||++||++|.++|++++||||||+||||+|+++|||.+|++|||||+||||++|.++|++++|+||+|+
T Consensus 272 Ar~~LI~sNLrLVvsIAkrY~~~Gl~~eDLIQEGnIGLikAvekFDp~rG~rFSTYA~wWIRqaI~raI~d~~r~IRvP~ 351 (509)
T PRK05901 272 AKNHLLEANLRLVVSLAKRYTNRGLSFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV 351 (509)
T ss_pred HHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCcccCCCchhhhHHHHHHHHHHHHHHcCCceecCH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 1271 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 1350 (1432)
Q Consensus 1271 ~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~ 1350 (1432)
|+.+.++++.++.+++.+++||+||++|||+.||+++++|..+++....++||+.|+++++++.++++++|....+|++.
T Consensus 352 ~~~e~i~kl~~~~~~L~~~lgr~PT~eELAe~Lgis~e~V~~~~~~~~~~~SLD~~i~~d~~~~l~d~l~D~~~~~p~~~ 431 (509)
T PRK05901 352 HMVETINKLGRIERELLQELGREPTPEELAKEMGFTPEKVREIQKYNREPISLDKTIGKEGDSQFGDFIEDSEAVSPVDA 431 (509)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHHhcCCCcccccccccCCcccHHHhccCCCCCCHHHH
Confidence 99999999999999999999999999999999999999999999999999999999998888889999999888899999
Q ss_pred HHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHhhhc
Q psy15215 1351 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428 (1432)
Q Consensus 1351 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~~~~ 1428 (1432)
+....++..|..+|..||+|||.||.+|||++.+.++|++|||+.||||++|||||+.+|++|||++.++..|+.|++
T Consensus 432 ~~~~~l~~~L~~aL~~L~eREr~VI~lRyGL~~~e~~TL~EIa~~lGVSrERVRQIe~kAL~KLR~~~~~~~l~~~l~ 509 (509)
T PRK05901 432 VSFTLLQDQLQEVLETLSEREAGVIRMRFGLTDGQPKTLDEIGQVYGVTRERIRQIESKTLRKLRHPSRSQVLRDFLD 509 (509)
T ss_pred HHHHHHHHHHHHHHhhCCHHHHHHHHHHhhccCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 999999999999999999999999999999988889999999999999999999999999999999999999999984
|
|
| >PRK09210 RNA polymerase sigma factor RpoD; Validated | Back alignment and domain information |
|---|
Probab=100.00 E-value=5.9e-52 Score=491.19 Aligned_cols=347 Identities=55% Similarity=0.882 Sum_probs=307.2
Q ss_pred HHHHHHHHHHhccccCcccHHHHHhhCCCCCCCHHHHHHHHHHHhhCCCcccccCCchhhhhccCCCCCchhhHHHHhhh
Q psy15215 39 LRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNITSDDDVEEATEAAL 118 (1432)
Q Consensus 39 ~~~~l~~Li~~Gke~G~lTy~EInd~LP~~~~~~d~id~ii~~L~~~gI~v~d~~~~~~~~~~~~~~~de~~~~~~~~~l 118 (1432)
..+.++.|+..|+++|++|+++|++++++...++++++.++..|.+.||.|.+..++.+.... .+++..++....+
T Consensus 11 ~~~~l~~l~~~~~~~~~it~eei~~~~~~~~~~~~~~~~i~~~l~~~gi~v~~~~~~~~~~~~----~e~~~~~~~~~~~ 86 (367)
T PRK09210 11 LEQVVKELIEKGKKRGTLTYDEIAEKLIPFELDSDQIDDLYERLEDAGISIVDEEGNPSSAQV----VEEEEEEELDNDL 86 (367)
T ss_pred HHHHHHHHHHhhhccCCCCHHHHHHhhcccCCCHHHHHHHHHHHHHcCCcccCCCcccccccc----ccccchhhhhhhh
Confidence 456789999999999999999999999988789999999999999999999865433221110 0001111111111
Q ss_pred ccCCCCCCCCCChHHHHHHhcCCccCCCchHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHhhhcccchhhhhcc
Q psy15215 119 STVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDG 198 (1432)
Q Consensus 119 ~~~~~~~grt~DPVRmYLREMG~V~LLTREgEIeIAKRIE~G~~~v~~al~~~P~~v~~il~~~e~l~~ge~rl~dii~g 198 (1432)
.. .+...++|||+|||+|||.+||||.++|+++++++..|-
T Consensus 87 ~~--~~~~~~~d~~~~yl~~i~~~~~l~~~ee~~L~~~~~~Gd------------------------------------- 127 (367)
T PRK09210 87 SV--PPGVKINDPVRMYLKEIGRVPLLTAEEEIELAKRIEEGD------------------------------------- 127 (367)
T ss_pred hc--ccccccCcHHHHHHHHhhccCCCCHHHHHHHHHHHHhhH-------------------------------------
Confidence 11 123467999999999999999999999999888776551
Q ss_pred ccCCCCCCcchhccCCCCCChhhhhhhcCCCCCCHHHHHHhHHHHHHHHHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHH
Q psy15215 199 LIDKNFSSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNI 278 (1432)
Q Consensus 199 ~~d~~~~~~~~~~~~~~~~~e~~d~~~~~~~~~~~~~~~~l~~~~~~~f~~l~~~~~~~~~~~~~~g~~~~~~~k~~~~i 278 (1432)
T Consensus 128 -------------------------------------------------------------------------------- 127 (367)
T PRK09210 128 -------------------------------------------------------------------------------- 127 (367)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred HHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCChHHHHHhcCCCccchhhhhhHhhhcCchHHHHhh
Q psy15215 279 SNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCR 358 (1432)
Q Consensus 279 ~~~l~~ikl~~k~ie~l~~~l~~~~~~ir~~Er~i~~~~v~~~gmpr~~fi~~f~~~e~~~~wl~~~~~~~~~~~~~L~~ 358 (1432)
T Consensus 128 -------------------------------------------------------------------------------- 127 (367)
T PRK09210 128 -------------------------------------------------------------------------------- 127 (367)
T ss_pred --------------------------------------------------------------------------------
Confidence
Q ss_pred chHHHHHHHHHHHhhhhccCCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHH
Q psy15215 359 NIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGL 438 (1432)
Q Consensus 359 ~~~~i~~~q~~L~~iE~~~~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL 438 (1432)
.. |++.|+..|+++|+++|++|++++.+++||+|||||||
T Consensus 128 -------------------------------------~~---A~~~Li~~~~~lV~~iA~~~~~~~~~~eDLiQEg~igL 167 (367)
T PRK09210 128 -------------------------------------EE---AKQRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGL 167 (367)
T ss_pred -------------------------------------HH---HHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence 01 66789999999999999999999999999999999999
Q ss_pred HHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHH
Q psy15215 439 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEE 518 (1432)
Q Consensus 439 ~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~ 518 (1432)
|+|+++|+|.+|++|+|||+||||++|.++|+++.|++|+|+|+++.+|++.++.+++.+++|++||++|||+.||++++
T Consensus 168 ~~a~~~fd~~~g~~FsTyA~~wIr~aI~~~i~~~~r~irip~~~~~~~~~~~~~~~~l~~~lgr~pt~~EiA~~l~~~~~ 247 (367)
T PRK09210 168 MKAVEKFDYRKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQELGREPTPEEIAEEMDMPPE 247 (367)
T ss_pred HHHHHhcCCCCCCchHHHHHHHHHHHHHHHHHHcCCceeccHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCcCHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCc
Q psy15215 519 KIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHT 598 (1432)
Q Consensus 519 ~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t 598 (1432)
+|+.+++.+..++||+.|+++++++.+++++++....+|++.+....+...|..+|.+||++|+.||.||||++.|.++|
T Consensus 248 ~v~~~~~~~~~~~SLd~~~~~~~~~~l~d~i~d~~~~~p~~~~~~~~~~~~l~~~l~~L~~rEr~Vl~lrygl~~~~~~t 327 (367)
T PRK09210 248 KVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPADHAAYELLKEQLEDVLDTLTDREENVLRLRFGLDDGRTRT 327 (367)
T ss_pred HHHHHHHHhcCCCCcCCCCCCCCcchhhhhccCCCCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHhccCCCCCcc
Confidence 99999999999999999999888888999999988889999999999999999999999999999999999998888999
Q ss_pred HHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 599 LEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 599 ~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
++|||+.||+|+++|+|++.+||++||++.
T Consensus 328 l~EIa~~lgvs~erVrQi~~~Al~kLr~~~ 357 (367)
T PRK09210 328 LEEVGKVFGVTRERIRQIEAKALRKLRHPS 357 (367)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHHHhChH
Confidence 999999999999999999999999999886
|
|
| >PRK05901 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=100.00 E-value=3.7e-51 Score=490.31 Aligned_cols=229 Identities=58% Similarity=0.973 Sum_probs=222.3
Q ss_pred hHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccch
Q psy15215 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 480 (1432)
Q Consensus 401 A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 480 (1432)
|++.||.+|+|||+++|++|.++|++++||||||+||||+|+++|||.+|++|||||+||||++|.++|++++|+||+|+
T Consensus 272 Ar~~LI~sNLrLVvsIAkrY~~~Gl~~eDLIQEGnIGLikAvekFDp~rG~rFSTYA~wWIRqaI~raI~d~~r~IRvP~ 351 (509)
T PRK05901 272 AKNHLLEANLRLVVSLAKRYTNRGLSFLDLIQEGNLGLIKAVEKFDYTKGYKFSTYATWWIRQAITRAMADQARTIRIPV 351 (509)
T ss_pred HHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCcccCCCchhhhHHHHHHHHHHHHHHcCCceecCH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 481 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 560 (1432)
Q Consensus 481 ~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~ 560 (1432)
|+.+.++++.++.+++.+.+|++||++|||+.|||++++|..+++....++||+.|+++++++.+++++++....+|.+.
T Consensus 352 ~~~e~i~kl~~~~~~L~~~lgr~PT~eELAe~Lgis~e~V~~~~~~~~~~~SLD~~i~~d~~~~l~d~l~D~~~~~p~~~ 431 (509)
T PRK05901 352 HMVETINKLGRIERELLQELGREPTPEELAKEMGFTPEKVREIQKYNREPISLDKTIGKEGDSQFGDFIEDSEAVSPVDA 431 (509)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHHhcCCCcccccccccCCcccHHHhccCCCCCCHHHH
Confidence 99999999999999999999999999999999999999999999999999999999998888889999999887899999
Q ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHH
Q psy15215 561 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 561 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~ 629 (1432)
+....+...|..+|.+|++||+.||++|||++.+.++|++|||+.||||+++|+|++.+|+.+||+...
T Consensus 432 ~~~~~l~~~L~~aL~~L~eREr~VI~lRyGL~~~e~~TL~EIa~~lGVSrERVRQIe~kAL~KLR~~~~ 500 (509)
T PRK05901 432 VSFTLLQDQLQEVLETLSEREAGVIRMRFGLTDGQPKTLDEIGQVYGVTRERIRQIESKTLRKLRHPSR 500 (509)
T ss_pred HHHHHHHHHHHHHHhhCCHHHHHHHHHHhhccCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999988889999999999999999999999999999998753
|
|
| >PRK07598 RNA polymerase sigma factor SigC; Validated | Back alignment and domain information |
|---|
Probab=100.00 E-value=3.2e-50 Score=471.00 Aligned_cols=239 Identities=46% Similarity=0.818 Sum_probs=227.0
Q ss_pred HHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHH
Q psy15215 385 RDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 464 (1432)
Q Consensus 385 ~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~ 464 (1432)
..|...++.| .. |++.||.+|+++|+++|++|.++|++++||||||++|||+|+++|||.+|++|||||+||||++
T Consensus 164 ~eL~~~l~~G-~~---A~e~LI~~nlrLVvsiAkky~~~g~~~eDLiQEG~iGL~ravekFDp~rG~rFSTYa~wwIRqa 239 (415)
T PRK07598 164 EELEQIQKQG-LR---AKEHMIKANLRLVVSVAKKYQNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQG 239 (415)
T ss_pred HHHHHHHHCC-HH---HHHHHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHHH
Confidence 3566778888 34 9999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCC
Q psy15215 465 ITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSH 544 (1432)
Q Consensus 465 i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~ 544 (1432)
|++++++++|+||+|+|+.+.+++++++.+++.+++||.||.+|||+.+||++++|+.++..+..++||+.++|++++..
T Consensus 240 I~r~i~~~srtIrlP~~i~e~l~~lrk~~r~L~~~lgR~pt~~EiA~~l~is~~~vr~~l~~~~~~~SLd~~vg~~~d~~ 319 (415)
T PRK07598 240 ITRAIATQSRTIRLPVHITEKLNKIKKAQRKISQEKGRTPTIEDIAQELEMTPTQVREVLLRVPRSVSLETKVGKDKDTE 319 (415)
T ss_pred HHHHHHHcCCceehhHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHHHccCCcccccccCCCcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999988888
Q ss_pred cCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHH
Q psy15215 545 LGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKL 624 (1432)
Q Consensus 545 ~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kL 624 (1432)
+.+++++. ..+|++.+....+...|..+|..|||+|+.||.||||++.+.++|++|||+.||+|+++|++++++|+++|
T Consensus 320 l~d~l~~~-~~~pee~~~~~~l~~~L~~~L~~L~~reR~VI~LRygl~d~~~~Tl~EIA~~LGvS~erVRqie~rAl~KL 398 (415)
T PRK07598 320 LGDLLETD-DISPEEMLMRESLQRDLQHLLADLTSRERDVIRMRFGLADGHTYSLAEIGRALDLSRERVRQIESKALQKL 398 (415)
T ss_pred HHHhccCC-CCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHhcCCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence 88888754 46899999999999999999999999999999999998888889999999999999999999999999999
Q ss_pred HHHH
Q psy15215 625 RPLA 628 (1432)
Q Consensus 625 r~~l 628 (1432)
|++-
T Consensus 399 R~~~ 402 (415)
T PRK07598 399 RQPK 402 (415)
T ss_pred hchh
Confidence 9764
|
|
| >PRK07406 RNA polymerase sigma factor RpoD; Validated | Back alignment and domain information |
|---|
Probab=100.00 E-value=8.8e-49 Score=458.04 Aligned_cols=245 Identities=55% Similarity=0.910 Sum_probs=232.0
Q ss_pred HHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHH
Q psy15215 1178 NRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 1257 (1432)
Q Consensus 1178 ~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~ 1257 (1432)
.+++..| .. |++.||.+|+++|+++|++|.++|.+++||+||||+|||+|+++||+.+|++|+|||+||||++|.+
T Consensus 128 ~~~~~~g-~~---A~~~Li~~~l~lV~~iA~ry~~~~~~~eDLiQEG~igL~~Ai~kFd~~kg~~FsTYA~wWIRqaI~~ 203 (373)
T PRK07406 128 RRRLMLG-RR---AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITR 203 (373)
T ss_pred HHHHhcC-HH---HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHHH
Confidence 3444555 44 9999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCc
Q psy15215 1258 SIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGD 1337 (1432)
Q Consensus 1258 ~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d 1337 (1432)
+|++++++||+|+|+.+.+++++++.+.+.+++|++||++|||+.+|+++++|..++.....++||+.|+++++++.+.+
T Consensus 204 ~I~~~~r~IRlP~~~~~~~~~i~~a~~~l~~~lgr~Pt~~EIA~~lg~~~e~v~~~~~~~~~~~SLd~~i~~~~~~~l~d 283 (373)
T PRK07406 204 AIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGD 283 (373)
T ss_pred HHHhcCCceeCCHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHHhcCCCcccCCCCCCCCcccHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999998888888999
Q ss_pred ccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1338 FIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1338 ~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
++++. ..+|++.+....+...|..+|++||++||.||.+|||++.+.++|++|||+.||||++||||++.+|++|||++
T Consensus 284 ~l~d~-~~~pee~~~~~~~~~~L~~aL~~L~~rEr~IL~lrygl~~~~~~Tl~EIA~~lgiS~eRVRQie~rAL~KLR~~ 362 (373)
T PRK07406 284 FIEAD-GETPEDDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHP 362 (373)
T ss_pred hcCCC-CCCHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHHHhch
Confidence 99876 45899999999999999999999999999999999998777889999999999999999999999999999999
Q ss_pred hhhhhHHhhh
Q psy15215 1418 SRYYKLKIFL 1427 (1432)
Q Consensus 1418 ~~~~~l~~~~ 1427 (1432)
.+...|+.|+
T Consensus 363 ~~~~~l~~~~ 372 (373)
T PRK07406 363 NRNSVLKEYI 372 (373)
T ss_pred hHHHHHHHHh
Confidence 9999999986
|
|
| >PRK05949 RNA polymerase sigma factor; Validated | Back alignment and domain information |
|---|
Probab=100.00 E-value=6.2e-48 Score=448.14 Aligned_cols=247 Identities=45% Similarity=0.820 Sum_probs=232.3
Q ss_pred HHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHH
Q psy15215 1176 DINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI 1255 (1432)
Q Consensus 1176 ~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i 1255 (1432)
.++..++.|+ . |++.||..|+++|+++|++|.+++..++||+||||+|||+|+++|++.+|++|||||+||||++|
T Consensus 81 eL~~~~~~g~-~---A~~~Li~~~~~~V~~iA~~y~~~~~~~eDLvQEg~igL~~a~~kfd~~~G~rFsTYa~wwIrq~I 156 (327)
T PRK05949 81 ELKQTLKQGK-R---AKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPTRGYKFSTYAYWWIRQAI 156 (327)
T ss_pred HHHHHHHccH-H---HHHHHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHhcCCcCCCChhhhhHHHHHHHH
Confidence 3555666774 4 89999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCc
Q psy15215 1256 TRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHL 1335 (1432)
Q Consensus 1256 ~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~ 1335 (1432)
.+++++++++||+|+|+.+.++++++..+++.+++|++||++|||+.+|+++++|..++.....++||+.|++++++..+
T Consensus 157 ~r~i~~~~r~iRlP~~~~~~~~~l~k~~~~l~~~lgr~pt~~eiA~~l~i~~~~v~~~~~~~~~~~SLd~~~~~~~~~~l 236 (327)
T PRK05949 157 TRAIAQQARTIRLPIHITEKLNKIKKTQRELSQKLGRSATPAEIAKELELEPSQIREYLSMARQPISLDVRVGDNQDTEL 236 (327)
T ss_pred HHHHHHcCCceeCCHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHHHHhccccccCCCcCCCCCccH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999998887788
Q ss_pred CcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhh
Q psy15215 1336 GDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415 (1432)
Q Consensus 1336 ~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr 1415 (1432)
.+.+++.. .+|++.+....+...|..+|+.|||+||.||.+|||++.+.++|++|||+.||||++||||++++|++|||
T Consensus 237 ~~~l~d~~-~~pe~~~~~~~~~~~L~~~L~~L~~rer~Vi~lr~gl~~~e~~Tl~EIa~~lgiS~erVrq~~~rAl~kLr 315 (327)
T PRK05949 237 SELLEDEG-PSPDQYITQELLRQDLNNLLAELTPQQREVLTLRFGLEDGKELSLAKVGERLNLSRERVRQLEHQALAHLR 315 (327)
T ss_pred HhhcCCCC-CCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHhccCCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 88888765 68999999999999999999999999999999999988888999999999999999999999999999999
Q ss_pred CchhhhhHHhhhcc
Q psy15215 1416 HPSRYYKLKIFLEG 1429 (1432)
Q Consensus 1416 ~~~~~~~l~~~~~~ 1429 (1432)
+ +...|+.|+.+
T Consensus 316 ~--~~~~l~~~~~~ 327 (327)
T PRK05949 316 R--RRANVKEYLAS 327 (327)
T ss_pred H--HHHHHHHHHhC
Confidence 9 45678888753
|
|
| >PRK07406 RNA polymerase sigma factor RpoD; Validated | Back alignment and domain information |
|---|
Probab=100.00 E-value=4.8e-46 Score=435.09 Aligned_cols=237 Identities=55% Similarity=0.899 Sum_probs=223.5
Q ss_pred HHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHH
Q psy15215 388 NRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 467 (1432)
Q Consensus 388 ~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~ 467 (1432)
..++..| .. |++.||..|+++|+++|++|.++|.+++||+|||+||||+|+++|++.+|++|+|||+||||++|.+
T Consensus 128 ~~~~~~g-~~---A~~~Li~~~l~lV~~iA~ry~~~~~~~eDLiQEG~igL~~Ai~kFd~~kg~~FsTYA~wWIRqaI~~ 203 (373)
T PRK07406 128 RRRLMLG-RR---AKEKMVQSNLRLVVSIAKKYMNRGLSFQDLIQEGSLGLIRAAEKFDHEKGYKFSTYATWWIRQAITR 203 (373)
T ss_pred HHHHhcC-HH---HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHHH
Confidence 3344555 44 9999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCc
Q psy15215 468 SIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGD 547 (1432)
Q Consensus 468 ~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~ 547 (1432)
+|++++++||+|+|+.+.+++++++.+.+.+++|++||.+|||+.||+++++|+.++..+..++||+.|+++++++.+.+
T Consensus 204 ~I~~~~r~IRlP~~~~~~~~~i~~a~~~l~~~lgr~Pt~~EIA~~lg~~~e~v~~~~~~~~~~~SLd~~i~~~~~~~l~d 283 (373)
T PRK07406 204 AIADQSRTIRLPVHLYETISRIKKTTKVLSQEFGRKPTEEEIAESMEMTIEKLRFIAKSAQLPISLETPIGKEEDSRLGD 283 (373)
T ss_pred HHHhcCCceeCCHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHHhcCCCcccCCCCCCCCcccHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999998888888899
Q ss_pred ccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHH
Q psy15215 548 FIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPL 627 (1432)
Q Consensus 548 ~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~ 627 (1432)
++++. ..+|++.+....+...|..+|++||++|+.||.+|||++.+.++|++|||+.||+|+++|+|++.+|+++||++
T Consensus 284 ~l~d~-~~~pee~~~~~~~~~~L~~aL~~L~~rEr~IL~lrygl~~~~~~Tl~EIA~~lgiS~eRVRQie~rAL~KLR~~ 362 (373)
T PRK07406 284 FIEAD-GETPEDDVAKNLLREDLEGVLATLSPRERDVLRLRYGLDDGRMKTLEEIGQIFNVTRERIRQIEAKALRKLRHP 362 (373)
T ss_pred hcCCC-CCCHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHHHhch
Confidence 99876 35899999999999999999999999999999999998777889999999999999999999999999999987
Q ss_pred HH
Q psy15215 628 AH 629 (1432)
Q Consensus 628 l~ 629 (1432)
..
T Consensus 363 ~~ 364 (373)
T PRK07406 363 NR 364 (373)
T ss_pred hH
Confidence 54
|
|
| >PRK07405 RNA polymerase sigma factor SigD; Validated | Back alignment and domain information |
|---|
Probab=100.00 E-value=3.1e-46 Score=433.81 Aligned_cols=246 Identities=43% Similarity=0.789 Sum_probs=231.2
Q ss_pred HHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHH
Q psy15215 1177 INRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 1256 (1432)
Q Consensus 1177 l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~ 1256 (1432)
|+..++.|+ . |++.||.+|+++|+++|++|++++.+++||+||||+|||+++++|++.+|++|+|||+||||++|.
T Consensus 72 L~~~~~~g~-~---A~~~L~~~~~~~V~~~a~~~~~~~~~~eDLvQEg~i~L~~a~~~fd~~~g~rf~tYa~~wIR~~I~ 147 (317)
T PRK07405 72 LRSAIAEGE-A---AKRKMVEANLRLVVSVAKKYLKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWWIRQAIT 147 (317)
T ss_pred HHHHHhccH-H---HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhCcCCCCChHHHHHHHHHHHHH
Confidence 455666674 4 999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcC
Q psy15215 1257 RSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLG 1336 (1432)
Q Consensus 1257 ~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~ 1336 (1432)
++|++++++||+|+|+.+.++++++..+.+.+++|++||++|||+.+|+++++|..+++....++||+.|++++++..+.
T Consensus 148 ~~i~~~~~~ir~p~~~~~~~~~l~~~~~~l~~~~gr~pt~~eiA~~~~~~~~~v~~~~~~~~~~~SLd~~~~~~~~~~l~ 227 (317)
T PRK07405 148 RAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQQLGRAATIGELAEELELTPKQVREYLERARQPLSLDLRVGDNQDTELG 227 (317)
T ss_pred HHHHhcCCCccCChHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHHHHcCCCeeecCCCCCCCCccHH
Confidence 99999999999999999999999999999999999999999999999999999999999888999999999888777888
Q ss_pred cccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhC
Q psy15215 1337 DFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 1416 (1432)
Q Consensus 1337 d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~ 1416 (1432)
+++++.. .+|++.+....+...|..+|++|||+||.||.+|||++.+.++|++|||+.||||++||||++++|++|||+
T Consensus 228 ~~~~d~~-~~pe~~~~~~~~~~~l~~al~~L~~rer~Vi~lr~gl~~~~~~Tl~EIa~~lgiS~erVRqi~~rAl~kLr~ 306 (317)
T PRK07405 228 ELLEDTG-ASPEDFATQSSLQLDLERLMEDLTPQQKEVIALRFGLEDGQPLTLAKIGERLNISRERVRQIEREALSKLRK 306 (317)
T ss_pred HhhcCCC-CCHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHhhcCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHHHHH
Confidence 8888764 689999999999999999999999999999999999887788999999999999999999999999999999
Q ss_pred chhhhhHHhhhcc
Q psy15215 1417 PSRYYKLKIFLEG 1429 (1432)
Q Consensus 1417 ~~~~~~l~~~~~~ 1429 (1432)
. ...|+.|+.+
T Consensus 307 ~--~~~l~~~~~~ 317 (317)
T PRK07405 307 R--KANIQEYLAS 317 (317)
T ss_pred H--HHHHHHHHhC
Confidence 4 5678888753
|
|
| >PRK07921 RNA polymerase sigma factor SigB; Reviewed | Back alignment and domain information |
|---|
Probab=100.00 E-value=3.9e-46 Score=431.28 Aligned_cols=272 Identities=44% Similarity=0.807 Sum_probs=253.8
Q ss_pred HHHHHHHhhhhcCCChhhHHHHHHHHHhhhh------------------------hhhhhHHHHHHHHHHHHHHHHHhcc
Q psy15215 1156 LQQKLINLQTDIVLPLNDLRDINRKMIAGEM------------------------KARKAKREMTEANLRLVISIAKKYT 1211 (1432)
Q Consensus 1156 ~q~~L~~ie~~~~l~~~e~~~l~~~~~~g~~------------------------~~~~A~~~Li~~~~~lV~~ia~~y~ 1211 (1432)
+..+|.++.....+++++...|.++++.|.. ....|++.|+..|+++|+++|++|.
T Consensus 28 ~~~Yl~~i~~~~lLt~eeE~~La~~~~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~A~~~Lv~~~~~lV~~iA~r~~ 107 (324)
T PRK07921 28 VRVYLNGIGKTALLTAADEVELAKRIEAGLYAEHLLETRKRLSEARKRDLAAVVRDGEAARRHLLEANLRLVVSLAKRYT 107 (324)
T ss_pred HHHHHHHhcccCCCCHHHHHHHHHHHHhhhhhhhhhccccccchhHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3457777888888888888888888887710 0234999999999999999999999
Q ss_pred CCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhC
Q psy15215 1212 DRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETG 1291 (1432)
Q Consensus 1212 ~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g 1291 (1432)
+++.+++||+||||+|||+|+++|+|.+|++|+|||+||||++|.+++++++++||+|+|+.+.+++++++.+.+.+++|
T Consensus 108 ~~~~~~eDLvQEg~igL~~a~~~fdp~~G~rFsTYA~~wIr~aI~~~i~~~~r~vrlP~~~~~~~~~l~~~~~~l~~~lg 187 (324)
T PRK07921 108 GRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQQLG 187 (324)
T ss_pred cCCCCHHHHHHHHHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHHHHHHHcCCCccCCHHHHHHHHHHHHHHHHHHHHhC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHH
Q psy15215 1292 SEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRE 1371 (1432)
Q Consensus 1292 ~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~re 1371 (1432)
++||.+|||+.+|+++++|..++.....++|||.|++++++.++.+++++....+|++.+....+...|..+|+.||+||
T Consensus 188 r~pt~~EiA~~lgi~~~~v~~~~~~~~~~~SLd~~~~~~~~~~l~d~l~d~~~~~pe~~~~~~~~~~~l~~~L~~L~eRE 267 (324)
T PRK07921 188 REATDEELAEESGIPEEKIADLLEHSRDPVSLDMPVGSDEEAPLGDFIEDSEATSAENAVIAGLLHTDIRSVLATLDERE 267 (324)
T ss_pred CCCCHHHHHHHhCcCHHHHHHHHHHcCCCceecCCCCCCCCchHHHHhcCCCCCCHHHHHHHHHHHHHHHHHHHhCCHHH
Confidence 99999999999999999999999988899999999988877788999998877789999999999999999999999999
Q ss_pred HHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHhhh
Q psy15215 1372 SKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFL 1427 (1432)
Q Consensus 1372 r~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~~~ 1427 (1432)
+.||.+|||++.+.++|++|||+.||||++|||||+.+|++|||++.+...|+.|+
T Consensus 268 r~Vl~~rygl~~~~~~Tl~eIa~~lgvS~eRVrQIe~~Al~KLr~~~~~~~l~~~~ 323 (324)
T PRK07921 268 QQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMSKLRNGERADRLRSYA 323 (324)
T ss_pred HHHHHHHHhcCCCCCcCHHHHHHHHCCCHHHHHHHHHHHHHHHHhHHHHHHHHHhh
Confidence 99999999988778899999999999999999999999999999999999999986
|
|
| >PRK05949 RNA polymerase sigma factor; Validated | Back alignment and domain information |
|---|
Probab=100.00 E-value=1.8e-45 Score=427.51 Aligned_cols=238 Identities=45% Similarity=0.826 Sum_probs=225.3
Q ss_pred HHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHH
Q psy15215 386 DINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI 465 (1432)
Q Consensus 386 ~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i 465 (1432)
.|+..++.|+ . |++.||..|+++|+++|++|.+++.+++|||||||+|||+|+++|++.+|++|||||+||||++|
T Consensus 81 eL~~~~~~g~-~---A~~~Li~~~~~~V~~iA~~y~~~~~~~eDLvQEg~igL~~a~~kfd~~~G~rFsTYa~wwIrq~I 156 (327)
T PRK05949 81 ELKQTLKQGK-R---AKQKMIEANLRLVVAIAKKYQKRNMEFLDLIQEGTLGLERGVEKFDPTRGYKFSTYAYWWIRQAI 156 (327)
T ss_pred HHHHHHHccH-H---HHHHHHHHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHhcCCcCCCChhhhhHHHHHHHH
Confidence 4556677774 4 89999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCc
Q psy15215 466 TRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHL 545 (1432)
Q Consensus 466 ~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~ 545 (1432)
.+++++++++||+|+|+.+.+++++++.+++.+++|++||++|||+.+|+++++|..++..+..++||+.|++++++..+
T Consensus 157 ~r~i~~~~r~iRlP~~~~~~~~~l~k~~~~l~~~lgr~pt~~eiA~~l~i~~~~v~~~~~~~~~~~SLd~~~~~~~~~~l 236 (327)
T PRK05949 157 TRAIAQQARTIRLPIHITEKLNKIKKTQRELSQKLGRSATPAEIAKELELEPSQIREYLSMARQPISLDVRVGDNQDTEL 236 (327)
T ss_pred HHHHHHcCCceeCCHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHHHHhccccccCCCcCCCCCccH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999998877788
Q ss_pred CcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 546 GDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 546 ~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
.+.+++.. .+|++.+....+...|..+|++|||+||.||.||||++.+.++|++|||+.||+|+++|++++++|+++||
T Consensus 237 ~~~l~d~~-~~pe~~~~~~~~~~~L~~~L~~L~~rer~Vi~lr~gl~~~e~~Tl~EIa~~lgiS~erVrq~~~rAl~kLr 315 (327)
T PRK05949 237 SELLEDEG-PSPDQYITQELLRQDLNNLLAELTPQQREVLTLRFGLEDGKELSLAKVGERLNLSRERVRQLEHQALAHLR 315 (327)
T ss_pred HhhcCCCC-CCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHhccCCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 88888765 68999999999999999999999999999999999988888899999999999999999999999999999
Q ss_pred HHH
Q psy15215 626 PLA 628 (1432)
Q Consensus 626 ~~l 628 (1432)
+..
T Consensus 316 ~~~ 318 (327)
T PRK05949 316 RRR 318 (327)
T ss_pred HHH
Confidence 843
|
|
| >TIGR02997 Sig70-cyanoRpoD RNA polymerase sigma factor, cyanobacterial RpoD-like family | Back alignment and domain information |
|---|
Probab=100.00 E-value=1.2e-44 Score=419.67 Aligned_cols=235 Identities=51% Similarity=0.912 Sum_probs=221.3
Q ss_pred HHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHH
Q psy15215 1176 DINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI 1255 (1432)
Q Consensus 1176 ~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i 1255 (1432)
+++.+++.| .. |++.||.+|+++|+++|++|.++|.+++||+||||+|||+|+++|||.+|++|+|||+||||++|
T Consensus 64 ~l~~~~~~g-~~---A~~~Lv~~~lrlV~~iA~~y~~~~~~~eDLiQEg~igL~~a~~kfd~~~g~rFsTya~~wIr~~I 139 (298)
T TIGR02997 64 ELRQRLRQG-QR---AKEKMIKANLRLVVSVAKKYQNRGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAYWWIRQGI 139 (298)
T ss_pred HHHHHHhcc-HH---HHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCccCCCChHHHHHHHHHHHH
Confidence 455666677 35 99999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCc
Q psy15215 1256 TRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHL 1335 (1432)
Q Consensus 1256 ~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~ 1335 (1432)
.+++.++++++|+|.|+...++++++..+.+.+.+|++||.+|||+.+|+++++|..++.....++|||.|++++++..+
T Consensus 140 ~r~i~~~~r~vr~p~~~~~~~~~~rk~~~~l~~~~~~~pt~~eia~~l~~~~~~v~~~~~~~~~~~SLd~~~~~~~~~~~ 219 (298)
T TIGR02997 140 TRAIANQSRTIRLPIHITEKLNKIKKVQRELSQKLGRTPSEAEIAEALELEPEQVRELLQRARQPVSLDAPVGDEEDTEL 219 (298)
T ss_pred HHHHHhcCCCeeCcHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHHHcccCcccCCCcCCCCcchH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999987776677
Q ss_pred CcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhh
Q psy15215 1336 GDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415 (1432)
Q Consensus 1336 ~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr 1415 (1432)
.+.+++ ...+|++.+....+...|..+|++|||+||.||.+|||++.+.++|++|||+.||||++||||++++|++|||
T Consensus 220 ~~~~~~-~~~~pe~~~~~~~~~~~L~~~L~~L~~rer~Vi~lr~gl~~~~~~Tl~EIa~~lgiS~erVrq~~~rAl~kLr 298 (298)
T TIGR02997 220 GDLLED-DGESPEEQVERESLRQDLESLLAELTPRERQVLRLRFGLDGGEPLTLAEIGRRLNLSRERVRQIEAKALRKLR 298 (298)
T ss_pred HHhccC-CCCCHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHHcC
Confidence 777777 4568999999999999999999999999999999999987778889999999999999999999999999997
|
This family includes a number of closely related sigma-70 (TIGR02937) factors in the cyanobacteria. All appear most closely related to the essential sigma-70 factor RpoD, and some score above trusted to the RpoD C-terminal domain model (TIGR02393). |
| >PRK07405 RNA polymerase sigma factor SigD; Validated | Back alignment and domain information |
|---|
Probab=100.00 E-value=5.4e-44 Score=415.04 Aligned_cols=237 Identities=44% Similarity=0.805 Sum_probs=224.4
Q ss_pred HHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHH
Q psy15215 387 INRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 466 (1432)
Q Consensus 387 l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~ 466 (1432)
|+..++.|+ . |++.||..|+++|+++|++|++++.+++||+||||+|||+++++|++.+|++|+|||+||||++|.
T Consensus 72 L~~~~~~g~-~---A~~~L~~~~~~~V~~~a~~~~~~~~~~eDLvQEg~i~L~~a~~~fd~~~g~rf~tYa~~wIR~~I~ 147 (317)
T PRK07405 72 LRSAIAEGE-A---AKRKMVEANLRLVVSVAKKYLKRNVDLLDLIQEGTIGMQRGVEKFDPTKGYRFSTYAYWWIRQAIT 147 (317)
T ss_pred HHHHHhccH-H---HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhCcCCCCChHHHHHHHHHHHHH
Confidence 455666774 5 999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcC
Q psy15215 467 RSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLG 546 (1432)
Q Consensus 467 ~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~ 546 (1432)
++|++++++||+|+|+.+.+++++++.+.+.+.+|++||.+|||+.+|+++++|..+++....++||+.|++++++..+.
T Consensus 148 ~~i~~~~~~ir~p~~~~~~~~~l~~~~~~l~~~~gr~pt~~eiA~~~~~~~~~v~~~~~~~~~~~SLd~~~~~~~~~~l~ 227 (317)
T PRK07405 148 RAIAEKSRTIRLPIHITEKLNKIKKAQRQLSQQLGRAATIGELAEELELTPKQVREYLERARQPLSLDLRVGDNQDTELG 227 (317)
T ss_pred HHHHhcCCCccCChHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHHHHcCCCeeecCCCCCCCCccHH
Confidence 99999999999999999999999999999999999999999999999999999999999889999999999888777888
Q ss_pred cccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 547 DFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 547 ~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
+++++.. .+|++.+....+...|..+|++|||+||.||.+|||++.+.++|++|||+.||+|+++|+|++++|+++||+
T Consensus 228 ~~~~d~~-~~pe~~~~~~~~~~~l~~al~~L~~rer~Vi~lr~gl~~~~~~Tl~EIa~~lgiS~erVRqi~~rAl~kLr~ 306 (317)
T PRK07405 228 ELLEDTG-ASPEDFATQSSLQLDLERLMEDLTPQQKEVIALRFGLEDGQPLTLAKIGERLNISRERVRQIEREALSKLRK 306 (317)
T ss_pred HhhcCCC-CCHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHhhcCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHHHHH
Confidence 8888764 689999999999999999999999999999999999887788999999999999999999999999999998
Q ss_pred HH
Q psy15215 627 LA 628 (1432)
Q Consensus 627 ~l 628 (1432)
..
T Consensus 307 ~~ 308 (317)
T PRK07405 307 RK 308 (317)
T ss_pred HH
Confidence 53
|
|
| >PRK07921 RNA polymerase sigma factor SigB; Reviewed | Back alignment and domain information |
|---|
Probab=100.00 E-value=6.3e-44 Score=412.92 Aligned_cols=260 Identities=45% Similarity=0.821 Sum_probs=246.8
Q ss_pred HHHHHHhhhhccCCChhhHHHHHHHHHHh---------------------------HHHHHHhHHHHHHHHHHHHHHHHH
Q psy15215 366 LQQKLINLQTDIVLPLNDLRDINRKMIAG---------------------------EMKARKAKREMTEANLRLVISIAK 418 (1432)
Q Consensus 366 ~q~~L~~iE~~~~l~~~e~~~l~~~i~~g---------------------------d~~~~~A~~~li~~~~~lV~~ia~ 418 (1432)
+..+|.++.....+++++...|.++++.| +. .|++.|+..|+++|+++|+
T Consensus 28 ~~~Yl~~i~~~~lLt~eeE~~La~~~~~g~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~A~~~Lv~~~~~lV~~iA~ 104 (324)
T PRK07921 28 VRVYLNGIGKTALLTAADEVELAKRIEAGLYAEHLLETRKRLSEARKRDLAAVVRDGE---AARRHLLEANLRLVVSLAK 104 (324)
T ss_pred HHHHHHHhcccCCCCHHHHHHHHHHHHhhhhhhhhhccccccchhHHHHHHHHHhcCH---HHHHHHHHHHHHHHHHHHH
Confidence 44688888888999999999999999887 33 4999999999999999999
Q ss_pred hcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHH
Q psy15215 419 KYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQ 498 (1432)
Q Consensus 419 ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~ 498 (1432)
+|.+++.+++||+|||+||||+|+++|+|.+|++|+|||+||||++|.++|++++++||+|+|+.+.+++++++.+.+.+
T Consensus 105 r~~~~~~~~eDLvQEg~igL~~a~~~fdp~~G~rFsTYA~~wIr~aI~~~i~~~~r~vrlP~~~~~~~~~l~~~~~~l~~ 184 (324)
T PRK07921 105 RYTGRGMPLLDLIQEGNLGLIRAMEKFDYTKGFKFSTYATWWIRQAITRGMADQSRTIRLPVHLVEQVNKLARIKRELHQ 184 (324)
T ss_pred HHhcCCCCHHHHHHHHHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHHHHHHHcCCCccCCHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCC
Q psy15215 499 ETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLT 578 (1432)
Q Consensus 499 ~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~ 578 (1432)
++|++||.+|||+.||+++++|..++..+..++||+.|++++++.++.+++++....+|++.+....+...|..+|+.||
T Consensus 185 ~lgr~pt~~EiA~~lgi~~~~v~~~~~~~~~~~SLd~~~~~~~~~~l~d~l~d~~~~~pe~~~~~~~~~~~l~~~L~~L~ 264 (324)
T PRK07921 185 QLGREATDEELAEESGIPEEKIADLLEHSRDPVSLDMPVGSDEEAPLGDFIEDSEATSAENAVIAGLLHTDIRSVLATLD 264 (324)
T ss_pred HhCCCCCHHHHHHHhCcCHHHHHHHHHHcCCCceecCCCCCCCCchHHHHhcCCCCCCHHHHHHHHHHHHHHHHHHHhCC
Confidence 99999999999999999999999999998999999999988877788999998777789999999999999999999999
Q ss_pred HHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 579 PRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 579 ~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
++|+.||.+|||++.+.++|++|||+.||||+++|+|++.+|++|||...
T Consensus 265 eREr~Vl~~rygl~~~~~~Tl~eIa~~lgvS~eRVrQIe~~Al~KLr~~~ 314 (324)
T PRK07921 265 EREQQVIRLRFGLDDGQPRTLDQIGKLFGLSRERVRQIEREVMSKLRNGE 314 (324)
T ss_pred HHHHHHHHHHHhcCCCCCcCHHHHHHHHCCCHHHHHHHHHHHHHHHHhHH
Confidence 99999999999998778899999999999999999999999999999874
|
|
| >TIGR02997 Sig70-cyanoRpoD RNA polymerase sigma factor, cyanobacterial RpoD-like family | Back alignment and domain information |
|---|
Probab=100.00 E-value=5.1e-43 Score=406.08 Aligned_cols=235 Identities=51% Similarity=0.912 Sum_probs=221.1
Q ss_pred HHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHH
Q psy15215 386 DINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI 465 (1432)
Q Consensus 386 ~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i 465 (1432)
.|+.+++.| .. |++.||.+|+++|+++|++|.++|.+++|||||||+|||+|+++|||.+|++|+|||+||||++|
T Consensus 64 ~l~~~~~~g-~~---A~~~Lv~~~lrlV~~iA~~y~~~~~~~eDLiQEg~igL~~a~~kfd~~~g~rFsTya~~wIr~~I 139 (298)
T TIGR02997 64 ELRQRLRQG-QR---AKEKMIKANLRLVVSVAKKYQNRGLELLDLIQEGSLGLERAVEKFDPTRGYKFSTYAYWWIRQGI 139 (298)
T ss_pred HHHHHHhcc-HH---HHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCccCCCChHHHHHHHHHHHH
Confidence 456667777 35 99999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCc
Q psy15215 466 TRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHL 545 (1432)
Q Consensus 466 ~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~ 545 (1432)
.+++.+++++||+|.++...++++++..+.+.+.+|++||.+|||+.+|+++++|..++.....++||+.|++++++..+
T Consensus 140 ~r~i~~~~r~vr~p~~~~~~~~~~rk~~~~l~~~~~~~pt~~eia~~l~~~~~~v~~~~~~~~~~~SLd~~~~~~~~~~~ 219 (298)
T TIGR02997 140 TRAIANQSRTIRLPIHITEKLNKIKKVQRELSQKLGRTPSEAEIAEALELEPEQVRELLQRARQPVSLDAPVGDEEDTEL 219 (298)
T ss_pred HHHHHhcCCCeeCcHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHHHcccCcccCCCcCCCCcchH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999987766677
Q ss_pred CcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 546 GDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 546 ~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
.+.+++ ...+|++.+...++...|..+|++|||+|+.||.+|||++.+.++|++|||+.||+|+++|++++++|+++||
T Consensus 220 ~~~~~~-~~~~pe~~~~~~~~~~~L~~~L~~L~~rer~Vi~lr~gl~~~~~~Tl~EIa~~lgiS~erVrq~~~rAl~kLr 298 (298)
T TIGR02997 220 GDLLED-DGESPEEQVERESLRQDLESLLAELTPRERQVLRLRFGLDGGEPLTLAEIGRRLNLSRERVRQIEAKALRKLR 298 (298)
T ss_pred HHhccC-CCCCHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCCCCcCHHHHHHHHCcCHHHHHHHHHHHHHHcC
Confidence 777777 3568999999999999999999999999999999999987778889999999999999999999999999986
|
This family includes a number of closely related sigma-70 (TIGR02937) factors in the cyanobacteria. All appear most closely related to the essential sigma-70 factor RpoD, and some score above trusted to the RpoD C-terminal domain model (TIGR02393). |
| >TIGR02393 RpoD_Cterm RNA polymerase sigma factor RpoD, C-terminal domain | Back alignment and domain information |
|---|
Probab=100.00 E-value=6.6e-42 Score=385.06 Aligned_cols=238 Identities=67% Similarity=1.061 Sum_probs=228.3
Q ss_pred hHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccc
Q psy15215 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 1270 (1432)
Q Consensus 1191 A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 1270 (1432)
|+++|+.+|+++|+++|++|.+++.+++||+|||++|||+|+++|||.+|++|+|||+||||++|.++++++.+++|+|.
T Consensus 1 a~~~Li~~~~~lv~~ia~~~~~~~~~~eDLiQeG~igL~~A~~~fd~~~g~~FstYA~~~Ir~~I~~~l~~~~~~vrip~ 80 (238)
T TIGR02393 1 AKKQLVESNLRLVVSIAKKYTNRGLSFLDLIQEGNIGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPV 80 (238)
T ss_pred CHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCCCCCCChHHHhHHHHHHHHHHHHHHcCCcEEeCH
Confidence 57899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 1271 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 1350 (1432)
Q Consensus 1271 ~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~ 1350 (1432)
++.+.++++.++.+.+.+++|++||.+|||+.||+++++|..+++.....+||+.|++++++.++.++++|+...+|++.
T Consensus 81 ~~~~~~~~~~~~~~~l~~~~g~~pt~~eia~~l~~~~~~v~~~~~~~~~~~SLd~~~~~~~~~~l~d~l~d~~~~~p~~~ 160 (238)
T TIGR02393 81 HMVETINKLIKAERQLTQELGREPTDEELAERMGMPAEKVREIKKIAQEPISLETPIGEEEDSFLGDFIEDTSIESPDDY 160 (238)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHHHhccCCCcCCCCCCCCcccHHHHhcCCCCCChHHH
Confidence 99999999999999999999999999999999999999999999988889999999988777778889998887889999
Q ss_pred HHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHhhhc
Q psy15215 1351 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428 (1432)
Q Consensus 1351 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~~~~ 1428 (1432)
+....+...|..+|+.||++|+.||.+|||.+...++|++|||+.||||+++|+|++.+|++|||++.++..|+.|++
T Consensus 161 ~~~~~~~~~l~~~l~~L~~~er~vl~l~ygl~~~~~~t~~EIA~~lgis~~~V~q~~~~al~kLr~~~~~~~~~~~~~ 238 (238)
T TIGR02393 161 AAKELLREQLDEVLETLTERERKVLRMRYGLLDGRPHTLEEVGKEFNVTRERIRQIESKALRKLRHPSRSKKLKSFLD 238 (238)
T ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHhCCCCCCCccHHHHHHHHCCCHHHHHHHHHHHHHHHhhhHHHhHHHHhhC
Confidence 999999999999999999999999999998877788899999999999999999999999999999999999999975
|
This model represents the well-conserved C-terminal region of the major, essential sigma factor of most bacteria. Members of this clade show considerable variability in domain architecture and molecular weight, as well as in nomenclature: RpoD in E. coli and other Proteobacteria, SigA in Bacillus subtilis and many other Gram-positive bacteria, HrdB in Streptomyces, MysA in Mycobacterium smegmatis, etc. |
| >TIGR02393 RpoD_Cterm RNA polymerase sigma factor RpoD, C-terminal domain | Back alignment and domain information |
|---|
Probab=100.00 E-value=1.8e-39 Score=365.34 Aligned_cols=230 Identities=66% Similarity=1.040 Sum_probs=219.6
Q ss_pred hHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccch
Q psy15215 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 480 (1432)
Q Consensus 401 A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 480 (1432)
|++.||..|+++|+++|++|.+++.+++||+|||++|||+|+++|||.+|++|+|||+||||++|.++++++.+.+|+|.
T Consensus 1 a~~~Li~~~~~lv~~ia~~~~~~~~~~eDLiQeG~igL~~A~~~fd~~~g~~FstYA~~~Ir~~I~~~l~~~~~~vrip~ 80 (238)
T TIGR02393 1 AKKQLVESNLRLVVSIAKKYTNRGLSFLDLIQEGNIGLMKAVEKFDYRKGYKFSTYATWWIRQAITRAIADQARTIRIPV 80 (238)
T ss_pred CHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCCCCCCChHHHhHHHHHHHHHHHHHHcCCcEEeCH
Confidence 67899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 481 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 560 (1432)
Q Consensus 481 ~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~ 560 (1432)
++.+.++++.++.+.+.+++|++||.+|||+.||+++++|+.+++....++||+.|++++++.++.++++++...+|++.
T Consensus 81 ~~~~~~~~~~~~~~~l~~~~g~~pt~~eia~~l~~~~~~v~~~~~~~~~~~SLd~~~~~~~~~~l~d~l~d~~~~~p~~~ 160 (238)
T TIGR02393 81 HMVETINKLIKAERQLTQELGREPTDEELAERMGMPAEKVREIKKIAQEPISLETPIGEEEDSFLGDFIEDTSIESPDDY 160 (238)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHHHhccCCCcCCCCCCCCcccHHHHhcCCCCCChHHH
Confidence 99999999999999999999999999999999999999999999888889999999987777778888988877889999
Q ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 561 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 561 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
+...++...|..+|++||++|+.||.+|||.+...++|++|||+.||+|+++|++++.+|+++||+.+..
T Consensus 161 ~~~~~~~~~l~~~l~~L~~~er~vl~l~ygl~~~~~~t~~EIA~~lgis~~~V~q~~~~al~kLr~~~~~ 230 (238)
T TIGR02393 161 AAKELLREQLDEVLETLTERERKVLRMRYGLLDGRPHTLEEVGKEFNVTRERIRQIESKALRKLRHPSRS 230 (238)
T ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHhCCCCCCCccHHHHHHHHCCCHHHHHHHHHHHHHHHhhhHHH
Confidence 9999999999999999999999999999988777888999999999999999999999999999988754
|
This model represents the well-conserved C-terminal region of the major, essential sigma factor of most bacteria. Members of this clade show considerable variability in domain architecture and molecular weight, as well as in nomenclature: RpoD in E. coli and other Proteobacteria, SigA in Bacillus subtilis and many other Gram-positive bacteria, HrdB in Streptomyces, MysA in Mycobacterium smegmatis, etc. |
| >PRK07122 RNA polymerase sigma factor SigF; Reviewed | Back alignment and domain information |
|---|
Probab=100.00 E-value=1.2e-38 Score=361.99 Aligned_cols=228 Identities=24% Similarity=0.392 Sum_probs=206.9
Q ss_pred HhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHH
Q psy15215 1182 IAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD 1261 (1432)
Q Consensus 1182 ~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~ 1261 (1432)
..|+....++++.||.+|+|||+++|++|.++|.+++||||||+|||++|+++|||.+|++|+|||+||||++|.+++++
T Consensus 32 ~~~~~~~~~~r~~Lv~~~l~LV~~iA~~y~~~g~~~~DLiQeG~iGLi~AierFDp~~G~~FsTYA~~~Irg~I~~~lr~ 111 (264)
T PRK07122 32 PAGSPEFQRQRDRIVTRCLPLADHIARRFDGRGEPRDDLVQVARVGLVNAVNRFDVETGSDFVSFAVPTIMGEVRRHFRD 111 (264)
T ss_pred cCCCHHHHHHHHHHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHH
Confidence 34566666799999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHH--ccCCCCCCCCCCCCCCC--CcCc
Q psy15215 1262 QARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKI--AKEPVSMESPVGDDEDS--HLGD 1337 (1432)
Q Consensus 1262 ~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~--~~~~~Sl~~~~~~~~~~--~~~d 1337 (1432)
+.++||+|+++.+.+++++++...+.+++|++||++|||+.||+++++|.+++.. ...++|||.|++++++. .+.+
T Consensus 112 ~~~~ir~Pr~~~~~~~~i~~~~~~l~~~lg~~pt~~eiA~~lg~~~~~v~~~~~~~~~~~~~SLd~~~~~~~~~~~~~~d 191 (264)
T PRK07122 112 NSWSVKVPRRLKELHLRLGRATAELSQRLGRAPTASELAAELGMDREEVVEGLVAGSAYNTLSIDSGGGSGDDDARAIAD 191 (264)
T ss_pred cCCccccCHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHHHhhcCCCCcccccccCCCCCcccchh
Confidence 9999999999999999999999999999999999999999999999999999864 45789999998754332 3444
Q ss_pred ccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1338 FIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1338 ~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
.++ +|...+........+..+|+.||++++.||.++|+.++ |++|||+.||+|+++|++++++|+++||..
T Consensus 192 ~~~-----~~~~~~e~~~~~~~l~~~l~~L~~rer~vl~l~y~~~~----t~~EIA~~lgis~~~V~~~~~ral~kLr~~ 262 (264)
T PRK07122 192 TLG-----DVDAGLDQIENREALRPLLAALPERERTVLVLRFFESM----TQTQIAERVGISQMHVSRLLAKTLARLRDQ 262 (264)
T ss_pred ccC-----CcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHH
Confidence 433 45566677778899999999999999999999998887 999999999999999999999999999985
Q ss_pred h
Q psy15215 1418 S 1418 (1432)
Q Consensus 1418 ~ 1418 (1432)
+
T Consensus 263 l 263 (264)
T PRK07122 263 L 263 (264)
T ss_pred c
Confidence 3
|
|
| >PRK07122 RNA polymerase sigma factor SigF; Reviewed | Back alignment and domain information |
|---|
Probab=100.00 E-value=8.1e-38 Score=355.26 Aligned_cols=227 Identities=24% Similarity=0.390 Sum_probs=206.5
Q ss_pred HhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHh
Q psy15215 393 AGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 472 (1432)
Q Consensus 393 ~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~ 472 (1432)
.|+....++++.||.+|+|||+++|++|.++|.+++||||||+|||++|+++|||.+|++|+|||+||||++|.++++++
T Consensus 33 ~~~~~~~~~r~~Lv~~~l~LV~~iA~~y~~~g~~~~DLiQeG~iGLi~AierFDp~~G~~FsTYA~~~Irg~I~~~lr~~ 112 (264)
T PRK07122 33 AGSPEFQRQRDRIVTRCLPLADHIARRFDGRGEPRDDLVQVARVGLVNAVNRFDVETGSDFVSFAVPTIMGEVRRHFRDN 112 (264)
T ss_pred CCCHHHHHHHHHHHHHhHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHcCCCCCCChHHHHHHHHHHHHHHHHHHc
Confidence 45666667999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHH--ccCCCCCCCCCCCCCCC--CcCcc
Q psy15215 473 ARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKI--AKEPVSMESPVGDDEDS--HLGDF 548 (1432)
Q Consensus 473 ~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~--~~~~~sl~~~~~~~~~~--~~~~~ 548 (1432)
.++||+|+++.+.+++++++...+.+++|++||++|||+.||+++++|..++.. ...++||+.|++++++. .+.+.
T Consensus 113 ~~~ir~Pr~~~~~~~~i~~~~~~l~~~lg~~pt~~eiA~~lg~~~~~v~~~~~~~~~~~~~SLd~~~~~~~~~~~~~~d~ 192 (264)
T PRK07122 113 SWSVKVPRRLKELHLRLGRATAELSQRLGRAPTASELAAELGMDREEVVEGLVAGSAYNTLSIDSGGGSGDDDARAIADT 192 (264)
T ss_pred CCccccCHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHHHhhcCCCCcccccccCCCCCcccchhc
Confidence 999999999999999999999999999999999999999999999999999864 45789999998754332 33443
Q ss_pred cccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 549 IEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 549 i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
+ .+|...+...+....+..+|+.||++++.||.++|+.++ |++|||+.||+|+++|+++.++|+.+|+..+
T Consensus 193 ~-----~~~~~~~e~~~~~~~l~~~l~~L~~rer~vl~l~y~~~~----t~~EIA~~lgis~~~V~~~~~ral~kLr~~l 263 (264)
T PRK07122 193 L-----GDVDAGLDQIENREALRPLLAALPERERTVLVLRFFESM----TQTQIAERVGISQMHVSRLLAKTLARLRDQL 263 (264)
T ss_pred c-----CCcHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHhcCCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHc
Confidence 3 245566677778889999999999999999999998887 9999999999999999999999999999865
|
|
| >PRK05657 RNA polymerase sigma factor RpoS; Validated | Back alignment and domain information |
|---|
Probab=100.00 E-value=1.6e-37 Score=361.67 Aligned_cols=265 Identities=38% Similarity=0.666 Sum_probs=249.5
Q ss_pred HHHHHHHhhhhcCCChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhc
Q psy15215 1156 LQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKF 1235 (1432)
Q Consensus 1156 ~q~~L~~ie~~~~l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kf 1235 (1432)
.+..+.+++..+.+++.+...++.+++.|+.. |++.||..|.++|+++|++|++++.+++||+||||+|+|+++++|
T Consensus 55 ~~~y~~~~~~~~~l~~~ee~~li~~~~~Gd~~---A~~~Li~~y~~~V~~~a~~~~~~~~~aeDLvQE~fi~l~~ai~~f 131 (325)
T PRK05657 55 TQLYLNEIGYSPLLTAEEEVYFARRALRGDFA---ARQRMIESNLRLVVKIAKRYLNRGLALLDLIEEGNLGLIRAVEKF 131 (325)
T ss_pred HHHHHHHHhcCCCCCHHHHHHHHHHHHcCCHH---HHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHh
Confidence 35678889999999999999999999999988 999999999999999999999999999999999999999999999
Q ss_pred cccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHH
Q psy15215 1236 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMK 1315 (1432)
Q Consensus 1236 d~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~ 1315 (1432)
++.+|++|+||++||||++|.++++++.+++|+|+|++..++++.|..+.+.+.+|++||+++||+.+|+++++|..++.
T Consensus 132 d~~rg~~Fstyatw~iR~ai~~~i~~~~r~ir~p~~~~~~l~~~~R~~~~l~~~l~r~~t~~eiA~~l~~~~~~v~~~l~ 211 (325)
T PRK05657 132 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPVHVVKELNVYLRAARELEHKLDHEPSAEEIAELLDKPVDDVSRMLA 211 (325)
T ss_pred CCccCCCHHHHHHHHHHHHHHHHHHHcCCccccCHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHH
Q psy15215 1316 IAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQ 1395 (1432)
Q Consensus 1316 ~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~ 1395 (1432)
......||+.|+++++..++.+.+.+....+|++.+...++...|..+|..||+++|.||.+|||+....++|++|||+.
T Consensus 212 ~~~~~~sld~~~~~~~~~~l~d~l~d~~~~~pe~~~~~~e~~~~L~~aL~~L~~~~R~vl~lrygL~~~e~~s~~EIA~~ 291 (325)
T PRK05657 212 LNERITSLDTPLGGDPEKSLLDILADEQENGPEDTTQDDDMKQSIVKWLFELNDKQREVLARRFGLLGYEAATLEDVARE 291 (325)
T ss_pred hccCCcccCCCCCCCCCcchhhhccCCCCCCHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCCCCcCHHHHHHH
Confidence 88888999999888777788888888777789999999999999999999999999999999998776678899999999
Q ss_pred hCCCHHHHHHHHHHHHHHhhCchhhhhH
Q psy15215 1396 FDVTRERIRQIEAKALRKLRHPSRYYKL 1423 (1432)
Q Consensus 1396 l~vs~~~Vrq~~~rAl~kLr~~~~~~~l 1423 (1432)
+|||++||++++++|+++||+.+....+
T Consensus 292 Lgis~~tV~~~~~rAl~kLr~~l~~~~~ 319 (325)
T PRK05657 292 IGLTRERVRQIQVEALRRLREILQTQGL 319 (325)
T ss_pred HCcCHHHHHHHHHHHHHHHHHHHHhCcc
Confidence 9999999999999999999997766544
|
|
| >PRK06596 RNA polymerase factor sigma-32; Reviewed | Back alignment and domain information |
|---|
Probab=100.00 E-value=2.8e-37 Score=354.59 Aligned_cols=255 Identities=26% Similarity=0.480 Sum_probs=217.9
Q ss_pred HHHHHhhhhcCCChhhHHHHHHHH-HhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhcc
Q psy15215 1158 QKLINLQTDIVLPLNDLRDINRKM-IAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFE 1236 (1432)
Q Consensus 1158 ~~L~~ie~~~~l~~~e~~~l~~~~-~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd 1236 (1432)
.++.++.....++..+...++.++ ..||.. |++.||..|+++|+++|++|.+++.+++||+||||+|||+|+++||
T Consensus 18 ~y~~~~~~~~~l~~~~e~~l~~~~~~~Gd~~---a~~~Lv~~~~~lV~~ia~~~~~~~~~~eDLvQeg~igL~~a~~~fd 94 (284)
T PRK06596 18 AYIQAVNKIPMLTAEEEYMLAKRLREHGDLE---AAKQLVLSHLRFVVHIARGYRGYGLPQADLIQEGNIGLMKAVKRFD 94 (284)
T ss_pred HHHHHHhccCCCCHHHHHHHHHHHHHcCCHH---HHHHHHHHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 466677777788999899999995 589888 9999999999999999999999999999999999999999999999
Q ss_pred ccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHh--CCCCCHHHHHHHcCCCHHHHHHHH
Q psy15215 1237 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQET--GSEPDPSVIAIKMEMPEEKIRKIM 1314 (1432)
Q Consensus 1237 ~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~--g~~pt~~eia~~~~~~~~~v~~~~ 1314 (1432)
+.+|++|+|||+||||++|.++++++++++|+|.+... +++....+.+.+++ +++||.+|||+.||+++++|..++
T Consensus 95 ~~~~~~FstYA~~~Ir~~i~~~l~~~~~~vr~p~~~~~--~~~~~~~~~~~~~l~~~~~~t~~eiA~~l~~~~~~v~~~~ 172 (284)
T PRK06596 95 PEVGVRLVSFAVHWIKAEIHEYILRNWRIVKVATTKAQ--RKLFFNLRKAKKRLGWLNPEEVEMVAEELGVSEEEVREME 172 (284)
T ss_pred cccCCCHHHHHHHHHHHHHHHHHHHcCCeeeccchHHH--HHHHHHHHHHHHHhccCCCCCHHHHHHHhCcCHHHHHHHH
Confidence 99999999999999999999999999888999998642 23333333444444 499999999999999999999997
Q ss_pred H-HccCCCCCCCCCCCCCC--CCcCcccccCCCCChHHHHHHH----HHHHHHHHHHccCCHHHHHHHHHHhcccCCCCC
Q psy15215 1315 K-IAKEPVSMESPVGDDED--SHLGDFIEDENMLAPSDAALNA----SMRSVVKDILNSLTPRESKVLRMRFGIEMSSDH 1387 (1432)
Q Consensus 1315 ~-~~~~~~Sl~~~~~~~~~--~~~~d~i~d~~~~~p~~~~~~~----~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~ 1387 (1432)
. .....+||+.|++++++ .++.+++++. ..+|++.+... .+...|..+|+.||++|+.||.+||+.+ .++
T Consensus 173 ~~~~~~~~SLd~~~~~~~~~~~~l~~~l~d~-~~~p~~~~~~~~~~~~~~~~L~~al~~L~~rEr~VL~lry~~~--~~~ 249 (284)
T PRK06596 173 SRLSGQDASLDAPIDDDDEESGAPQDYLEDK-SSDPADVLEEDNWEDQRRALLADALEGLDERSRDIIEARWLDD--DKS 249 (284)
T ss_pred HHhcCCCcCcCCCCCCCCCCcchHHHHcCCC-CCCchHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhcCC--CCc
Confidence 5 34578999999875533 3577888877 35787776654 3678899999999999999999999752 456
Q ss_pred CHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhh
Q psy15215 1388 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRY 1420 (1432)
Q Consensus 1388 t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~ 1420 (1432)
|++|||+.||||++||||++++|++|||+...+
T Consensus 250 Tl~EIA~~lgvS~~rVrqi~~~Al~kLR~~l~~ 282 (284)
T PRK06596 250 TLQELAAEYGVSAERVRQIEKNAMKKLKAAIEA 282 (284)
T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999999999999999999996554
|
|
| >PRK05657 RNA polymerase sigma factor RpoS; Validated | Back alignment and domain information |
|---|
Probab=100.00 E-value=7.2e-37 Score=356.30 Aligned_cols=261 Identities=38% Similarity=0.683 Sum_probs=247.7
Q ss_pred HHHHHHhhhhccCCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhc
Q psy15215 366 LQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKF 445 (1432)
Q Consensus 366 ~q~~L~~iE~~~~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~f 445 (1432)
.+.++.+++..+.++..+...++.+++.||.. |++.||..|.++|+++|++|++++.+++||+||||+|+|+++++|
T Consensus 55 ~~~y~~~~~~~~~l~~~ee~~li~~~~~Gd~~---A~~~Li~~y~~~V~~~a~~~~~~~~~aeDLvQE~fi~l~~ai~~f 131 (325)
T PRK05657 55 TQLYLNEIGYSPLLTAEEEVYFARRALRGDFA---ARQRMIESNLRLVVKIAKRYLNRGLALLDLIEEGNLGLIRAVEKF 131 (325)
T ss_pred HHHHHHHHhcCCCCCHHHHHHHHHHHHcCCHH---HHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHh
Confidence 46688899999999999999999999999999 999999999999999999999999999999999999999999999
Q ss_pred cccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHH
Q psy15215 446 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMK 525 (1432)
Q Consensus 446 d~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~ 525 (1432)
++.+|++|+|||+||||++|.+++.++.+++|+|+|++..++++.|+.+.+.+.+|++||+++||..+|+++++|..++.
T Consensus 132 d~~rg~~Fstyatw~iR~ai~~~i~~~~r~ir~p~~~~~~l~~~~R~~~~l~~~l~r~~t~~eiA~~l~~~~~~v~~~l~ 211 (325)
T PRK05657 132 DPERGFRFSTYATWWIRQTIERAIMNQTRTIRLPVHVVKELNVYLRAARELEHKLDHEPSAEEIAELLDKPVDDVSRMLA 211 (325)
T ss_pred CCccCCCHHHHHHHHHHHHHHHHHHHcCCccccCHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhh
Q psy15215 526 IAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQ 605 (1432)
Q Consensus 526 ~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~ 605 (1432)
......|++.|+++++..++.+.+++....+|++.+...+....|..+|.+||+++|.||.+|||+....++|++|||+.
T Consensus 212 ~~~~~~sld~~~~~~~~~~l~d~l~d~~~~~pe~~~~~~e~~~~L~~aL~~L~~~~R~vl~lrygL~~~e~~s~~EIA~~ 291 (325)
T PRK05657 212 LNERITSLDTPLGGDPEKSLLDILADEQENGPEDTTQDDDMKQSIVKWLFELNDKQREVLARRFGLLGYEAATLEDVARE 291 (325)
T ss_pred hccCCcccCCCCCCCCCcchhhhccCCCCCCHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCCCCcCHHHHHHH
Confidence 88888999999887777778888888777789999999999999999999999999999999998776678899999999
Q ss_pred cccchhHHHHHHHHHHHHHHHHHH
Q psy15215 606 FDVTRERIRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 606 l~is~~~v~~~~~rAl~kLr~~l~ 629 (1432)
+|+|+++|+++.++|+++||+.+.
T Consensus 292 Lgis~~tV~~~~~rAl~kLr~~l~ 315 (325)
T PRK05657 292 IGLTRERVRQIQVEALRRLREILQ 315 (325)
T ss_pred HCcCHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999998874
|
|
| >PRK07500 rpoH2 RNA polymerase factor sigma-32; Reviewed | Back alignment and domain information |
|---|
Probab=100.00 E-value=4.8e-37 Score=353.18 Aligned_cols=259 Identities=27% Similarity=0.424 Sum_probs=223.7
Q ss_pred HHHHHHhhhhcCCChhhHHHHHHHHH-hhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhc
Q psy15215 1157 QQKLINLQTDIVLPLNDLRDINRKMI-AGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKF 1235 (1432)
Q Consensus 1157 q~~L~~ie~~~~l~~~e~~~l~~~~~-~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kf 1235 (1432)
..+|..+.....++..+...|++++. .|+.. |++.||..|+|+|+++|++|++++.+++||+||||+|||+|+++|
T Consensus 9 ~~y~~~~~~~~~l~~~~e~~L~~~~~~~gd~~---A~~~Lv~~~~~lV~~~a~~~~~~~~~~eDLvQeg~i~L~~a~~~f 85 (289)
T PRK07500 9 RSMIRSAMKAPYLEREEEHALAYRWKDHRDED---ALHRIISAHMRLVISMAGKFRRFGLPMNDLIQEGYVGLLEAAARF 85 (289)
T ss_pred HHHHHHHhcCCCCCHHHHHHHHHHHHHCCCHH---HHHHHHHHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHc
Confidence 34778888888899999999999974 78888 999999999999999999999999999999999999999999999
Q ss_pred cccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHHH--HHHHHHHHHHHHHH---HhCCCCCHHHHHHHcCCCHHHH
Q psy15215 1236 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE--TINKISRISRQILQ---ETGSEPDPSVIAIKMEMPEEKI 1310 (1432)
Q Consensus 1236 d~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~--~~~k~~~~~~~~~~---~~g~~pt~~eia~~~~~~~~~v 1310 (1432)
++.+|.+|+|||+||||++|.++++++.+++|+|++... ...+++++...+.+ .+|++||++|||+.||+++++|
T Consensus 86 d~~~~~~f~tya~~~Ir~~I~~~lr~~~~~iR~p~~~~~~~~~~~~~~~~~~~~~~~~~l~~~pt~~eiA~~l~~~~~~v 165 (289)
T PRK07500 86 EPDREVRFSTYATWWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRARLAQADEELTKQEIHREIATALGVSLSDV 165 (289)
T ss_pred CCCCCCChHHHHHHHHHHHHHHHHHHCCCceecCccHHHHHHHHHHHHHHHHHHhhhcccCCCCCHHHHHHHhCcCHHHH
Confidence 999999999999999999999999999999999999765 44555555555555 6899999999999999999999
Q ss_pred HHHHH-HccCCCCCCCCCCCCCCC--CcCcccccCCCCChHHHHHH----HHHHHHHHHHHccCCHHHHHHHHHHhcccC
Q psy15215 1311 RKIMK-IAKEPVSMESPVGDDEDS--HLGDFIEDENMLAPSDAALN----ASMRSVVKDILNSLTPRESKVLRMRFGIEM 1383 (1432)
Q Consensus 1311 ~~~~~-~~~~~~Sl~~~~~~~~~~--~~~d~i~d~~~~~p~~~~~~----~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~ 1383 (1432)
..+.. ....++|||.|++++++. ++.+++++.. .+|++.+.. ..+...|..+|+.||++|+.||.+||+.
T Consensus 166 ~~~~~~~~~~~~SLd~~~~~~~~~~~~l~d~i~d~~-~~pe~~~~~~~~~~~~~~~l~~al~~L~~rer~vl~lr~~~-- 242 (289)
T PRK07500 166 EMMDARLSGPDASLNAPQSEEDEGRSERMDFLVDDS-PLPDEQVESSIDGERRRRWLTQALQTLNERELRIIRERRLR-- 242 (289)
T ss_pred HHHHHHhcCCCccccCCCCCCCCCcccHHHhccCCC-CCchHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhcC--
Confidence 98763 455789999998766543 5778888764 467766543 4467789999999999999999999972
Q ss_pred CCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhh
Q psy15215 1384 SSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYY 1421 (1432)
Q Consensus 1384 ~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~ 1421 (1432)
..++|++|||+.||||++||+|++++|++|||......
T Consensus 243 ~~~~t~~EIa~~lgvs~~~V~q~~~~Al~kLr~~l~~~ 280 (289)
T PRK07500 243 EDGATLEALGEELGISKERVRQIEARALEKLRRALLSQ 280 (289)
T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHhc
Confidence 24559999999999999999999999999999876543
|
|
| >PRK07408 RNA polymerase sigma factor SigF; Reviewed | Back alignment and domain information |
|---|
Probab=100.00 E-value=9.1e-37 Score=346.10 Aligned_cols=237 Identities=25% Similarity=0.451 Sum_probs=209.3
Q ss_pred hHHHHHHHHH-hhhhhhhhhHHHHHHHHHHHHHHHHHhccCC-CCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHH
Q psy15215 1173 DLRDINRKMI-AGEMKARKAKREMTEANLRLVISIAKKYTDR-GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 1250 (1432)
Q Consensus 1173 e~~~l~~~~~-~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~-~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ 1250 (1432)
+...++...+ .|+.. |+++||..|+|+|+++|++|.++ +.+++||+|||++|||+|+++|||.+|++|+|||+||
T Consensus 10 ~~~~~~~~~~~~gd~~---a~~~Lv~~~~~lV~~ia~~~~~~~~~~~eDL~Qeg~igL~~a~~~fd~~~g~~F~tya~~~ 86 (256)
T PRK07408 10 ETMELLRAYQQNPSIA---LRNQLVELNLGLVRKEAHRWSNQCSEPYEDLVQVGSLGLIRAIERFDPSKGHAFSSFAIPY 86 (256)
T ss_pred HHHHHHHHHHHCCCHH---HHHHHHHHhHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHH
Confidence 5566666664 77777 99999999999999999999876 6679999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHH--HccCCCCCCCCCC
Q psy15215 1251 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMK--IAKEPVSMESPVG 1328 (1432)
Q Consensus 1251 ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~--~~~~~~Sl~~~~~ 1328 (1432)
||++|.++++++.++||+|+++.+.+++++++..++.+++|++||++|||+.||+++++|..++. ....++||+.|++
T Consensus 87 Ir~~i~~~lr~~~~~vr~pr~~~~~~~~~~~~~~~l~~~lgr~pt~~elA~~lgi~~~~v~~~~~~~~~~~~~SLd~~~~ 166 (256)
T PRK07408 87 IRGEIQHYLRDKSPTVRIPRRWQELQRQAKKVRQELRQELGRQPTDQEIAQALDISLEEWQEIKLALQNRTPLSLDAPVN 166 (256)
T ss_pred HHHHHHHHHHHcCCeeeeCHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHhhccCCccccccCC
Confidence 99999999999999999999999999999999999999999999999999999999999999975 3456899999986
Q ss_pred CCCCC--CcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHH
Q psy15215 1329 DDEDS--HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQI 1406 (1432)
Q Consensus 1329 ~~~~~--~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~ 1406 (1432)
++++. .+.+.++++... +.. ...+....|..+|.+||+++|.||.++|+.|+ |++|||+.||+|+++|+++
T Consensus 167 ~~~~~~~~l~d~~~d~~~~-~~~--~~~~~~~~l~~~l~~L~~~~r~vl~l~y~~~~----s~~eIA~~lgvs~~~V~~~ 239 (256)
T PRK07408 167 QDEDGSTSLGDLLPDPRYR-SFQ--LAQEDRIRLQQALAQLEERTREVLEFVFLHDL----TQKEAAERLGISPVTVSRR 239 (256)
T ss_pred CCCCCccccccccCCcccc-hhh--hhHHHHHHHHHHHHcCCHHHHHHHHHHHHCCC----CHHHHHHHHCcCHHHHHHH
Confidence 55443 566777665432 221 23345678999999999999999999998888 9999999999999999999
Q ss_pred HHHHHHHhhCchh
Q psy15215 1407 EAKALRKLRHPSR 1419 (1432)
Q Consensus 1407 ~~rAl~kLr~~~~ 1419 (1432)
+++|+++||..+.
T Consensus 240 ~~ra~~kLr~~l~ 252 (256)
T PRK07408 240 VKKGLDQLKKLLQ 252 (256)
T ss_pred HHHHHHHHHHHhh
Confidence 9999999998654
|
|
| >PRK06596 RNA polymerase factor sigma-32; Reviewed | Back alignment and domain information |
|---|
Probab=100.00 E-value=2e-36 Score=347.51 Aligned_cols=255 Identities=25% Similarity=0.487 Sum_probs=219.2
Q ss_pred HHHHHhhhhccCCChhhHHHHHHHH-HHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhc
Q psy15215 367 QQKLINLQTDIVLPLNDLRDINRKM-IAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKF 445 (1432)
Q Consensus 367 q~~L~~iE~~~~l~~~e~~~l~~~i-~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~f 445 (1432)
..++.++.....++..+...++.++ +.||.. |++.||..|+|+|+++|++|.+.+.+++||+|||++|||+|+++|
T Consensus 17 ~~y~~~~~~~~~l~~~~e~~l~~~~~~~Gd~~---a~~~Lv~~~~~lV~~ia~~~~~~~~~~eDLvQeg~igL~~a~~~f 93 (284)
T PRK06596 17 DAYIQAVNKIPMLTAEEEYMLAKRLREHGDLE---AAKQLVLSHLRFVVHIARGYRGYGLPQADLIQEGNIGLMKAVKRF 93 (284)
T ss_pred HHHHHHHhccCCCCHHHHHHHHHHHHHcCCHH---HHHHHHHHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHHh
Confidence 3577788888889999999999995 589988 999999999999999999999999999999999999999999999
Q ss_pred cccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHHH--HHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHH
Q psy15215 446 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE--TINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKI 523 (1432)
Q Consensus 446 d~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~--~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~ 523 (1432)
|+.+|++|+|||+|||+++|.++++++++++|+|.+... ...++.+...++. .+++||.+|||+.||+++++|..+
T Consensus 94 d~~~~~~FstYA~~~Ir~~i~~~l~~~~~~vr~p~~~~~~~~~~~~~~~~~~l~--~~~~~t~~eiA~~l~~~~~~v~~~ 171 (284)
T PRK06596 94 DPEVGVRLVSFAVHWIKAEIHEYILRNWRIVKVATTKAQRKLFFNLRKAKKRLG--WLNPEEVEMVAEELGVSEEEVREM 171 (284)
T ss_pred CcccCCCHHHHHHHHHHHHHHHHHHHcCCeeeccchHHHHHHHHHHHHHHHHhc--cCCCCCHHHHHHHhCcCHHHHHHH
Confidence 999999999999999999999999999888999998642 2334444443332 359999999999999999999999
Q ss_pred HH-HccCCCCCCCCCCCCCC--CCcCcccccCCCCChHHHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHhhcccCCC
Q psy15215 524 MK-IAKEPVSMESPVGDDED--SHLGDFIEDENMLAPSDAALNA----SMRSVVKDILNSLTPRESKVLRMRFGIEMSSD 596 (1432)
Q Consensus 524 ~~-~~~~~~sl~~~~~~~~~--~~~~~~i~d~~~~~p~~~~~~~----~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~ 596 (1432)
+. .....+||+.|++++++ .++.+++++. ..+|++.+... .+...|..+++.||++|+.||++||+.+ .+
T Consensus 172 ~~~~~~~~~SLd~~~~~~~~~~~~l~~~l~d~-~~~p~~~~~~~~~~~~~~~~L~~al~~L~~rEr~VL~lry~~~--~~ 248 (284)
T PRK06596 172 ESRLSGQDASLDAPIDDDDEESGAPQDYLEDK-SSDPADVLEEDNWEDQRRALLADALEGLDERSRDIIEARWLDD--DK 248 (284)
T ss_pred HHHhcCCCcCcCCCCCCCCCCcchHHHHcCCC-CCCchHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhcCC--CC
Confidence 75 34578999999875533 3577888876 35787776654 3578899999999999999999999752 46
Q ss_pred CcHHHHHhhcccchhHHHHHHHHHHHHHHHHHH
Q psy15215 597 HTLEEVGKQFDVTRERIRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 597 ~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~ 629 (1432)
+|++|||+.||+|+++|+|++++|+.+||+.+.
T Consensus 249 ~Tl~EIA~~lgvS~~rVrqi~~~Al~kLR~~l~ 281 (284)
T PRK06596 249 STLQELAAEYGVSAERVRQIEKNAMKKLKAAIE 281 (284)
T ss_pred cCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Confidence 699999999999999999999999999998875
|
|
| >PRK07500 rpoH2 RNA polymerase factor sigma-32; Reviewed | Back alignment and domain information |
|---|
Probab=100.00 E-value=2.6e-36 Score=347.06 Aligned_cols=257 Identities=28% Similarity=0.434 Sum_probs=224.2
Q ss_pred HHHHHhhhhccCCChhhHHHHHHHHH-HhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhc
Q psy15215 367 QQKLINLQTDIVLPLNDLRDINRKMI-AGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKF 445 (1432)
Q Consensus 367 q~~L~~iE~~~~l~~~e~~~l~~~i~-~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~f 445 (1432)
..+|.++-....++..+...|+.+++ .||.. |++.||..|+|+|+++|++|++++.+++||+||||+|||+|+++|
T Consensus 9 ~~y~~~~~~~~~l~~~~e~~L~~~~~~~gd~~---A~~~Lv~~~~~lV~~~a~~~~~~~~~~eDLvQeg~i~L~~a~~~f 85 (289)
T PRK07500 9 RSMIRSAMKAPYLEREEEHALAYRWKDHRDED---ALHRIISAHMRLVISMAGKFRRFGLPMNDLIQEGYVGLLEAAARF 85 (289)
T ss_pred HHHHHHHhcCCCCCHHHHHHHHHHHHHCCCHH---HHHHHHHHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHc
Confidence 44788898889999999999999975 79988 999999999999999999999999999999999999999999999
Q ss_pred cccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHHH--HHHHHHHHHHHHHH---HhCCCCCHHHHHHHcCCCHHHH
Q psy15215 446 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE--TINKISRISRQILQ---ETGSEPDPSVIAIKMEMPEEKI 520 (1432)
Q Consensus 446 d~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~--~~~k~~r~~~~~~~---~~g~~pt~~eia~~~~~~~~~v 520 (1432)
++.+|.+|+|||+||||++|.++|+++++.+|+|++... ...++.++...+.+ .+|++||.+|||+.||+++++|
T Consensus 86 d~~~~~~f~tya~~~Ir~~I~~~lr~~~~~iR~p~~~~~~~~~~~~~~~~~~~~~~~~~l~~~pt~~eiA~~l~~~~~~v 165 (289)
T PRK07500 86 EPDREVRFSTYATWWIRASIQDYILRNWSIVRGGTSSAQKALFFNLRRLRARLAQADEELTKQEIHREIATALGVSLSDV 165 (289)
T ss_pred CCCCCCChHHHHHHHHHHHHHHHHHHCCCceecCccHHHHHHHHHHHHHHHHHHhhhcccCCCCCHHHHHHHhCcCHHHH
Confidence 999999999999999999999999999999999998765 44566666655555 6899999999999999999999
Q ss_pred HHHH-HHccCCCCCCCCCCCCCCC--CcCcccccCCCCChHHHHHH----HHHHHHHHHHHhcCCHHHHHHHHHHhhccc
Q psy15215 521 RKIM-KIAKEPVSMESPVGDDEDS--HLGDFIEDENMLAPSDAALN----ASMRSVVKDILNSLTPRESKVLRMRFGIEM 593 (1432)
Q Consensus 521 ~~~~-~~~~~~~sl~~~~~~~~~~--~~~~~i~d~~~~~p~~~~~~----~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~ 593 (1432)
..+. .....++||+.|++++++. ++.+++++.. .+|++.+.. .++...|..+|+.||++|+.||.+||+.
T Consensus 166 ~~~~~~~~~~~~SLd~~~~~~~~~~~~l~d~i~d~~-~~pe~~~~~~~~~~~~~~~l~~al~~L~~rer~vl~lr~~~-- 242 (289)
T PRK07500 166 EMMDARLSGPDASLNAPQSEEDEGRSERMDFLVDDS-PLPDEQVESSIDGERRRRWLTQALQTLNERELRIIRERRLR-- 242 (289)
T ss_pred HHHHHHhcCCCccccCCCCCCCCCcccHHHhccCCC-CCchHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhcC--
Confidence 9875 3456789999998765543 5778888764 467766543 3466789999999999999999999972
Q ss_pred CCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHH
Q psy15215 594 SSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 594 ~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~ 629 (1432)
..++|++|||+.||+|+++|++++++|+++||..+.
T Consensus 243 ~~~~t~~EIa~~lgvs~~~V~q~~~~Al~kLr~~l~ 278 (289)
T PRK07500 243 EDGATLEALGEELGISKERVRQIEARALEKLRRALL 278 (289)
T ss_pred CCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Confidence 245599999999999999999999999999998775
|
|
| >TIGR02392 rpoH_proteo alternative sigma factor RpoH | Back alignment and domain information |
|---|
Probab=100.00 E-value=3.2e-36 Score=344.61 Aligned_cols=253 Identities=26% Similarity=0.470 Sum_probs=213.6
Q ss_pred HHHHHhhhhcCCChhhHHHHHHH-HHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhcc
Q psy15215 1158 QKLINLQTDIVLPLNDLRDINRK-MIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFE 1236 (1432)
Q Consensus 1158 ~~L~~ie~~~~l~~~e~~~l~~~-~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd 1236 (1432)
.+|.++.....++..+...|+.+ ...|+.. |++.|+..|+++|+++|++|.+++.+++||+||||+|||+|+++||
T Consensus 5 ~yl~~~~~~~~l~~~~e~~l~~~~~~~gd~~---a~~~Lv~~~~~lV~~~a~~~~~~~~~~eDLvQeg~igl~~a~~~fd 81 (270)
T TIGR02392 5 AYIRAVNRIPMLTPEEEYQLAKRLREHGDLD---AAKKLVLSHLRFVVKIARGYRGYGLPQADLIQEGNIGLMKAVKRFD 81 (270)
T ss_pred HHHHHHhcCCCCCHHHHHHHHHHHHHCCCHH---HHHHHHHHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 46777888888999999999998 4688888 9999999999999999999999999999999999999999999999
Q ss_pred ccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHH--HHHHHHHHHHHHHHHHhCCCC-CHHHHHHHcCCCHHHHHHH
Q psy15215 1237 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI--ETINKISRISRQILQETGSEP-DPSVIAIKMEMPEEKIRKI 1313 (1432)
Q Consensus 1237 ~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~--~~~~k~~~~~~~~~~~~g~~p-t~~eia~~~~~~~~~v~~~ 1313 (1432)
+.+|++|||||+||||++|.++++++++++|+|.+.. +..++++.+...+. .++.| |.+|||+.||+++++|..+
T Consensus 82 ~~~~~~FsTYA~~~Ir~~i~~~l~~~~~~ir~p~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~eiA~~l~~~~~~v~~~ 159 (270)
T TIGR02392 82 PERGVRLVSFAVHWIKAEIHEYILRNWRLVKVATTKAQRKLFFNLRKMKKRLQ--GWLNPEEVEAIAEELGVSEREVREM 159 (270)
T ss_pred cccCCChHHhhHHHHHHHHHHHHHHcCCceecCchHHHHHHHHHHHHHHHHHh--cCCCCCCHHHHHHHhCCCHHHHHHH
Confidence 9999999999999999999999999988899998754 33444444443332 22555 6999999999999999998
Q ss_pred HHH-ccCCCCCCCCCCCCCCC--CcCcccccCCCCChHHHHHHH----HHHHHHHHHHccCCHHHHHHHHHHhcccCCCC
Q psy15215 1314 MKI-AKEPVSMESPVGDDEDS--HLGDFIEDENMLAPSDAALNA----SMRSVVKDILNSLTPRESKVLRMRFGIEMSSD 1386 (1432)
Q Consensus 1314 ~~~-~~~~~Sl~~~~~~~~~~--~~~d~i~d~~~~~p~~~~~~~----~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~ 1386 (1432)
+.. ...++||+.|++++++. .+.+++++.. .+|++.+... .+...|..+|..||++||.||.+||+. +.+
T Consensus 160 ~~~~~~~~~Sld~~~~~~~~~~~~~~~~l~d~~-~~pe~~~~~~~~~~~~~~~L~~al~~L~~rer~vl~l~y~~--~~~ 236 (270)
T TIGR02392 160 ESRLSGQDMSLNASIDDDEDDGGAPIAYLVDKT-SDPEDTLEEEQWEELQRQALANALGSLDARSRRIIEARWLD--DDK 236 (270)
T ss_pred HHHccCCCccCCCCCCCCCCccccHHHHhcCCC-CChHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHhcC--CCC
Confidence 753 34589999998775443 4667777764 4687766643 366889999999999999999999975 235
Q ss_pred CCHHHHHHHhCCCHHHHHHHHHHHHHHhhCch
Q psy15215 1387 HTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 1418 (1432)
Q Consensus 1387 ~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~ 1418 (1432)
+|++|||+.||||++||+|++++|++|||+..
T Consensus 237 ~t~~eIA~~lgvS~~~V~q~~~~Al~kLr~~l 268 (270)
T TIGR02392 237 LTLQELAAEYGVSAERIRQIEKNAMKKLKAAL 268 (270)
T ss_pred cCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHh
Confidence 59999999999999999999999999999854
|
A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoH and further restricted to the Proteobacteria. This protein may be called sigma-32, sigma factor H, heat shock sigma factor, and alternative sigma factor RpoH. Note that in some species the single locus rpoH may be replaced by two or more differentially regulated stress response sigma factors. |
| >PRK07408 RNA polymerase sigma factor SigF; Reviewed | Back alignment and domain information |
|---|
Probab=100.00 E-value=4.8e-36 Score=340.19 Aligned_cols=237 Identities=26% Similarity=0.459 Sum_probs=209.3
Q ss_pred hHHHHHHHHH-HhHHHHHHhHHHHHHHHHHHHHHHHHhcccC-CCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHH
Q psy15215 383 DLRDINRKMI-AGEMKARKAKREMTEANLRLVISIAKKYTDR-GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460 (1432)
Q Consensus 383 e~~~l~~~i~-~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~-~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ 460 (1432)
+...++...+ .|+.. |+++||..|+|+|+++|++|.++ +.+++||+|||+||||+|+++|||.+|++|+|||+||
T Consensus 10 ~~~~~~~~~~~~gd~~---a~~~Lv~~~~~lV~~ia~~~~~~~~~~~eDL~Qeg~igL~~a~~~fd~~~g~~F~tya~~~ 86 (256)
T PRK07408 10 ETMELLRAYQQNPSIA---LRNQLVELNLGLVRKEAHRWSNQCSEPYEDLVQVGSLGLIRAIERFDPSKGHAFSSFAIPY 86 (256)
T ss_pred HHHHHHHHHHHCCCHH---HHHHHHHHhHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHH
Confidence 5566666665 78887 99999999999999999999876 6679999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHH--HccCCCCCCCCCC
Q psy15215 461 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMK--IAKEPVSMESPVG 538 (1432)
Q Consensus 461 ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~--~~~~~~sl~~~~~ 538 (1432)
|+|+|.++++++.++||+|+++.+.+++++++..++.+++|++||++|||+.||+++++|..+.. ....++||+.+++
T Consensus 87 Ir~~i~~~lr~~~~~vr~pr~~~~~~~~~~~~~~~l~~~lgr~pt~~elA~~lgi~~~~v~~~~~~~~~~~~~SLd~~~~ 166 (256)
T PRK07408 87 IRGEIQHYLRDKSPTVRIPRRWQELQRQAKKVRQELRQELGRQPTDQEIAQALDISLEEWQEIKLALQNRTPLSLDAPVN 166 (256)
T ss_pred HHHHHHHHHHHcCCeeeeCHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHhhccCCccccccCC
Confidence 99999999999999999999999999999999999999999999999999999999999999875 3456789999986
Q ss_pred CCCCC--CcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHH
Q psy15215 539 DDEDS--HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQI 616 (1432)
Q Consensus 539 ~~~~~--~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~ 616 (1432)
++++. .+.+.+++.... +.. ...+....|..+|.+||++++.||.++|+.|+ |++|||+.+|+|+++|+++
T Consensus 167 ~~~~~~~~l~d~~~d~~~~-~~~--~~~~~~~~l~~~l~~L~~~~r~vl~l~y~~~~----s~~eIA~~lgvs~~~V~~~ 239 (256)
T PRK07408 167 QDEDGSTSLGDLLPDPRYR-SFQ--LAQEDRIRLQQALAQLEERTREVLEFVFLHDL----TQKEAAERLGISPVTVSRR 239 (256)
T ss_pred CCCCCccccccccCCcccc-hhh--hhHHHHHHHHHHHHcCCHHHHHHHHHHHHCCC----CHHHHHHHHCcCHHHHHHH
Confidence 54433 566777665432 211 23345678999999999999999999998888 9999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q psy15215 617 EAKALRKLRPLAH 629 (1432)
Q Consensus 617 ~~rAl~kLr~~l~ 629 (1432)
.++|+.+|+..+.
T Consensus 240 ~~ra~~kLr~~l~ 252 (256)
T PRK07408 240 VKKGLDQLKKLLQ 252 (256)
T ss_pred HHHHHHHHHHHhh
Confidence 9999999998764
|
|
| >PRK05667 dnaG DNA primase; Validated | Back alignment and domain information |
|---|
Probab=100.00 E-value=3.2e-37 Score=381.48 Aligned_cols=203 Identities=36% Similarity=0.528 Sum_probs=172.1
Q ss_pred HHHHHHHHHHHHHHHHHhhh--hhhhhH-hhcC--CCcccccccccCCCCCchhhHHHHHHH----------------H-
Q psy15215 618 AKALRKLRPLAHDWLEQRTH--QNEKII-ACSS--DSSNHNEHVTNNNFPPGFNIFHKLLRI----------------L- 675 (1432)
Q Consensus 618 ~rAl~kLr~~l~~~~~~~l~--~~~~~~-~l~~--l~~~~~~~f~~Gyap~~~~~l~~~~~~----------------~- 675 (1432)
+..+..+...+..||+.++. .+..|+ ||.. ||+++|++|+|||||.+|+.|.+++.. .
T Consensus 107 ~~~l~~~~~~a~~~y~~~L~~~~~~~a~~YL~~RGls~~~i~~f~lGyap~~~~~L~~~l~~~~~~~~~l~~~GL~~~~~ 186 (580)
T PRK05667 107 RQRLYEIMELAAKFYQQQLRTPEGAEARQYLYKRGLSEETIERFGIGYAPDGWDALLKHLGGKGFSEKELEEAGLLIKNE 186 (580)
T ss_pred HHHHHHHHHHHHHHHHHHHcCccchHHHHHHHHcCCCHHHHHHhCCccCCChHHHHHHHHHhcCCCHHHHHHCCceEecC
Confidence 45577778888899999874 466777 9877 999999999999999999998776631 0
Q ss_pred --HHhhhcc--EEEEee-----eeeeeeeeeeCCCCC----CCCCCCcccCccccCchHhHHhhccCCeEEEEecchhHH
Q psy15215 676 --QEYLESF--LISFFL-----RNHGISGFLLTTPDP----VHETPLFHKSNELYGLFEAKNAIGKSGYVLITEGYMDVI 742 (1432)
Q Consensus 676 --~~~~~~f--ri~fpi-----r~igf~gR~~~~~~~----s~et~~f~K~~~Ly~~~~a~~~~~~~~~~~~vEG~~D~i 742 (1432)
..+++|| |||||| +||||+||.++++.| ||||++|+||++|||+|.|++.+++.+.+||||||||||
T Consensus 187 ~~~~~yd~Fr~RimfPI~d~~G~vigF~GR~l~~~~pKYlNSpet~iF~K~~~LYgl~~a~~~i~~~~~viivEG~~Dvi 266 (580)
T PRK05667 187 DGGGPYDRFRNRIMFPIRDLRGRVIGFGGRVLGDDKPKYLNSPETPLFHKGRVLYGLDEARKAIAKKKQVIVVEGYMDVI 266 (580)
T ss_pred CCCCcchhcCCeEEEEEECCCCcEEEEEeeecCCCCCeeeCCCCCCCccCCccccCccHHHHhcccCCeEEEEeeHHHHH
Confidence 2244445 599999 699999999987667 999999999999999999999999999999999999999
Q ss_pred HHhhhCC---------------------CCCeEEEEecCcHHHHHHHHHHHHHhhhhcCCCceEEEecCCCCCCHHHHHH
Q psy15215 743 GLSQFGF---------------------FANSSYTCFDGDQAGRRAARRALEVCLLYATDDKIIKFLFLPDKYDPDSYIR 801 (1432)
Q Consensus 743 a~~~~g~---------------------~~~~i~~~~D~D~aG~~a~~~~~~~~~~~~~~~~~~~~~~lp~~~Dpde~~~ 801 (1432)
++||+|+ ++.+||+|||||.||++||.|+++.+++....++.|+|+.+|+|+|||||++
T Consensus 267 sl~q~Gi~naVA~lGtalt~~~~~~L~r~~~~vil~~D~D~AG~~aa~r~~~~~~~l~~~g~~v~vv~lp~gkDpdd~l~ 346 (580)
T PRK05667 267 ALHQAGITNAVASLGTALTEEHLKLLRRLTDEVILCFDGDKAGRKAALRALELALPLLKDGRQVRVAFLPDGKDPDDLVR 346 (580)
T ss_pred HHHHcCCCcEEEeCCCCCCHHHHHHHHhcCCeEEEEeCCCHHHHHHHHHHHHHHHHHHhCCceEEEEECCCCCChHHHHH
Confidence 9999999 4679999999999999999999999555444455699999999999999999
Q ss_pred HhChhhhhhc-----cccchhhcc
Q psy15215 802 KFGYKIFSKK-----NAFSFDIKS 820 (1432)
Q Consensus 802 ~~g~~~~~~~-----~~~~f~~~~ 820 (1432)
++|+++|.+. +.++|.+..
T Consensus 347 ~~G~~~~~~~i~~a~~~~~f~~~~ 370 (580)
T PRK05667 347 KEGPEAFRALLEQAIPLSEFLIRR 370 (580)
T ss_pred HhCHHHHHHHHHcCCCHHHHHHHH
Confidence 9999999774 444444443
|
|
| >TIGR02392 rpoH_proteo alternative sigma factor RpoH | Back alignment and domain information |
|---|
Probab=100.00 E-value=1.5e-35 Score=339.03 Aligned_cols=255 Identities=26% Similarity=0.474 Sum_probs=215.9
Q ss_pred HHHHHhhhhccCCChhhHHHHHHH-HHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhc
Q psy15215 367 QQKLINLQTDIVLPLNDLRDINRK-MIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKF 445 (1432)
Q Consensus 367 q~~L~~iE~~~~l~~~e~~~l~~~-i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~f 445 (1432)
..+|.++.....|+..+...|+.+ .+.||.. |++.|+..|+|+|+++|++|.+++.+++||+|||++|||+|+++|
T Consensus 4 ~~yl~~~~~~~~l~~~~e~~l~~~~~~~gd~~---a~~~Lv~~~~~lV~~~a~~~~~~~~~~eDLvQeg~igl~~a~~~f 80 (270)
T TIGR02392 4 DAYIRAVNRIPMLTPEEEYQLAKRLREHGDLD---AAKKLVLSHLRFVVKIARGYRGYGLPQADLIQEGNIGLMKAVKRF 80 (270)
T ss_pred HHHHHHHhcCCCCCHHHHHHHHHHHHHCCCHH---HHHHHHHHhHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHh
Confidence 357888888888999999999998 5689988 999999999999999999999999999999999999999999999
Q ss_pred cccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHH--HHHHHHHHHHHHHHHHhCCCC-CHHHHHHHcCCCHHHHHH
Q psy15215 446 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI--ETINKISRISRQILQETGSEP-DPSVIAIKMEMPEEKIRK 522 (1432)
Q Consensus 446 d~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~--~~~~k~~r~~~~~~~~~g~~p-t~~eia~~~~~~~~~v~~ 522 (1432)
|+.+|++|+|||+||||++|.++++++++++|+|.+.. +..++++++...+. .++.| |.+|||+.||+++++|..
T Consensus 81 d~~~~~~FsTYA~~~Ir~~i~~~l~~~~~~ir~p~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~eiA~~l~~~~~~v~~ 158 (270)
T TIGR02392 81 DPERGVRLVSFAVHWIKAEIHEYILRNWRLVKVATTKAQRKLFFNLRKMKKRLQ--GWLNPEEVEAIAEELGVSEREVRE 158 (270)
T ss_pred CcccCCChHHhhHHHHHHHHHHHHHHcCCceecCchHHHHHHHHHHHHHHHHHh--cCCCCCCHHHHHHHhCCCHHHHHH
Confidence 99999999999999999999999999988899998754 34445555444332 22555 699999999999999999
Q ss_pred HHH-HccCCCCCCCCCCCCCCC--CcCcccccCCCCChHHHHHHH----HHHHHHHHHHhcCCHHHHHHHHHHhhcccCC
Q psy15215 523 IMK-IAKEPVSMESPVGDDEDS--HLGDFIEDENMLAPSDAALNA----SMRSVVKDILNSLTPRESKVLRMRFGIEMSS 595 (1432)
Q Consensus 523 ~~~-~~~~~~sl~~~~~~~~~~--~~~~~i~d~~~~~p~~~~~~~----~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~ 595 (1432)
++. ....++||+.|++++++. .+.+++++.. .+|++.+... .+...|..+|++||++|+.||.+||+. +.
T Consensus 159 ~~~~~~~~~~Sld~~~~~~~~~~~~~~~~l~d~~-~~pe~~~~~~~~~~~~~~~L~~al~~L~~rer~vl~l~y~~--~~ 235 (270)
T TIGR02392 159 MESRLSGQDMSLNASIDDDEDDGGAPIAYLVDKT-SDPEDTLEEEQWEELQRQALANALGSLDARSRRIIEARWLD--DD 235 (270)
T ss_pred HHHHccCCCccCCCCCCCCCCccccHHHHhcCCC-CChHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHhcC--CC
Confidence 865 334579999998765443 4667777764 4687776643 356889999999999999999999965 23
Q ss_pred CCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHH
Q psy15215 596 DHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 596 ~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~ 629 (1432)
++|++|||+.||||+++|++++++|+.+||+.+.
T Consensus 236 ~~t~~eIA~~lgvS~~~V~q~~~~Al~kLr~~l~ 269 (270)
T TIGR02392 236 KLTLQELAAEYGVSAERIRQIEKNAMKKLKAALA 269 (270)
T ss_pred CcCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhc
Confidence 5599999999999999999999999999998763
|
A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoH and further restricted to the Proteobacteria. This protein may be called sigma-32, sigma factor H, heat shock sigma factor, and alternative sigma factor RpoH. Note that in some species the single locus rpoH may be replaced by two or more differentially regulated stress response sigma factors. |
| >PRK05911 RNA polymerase sigma factor sigma-28; Reviewed | Back alignment and domain information |
|---|
Probab=100.00 E-value=3.6e-35 Score=332.98 Aligned_cols=233 Identities=24% Similarity=0.360 Sum_probs=209.2
Q ss_pred HHHHH-HhhhhhhhhhHHHHHHHHHHHHHHHHHhcc---CCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHH
Q psy15215 1177 INRKM-IAGEMKARKAKREMTEANLRLVISIAKKYT---DRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 1252 (1432)
Q Consensus 1177 l~~~~-~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~---~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir 1252 (1432)
++... ..|+.. |++.||..|+|+|+++|++|. ..+.+++||+|||++|||+|+++|||.+|++|+|||+||||
T Consensus 12 ~~~~~~~~~~~~---ar~~Li~~~~~lV~~ia~~~~~~~~~~~~~eDL~QeG~igL~~ai~~fd~~~g~~F~tya~~~Ir 88 (257)
T PRK05911 12 TWQLYWSTQEIE---YRDVLIEFYLPLVKNVAHRLISGMPSHVKTEDLYASGVEGLVRAVERFDPEKSRRFEGYALFLIK 88 (257)
T ss_pred HHHHHHhcCCHH---HHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHH
Confidence 44444 357776 999999999999999999985 23567999999999999999999999999999999999999
Q ss_pred HHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHcc--CCCCCCCCCCC-
Q psy15215 1253 QAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAK--EPVSMESPVGD- 1329 (1432)
Q Consensus 1253 ~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~--~~~Sl~~~~~~- 1329 (1432)
++|.++++++.+ +|+++.+.++++.++.+.+.+.+|++||.+|||+.+|+++++|..++.... .++||+.++..
T Consensus 89 ~~i~~~lr~~~~---~pr~~~~~~~~l~~~~~~l~~~~gr~pt~~eiA~~l~i~~~~v~~~~~~~~~~~~~Sld~~~~~~ 165 (257)
T PRK05911 89 AAIIDDLRKQDW---VPRSVHQKANKLADAMDSLRQSLGKEPTDGELCEYLNISQQELSGWFSSARPALILSLNEEFPCQ 165 (257)
T ss_pred HHHHHHHHhcCC---CCHHHHHHHHHHHHHHHHHHHHHCcCCCHHHHHHHhCcCHHHHHHHHHHhhccceeeccccCCCC
Confidence 999999999876 899999999999999999999999999999999999999999999987654 46899987643
Q ss_pred -CC--CCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHH
Q psy15215 1330 -DE--DSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQI 1406 (1432)
Q Consensus 1330 -~~--~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~ 1406 (1432)
++ ..++.++++|....+|++.+....+...|..+|.+|||++|.||.++|+.++ |++|||+.||+|+++|+++
T Consensus 166 ~~~~~~~~l~~~l~d~~~~~~~~~~~~~~~~~~l~~al~~L~~~er~vi~l~y~e~~----t~~EIA~~lgis~~~V~~~ 241 (257)
T PRK05911 166 SDDEAGLALEERIADERAETGYDVVDKKEFSSILAEAILALEEKERKVMALYYYEEL----VLKEIGKILGVSESRVSQI 241 (257)
T ss_pred CCCccccchhhhccCCCCCCHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCC----CHHHHHHHHCcCHHHHHHH
Confidence 22 2357788888877789999998999999999999999999999999998877 9999999999999999999
Q ss_pred HHHHHHHhhCchh
Q psy15215 1407 EAKALRKLRHPSR 1419 (1432)
Q Consensus 1407 ~~rAl~kLr~~~~ 1419 (1432)
+++|+++||+.+.
T Consensus 242 ~~ral~kLr~~l~ 254 (257)
T PRK05911 242 HSKALLKLRATLS 254 (257)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999999553
|
|
| >PRK05911 RNA polymerase sigma factor sigma-28; Reviewed | Back alignment and domain information |
|---|
Probab=100.00 E-value=9.1e-35 Score=329.66 Aligned_cols=236 Identities=24% Similarity=0.365 Sum_probs=211.8
Q ss_pred HHHHHH-HHhHHHHHHhHHHHHHHHHHHHHHHHHhcc---cCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHH
Q psy15215 386 DINRKM-IAGEMKARKAKREMTEANLRLVISIAKKYT---DRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 461 (1432)
Q Consensus 386 ~l~~~i-~~gd~~~~~A~~~li~~~~~lV~~ia~ky~---~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~i 461 (1432)
.++... ..|+.. |++.||..|+|+|+++|++|. ..+.+++||+|||+||||+|+++|||.+|++|+|||+|||
T Consensus 11 ~~~~~~~~~~~~~---ar~~Li~~~~~lV~~ia~~~~~~~~~~~~~eDL~QeG~igL~~ai~~fd~~~g~~F~tya~~~I 87 (257)
T PRK05911 11 ETWQLYWSTQEIE---YRDVLIEFYLPLVKNVAHRLISGMPSHVKTEDLYASGVEGLVRAVERFDPEKSRRFEGYALFLI 87 (257)
T ss_pred HHHHHHHhcCCHH---HHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHH
Confidence 344444 357777 999999999999999999986 2356799999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHcc--CCCCCCCCCCC
Q psy15215 462 RQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAK--EPVSMESPVGD 539 (1432)
Q Consensus 462 r~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~--~~~sl~~~~~~ 539 (1432)
|++|.++++++.+ +|+++.+.++++.++.+.+.+.+|++||.+|||+.||+++++|..++..+. .++|++.++.+
T Consensus 88 r~~i~~~lr~~~~---~pr~~~~~~~~l~~~~~~l~~~~gr~pt~~eiA~~l~i~~~~v~~~~~~~~~~~~~Sld~~~~~ 164 (257)
T PRK05911 88 KAAIIDDLRKQDW---VPRSVHQKANKLADAMDSLRQSLGKEPTDGELCEYLNISQQELSGWFSSARPALILSLNEEFPC 164 (257)
T ss_pred HHHHHHHHHhcCC---CCHHHHHHHHHHHHHHHHHHHHHCcCCCHHHHHHHhCcCHHHHHHHHHHhhccceeeccccCCC
Confidence 9999999999876 899999999999999999999999999999999999999999999987664 45899987643
Q ss_pred --CC--CCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHH
Q psy15215 540 --DE--DSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQ 615 (1432)
Q Consensus 540 --~~--~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~ 615 (1432)
++ ..++.+++++....+|.+.+...++...|..+|++|||+++.||.|+|+.++ |++|||+.||+|.++|++
T Consensus 165 ~~~~~~~~~l~~~l~d~~~~~~~~~~~~~~~~~~l~~al~~L~~~er~vi~l~y~e~~----t~~EIA~~lgis~~~V~~ 240 (257)
T PRK05911 165 QSDDEAGLALEERIADERAETGYDVVDKKEFSSILAEAILALEEKERKVMALYYYEEL----VLKEIGKILGVSESRVSQ 240 (257)
T ss_pred CCCCccccchhhhccCCCCCCHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCC----CHHHHHHHHCcCHHHHHH
Confidence 21 2357788888777789999988899999999999999999999999998887 999999999999999999
Q ss_pred HHHHHHHHHHHHHHHH
Q psy15215 616 IEAKALRKLRPLAHDW 631 (1432)
Q Consensus 616 ~~~rAl~kLr~~l~~~ 631 (1432)
+.++|+.+|++.+..|
T Consensus 241 ~~~ral~kLr~~l~~~ 256 (257)
T PRK05911 241 IHSKALLKLRATLSAF 256 (257)
T ss_pred HHHHHHHHHHHHHHhh
Confidence 9999999999998764
|
|
| >TIGR02850 spore_sigG RNA polymerase sigma-G factor | Back alignment and domain information |
|---|
Probab=100.00 E-value=9.3e-35 Score=330.12 Aligned_cols=237 Identities=30% Similarity=0.477 Sum_probs=213.5
Q ss_pred CCChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHH
Q psy15215 1168 VLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 1247 (1432)
Q Consensus 1168 ~l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya 1247 (1432)
.|+.++...++.+++.|+.. |++.|+..|+++|+++|++|++++.+++||+||||+|||+++++|++.+|.+|+||+
T Consensus 15 ~l~~~~~~~li~~~~~gd~~---a~~~L~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~~fd~~~~~~f~tyl 91 (254)
T TIGR02850 15 VLKNQEMRELFIRMQSGDTT---AREKLINGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLMKSIDNFDLSQNVKFSTYA 91 (254)
T ss_pred CCCHHHHHHHHHHHHcCCHH---HHHHHHHHhHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCChHHHH
Confidence 45667778899999999888 999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCC
Q psy15215 1248 TWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPV 1327 (1432)
Q Consensus 1248 ~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~ 1327 (1432)
+|||+|+|.++++++. ++|+|+++.+.++++.++...+.+++|++||++|||+.||+++++|..++.....++||+.|+
T Consensus 92 ~~~irn~~~~~lr~~~-~ir~p~~~~~~~~~~~~~~~~l~~~l~~~pt~~elA~~l~~~~e~v~~~~~~~~~~~Sld~~~ 170 (254)
T TIGR02850 92 VPMIIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRDKLISENSKEPTVSEIAKELKVPQEEVVFALDAIQDPVSLFEPI 170 (254)
T ss_pred HHHHHHHHHHHHHhCC-CccCchHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHCcCHHHHHHHHHhcCCCCcccCCC
Confidence 9999999999999975 899999999999999999999999999999999999999999999999999998999999998
Q ss_pred CCCCC--CCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHH
Q psy15215 1328 GDDED--SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQ 1405 (1432)
Q Consensus 1328 ~~~~~--~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq 1405 (1432)
.++++ ..+.+++++... +.+ .......+..++..||+++|.||.+||+.++ |++|||+.||+|+++|+|
T Consensus 171 ~~~~~~~~~~~~~~~d~~~--~~~---~~~~~~~l~~~l~~L~~rer~vi~~~~~~~~----t~~eIA~~lgis~~~V~~ 241 (254)
T TIGR02850 171 YNDGGDPIYVMDQISDEKN--KDS---QWLEGIALKEAMKRLNEREKMILNMRFFEGK----TQMEVAEEIGISQAQVSR 241 (254)
T ss_pred CCCCCCcchhhhhcCCccc--cHH---HHHhHHHHHHHHHcCCHHHHHHHHHHHcCCC----CHHHHHHHHCcCHHHHHH
Confidence 64443 246677766532 222 2234567899999999999999999998777 999999999999999999
Q ss_pred HHHHHHHHhhCc
Q psy15215 1406 IEAKALRKLRHP 1417 (1432)
Q Consensus 1406 ~~~rAl~kLr~~ 1417 (1432)
++++|++|||+.
T Consensus 242 ~~~ral~kLr~~ 253 (254)
T TIGR02850 242 LEKAALKHMRKY 253 (254)
T ss_pred HHHHHHHHHHhh
Confidence 999999999974
|
Members of this family comprise the Firmicutes lineage endospore formation-specific sigma factor SigG. It is also desginated stage III sporulation protein G (SpoIIIG). This protein is rather closely related to sigma-F (SpoIIAC), another sporulation sigma factor. |
| >TIGR02394 rpoS_proteo RNA polymerase sigma factor RpoS | Back alignment and domain information |
|---|
Probab=100.00 E-value=3e-34 Score=331.28 Aligned_cols=262 Identities=42% Similarity=0.685 Sum_probs=243.5
Q ss_pred HHHHHHhhhhcCCChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhcc
Q psy15215 1157 QQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFE 1236 (1432)
Q Consensus 1157 q~~L~~ie~~~~l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd 1236 (1432)
+.+|.+|+...+|+..+...++..++.|+.. |++.|+..|.++|+++|++|++++.+++||+||||+|||+|+++|+
T Consensus 16 ~~~~~~~~~~~~~~~~~~~~li~~~~~gd~~---a~~~L~~~y~~~v~~~a~~~~~~~~~aeDLvQe~~i~l~~a~~~fd 92 (285)
T TIGR02394 16 QLYLREIGFKPLLTAEEEIAYARRALAGDFE---ARKVMIESNLRLVVSIAKHYVNRGLPLLDLIEEGNLGLMHAVEKFD 92 (285)
T ss_pred HHHHHHHhccCCCCHHHHHHHHHHHHcCCHH---HHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhC
Confidence 4578899999999999999999999999988 9999999999999999999999999999999999999999999999
Q ss_pred ccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHH
Q psy15215 1237 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKI 1316 (1432)
Q Consensus 1237 ~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~ 1316 (1432)
+.+|++|+||++||++.++.++++++.+++|+|.++...+|.+.+..+.+.+.+|++||.+++|+.+|++++++..++..
T Consensus 93 ~~~g~~f~tya~w~i~~ain~~i~~~~~~~~~p~~~~~~~~~~~r~~~~l~~~~~r~~~~~e~a~~l~~~~~~~~~~~~~ 172 (285)
T TIGR02394 93 PERGFRFSTYATWWIRQTIERAIMNQARTIRLPVHVIKELNVYLRAARQLEKKLGREPSVEEIAELLDKPVEDVSRVLAL 172 (285)
T ss_pred CCCCCCcHhhhHHHHHHHHHHHHHHcCCceeCcHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999988888899999999999999999999999999999
Q ss_pred ccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHh
Q psy15215 1317 AKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQF 1396 (1432)
Q Consensus 1317 ~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l 1396 (1432)
....+|++.++.+++...+.+.+.+....+|++.+...+....|..+|..||+++|.||.|+||+...+++|++|||+.|
T Consensus 173 ~~~~~sld~~~~~~~~~~~~~~~~~~~~~~pe~~~~~~e~~~~L~~al~~Lp~~~R~Vl~l~ygL~~~e~~s~~EIA~~L 252 (285)
T TIGR02394 173 NERITSLDAPLDDDSSKSLLDTIADEQSIDPESLVQNDDLKQLIEAWLAELNERQREVLARRFGLLGYEPATLEEVAAEV 252 (285)
T ss_pred hcCCCcCCCCCCCCCCcchhhhhcCCCCCCHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHhCCCCCCCccHHHHHHHH
Confidence 88899999988766655566777777667899999999999999999999999999999999965545666999999999
Q ss_pred CCCHHHHHHHHHHHHHHhhCchhhh
Q psy15215 1397 DVTRERIRQIEAKALRKLRHPSRYY 1421 (1432)
Q Consensus 1397 ~vs~~~Vrq~~~rAl~kLr~~~~~~ 1421 (1432)
|||.+||++++++|+++||..+...
T Consensus 253 gis~~tVk~~l~rAlkkLr~~l~~~ 277 (285)
T TIGR02394 253 GLTRERVRQIQVEALKKLRRILERD 277 (285)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999977643
|
A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoS (also called sigma-38, KatF, etc.), found only in Proteobacteria. This sigma factor is induced in stationary phase (in response to the stress of nutrient limitation) and becomes the second prinicipal sigma factor at that time. RpoS is a member of the larger Sigma-70 subfamily (TIGR02937) and most closely related to RpoD (TIGR02393). |
| >COG1191 FliA DNA-directed RNA polymerase specialized sigma subunit [Transcription] | Back alignment and domain information |
|---|
Probab=100.00 E-value=1.8e-34 Score=315.92 Aligned_cols=237 Identities=28% Similarity=0.476 Sum_probs=216.2
Q ss_pred CCChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCC-ChhHHHHHHHHHHHHHHHhccccCCCcchhH
Q psy15215 1168 VLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGL-QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 1246 (1432)
Q Consensus 1168 ~l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~-~~~DLiQEg~igl~kav~kfd~~~g~~Fsty 1246 (1432)
.++..+...+...++.|+.. +. .|++.|+|||.++|++|.+++. .++||+|-|++||++|+++||+.+|.+|+||
T Consensus 5 ~~~~~e~~~~~~~~~~g~~~---~~-~Li~~ylpLV~~ia~k~~~r~~~~~dDLiqiG~iGLi~Aieryd~~kg~kF~ty 80 (247)
T COG1191 5 PLSKEEEEKLLEYYAEGDEE---AR-RLIERYLPLVKSIARKFENRGPSEYDDLIQIGMIGLIKAIERYDPSKGTKFSTY 80 (247)
T ss_pred ccchHHHHHHHHHHHhcCHH---HH-HHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHHHHcCcccCcchHHH
Confidence 45567788899999999988 88 9999999999999999999988 9999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHcc--CCCCCC
Q psy15215 1247 ATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAK--EPVSME 1324 (1432)
Q Consensus 1247 a~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~--~~~Sl~ 1324 (1432)
|...|+++|.+++|++. ++++|+.+.+..+++..+..++.+++||+||.+|||+.+|++.++|..++...+ ..+|++
T Consensus 81 A~~~I~Gei~d~LR~~~-~v~vpR~~~~~~~~i~~~~~~l~~el~r~pt~~EIA~~L~i~~ee~~~~~~~~~~~~~~sld 159 (247)
T COG1191 81 AVRRIRGEILDYLRKND-SVKVPRSLRELGRRIEEAIDELEQELGREPTDEEIAEELGIDKEEYIEALLAINGSQLLSLD 159 (247)
T ss_pred HHHHHHHHHHHHHHhCC-CccCcHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHhCCCHHHHHHHHHHhccccccchh
Confidence 99999999999999999 899999999999999999999999999999999999999999999999997764 778888
Q ss_pred CCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHH
Q psy15215 1325 SPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIR 1404 (1432)
Q Consensus 1325 ~~~~~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vr 1404 (1432)
..+..+++.. .+....+|.+.....++...+.+++..||+||+.|+.+||+.++ |++|||+.+|||+++|+
T Consensus 160 ~~~~~~~d~~-----~~~~~~~~~~~~~~~~~~~~l~~ai~~L~EREk~Vl~l~y~eel----t~kEI~~~LgISes~VS 230 (247)
T COG1191 160 EDVLKDDDDD-----VDDQIENPDDGVEKEELLEILKEAIEPLPEREKLVLVLRYKEEL----TQKEIAEVLGISESRVS 230 (247)
T ss_pred hhhccccccc-----hhhccccchhHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcc----CHHHHHHHhCccHHHHH
Confidence 7665444433 22334478888888899899999999999999999999999888 99999999999999999
Q ss_pred HHHHHHHHHhhCch
Q psy15215 1405 QIEAKALRKLRHPS 1418 (1432)
Q Consensus 1405 q~~~rAl~kLr~~~ 1418 (1432)
|++++|+++||+..
T Consensus 231 ql~kkai~kLr~~l 244 (247)
T COG1191 231 RLHKKAIKKLRKEL 244 (247)
T ss_pred HHHHHHHHHHHHHh
Confidence 99999999999854
|
|
| >COG1191 FliA DNA-directed RNA polymerase specialized sigma subunit [Transcription] | Back alignment and domain information |
|---|
Probab=100.00 E-value=2.5e-34 Score=314.89 Aligned_cols=239 Identities=28% Similarity=0.467 Sum_probs=218.5
Q ss_pred cCCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCC-ChhhHHHHHHHHHHHHHhhccccCCCccHH
Q psy15215 377 IVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGL-QFLDLIQEGNIGLMKAVDKFEYRRGYKFST 455 (1432)
Q Consensus 377 ~~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~-~~~DLiQEg~igL~kav~~fd~~~g~~Fst 455 (1432)
+.++..+...++...+.|+.. +. .||+.|+|||.++|++|.+++. .++||+|-|+|||++|+++||+.+|.+|+|
T Consensus 4 ~~~~~~e~~~~~~~~~~g~~~---~~-~Li~~ylpLV~~ia~k~~~r~~~~~dDLiqiG~iGLi~Aieryd~~kg~kF~t 79 (247)
T COG1191 4 QPLSKEEEEKLLEYYAEGDEE---AR-RLIERYLPLVKSIARKFENRGPSEYDDLIQIGMIGLIKAIERYDPSKGTKFST 79 (247)
T ss_pred cccchHHHHHHHHHHHhcCHH---HH-HHHHHHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHHHHHcCcccCcchHH
Confidence 456677889999999999999 88 9999999999999999999988 999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHcc--CCCCC
Q psy15215 456 YATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAK--EPVSM 533 (1432)
Q Consensus 456 ya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~--~~~sl 533 (1432)
||...|+++|.+++|+.. .+++|+++.+..+++..+..++.+++||+||.+|||+.||++.++|..++.... ..+|+
T Consensus 80 yA~~~I~Gei~d~LR~~~-~v~vpR~~~~~~~~i~~~~~~l~~el~r~pt~~EIA~~L~i~~ee~~~~~~~~~~~~~~sl 158 (247)
T COG1191 80 YAVRRIRGEILDYLRKND-SVKVPRSLRELGRRIEEAIDELEQELGREPTDEEIAEELGIDKEEYIEALLAINGSQLLSL 158 (247)
T ss_pred HHHHHHHHHHHHHHHhCC-CccCcHHHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHhCCCHHHHHHHHHHhccccccch
Confidence 999999999999999999 899999999999999999999999999999999999999999999999987664 67888
Q ss_pred CCCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHH
Q psy15215 534 ESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERI 613 (1432)
Q Consensus 534 ~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v 613 (1432)
+..+..+++.. .++...+|.+.....+....+.+++..|++||+.|+.+||..++ |++|||+.+|||.++|
T Consensus 159 d~~~~~~~d~~-----~~~~~~~~~~~~~~~~~~~~l~~ai~~L~EREk~Vl~l~y~eel----t~kEI~~~LgISes~V 229 (247)
T COG1191 159 DEDVLKDDDDD-----VDDQIENPDDGVEKEELLEILKEAIEPLPEREKLVLVLRYKEEL----TQKEIAEVLGISESRV 229 (247)
T ss_pred hhhhccccccc-----hhhccccchhHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcc----CHHHHHHHhCccHHHH
Confidence 77665444433 22334578888888889899999999999999999999999998 9999999999999999
Q ss_pred HHHHHHHHHHHHHHHH
Q psy15215 614 RQIEAKALRKLRPLAH 629 (1432)
Q Consensus 614 ~~~~~rAl~kLr~~l~ 629 (1432)
++++++|+.+|++.+.
T Consensus 230 Sql~kkai~kLr~~l~ 245 (247)
T COG1191 230 SRLHKKAIKKLRKELN 245 (247)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 9999999999998875
|
|
| >COG0358 DnaG DNA primase (bacterial type) [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
Probab=100.00 E-value=9.3e-36 Score=372.95 Aligned_cols=207 Identities=29% Similarity=0.435 Sum_probs=177.7
Q ss_pred HHHHHhhcccchhHH---HHHHHHHHHHHHHHHHHHHHHhhh-hhhhhH-hhcC--CCcccccccccCCCCCchhhHHHH
Q psy15215 599 LEEVGKQFDVTRERI---RQIEAKALRKLRPLAHDWLEQRTH-QNEKII-ACSS--DSSNHNEHVTNNNFPPGFNIFHKL 671 (1432)
Q Consensus 599 ~~EIa~~l~is~~~v---~~~~~rAl~kLr~~l~~~~~~~l~-~~~~~~-~l~~--l~~~~~~~f~~Gyap~~~~~l~~~ 671 (1432)
..++|.+.|+..+.. +....+.+..+...+..||+..|. .+.+++ ||.. +|.+++++|+|||||++ +.+. .
T Consensus 83 v~~La~~~gi~~~~~~~~~~~~~~~l~~~~~~~~~fy~~~L~~~~~~a~~yL~~Rgls~~~i~~f~iG~ap~~-~~~~-~ 160 (568)
T COG0358 83 VLQLAGRAGIELPYEKGKRIEKRQKLYDGKEEAAIFYQSSLDPEGAAALKYLETRGLAAELIAHFRLGYAPPN-DSLL-P 160 (568)
T ss_pred HHHHHHHhCCCCCccccccchhHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHcCCCHHHHHHhCCCCCCCc-hHHH-H
Confidence 344555555443322 345567888899999999999987 455565 8887 89999999999999999 6666 3
Q ss_pred HH----------------------HHHHhhhccEEEEee-----eeeeeeeeeeCCCCC----CCCCCCcccCccccCch
Q psy15215 672 LR----------------------ILQEYLESFLISFFL-----RNHGISGFLLTTPDP----VHETPLFHKSNELYGLF 720 (1432)
Q Consensus 672 ~~----------------------~~~~~~~~fri~fpi-----r~igf~gR~~~~~~~----s~et~~f~K~~~Ly~~~ 720 (1432)
+. .||+|++ |||||| +|||||||.+++..| ||+|++|+||+.|||++
T Consensus 161 ~~~k~~~~~~~l~~~Gl~~~~~~~~ydrFr~--RImfPI~d~~g~vigFggR~l~~~~~KYlNspet~if~Kg~~Lyg~~ 238 (568)
T COG0358 161 FLAKKEYREEKLEDLGLLKRKEGKIYDRFRN--RIMFPIRDLRGDVIGFGGRVLGDDKPKYLNSPETELFKKGEELYGLD 238 (568)
T ss_pred HHhcCCcCHHHHHHCCCeecCCCceeehhcC--eeEEeccCCCCCEEeeeccccCCCCCcccCCCCCcCccCcHHhhCHH
Confidence 32 2444444 599999 699999999997666 99999999999999999
Q ss_pred HhHHhhccCCeEEEEecchhHHHHhhhCC---------------------CCCeEEEEecCcHHHHHHHHHHHHHhhhhc
Q psy15215 721 EAKNAIGKSGYVLITEGYMDVIGLSQFGF---------------------FANSSYTCFDGDQAGRRAARRALEVCLLYA 779 (1432)
Q Consensus 721 ~a~~~~~~~~~~~~vEG~~D~ia~~~~g~---------------------~~~~i~~~~D~D~aG~~a~~~~~~~~~~~~ 779 (1432)
+|+..+++.+.+|||||||||||||++|| ...+||||||||.||++||+|+++.++..+
T Consensus 239 ~a~~~~~~~~~iivVEGymDViaL~~aGi~naVA~lGTalt~ehi~~L~r~~~~vil~fDgD~AG~~Aa~ral~~~~~~~ 318 (568)
T COG0358 239 PARKKIAKADQIIVVEGYMDVIALHKAGIKNAVASLGTALTEEHIKLLSRGKKKVILCFDGDRAGRKAAKRALQLVLPLD 318 (568)
T ss_pred HHHHhhccCCeEEEEechHHHHHHHHcCCcceeecccccCCHHHHHHHHhcCCCEEEEeCChHHHHHHHHHHHHHhhhhc
Confidence 99999999999999999999999999999 578899999999999999999999999998
Q ss_pred CCCceEEEecCCCCCCHHHHHHHhChhhhhhc
Q psy15215 780 TDDKIIKFLFLPDKYDPDSYIRKFGYKIFSKK 811 (1432)
Q Consensus 780 ~~~~~~~~~~lp~~~Dpde~~~~~g~~~~~~~ 811 (1432)
..+ |.|+.+|+|+||||+++++|+++|.+.
T Consensus 319 ~~~--v~v~~~P~GkDpDel~~k~g~~al~~~ 348 (568)
T COG0358 319 FVG--VFVILLPDGKDPDELIRKEGAEALRKK 348 (568)
T ss_pred cCC--eEEEECCCCCChHHHHHHhChHHHHHH
Confidence 887 999999999999999999999998775
|
|
| >TIGR02394 rpoS_proteo RNA polymerase sigma factor RpoS | Back alignment and domain information |
|---|
Probab=100.00 E-value=8.1e-34 Score=327.70 Aligned_cols=262 Identities=42% Similarity=0.695 Sum_probs=243.9
Q ss_pred HHHHHHhhhhccCCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhc
Q psy15215 366 LQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKF 445 (1432)
Q Consensus 366 ~q~~L~~iE~~~~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~f 445 (1432)
++.+|.+|+...+|+..+...|+..++.||.. |++.|+..|.++|+++|++|++++.+++||+||||||||+|+++|
T Consensus 15 ~~~~~~~~~~~~~~~~~~~~~li~~~~~gd~~---a~~~L~~~y~~~v~~~a~~~~~~~~~aeDLvQe~~i~l~~a~~~f 91 (285)
T TIGR02394 15 TQLYLREIGFKPLLTAEEEIAYARRALAGDFE---ARKVMIESNLRLVVSIAKHYVNRGLPLLDLIEEGNLGLMHAVEKF 91 (285)
T ss_pred HHHHHHHHhccCCCCHHHHHHHHHHHHcCCHH---HHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHh
Confidence 35588999999999999999999999999999 999999999999999999999999999999999999999999999
Q ss_pred cccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHH
Q psy15215 446 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMK 525 (1432)
Q Consensus 446 d~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~ 525 (1432)
++.+|++|+||++||++.++.+++.++.+++++|.++.+.+|.+.+..+.+.+.+|++|+.+++|..+|++++.|..++.
T Consensus 92 d~~~g~~f~tya~w~i~~ain~~i~~~~~~~~~p~~~~~~~~~~~r~~~~l~~~~~r~~~~~e~a~~l~~~~~~~~~~~~ 171 (285)
T TIGR02394 92 DPERGFRFSTYATWWIRQTIERAIMNQARTIRLPVHVIKELNVYLRAARQLEKKLGREPSVEEIAELLDKPVEDVSRVLA 171 (285)
T ss_pred CCCCCCCcHhhhHHHHHHHHHHHHHHcCCceeCcHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999998888889999999999999999999999999999
Q ss_pred HccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhh
Q psy15215 526 IAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQ 605 (1432)
Q Consensus 526 ~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~ 605 (1432)
.+...+|++.++.+++...+.+.+.+....+|++.+...+....|..+|.+||+++|.||.|+||+....++|++|||+.
T Consensus 172 ~~~~~~sld~~~~~~~~~~~~~~~~~~~~~~pe~~~~~~e~~~~L~~al~~Lp~~~R~Vl~l~ygL~~~e~~s~~EIA~~ 251 (285)
T TIGR02394 172 LNERITSLDAPLDDDSSKSLLDTIADEQSIDPESLVQNDDLKQLIEAWLAELNERQREVLARRFGLLGYEPATLEEVAAE 251 (285)
T ss_pred hhcCCCcCCCCCCCCCCcchhhhhcCCCCCCHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHhCCCCCCCccHHHHHHH
Confidence 98889999988876655556667776666789999999999999999999999999999999996554566699999999
Q ss_pred cccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 606 FDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 606 l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
||+|.++|+++.++|+++|+..+..
T Consensus 252 Lgis~~tVk~~l~rAlkkLr~~l~~ 276 (285)
T TIGR02394 252 VGLTRERVRQIQVEALKKLRRILER 276 (285)
T ss_pred HCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999998864
|
A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoS (also called sigma-38, KatF, etc.), found only in Proteobacteria. This sigma factor is induced in stationary phase (in response to the stress of nutrient limitation) and becomes the second prinicipal sigma factor at that time. RpoS is a member of the larger Sigma-70 subfamily (TIGR02937) and most closely related to RpoD (TIGR02393). |
| >TIGR02850 spore_sigG RNA polymerase sigma-G factor | Back alignment and domain information |
|---|
Probab=100.00 E-value=6.5e-34 Score=323.19 Aligned_cols=238 Identities=29% Similarity=0.474 Sum_probs=214.5
Q ss_pred cCCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHH
Q psy15215 377 IVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 456 (1432)
Q Consensus 377 ~~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fsty 456 (1432)
..|+.++...++.+++.||.. |++.|+..|+++|+++|++|++++.+++||+||||+|||+++++|++.+|.+|+||
T Consensus 14 ~~l~~~~~~~li~~~~~gd~~---a~~~L~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~~fd~~~~~~f~ty 90 (254)
T TIGR02850 14 PVLKNQEMRELFIRMQSGDTT---AREKLINGNLRLVLSVIQRFNNRGEYVDDLFQVGCIGLMKSIDNFDLSQNVKFSTY 90 (254)
T ss_pred CCCCHHHHHHHHHHHHcCCHH---HHHHHHHHhHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCChHHH
Confidence 456777888999999999988 99999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCC
Q psy15215 457 ATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESP 536 (1432)
Q Consensus 457 a~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~ 536 (1432)
++|||+|+|.++++++. ++|+|+++.+.++++.++..++.+++|++||++|||+.||+++++|..++.....++||+.|
T Consensus 91 l~~~irn~~~~~lr~~~-~ir~p~~~~~~~~~~~~~~~~l~~~l~~~pt~~elA~~l~~~~e~v~~~~~~~~~~~Sld~~ 169 (254)
T TIGR02850 91 AVPMIIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVRDKLISENSKEPTVSEIAKELKVPQEEVVFALDAIQDPVSLFEP 169 (254)
T ss_pred HHHHHHHHHHHHHHhCC-CccCchHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHCcCHHHHHHHHHhcCCCCcccCC
Confidence 99999999999999975 89999999999999999999999999999999999999999999999999998899999998
Q ss_pred CCCCCC--CCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHH
Q psy15215 537 VGDDED--SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIR 614 (1432)
Q Consensus 537 ~~~~~~--~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~ 614 (1432)
+.++++ ..+.+++++... +.+ .......+..++..||++++.||.+||+.++ |++|||+.+|+|+++|+
T Consensus 170 ~~~~~~~~~~~~~~~~d~~~--~~~---~~~~~~~l~~~l~~L~~rer~vi~~~~~~~~----t~~eIA~~lgis~~~V~ 240 (254)
T TIGR02850 170 IYNDGGDPIYVMDQISDEKN--KDS---QWLEGIALKEAMKRLNEREKMILNMRFFEGK----TQMEVAEEIGISQAQVS 240 (254)
T ss_pred CCCCCCCcchhhhhcCCccc--cHH---HHHhHHHHHHHHHcCCHHHHHHHHHHHcCCC----CHHHHHHHHCcCHHHHH
Confidence 854433 246677766532 222 2234567899999999999999999998777 99999999999999999
Q ss_pred HHHHHHHHHHHHH
Q psy15215 615 QIEAKALRKLRPL 627 (1432)
Q Consensus 615 ~~~~rAl~kLr~~ 627 (1432)
+++++|+.+|++.
T Consensus 241 ~~~~ral~kLr~~ 253 (254)
T TIGR02850 241 RLEKAALKHMRKY 253 (254)
T ss_pred HHHHHHHHHHHhh
Confidence 9999999999975
|
Members of this family comprise the Firmicutes lineage endospore formation-specific sigma factor SigG. It is also desginated stage III sporulation protein G (SpoIIIG). This protein is rather closely related to sigma-F (SpoIIAC), another sporulation sigma factor. |
| >TIGR01391 dnaG DNA primase, catalytic core | Back alignment and domain information |
|---|
Probab=100.00 E-value=8.2e-35 Score=350.11 Aligned_cols=191 Identities=36% Similarity=0.579 Sum_probs=165.8
Q ss_pred HHHHHHHHHHHHHHHHHhhhh---hhhhH-hhcC--CCcccccccccCCCCCchhhHHHHHHHH----------------
Q psy15215 618 AKALRKLRPLAHDWLEQRTHQ---NEKII-ACSS--DSSNHNEHVTNNNFPPGFNIFHKLLRIL---------------- 675 (1432)
Q Consensus 618 ~rAl~kLr~~l~~~~~~~l~~---~~~~~-~l~~--l~~~~~~~f~~Gyap~~~~~l~~~~~~~---------------- 675 (1432)
...+..+...+..||+.++.. +..|+ ||.. ||+++|++|+|||||.+|+.|.+++...
T Consensus 110 ~~~l~~~~~~a~~~y~~~L~~~~~~~~a~~YL~~RGis~e~i~~f~lGyap~~~~~l~~~l~~k~~~~~~~l~~~Gl~~~ 189 (415)
T TIGR01391 110 RKKLYELLELAAKFFKNQLKHTPENRAALDYLQSRGLSDETIDRFELGYAPNNWDFLFDFLQNKKGFDLELLAEAGLLVK 189 (415)
T ss_pred HHHHHHHHHHHHHHHHHHhccCccchHHHHHHHHcCCCHHHHHHcCCCCCCCcHHHHHHHHHhccCCCHHHHHHCCCeEE
Confidence 344566777788899998765 44566 8877 9999999999999999998876665321
Q ss_pred ---HHhhhcc--EEEEee-----eeeeeeeeeeCCCCC----CCCCCCcccCccccCchHhHHhhccCCeEEEEecchhH
Q psy15215 676 ---QEYLESF--LISFFL-----RNHGISGFLLTTPDP----VHETPLFHKSNELYGLFEAKNAIGKSGYVLITEGYMDV 741 (1432)
Q Consensus 676 ---~~~~~~f--ri~fpi-----r~igf~gR~~~~~~~----s~et~~f~K~~~Ly~~~~a~~~~~~~~~~~~vEG~~D~ 741 (1432)
..++++| |||||| +||||+||.++++.| ||+|++|+|+..|||+|.|++.+++.+.+|||||||||
T Consensus 190 ~~~g~~~d~Fr~RiifPi~d~~G~vvgf~gR~~~~~~pKYlNspet~~f~K~~~lygl~~a~~~~~~~~~viivEG~~Da 269 (415)
T TIGR01391 190 KENGKYYDRFRNRIMFPIHDPKGRVVGFGGRALGDEKPKYLNSPETPLFKKSELLYGLHKARKEIRKEKELILVEGYMDV 269 (415)
T ss_pred CCCCCeeeecCCeEEEEEECCCCCEEEEEeeecCCCCCceeCCCCCCCccCCccccCHhHHHHhhccCCcEEEEecHHHH
Confidence 1133444 599999 699999999987666 99999999999999999999999999999999999999
Q ss_pred HHHhhhCC---------------------CCCeEEEEecCcHHHHHHHHHHHHHhhhhcCCCceEEEecCCCCCCHHHHH
Q psy15215 742 IGLSQFGF---------------------FANSSYTCFDGDQAGRRAARRALEVCLLYATDDKIIKFLFLPDKYDPDSYI 800 (1432)
Q Consensus 742 ia~~~~g~---------------------~~~~i~~~~D~D~aG~~a~~~~~~~~~~~~~~~~~~~~~~lp~~~Dpde~~ 800 (1432)
||+||+|+ +..+||+|||||.||++||.|++..+.+.|+. |+|+.+|+|+|||||+
T Consensus 270 isl~~~G~~~aVA~~Gtalt~~~~~~l~r~~~~vvl~~D~D~aG~~aa~r~~~~l~~~g~~---v~v~~lp~gkDpdd~l 346 (415)
T TIGR01391 270 IALHQAGIKNAVASLGTALTEEHIKLLKRYADEIILCFDGDKAGRKAALRAIELLLPLGIN---VKVIKLPGGKDPDEYL 346 (415)
T ss_pred HHHHHCCCCcEEECCCCCCcHHHHHHHHhhCCeEEEEeCCCHHHHHHHHHHHHHHHHcCCe---EEEEECCCCCCHHHHH
Confidence 99999999 45799999999999999999999999988765 9999999999999999
Q ss_pred HHhChhhhhhc
Q psy15215 801 RKFGYKIFSKK 811 (1432)
Q Consensus 801 ~~~g~~~~~~~ 811 (1432)
+++|+++|.+.
T Consensus 347 ~~~g~~~~~~~ 357 (415)
T TIGR01391 347 RKEGVEALKKL 357 (415)
T ss_pred HHhCHHHHHHH
Confidence 99999999774
|
This protein contains a CHC2 zinc finger (Pfam:PF01807) and a Toprim domain (Pfam:PF01751). |
| >PRK08215 sporulation sigma factor SigG; Reviewed | Back alignment and domain information |
|---|
Probab=100.00 E-value=2.3e-33 Score=319.62 Aligned_cols=238 Identities=30% Similarity=0.484 Sum_probs=213.1
Q ss_pred CCChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHH
Q psy15215 1168 VLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 1247 (1432)
Q Consensus 1168 ~l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya 1247 (1432)
.+++++...++.+++.|+.. |++.|+..|.++|+++|++|++++.+++||+|||++|||+|+++|++.+|.+|+||+
T Consensus 18 ~l~~~~~~~l~~~~~~gd~~---a~~~l~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~~fd~~~~~~f~t~l 94 (258)
T PRK08215 18 VLKNEEMRELFERMQNGDKE---AREKLINGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYA 94 (258)
T ss_pred CCCHHHHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHH
Confidence 45667788899999999888 999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCC
Q psy15215 1248 TWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPV 1327 (1432)
Q Consensus 1248 ~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~ 1327 (1432)
+|||+++|.++++++. ++|+|+++.....++.++...+.+++|++||++|||+.||+++++|..++.....+.||+.|+
T Consensus 95 ~~~ir~~i~~~lr~~~-~vrip~~~~~~~~~~~~~~~~l~~~~~r~p~~~eia~~l~v~~~~v~~~~~~~~~~~sl~~~~ 173 (258)
T PRK08215 95 VPMIIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVREKLINENSKEPTVEEIAKELEVPREEVVFALDAIQDPVSLFEPI 173 (258)
T ss_pred HHHHHHHHHHHHHhCC-ceEecHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHCcCHHHHHHHHHhcCCCccccCCC
Confidence 9999999999999985 889999999999999999999999999999999999999999999999998888899999998
Q ss_pred CCCCCC--CcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHH
Q psy15215 1328 GDDEDS--HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQ 1405 (1432)
Q Consensus 1328 ~~~~~~--~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq 1405 (1432)
+++++. ++.+.+++... .+. .......+..+|+.||++++.||.++|+.|+ |++|||+.||+|+++|++
T Consensus 174 ~~~~~~~~~~~~~~~~~~~-~~~----~~~~~~~l~~~l~~L~~~er~vi~~~~~~~~----t~~eIA~~lgis~~~V~~ 244 (258)
T PRK08215 174 YHDGGDPIYVMDQISDEKN-KDE----NWLEEIALKEAMKKLNDREKLILNLRFFQGK----TQMEVAEEIGISQAQVSR 244 (258)
T ss_pred CCCCCcchhhhhhccCccc-cHH----HHHhHHHHHHHHHcCCHHHHHHHHHHHhcCC----CHHHHHHHHCcCHHHHHH
Confidence 655432 35566665432 222 2234567899999999999999999998777 999999999999999999
Q ss_pred HHHHHHHHhhCch
Q psy15215 1406 IEAKALRKLRHPS 1418 (1432)
Q Consensus 1406 ~~~rAl~kLr~~~ 1418 (1432)
++++|+++||+.+
T Consensus 245 ~~~~al~kLr~~l 257 (258)
T PRK08215 245 LEKAALKHMRKYI 257 (258)
T ss_pred HHHHHHHHHHHHh
Confidence 9999999999743
|
|
| >PRK08215 sporulation sigma factor SigG; Reviewed | Back alignment and domain information |
|---|
Probab=100.00 E-value=1.5e-32 Score=313.00 Aligned_cols=238 Identities=30% Similarity=0.491 Sum_probs=213.5
Q ss_pred CCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHH
Q psy15215 378 VLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 457 (1432)
Q Consensus 378 ~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya 457 (1432)
.++..+...++.+++.||.. |++.|+..|+++|+++|++|.+++.+++||+|||++|||+|+++|++.+|.+|+||+
T Consensus 18 ~l~~~~~~~l~~~~~~gd~~---a~~~l~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~~fd~~~~~~f~t~l 94 (258)
T PRK08215 18 VLKNEEMRELFERMQNGDKE---AREKLINGNLRLVLSVIQRFNNRGENVDDLFQVGCIGLMKAIDNFDLSQNVKFSTYA 94 (258)
T ss_pred CCCHHHHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHH
Confidence 45677888899999999988 999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCC
Q psy15215 458 TWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPV 537 (1432)
Q Consensus 458 ~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~ 537 (1432)
+|||+|+|.++++++. ++|+|+++.....++.++..++.+++|++||++|||+.||+++++|..++.....+.|++.|+
T Consensus 95 ~~~ir~~i~~~lr~~~-~vrip~~~~~~~~~~~~~~~~l~~~~~r~p~~~eia~~l~v~~~~v~~~~~~~~~~~sl~~~~ 173 (258)
T PRK08215 95 VPMIIGEIRRYLRDNN-PIRVSRSLRDIAYKALQVREKLINENSKEPTVEEIAKELEVPREEVVFALDAIQDPVSLFEPI 173 (258)
T ss_pred HHHHHHHHHHHHHhCC-ceEecHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHCcCHHHHHHHHHhcCCCccccCCC
Confidence 9999999999999985 889999999999999999999999999999999999999999999999998888889999998
Q ss_pred CCCCCC--CcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHH
Q psy15215 538 GDDEDS--HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQ 615 (1432)
Q Consensus 538 ~~~~~~--~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~ 615 (1432)
+++++. ++.+.+++... .+ + .......+..+|+.||++++.||.++|+.|+ |++|||+.+|+|+++|++
T Consensus 174 ~~~~~~~~~~~~~~~~~~~-~~-~---~~~~~~~l~~~l~~L~~~er~vi~~~~~~~~----t~~eIA~~lgis~~~V~~ 244 (258)
T PRK08215 174 YHDGGDPIYVMDQISDEKN-KD-E---NWLEEIALKEAMKKLNDREKLILNLRFFQGK----TQMEVAEEIGISQAQVSR 244 (258)
T ss_pred CCCCCcchhhhhhccCccc-cH-H---HHHhHHHHHHHHHcCCHHHHHHHHHHHhcCC----CHHHHHHHHCcCHHHHHH
Confidence 654432 34566655431 12 2 2234567899999999999999999998777 999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q psy15215 616 IEAKALRKLRPLA 628 (1432)
Q Consensus 616 ~~~rAl~kLr~~l 628 (1432)
+.++|+.+|++.+
T Consensus 245 ~~~~al~kLr~~l 257 (258)
T PRK08215 245 LEKAALKHMRKYI 257 (258)
T ss_pred HHHHHHHHHHHHh
Confidence 9999999999875
|
|
| >TIGR02885 spore_sigF RNA polymerase sigma-F factor | Back alignment and domain information |
|---|
Probab=100.00 E-value=1.1e-32 Score=309.55 Aligned_cols=227 Identities=30% Similarity=0.449 Sum_probs=203.6
Q ss_pred HHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHH
Q psy15215 1178 NRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 1257 (1432)
Q Consensus 1178 ~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~ 1257 (1432)
+.+++.|+.. |++.|+..|.++|+++|++|.+++.+++||+||||+|||+++++|++.+|.+|+||++|||+|+|.+
T Consensus 2 i~~~~~gd~~---a~~~l~~~y~~~v~~~a~~~~~~~~~aeDl~Qe~~i~l~~a~~~f~~~~~~~f~tyl~~~i~~~i~~ 78 (231)
T TIGR02885 2 IKLAQNGDKE---ARDKLIECNLRLVWSIVKRFLNRGYEPEDLFQIGCIGLVKAIDKFDLSYDVKFSTYAVPMIMGEIKR 78 (231)
T ss_pred hHHHHcCCHH---HHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHH
Confidence 3456678877 9999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCC--Cc
Q psy15215 1258 SIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS--HL 1335 (1432)
Q Consensus 1258 ~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~--~~ 1335 (1432)
+++++. .+|+|+++.+..+++.++...+.+++|++||++|||+.+|+++++|..++.....+.||+.+++++++. ++
T Consensus 79 ~lr~~~-~i~~p~~~~~~~~~~~~~~~~l~~~~~r~pt~~ela~~l~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~ 157 (231)
T TIGR02885 79 FLRDDG-IIKVSRSLKELARKIRYMKEELSKELGREPTINELAEALGVSPEEIVMALESARSPQSLYDTVHQDDGDPIYL 157 (231)
T ss_pred HHHhCC-CeECCHHHHHHHHHHHHHHHHHHHHHCcCCCHHHHHHHHCcCHHHHHHHHHHccCCcCcccCCCCCCCCcchh
Confidence 999986 799999999999999999999999999999999999999999999999998888899999988765432 35
Q ss_pred CcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhh
Q psy15215 1336 GDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415 (1432)
Q Consensus 1336 ~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr 1415 (1432)
.+.+.+... +++. ......+..+++.||++++.||.++|+.|+ |++|||+.||+|+++|++++++|+++||
T Consensus 158 ~d~~~~~~~--~~~~---~~~~~~l~~~l~~L~~~e~~i~~~~~~~~~----t~~eIA~~lgis~~~V~~~~~~al~~Lr 228 (231)
T TIGR02885 158 LDQIADKGS--EDSD---WLEKIALKEAISKLDERERQIIMLRYFKDK----TQTEVANMLGISQVQVSRLEKKVLKKMK 228 (231)
T ss_pred hhhcCCCCc--cHHh---HHHHHHHHHHHHcCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 566665432 2222 234668899999999999999999998877 9999999999999999999999999999
Q ss_pred Cc
Q psy15215 1416 HP 1417 (1432)
Q Consensus 1416 ~~ 1417 (1432)
..
T Consensus 229 ~~ 230 (231)
T TIGR02885 229 EK 230 (231)
T ss_pred Hh
Confidence 73
|
Members of this protein family are the RNA polymerase sigma factor F. Sigma-F is specifically and universally a component of the Firmicutes lineage endospore formation program, and is expressed in the forespore to turn on expression of dozens of genes. It is closely homologous to sigma-G, which is also expressed in the forespore. |
| >TIGR02941 Sigma_B RNA polymerase sigma-B factor | Back alignment and domain information |
|---|
Probab=100.00 E-value=2.3e-32 Score=311.40 Aligned_cols=242 Identities=23% Similarity=0.367 Sum_probs=217.8
Q ss_pred CCChhhHHHHHHHHHh-hhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhH
Q psy15215 1168 VLPLNDLRDINRKMIA-GEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 1246 (1432)
Q Consensus 1168 ~l~~~e~~~l~~~~~~-g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fsty 1246 (1432)
.+++.+...++.+++. |+.. |++.|+..|.++|+++|++|++++.+++||+||||+|||+++++|++..|.+|+||
T Consensus 9 ~l~~~~~~~li~~~~~~gd~~---a~~~l~~~y~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~~~~~~~~~~f~ty 85 (255)
T TIGR02941 9 NLTKEDVIQWIAEFQQNQNGE---AQEKLVDHYQNLVYSIAYKYSKGGPMHEDLVQVGMLGLLGAIRRYDYSIGNAFEPF 85 (255)
T ss_pred CCCHHHHHHHHHHHHHCCCHH---HHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCcCCCCcHhH
Confidence 4677788889999988 6777 99999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHc--cCCCCCC
Q psy15215 1247 ATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIA--KEPVSME 1324 (1432)
Q Consensus 1247 a~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~--~~~~Sl~ 1324 (1432)
+++||+|+|.++++++.+.+|+|+++.+..++++++...+.+.+|++||.+|+|+.+|++++++..++... ....||+
T Consensus 86 l~~~i~n~~~~~lr~~~~~iri~~~~~~~~~~~~~~~~~l~~~~~r~p~~~eia~~l~i~~~~~~~~~~~~~~~~~~sl~ 165 (255)
T TIGR02941 86 AIPTIIGEIKRYLRDKTWSVHVPRRIKELGPKIKKAIDELTDHLQRSPKIIEIADHLGLSEEEVLEIMEMGQSYRALSVD 165 (255)
T ss_pred HHHHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHHHHhccCCcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999988654 4678999
Q ss_pred CCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHH
Q psy15215 1325 SPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIR 1404 (1432)
Q Consensus 1325 ~~~~~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vr 1404 (1432)
.+++++++......+ + ...+|++.....+....+..+|+.|||++|.||.++|+.|+ |++|||+.+|+|+++|+
T Consensus 166 ~~~~~~~~~~~~~~~-~-~~~~~~~~~~~~e~~~~l~~~l~~L~~~~r~ii~l~~~~g~----s~~eIA~~lgis~~~V~ 239 (255)
T TIGR02941 166 DVIEADSDGSTVARL-D-SVGEVEDGYDQTERRMVLEKILPILSEREKSIIHCTFEENL----SQKETGERLGISQMHVS 239 (255)
T ss_pred ccccCCCCCcccccc-c-ccCCcchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHcCCC----CHHHHHHHHCcCHHHHH
Confidence 998766544322222 1 12246777777788889999999999999999999998888 99999999999999999
Q ss_pred HHHHHHHHHhhCch
Q psy15215 1405 QIEAKALRKLRHPS 1418 (1432)
Q Consensus 1405 q~~~rAl~kLr~~~ 1418 (1432)
+++++|+++||+.+
T Consensus 240 ~~~~ra~~~Lr~~~ 253 (255)
T TIGR02941 240 RLQRQAISKLKEAA 253 (255)
T ss_pred HHHHHHHHHHHHHh
Confidence 99999999999853
|
This sigma factor is restricted to certain lineages of the order Bacillales including Staphylococcus, Listeria and Bacillus. |
| >TIGR02941 Sigma_B RNA polymerase sigma-B factor | Back alignment and domain information |
|---|
Probab=100.00 E-value=1.2e-31 Score=305.56 Aligned_cols=242 Identities=23% Similarity=0.363 Sum_probs=218.5
Q ss_pred CCChhhHHHHHHHHHH-hHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHH
Q psy15215 378 VLPLNDLRDINRKMIA-GEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 456 (1432)
Q Consensus 378 ~l~~~e~~~l~~~i~~-gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fsty 456 (1432)
.+++.+...|+.+++. ||.. |+++|+..|.++|+++|++|++++.+++||+||||+|||+|+++|++..|.+|+||
T Consensus 9 ~l~~~~~~~li~~~~~~gd~~---a~~~l~~~y~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~~~~~~~~~~f~ty 85 (255)
T TIGR02941 9 NLTKEDVIQWIAEFQQNQNGE---AQEKLVDHYQNLVYSIAYKYSKGGPMHEDLVQVGMLGLLGAIRRYDYSIGNAFEPF 85 (255)
T ss_pred CCCHHHHHHHHHHHHHCCCHH---HHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCCcCCCCcHhH
Confidence 4678888999999998 6887 99999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHc--cCCCCCC
Q psy15215 457 ATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIA--KEPVSME 534 (1432)
Q Consensus 457 a~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~--~~~~sl~ 534 (1432)
+++||+|.|.++++++.+.+|+|++..++.++++++...+.+.+|++||.+|+|+.+|++++++..++... ....||+
T Consensus 86 l~~~i~n~~~~~lr~~~~~iri~~~~~~~~~~~~~~~~~l~~~~~r~p~~~eia~~l~i~~~~~~~~~~~~~~~~~~sl~ 165 (255)
T TIGR02941 86 AIPTIIGEIKRYLRDKTWSVHVPRRIKELGPKIKKAIDELTDHLQRSPKIIEIADHLGLSEEEVLEIMEMGQSYRALSVD 165 (255)
T ss_pred HHHHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHHHHhccCCcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999987654 4578999
Q ss_pred CCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHH
Q psy15215 535 SPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIR 614 (1432)
Q Consensus 535 ~~~~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~ 614 (1432)
.+++++++......+. ...+|.+.....+....+..+|+.|||++|.||.++|+.|+ |++|||+.+|+|+++|+
T Consensus 166 ~~~~~~~~~~~~~~~~--~~~~~~~~~~~~e~~~~l~~~l~~L~~~~r~ii~l~~~~g~----s~~eIA~~lgis~~~V~ 239 (255)
T TIGR02941 166 DVIEADSDGSTVARLD--SVGEVEDGYDQTERRMVLEKILPILSEREKSIIHCTFEENL----SQKETGERLGISQMHVS 239 (255)
T ss_pred ccccCCCCCccccccc--ccCCcchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHcCCC----CHHHHHHHHCcCHHHHH
Confidence 9987655443222221 12356777777788889999999999999999999998888 99999999999999999
Q ss_pred HHHHHHHHHHHHHH
Q psy15215 615 QIEAKALRKLRPLA 628 (1432)
Q Consensus 615 ~~~~rAl~kLr~~l 628 (1432)
++.++|+.+||..+
T Consensus 240 ~~~~ra~~~Lr~~~ 253 (255)
T TIGR02941 240 RLQRQAISKLKEAA 253 (255)
T ss_pred HHHHHHHHHHHHHh
Confidence 99999999999865
|
This sigma factor is restricted to certain lineages of the order Bacillales including Staphylococcus, Listeria and Bacillus. |
| >TIGR02885 spore_sigF RNA polymerase sigma-F factor | Back alignment and domain information |
|---|
Probab=100.00 E-value=7.3e-32 Score=302.92 Aligned_cols=227 Identities=30% Similarity=0.445 Sum_probs=203.8
Q ss_pred HHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHH
Q psy15215 388 NRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 467 (1432)
Q Consensus 388 ~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~ 467 (1432)
+.+++.||.. |++.|+..|.++|+++|++|.+++.+++||+|||++|||+++++|++..|.+|+||++|||+|+|.+
T Consensus 2 i~~~~~gd~~---a~~~l~~~y~~~v~~~a~~~~~~~~~aeDl~Qe~~i~l~~a~~~f~~~~~~~f~tyl~~~i~~~i~~ 78 (231)
T TIGR02885 2 IKLAQNGDKE---ARDKLIECNLRLVWSIVKRFLNRGYEPEDLFQIGCIGLVKAIDKFDLSYDVKFSTYAVPMIMGEIKR 78 (231)
T ss_pred hHHHHcCCHH---HHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCCCCCCCcHHHHHHHHHHHHHH
Confidence 4566788888 9999999999999999999999999999999999999999999999998999999999999999999
Q ss_pred HHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCC--Cc
Q psy15215 468 SIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS--HL 545 (1432)
Q Consensus 468 ~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~--~~ 545 (1432)
+++++. .+|+|+++.+..+++.++...+.+++|++||.+|||+.||+++++|..++..+..+.||+.+++++++. ++
T Consensus 79 ~lr~~~-~i~~p~~~~~~~~~~~~~~~~l~~~~~r~pt~~ela~~l~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~ 157 (231)
T TIGR02885 79 FLRDDG-IIKVSRSLKELARKIRYMKEELSKELGREPTINELAEALGVSPEEIVMALESARSPQSLYDTVHQDDGDPIYL 157 (231)
T ss_pred HHHhCC-CeECCHHHHHHHHHHHHHHHHHHHHHCcCCCHHHHHHHHCcCHHHHHHHHHHccCCcCcccCCCCCCCCcchh
Confidence 999986 799999999999999999999999999999999999999999999999998888889999988765432 35
Q ss_pred CcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 546 GDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 546 ~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
.+.+.+... +.+. ......+..+++.||++++.||.++|+.|+ |++|||+.+|+|+++|++++++|+.+|+
T Consensus 158 ~d~~~~~~~--~~~~---~~~~~~l~~~l~~L~~~e~~i~~~~~~~~~----t~~eIA~~lgis~~~V~~~~~~al~~Lr 228 (231)
T TIGR02885 158 LDQIADKGS--EDSD---WLEKIALKEAISKLDERERQIIMLRYFKDK----TQTEVANMLGISQVQVSRLEKKVLKKMK 228 (231)
T ss_pred hhhcCCCCc--cHHh---HHHHHHHHHHHHcCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 566665432 2222 234668899999999999999999998877 9999999999999999999999999999
Q ss_pred HH
Q psy15215 626 PL 627 (1432)
Q Consensus 626 ~~ 627 (1432)
..
T Consensus 229 ~~ 230 (231)
T TIGR02885 229 EK 230 (231)
T ss_pred Hh
Confidence 75
|
Members of this protein family are the RNA polymerase sigma factor F. Sigma-F is specifically and universally a component of the Firmicutes lineage endospore formation program, and is expressed in the forespore to turn on expression of dozens of genes. It is closely homologous to sigma-G, which is also expressed in the forespore. |
| >TIGR02980 SigBFG RNA polymerase sigma-70 factor, sigma-B/F/G subfamily | Back alignment and domain information |
|---|
Probab=100.00 E-value=1.6e-31 Score=299.45 Aligned_cols=219 Identities=31% Similarity=0.498 Sum_probs=199.1
Q ss_pred hhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccccccc
Q psy15215 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 1269 (1432)
Q Consensus 1190 ~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 1269 (1432)
.|++.|+..|.++|+++|++|.+++.+++||+|||++|||+|+++|++.+|.+|+||++|||++.|.++++++.+++|+|
T Consensus 3 ~a~~~lv~~y~~~v~~~a~~~~~~~~~~eDl~Qe~~i~l~~a~~~f~~~~~~~F~ty~~~~i~~~~~~~~r~~~~~~ri~ 82 (227)
T TIGR02980 3 EAREKLVELNLPLVRSIARRFRNRGEPHEDLVQVGTIGLVKAIDRFDPSYGVKFSTFAVPTIMGEIKRFFRDDTWAVRVP 82 (227)
T ss_pred HHHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCcccCCCcHHHHHHHHHHHHHHHHHHcCCceecC
Confidence 48999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccC--CCCCCCCCCCCCC--CCcCcccccCCCC
Q psy15215 1270 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKE--PVSMESPVGDDED--SHLGDFIEDENML 1345 (1432)
Q Consensus 1270 ~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~--~~Sl~~~~~~~~~--~~~~d~i~d~~~~ 1345 (1432)
+++.+.+++++.+...+.+++|++||.+|+|+.+|++++++..++..... +.||+.+++++++ ..+.+.+.
T Consensus 83 ~~~~~~~~~~~~~~~~l~~~~~~~p~~~ela~~l~~~~~~v~~~~~~~~~~~~~sld~~~~~~~~~~~~~~d~~~----- 157 (227)
T TIGR02980 83 RRLKELGLKINKATEELTQRLGRSPTIAEIAEELGVSEEEVVEALEAGNSYSALSLDAPIEDDDGDPIALLDTLG----- 157 (227)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHhCCCHHHHHHHHHhhccCCCeeccccCCCCCCCCcccccccC-----
Confidence 99999999999999999999999999999999999999999999887665 8999998873322 12333332
Q ss_pred ChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1346 APSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1346 ~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
+|++.+........+..+|..||++++.||.++|+.|+ |++|||+.+|+|+++|++++++|+++||..
T Consensus 158 ~~~~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~y~~~~----s~~eIA~~lgis~~~v~~~~~ra~~~Lr~~ 225 (227)
T TIGR02980 158 DEDDALETVEDRLALKPLLAALPERERRILLLRFFEDK----TQSEIAERLGISQMHVSRLLRRALKKLREQ 225 (227)
T ss_pred CcchHHHhHHHHHHHHHHHHcCCHHHHHHHHHHHhcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHH
Confidence 44555666677888999999999999999999998888 999999999999999999999999999974
|
This group of similar sigma-70 factors includes clades found in Bacilli (including the sporulation factors SigF:TIGR02885 and SigG:TIGR02850 as well as SigB:TIGR02941), and the high GC gram positive bacteria (Actinobacteria) where a variable number of them are found depending on the lineage. |
| >PRK07670 RNA polymerase sigma factor SigD; Validated | Back alignment and domain information |
|---|
Probab=100.00 E-value=2.8e-31 Score=301.29 Aligned_cols=236 Identities=24% Similarity=0.381 Sum_probs=210.6
Q ss_pred hHHHHHHHHH-hhhhhhhhhHHHHHHHHHHHHHHHHHhccC---CCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHH
Q psy15215 1173 DLRDINRKMI-AGEMKARKAKREMTEANLRLVISIAKKYTD---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 1248 (1432)
Q Consensus 1173 e~~~l~~~~~-~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~---~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~ 1248 (1432)
+...|+++++ .|+.. |++.||..|.++|+++|++|++ ++..++||+||||+|||+++++|++.+|++|+||++
T Consensus 7 ~e~~l~~~~~~~~d~~---a~~~L~~~y~~~v~~~~~~~~~~~~~~~~~eDl~Qe~~i~l~~~~~~f~~~~~~~f~tyl~ 83 (251)
T PRK07670 7 EEQKLWDRWKEERDPD---AADELIRRYMPLVHYHVQRISVGLPKSVSKDDLKSLGMLGLYDALEKFDPSRDLKFDTYAS 83 (251)
T ss_pred HHHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHH
Confidence 3456777744 56877 9999999999999999999965 688999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHH--HccCCCCCCCC
Q psy15215 1249 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMK--IAKEPVSMESP 1326 (1432)
Q Consensus 1249 ~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~--~~~~~~Sl~~~ 1326 (1432)
||++|.|.+++|++. ++|.++.+.+++++++...+.+.+|++||.+|||+.+|+++++|..++. ....++||+.|
T Consensus 84 ~~irn~~~d~lR~~~---~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~eia~~l~~~~~~v~~~~~~~~~~~~~sld~~ 160 (251)
T PRK07670 84 FRIRGAIIDGLRKED---WLPRSMREKTKKVEAAIEKLEQRYMRNVTPKEVAAELGMTEEEVEATMNEGFFANLLSIDEK 160 (251)
T ss_pred HHHHHHHHHHHHhcC---CCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHhCcCHHHHHHHHHHHhccCccccCcc
Confidence 999999999999876 4899999999999999999999999999999999999999999999985 45678999999
Q ss_pred CCCCCCC-CcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHH
Q psy15215 1327 VGDDEDS-HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQ 1405 (1432)
Q Consensus 1327 ~~~~~~~-~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq 1405 (1432)
+.++++. .+...+.+....+|++.....+....|..+|+.||+++|.||.|+|+.|+ |++|||+.||+|.++|++
T Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~~~----s~~EIA~~lgis~~tV~~ 236 (251)
T PRK07670 161 THDQDDGENVSVTIRDDKTPTPEEKLLKEELIEELAEKIKQLSEKEQLVISLFYKEEL----TLTEIGQVLNLSTSRISQ 236 (251)
T ss_pred ccCCCCcchhhhhhcCcCCCCHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCC----CHHHHHHHHCcCHHHHHH
Confidence 8765543 23344455556688888888888999999999999999999999998888 999999999999999999
Q ss_pred HHHHHHHHhhCch
Q psy15215 1406 IEAKALRKLRHPS 1418 (1432)
Q Consensus 1406 ~~~rAl~kLr~~~ 1418 (1432)
++++|+++||...
T Consensus 237 ~~~ra~~~Lr~~l 249 (251)
T PRK07670 237 IHSKALFKLKKLL 249 (251)
T ss_pred HHHHHHHHHHHHh
Confidence 9999999999854
|
|
| >PRK06288 RNA polymerase sigma factor WhiG; Reviewed | Back alignment and domain information |
|---|
Probab=99.98 E-value=3.7e-31 Score=303.08 Aligned_cols=244 Identities=27% Similarity=0.366 Sum_probs=217.1
Q ss_pred cCCChhhHHHHHHHHH-hhhhhhhhhHHHHHHHHHHHHHHHHHhccC---CCCChhHHHHHHHHHHHHHHHhccccCCCc
Q psy15215 1167 IVLPLNDLRDINRKMI-AGEMKARKAKREMTEANLRLVISIAKKYTD---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 1242 (1432)
Q Consensus 1167 ~~l~~~e~~~l~~~~~-~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~---~~~~~~DLiQEg~igl~kav~kfd~~~g~~ 1242 (1432)
..++..+...|+.+++ .|+.. |++.++..|.++|+.+|++|.. .+.+++||+||||+|||+|+++|++.+|++
T Consensus 10 ~~~~~~~e~~l~~~~~~~~d~~---a~~~l~~~y~~lv~~~a~~~~~~~~~~~~~eDl~Qeg~l~L~~a~~~fd~~~~~~ 86 (268)
T PRK06288 10 PKYAQQDETELWREYKKTGDPK---IREYLILKYSPLVKYVAGRIAVGMPQNVEFDDLVSYGVFGLIDAIEKFDPEREIK 86 (268)
T ss_pred ccccchHHHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHHcCcccCCC
Confidence 3466677788888866 46777 9999999999999999999862 567899999999999999999999998999
Q ss_pred chhHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHc--cCC
Q psy15215 1243 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIA--KEP 1320 (1432)
Q Consensus 1243 Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~--~~~ 1320 (1432)
|+||++|||||.|.+++|++. ++|.++....++++++...+.+++|++||.+|||+.+|++.+++..++... ..+
T Consensus 87 f~ty~~~~ir~~i~d~~R~~~---~~p~~~~~~~~~i~~~~~~l~~~~~~~pt~~eia~~lg~~~~~v~~~~~~~~~~~~ 163 (268)
T PRK06288 87 FKTYAVTRIRGAIFDELRSID---WIPRSVRQKARQIERAIAMLEARLGRTPSDEEIADELGISLEEYNSLLSKLSGTSV 163 (268)
T ss_pred HHHHHHHHHHHHHHHHHHhcC---ccCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHcCCCHHHHHHHHHHHhcccc
Confidence 999999999999999999765 489999999999999999999999999999999999999999999998654 467
Q ss_pred CCCCCCCC--CCC-CCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhC
Q psy15215 1321 VSMESPVG--DDE-DSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFD 1397 (1432)
Q Consensus 1321 ~Sl~~~~~--~~~-~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~ 1397 (1432)
+||+.+++ +++ ...+.+.+++....+|++.+...+....|..+|..|||++|.||.++|+.|+ |++|||+.||
T Consensus 164 ~sld~~~~~~~~~~~~~l~~~~~~~~~~~pe~~~~~~e~~~~l~~~l~~L~~~~r~vl~l~~~~~~----s~~eIA~~lg 239 (268)
T PRK06288 164 VSLNDLWFGGDEGDEVSLMDTLESPAALNPDEIAEREEIKRVIVEAIKTLPEREKKVLILYYYEDL----TLKEIGKVLG 239 (268)
T ss_pred cchhhhhccCCCcccchhhhhccCCCCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHC
Confidence 99998764 222 2246677877777899999999999999999999999999999999999888 9999999999
Q ss_pred CCHHHHHHHHHHHHHHhhCchhh
Q psy15215 1398 VTRERIRQIEAKALRKLRHPSRY 1420 (1432)
Q Consensus 1398 vs~~~Vrq~~~rAl~kLr~~~~~ 1420 (1432)
+|.++|++++++|+++||.....
T Consensus 240 is~~tV~~~~~ra~~~Lr~~l~~ 262 (268)
T PRK06288 240 VTESRISQLHTKAVLQLRAKLAE 262 (268)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999997643
|
|
| >PRK06288 RNA polymerase sigma factor WhiG; Reviewed | Back alignment and domain information |
|---|
Probab=99.98 E-value=1.3e-30 Score=298.51 Aligned_cols=244 Identities=27% Similarity=0.373 Sum_probs=217.9
Q ss_pred cCCChhhHHHHHHHHH-HhHHHHHHhHHHHHHHHHHHHHHHHHhccc---CCCChhhHHHHHHHHHHHHHhhccccCCCc
Q psy15215 377 IVLPLNDLRDINRKMI-AGEMKARKAKREMTEANLRLVISIAKKYTD---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 452 (1432)
Q Consensus 377 ~~l~~~e~~~l~~~i~-~gd~~~~~A~~~li~~~~~lV~~ia~ky~~---~~~~~~DLiQEg~igL~kav~~fd~~~g~~ 452 (1432)
+.++..+...|+.+++ .||.. |++.++..|.++|+.+|++|.. .+.+++||+||||+|||+|+++|++.+|++
T Consensus 10 ~~~~~~~e~~l~~~~~~~~d~~---a~~~l~~~y~~lv~~~a~~~~~~~~~~~~~eDl~Qeg~l~L~~a~~~fd~~~~~~ 86 (268)
T PRK06288 10 PKYAQQDETELWREYKKTGDPK---IREYLILKYSPLVKYVAGRIAVGMPQNVEFDDLVSYGVFGLIDAIEKFDPEREIK 86 (268)
T ss_pred ccccchHHHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHHcCcccCCC
Confidence 4567788889999876 46887 9999999999999999999862 467899999999999999999999998999
Q ss_pred cHHHHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHc--cCC
Q psy15215 453 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIA--KEP 530 (1432)
Q Consensus 453 Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~--~~~ 530 (1432)
|+||++|||||.|.+++|+.. ++|.++....++++++...+.+++|++||.+|||+.+|++.++|..++... ..+
T Consensus 87 f~ty~~~~ir~~i~d~~R~~~---~~p~~~~~~~~~i~~~~~~l~~~~~~~pt~~eia~~lg~~~~~v~~~~~~~~~~~~ 163 (268)
T PRK06288 87 FKTYAVTRIRGAIFDELRSID---WIPRSVRQKARQIERAIAMLEARLGRTPSDEEIADELGISLEEYNSLLSKLSGTSV 163 (268)
T ss_pred HHHHHHHHHHHHHHHHHHhcC---ccCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHcCCCHHHHHHHHHHHhcccc
Confidence 999999999999999999765 489999999999999999999999999999999999999999999998654 467
Q ss_pred CCCCCCCC--CCC-CCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcc
Q psy15215 531 VSMESPVG--DDE-DSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFD 607 (1432)
Q Consensus 531 ~sl~~~~~--~~~-~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~ 607 (1432)
+|++.+++ ++. ...+.+.+++....+|++.+...+....|..+|.+|||++|.||.++|+.|+ |++|||+.+|
T Consensus 164 ~sld~~~~~~~~~~~~~l~~~~~~~~~~~pe~~~~~~e~~~~l~~~l~~L~~~~r~vl~l~~~~~~----s~~eIA~~lg 239 (268)
T PRK06288 164 VSLNDLWFGGDEGDEVSLMDTLESPAALNPDEIAEREEIKRVIVEAIKTLPEREKKVLILYYYEDL----TLKEIGKVLG 239 (268)
T ss_pred cchhhhhccCCCcccchhhhhccCCCCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHC
Confidence 89988763 222 1246677777777889999999999999999999999999999999999888 9999999999
Q ss_pred cchhHHHHHHHHHHHHHHHHHHH
Q psy15215 608 VTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 608 is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
+|.++|+++.++|+++|+..+..
T Consensus 240 is~~tV~~~~~ra~~~Lr~~l~~ 262 (268)
T PRK06288 240 VTESRISQLHTKAVLQLRAKLAE 262 (268)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999998753
|
|
| >PRK07670 RNA polymerase sigma factor SigD; Validated | Back alignment and domain information |
|---|
Probab=99.97 E-value=1.6e-30 Score=295.15 Aligned_cols=237 Identities=24% Similarity=0.389 Sum_probs=211.0
Q ss_pred hHHHHHHHHH-HhHHHHHHhHHHHHHHHHHHHHHHHHhccc---CCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHH
Q psy15215 383 DLRDINRKMI-AGEMKARKAKREMTEANLRLVISIAKKYTD---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 458 (1432)
Q Consensus 383 e~~~l~~~i~-~gd~~~~~A~~~li~~~~~lV~~ia~ky~~---~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~ 458 (1432)
+...|+++++ .||.. |++.|+..|.++|+++|++|+. ++.+.+||+||||+|||+++++|++.+|.+|+||++
T Consensus 7 ~e~~l~~~~~~~~d~~---a~~~L~~~y~~~v~~~~~~~~~~~~~~~~~eDl~Qe~~i~l~~~~~~f~~~~~~~f~tyl~ 83 (251)
T PRK07670 7 EEQKLWDRWKEERDPD---AADELIRRYMPLVHYHVQRISVGLPKSVSKDDLKSLGMLGLYDALEKFDPSRDLKFDTYAS 83 (251)
T ss_pred HHHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHH
Confidence 4456666644 57888 9999999999999999999965 688999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHH--HccCCCCCCCC
Q psy15215 459 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMK--IAKEPVSMESP 536 (1432)
Q Consensus 459 ~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~--~~~~~~sl~~~ 536 (1432)
|||+|.|.++++++. ++|.++.+.+++++++..++.+.+|++|+.+|||..||+++++|+.++. ....+.|++.|
T Consensus 84 ~~irn~~~d~lR~~~---~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~eia~~l~~~~~~v~~~~~~~~~~~~~sld~~ 160 (251)
T PRK07670 84 FRIRGAIIDGLRKED---WLPRSMREKTKKVEAAIEKLEQRYMRNVTPKEVAAELGMTEEEVEATMNEGFFANLLSIDEK 160 (251)
T ss_pred HHHHHHHHHHHHhcC---CCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHhCcCHHHHHHHHHHHhccCccccCcc
Confidence 999999999999876 4899999999999999999999999999999999999999999999985 45678999999
Q ss_pred CCCCCCC-CcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHH
Q psy15215 537 VGDDEDS-HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQ 615 (1432)
Q Consensus 537 ~~~~~~~-~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~ 615 (1432)
++++++. .+...+.+....+|++.....+....|..+|+.||+++|.||.|+|+.|+ |++|||+.||+|.++|++
T Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~~~----s~~EIA~~lgis~~tV~~ 236 (251)
T PRK07670 161 THDQDDGENVSVTIRDDKTPTPEEKLLKEELIEELAEKIKQLSEKEQLVISLFYKEEL----TLTEIGQVLNLSTSRISQ 236 (251)
T ss_pred ccCCCCcchhhhhhcCcCCCCHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCC----CHHHHHHHHCcCHHHHHH
Confidence 8765543 23344455556688888888888899999999999999999999998888 999999999999999999
Q ss_pred HHHHHHHHHHHHHH
Q psy15215 616 IEAKALRKLRPLAH 629 (1432)
Q Consensus 616 ~~~rAl~kLr~~l~ 629 (1432)
+.++|+++|+..+.
T Consensus 237 ~~~ra~~~Lr~~l~ 250 (251)
T PRK07670 237 IHSKALFKLKKLLE 250 (251)
T ss_pred HHHHHHHHHHHHhh
Confidence 99999999998763
|
|
| >TIGR02980 SigBFG RNA polymerase sigma-70 factor, sigma-B/F/G subfamily | Back alignment and domain information |
|---|
Probab=99.97 E-value=9.5e-31 Score=293.22 Aligned_cols=220 Identities=31% Similarity=0.494 Sum_probs=199.4
Q ss_pred HhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccc
Q psy15215 400 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 479 (1432)
Q Consensus 400 ~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 479 (1432)
.|++.|+..|.|+|+++|++|.+++.+++||+|||++|||+|+++|++.+|.+|+||++|||+|.|.++++++.+.+|+|
T Consensus 3 ~a~~~lv~~y~~~v~~~a~~~~~~~~~~eDl~Qe~~i~l~~a~~~f~~~~~~~F~ty~~~~i~~~~~~~~r~~~~~~ri~ 82 (227)
T TIGR02980 3 EAREKLVELNLPLVRSIARRFRNRGEPHEDLVQVGTIGLVKAIDRFDPSYGVKFSTFAVPTIMGEIKRFFRDDTWAVRVP 82 (227)
T ss_pred HHHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHhcCcccCCCcHHHHHHHHHHHHHHHHHHcCCceecC
Confidence 38999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccC--CCCCCCCCCCCCCC--CcCcccccCCCC
Q psy15215 480 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKE--PVSMESPVGDDEDS--HLGDFIEDENML 555 (1432)
Q Consensus 480 ~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~--~~sl~~~~~~~~~~--~~~~~i~d~~~~ 555 (1432)
+++.+.+++++++...+.+.+|++||.+|+|+.||++++++..++..... +.|++.+++++++. .+.+.+.
T Consensus 83 ~~~~~~~~~~~~~~~~l~~~~~~~p~~~ela~~l~~~~~~v~~~~~~~~~~~~~sld~~~~~~~~~~~~~~d~~~----- 157 (227)
T TIGR02980 83 RRLKELGLKINKATEELTQRLGRSPTIAEIAEELGVSEEEVVEALEAGNSYSALSLDAPIEDDDGDPIALLDTLG----- 157 (227)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHhCCCHHHHHHHHHhhccCCCeeccccCCCCCCCCcccccccC-----
Confidence 99999999999999999999999999999999999999999999887765 89999988633222 2333332
Q ss_pred ChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 556 APSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 556 ~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
+|.+.+...+....+..+|..||++++.||.++|+.|+ |++|||+.+|+|+++|+++.++|+++|+..+
T Consensus 158 ~~~~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~y~~~~----s~~eIA~~lgis~~~v~~~~~ra~~~Lr~~l 226 (227)
T TIGR02980 158 DEDDALETVEDRLALKPLLAALPERERRILLLRFFEDK----TQSEIAERLGISQMHVSRLLRRALKKLREQL 226 (227)
T ss_pred CcchHHHhHHHHHHHHHHHHcCCHHHHHHHHHHHhcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHh
Confidence 34555566677888999999999999999999998888 9999999999999999999999999999764
|
This group of similar sigma-70 factors includes clades found in Bacilli (including the sporulation factors SigF:TIGR02885 and SigG:TIGR02850 as well as SigB:TIGR02941), and the high GC gram positive bacteria (Actinobacteria) where a variable number of them are found depending on the lineage. |
| >PRK05572 sporulation sigma factor SigF; Validated | Back alignment and domain information |
|---|
Probab=99.97 E-value=1.7e-30 Score=295.07 Aligned_cols=239 Identities=28% Similarity=0.431 Sum_probs=213.3
Q ss_pred hhcCCChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcch
Q psy15215 1165 TDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 1244 (1432)
Q Consensus 1165 ~~~~l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fs 1244 (1432)
....++..+...++.++..|+.. |++.|+..|.++|+++|++|++++.+++||+||||+++|+++++|++.+|.+|+
T Consensus 10 ~~~~l~~~~~~~li~~~~~gd~~---a~~~L~~~y~~~v~~~a~~~~~~~~~aeDl~Qe~~l~l~~~~~~f~~~~~~~f~ 86 (252)
T PRK05572 10 KKPQLKDEENKELIKKSQDGDQE---ARDTLVEKNLRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKAVDKFDLSYDVKFS 86 (252)
T ss_pred CCCCCCHHHHHHHHHHHHcCCHH---HHHHHHHHhHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHcCCCCCCChH
Confidence 35667888888899999999888 999999999999999999999999999999999999999999999998888999
Q ss_pred hHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCC
Q psy15215 1245 TYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSME 1324 (1432)
Q Consensus 1245 tya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~ 1324 (1432)
||+++||+++|.+++++.. .+|+|.++....++++++..++.+++|++||++|+|+.+|++++.|..++.....+.||+
T Consensus 87 twl~~~i~~~i~~~lr~~~-~~r~~~~~~~~~~~~~~~~~~l~~~~~r~p~~~eia~~l~~~~~~v~~~~~~~~~~~sl~ 165 (252)
T PRK05572 87 TYAVPMIIGEIQRFLRDDG-TVKVSRSLKETANKIRKDKDELSKELGREPTIEELAEYLGVTPEEVVLAQEASRSPQSIH 165 (252)
T ss_pred HHHHHHHHHHHHHHHHhCC-CCCCCHHHHHHHHHHHHHHHHHHHHHCcCCCHHHHHHHhCcCHHHHHHHHHhcCCCcCcc
Confidence 9999999999999999885 789999999999999999999999999999999999999999999999998888899999
Q ss_pred CCCCCCCCC--CcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHH
Q psy15215 1325 SPVGDDEDS--HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRER 1402 (1432)
Q Consensus 1325 ~~~~~~~~~--~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~ 1402 (1432)
.++++++.. .+.+.+.+... . .......+..+++.||++++.||.++|+.|+ |++|||+.+|+|+++
T Consensus 166 ~~~~~~~~~~~~~~d~~~~~~~---~----~~~~~~~l~~~l~~L~~~~~~v~~l~~~~~~----s~~eIA~~lgis~~~ 234 (252)
T PRK05572 166 ETVHENDGDPITLLDQIADQSE---E----DWFDKIALKEAIRELDERERLIVYLRYFKDK----TQSEVAKRLGISQVQ 234 (252)
T ss_pred cCcccCCCCcchhhhhcCCCch---h----hHHHHHHHHHHHHcCCHHHHHHHHHHHhCCC----CHHHHHHHHCcCHHH
Confidence 988665432 23344443221 1 1334678899999999999999999998887 999999999999999
Q ss_pred HHHHHHHHHHHhhCch
Q psy15215 1403 IRQIEAKALRKLRHPS 1418 (1432)
Q Consensus 1403 Vrq~~~rAl~kLr~~~ 1418 (1432)
|+++.++|+++||..+
T Consensus 235 V~~~~~ral~kLr~~l 250 (252)
T PRK05572 235 VSRLEKKILKQMKEKL 250 (252)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 9999999999999754
|
|
| >PRK08583 RNA polymerase sigma factor SigB; Validated | Back alignment and domain information |
|---|
Probab=99.97 E-value=2.2e-30 Score=295.47 Aligned_cols=243 Identities=21% Similarity=0.350 Sum_probs=216.0
Q ss_pred CCChhhHHHHHHHHHh-hhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhH
Q psy15215 1168 VLPLNDLRDINRKMIA-GEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 1246 (1432)
Q Consensus 1168 ~l~~~e~~~l~~~~~~-g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fsty 1246 (1432)
.|++.+...++.+++. |+.. |++.|+..|.++|+++|++|++++.+++||+||||++||+++++|++..|.+|+||
T Consensus 9 ~l~~~e~~~li~~~~~~gd~~---a~~~l~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~l~l~~~~~~f~~~~~~~f~ty 85 (257)
T PRK08583 9 KLTKEEVNKWIAEYQENQDEE---AQEKLVKHYKNLVESLAYKYSKGQSHHEDLVQVGMVGLLGAIRRYDPSFGRSFEAF 85 (257)
T ss_pred cCChHHHHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCccCCCChHHH
Confidence 3677778889999875 7877 99999999999999999999999999999999999999999999999988899999
Q ss_pred HHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHc--cCCCCCC
Q psy15215 1247 ATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIA--KEPVSME 1324 (1432)
Q Consensus 1247 a~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~--~~~~Sl~ 1324 (1432)
+++||+|.|.++++++.+.+++|++..+..++++++...+...+|+.|+.+++|+.+|++.+.+..++... ..+.|++
T Consensus 86 l~~~i~n~~~~~lr~~~~~~~i~r~~~~~~~~~~~~~~~~~~~~~r~~~~~e~a~~~~~~~~~~~~~~~~~~~~~~~sld 165 (257)
T PRK08583 86 AVPTIIGEIKRYLRDKTWSVHVPRRIKELGPKIKKAVDELTTELQRSPKISEIADRLGVSEEEVLEAMEMGKSYQALSVD 165 (257)
T ss_pred HHHHHHHHHHHHHHhcCCCcCCCHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHHHhccCCceecC
Confidence 99999999999999999999999999999999999999999999999999999999999999999988764 3678999
Q ss_pred CCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHH
Q psy15215 1325 SPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIR 1404 (1432)
Q Consensus 1325 ~~~~~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vr 1404 (1432)
.+++++++.....+. + ...+|++.....+....+..+|..|||++|.||.++|+.|+ |++|||+.||||+++|+
T Consensus 166 ~~~~~~~~~~~~~~~-~-~~~~~e~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~g~----s~~eIA~~l~is~~tV~ 239 (257)
T PRK08583 166 HSIEADSDGSTVTLL-D-IVGQQEDGYELTEQRMILEKILPVLSDREKSIIQCTFIENL----SQKETGERLGISQMHVS 239 (257)
T ss_pred ccccCCCCCccchHh-h-hcCCcchhHHHHHHHHHHHHHHHhCCHHHHHHHHHHHhCCC----CHHHHHHHHCCCHHHHH
Confidence 988765443211111 1 12356677777778888999999999999999999998888 99999999999999999
Q ss_pred HHHHHHHHHhhCchh
Q psy15215 1405 QIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1405 q~~~rAl~kLr~~~~ 1419 (1432)
+++++|+++||+.+.
T Consensus 240 ~~~~ra~~kLr~~l~ 254 (257)
T PRK08583 240 RLQRQAIKKLREAAF 254 (257)
T ss_pred HHHHHHHHHHHHHhc
Confidence 999999999998654
|
|
| >TIGR02479 FliA_WhiG RNA polymerase sigma factor, FliA/WhiG family | Back alignment and domain information |
|---|
Probab=99.97 E-value=1.3e-30 Score=291.31 Aligned_cols=217 Identities=29% Similarity=0.446 Sum_probs=197.6
Q ss_pred HHHHHHHHHHHHHHhccC---CCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccccccccc
Q psy15215 1195 MTEANLRLVISIAKKYTD---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 1271 (1432)
Q Consensus 1195 Li~~~~~lV~~ia~~y~~---~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~ 1271 (1432)
|+..|.++|+++|++|.+ ++.+++||+||||+|||+|+++|++.+|++|+||+++||++.+.+++|+.. ++|.+
T Consensus 1 L~~~~~~lv~~~a~~~~~~~~~~~~~eDl~Qe~~~~l~~a~~~fd~~~~~~f~t~~~~~i~~~~~~~lr~~~---~~p~~ 77 (224)
T TIGR02479 1 LIRRYLPLVKRIAGRLSVGLPSSVELDDLIQAGMFGLLDAIERYDPSRGAKFETYAVQRIRGAMLDELRRLD---WVPRS 77 (224)
T ss_pred CHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHHHHHHHcC---ccCHH
Confidence 588999999999999986 789999999999999999999999999999999999999999999999875 48999
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHc--cCCCCCCCCCCCC-CCCCcCcccccCCCCChH
Q psy15215 1272 MIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIA--KEPVSMESPVGDD-EDSHLGDFIEDENMLAPS 1348 (1432)
Q Consensus 1272 ~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~--~~~~Sl~~~~~~~-~~~~~~d~i~d~~~~~p~ 1348 (1432)
+...+++++++.+++.+++|++||.+|+|+.+|++++.|..++... ...+|++.+..+. +...+.+++++....+|+
T Consensus 78 ~~~~~~~l~~~~~~l~~~~~~~~~~~ela~~l~~~~~~v~~~~~~~~~~~~~sl~~~~~~~~~~~~~~~~~~~~~~~~~~ 157 (224)
T TIGR02479 78 LRQKARKLERAIRELEARLGREPTEEEIAEELGMDLKEYRQALNEINALSLVSLDELLESGDDGGSLIDRIEDDKSEDPE 157 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHCcCCCHHHHHHHhCCCHHHHHHHHHHHhcCCccccCCcccCCCccchhhhhccccccCCHH
Confidence 9999999999999999999999999999999999999999999644 4567888876553 234566667766667899
Q ss_pred HHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCch
Q psy15215 1349 DAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 1418 (1432)
Q Consensus 1349 ~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~ 1418 (1432)
+.+........+..+|+.||+++|.||.++|+.|+ |++|||+.+|+|.++|++++++|+++||..+
T Consensus 158 ~~~~~~~~~~~l~~~l~~L~~~~r~il~l~y~~~~----s~~eIA~~lgis~~tV~~~~~ra~~~Lr~~l 223 (224)
T TIGR02479 158 EELEREELREALAEAIESLSEREQLVLSLYYYEEL----NLKEIGEVLGLTESRVSQIHSQALKKLRAKL 223 (224)
T ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHhCCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHHc
Confidence 99999999999999999999999999999998888 9999999999999999999999999999753
|
Most members of this family are the flagellar operon sigma factor FliA, controlling transcription of bacterial flagellar genes by RNA polymerase. An exception is the sigma factor WhiG in the genus Streptomyces, involved in the production of sporulating aerial mycelium. |
| >PRK12427 flagellar biosynthesis sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.97 E-value=2.3e-30 Score=288.76 Aligned_cols=209 Identities=21% Similarity=0.332 Sum_probs=182.7
Q ss_pred HHHHHHHHHHHHHHHHHhccC---CCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccc
Q psy15215 1192 KREMTEANLRLVISIAKKYTD---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 1268 (1432)
Q Consensus 1192 ~~~Li~~~~~lV~~ia~~y~~---~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~iri 1268 (1432)
...|+..|+|+|+++|++|.. .+.+.+||+|||++|||+|+++|++..| +|+|||+|||||+|.+++++..+ .
T Consensus 17 ~~~lv~~y~~lV~~la~~~~~~~~~~~~~eDLvQeg~igL~~a~~~fd~~~~-~F~tYa~~~Ir~~il~~lr~~~~---~ 92 (231)
T PRK12427 17 EGKYLNAYLPLVKKVVRQLAFQADSVIDREDMEQIALMGLLEALRRYGHPDE-QFAAYAVHRIRGAILDELRELDW---R 92 (231)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHhcCCCCC-ChHHHHHHHHHHHHHHHHHhcCC---C
Confidence 457899999999999999875 4679999999999999999999997666 89999999999999999999776 6
Q ss_pred cccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHH--ccCCCCCCCCCCCCCCCCcCcccccCCCCC
Q psy15215 1269 PVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKI--AKEPVSMESPVGDDEDSHLGDFIEDENMLA 1346 (1432)
Q Consensus 1269 p~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~--~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~ 1346 (1432)
|+++....++++++.+.+.+++|++||++|||+.||+++++|..++.. ....+|||.+++++++.. .+++ .+
T Consensus 93 ~r~vr~~~~~i~~~~~~l~~~~g~~pt~~eiA~~lg~~~~~v~~~~~~~~~~~~~SLd~~~~~~~~~~---~~~~---~~ 166 (231)
T PRK12427 93 PRRLRQKTHKTNDAIREIAKRLGHEPNFEEISAELNLTAEEYQEYLLLENAGTLESLDELLALEAHND---ILQS---RD 166 (231)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHhCCCHHHHHHHHHHhccCCceeccCcccCCCccc---ccCC---CC
Confidence 889999999999999999999999999999999999999999999864 457899999987765422 2221 23
Q ss_pred hHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1347 PSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1347 p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
|++.. .....+..++..||+++|.||.++|+.++ |++|||+.+|||+++|+|++++|+++||+.
T Consensus 167 ~~~~~---~~~~~l~~~l~~L~~~er~vi~l~~~~~~----t~~EIA~~lgis~~~V~q~~~~~~~kLr~~ 230 (231)
T PRK12427 167 LEENI---IIEDNLKQALSQLDEREQLILHLYYQHEM----SLKEIALVLDLTEARICQLNKKIAQKIKSF 230 (231)
T ss_pred HHHHH---HHHHHHHHHHHcCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHhh
Confidence 44332 24567899999999999999999998887 999999999999999999999999999963
|
|
| >PRK05572 sporulation sigma factor SigF; Validated | Back alignment and domain information |
|---|
Probab=99.97 E-value=8.3e-30 Score=289.47 Aligned_cols=240 Identities=28% Similarity=0.431 Sum_probs=214.7
Q ss_pred hccCCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccH
Q psy15215 375 TDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 454 (1432)
Q Consensus 375 ~~~~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fs 454 (1432)
..+.++..+...++.+++.|+.. |++.|+..|.++|+++|++|++++.+++||+|||++++|+++++|++.+|.+|+
T Consensus 10 ~~~~l~~~~~~~li~~~~~gd~~---a~~~L~~~y~~~v~~~a~~~~~~~~~aeDl~Qe~~l~l~~~~~~f~~~~~~~f~ 86 (252)
T PRK05572 10 KKPQLKDEENKELIKKSQDGDQE---ARDTLVEKNLRLVWSVVQRFLNRGYEPDDLFQIGCIGLLKAVDKFDLSYDVKFS 86 (252)
T ss_pred CCCCCCHHHHHHHHHHHHcCCHH---HHHHHHHHhHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHHcCCCCCCChH
Confidence 45678888889999999999988 999999999999999999999999999999999999999999999998888999
Q ss_pred HHHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCC
Q psy15215 455 TYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSME 534 (1432)
Q Consensus 455 tya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~ 534 (1432)
||+++||+++|.+++++.. .+|+|+++.+..++++++..++.+++|++||++|+|+.+|++++.|..+......+.|++
T Consensus 87 twl~~~i~~~i~~~lr~~~-~~r~~~~~~~~~~~~~~~~~~l~~~~~r~p~~~eia~~l~~~~~~v~~~~~~~~~~~sl~ 165 (252)
T PRK05572 87 TYAVPMIIGEIQRFLRDDG-TVKVSRSLKETANKIRKDKDELSKELGREPTIEELAEYLGVTPEEVVLAQEASRSPQSIH 165 (252)
T ss_pred HHHHHHHHHHHHHHHHhCC-CCCCCHHHHHHHHHHHHHHHHHHHHHCcCCCHHHHHHHhCcCHHHHHHHHHhcCCCcCcc
Confidence 9999999999999999885 789999999999999999999999999999999999999999999999998888899999
Q ss_pred CCCCCCCCC--CcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhH
Q psy15215 535 SPVGDDEDS--HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRER 612 (1432)
Q Consensus 535 ~~~~~~~~~--~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~ 612 (1432)
.++++++.. ++.+.+.+... . .......+..+++.||++++.||.++|+.|+ |++|||+.+|+|+++
T Consensus 166 ~~~~~~~~~~~~~~d~~~~~~~----~---~~~~~~~l~~~l~~L~~~~~~v~~l~~~~~~----s~~eIA~~lgis~~~ 234 (252)
T PRK05572 166 ETVHENDGDPITLLDQIADQSE----E---DWFDKIALKEAIRELDERERLIVYLRYFKDK----TQSEVAKRLGISQVQ 234 (252)
T ss_pred cCcccCCCCcchhhhhcCCCch----h---hHHHHHHHHHHHHcCCHHHHHHHHHHHhCCC----CHHHHHHHHCcCHHH
Confidence 888655432 23344443221 1 1234678899999999999999999998887 999999999999999
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy15215 613 IRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 613 v~~~~~rAl~kLr~~l~ 629 (1432)
|+++.++|+.+|+..+.
T Consensus 235 V~~~~~ral~kLr~~l~ 251 (252)
T PRK05572 235 VSRLEKKILKQMKEKLD 251 (252)
T ss_pred HHHHHHHHHHHHHHHhc
Confidence 99999999999998764
|
|
| >TIGR02479 FliA_WhiG RNA polymerase sigma factor, FliA/WhiG family | Back alignment and domain information |
|---|
Probab=99.97 E-value=6.6e-30 Score=285.55 Aligned_cols=217 Identities=29% Similarity=0.446 Sum_probs=197.5
Q ss_pred HHHHHHHHHHHHHHhccc---CCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchh
Q psy15215 405 MTEANLRLVISIAKKYTD---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 481 (1432)
Q Consensus 405 li~~~~~lV~~ia~ky~~---~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~ 481 (1432)
|+..|.++|+++|++|.+ ++.+++||+|||++|||+|+++|++.+|++|+||+++||+|.+.+++++.. ++|.+
T Consensus 1 L~~~~~~lv~~~a~~~~~~~~~~~~~eDl~Qe~~~~l~~a~~~fd~~~~~~f~t~~~~~i~~~~~~~lr~~~---~~p~~ 77 (224)
T TIGR02479 1 LIRRYLPLVKRIAGRLSVGLPSSVELDDLIQAGMFGLLDAIERYDPSRGAKFETYAVQRIRGAMLDELRRLD---WVPRS 77 (224)
T ss_pred CHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHhcCCccCCCHHHHHHHHHHHHHHHHHHHcC---ccCHH
Confidence 578999999999999986 689999999999999999999999999999999999999999999999875 48999
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHc--cCCCCCCCCCCCC-CCCCcCcccccCCCCChH
Q psy15215 482 MIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIA--KEPVSMESPVGDD-EDSHLGDFIEDENMLAPS 558 (1432)
Q Consensus 482 ~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~--~~~~sl~~~~~~~-~~~~~~~~i~d~~~~~p~ 558 (1432)
+...++++.++..++.+++|++||.+|+|+.||+++++|+.++..+ ...+|++.+.+++ +...+.++++++...+|+
T Consensus 78 ~~~~~~~l~~~~~~l~~~~~~~~~~~ela~~l~~~~~~v~~~~~~~~~~~~~sl~~~~~~~~~~~~~~~~~~~~~~~~~~ 157 (224)
T TIGR02479 78 LRQKARKLERAIRELEARLGREPTEEEIAEELGMDLKEYRQALNEINALSLVSLDELLESGDDGGSLIDRIEDDKSEDPE 157 (224)
T ss_pred HHHHHHHHHHHHHHHHHHHCcCCCHHHHHHHhCCCHHHHHHHHHHHhcCCccccCCcccCCCccchhhhhccccccCCHH
Confidence 9999999999999999999999999999999999999999998644 4567888876543 333566667766667899
Q ss_pred HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 559 DAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 559 ~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
+.+...+....+..+|+.||++++.||.++|+.|+ |++|||+.+|+|.++|+++.++|+++|+..+
T Consensus 158 ~~~~~~~~~~~l~~~l~~L~~~~r~il~l~y~~~~----s~~eIA~~lgis~~tV~~~~~ra~~~Lr~~l 223 (224)
T TIGR02479 158 EELEREELREALAEAIESLSEREQLVLSLYYYEEL----NLKEIGEVLGLTESRVSQIHSQALKKLRAKL 223 (224)
T ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHhCCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHHc
Confidence 99999999999999999999999999999998888 9999999999999999999999999999865
|
Most members of this family are the flagellar operon sigma factor FliA, controlling transcription of bacterial flagellar genes by RNA polymerase. An exception is the sigma factor WhiG in the genus Streptomyces, involved in the production of sporulating aerial mycelium. |
| >TIGR00646 MG010 DNA primase-related protein | Back alignment and domain information |
|---|
Probab=99.97 E-value=3.2e-31 Score=281.26 Aligned_cols=124 Identities=19% Similarity=0.133 Sum_probs=109.5
Q ss_pred HHHHhhhccEEEEee-----eeeeeeeeeeCCCCC---CCCCCCcccCccccCchHhHHhhccCCeEEEEecchhHHHHh
Q psy15215 674 ILQEYLESFLISFFL-----RNHGISGFLLTTPDP---VHETPLFHKSNELYGLFEAKNAIGKSGYVLITEGYMDVIGLS 745 (1432)
Q Consensus 674 ~~~~~~~~fri~fpi-----r~igf~gR~~~~~~~---s~et~~f~K~~~Ly~~~~a~~~~~~~~~~~~vEG~~D~ia~~ 745 (1432)
.|++|++| ||||| ||||||||.++++++ ||||++|+||++|||++.+ +++.+.+|||||||||||+|
T Consensus 52 ~y~~~~~R--imFPI~d~~G~vvgFgGR~l~~~~KYlNspet~~f~K~~~Lygl~~~---~~k~~~vilvEGymDVIsl~ 126 (218)
T TIGR00646 52 AYLGEKEW--LNLPLYNFDGNLIGFLNRKVGFEKEFLYLPFNKPPSKSEAFLGLKEL---PIEDNSIYLVEGDFDWLAFR 126 (218)
T ss_pred EecccCCE--EEEEEECCCCCEEEEeccCCCCCCCcccCCCCCCcccchhhcCcchh---hcCCCEEEEEecHHHHHHHH
Confidence 35666666 99999 799999999986433 9999999999999999765 56789999999999999999
Q ss_pred hhCC----------------------CCCeEEEEecCcHHHHHHHHHHHHHhhhhcCCCceEEEecCCCC-CCHHHHHHH
Q psy15215 746 QFGF----------------------FANSSYTCFDGDQAGRRAARRALEVCLLYATDDKIIKFLFLPDK-YDPDSYIRK 802 (1432)
Q Consensus 746 ~~g~----------------------~~~~i~~~~D~D~aG~~a~~~~~~~~~~~~~~~~~~~~~~lp~~-~Dpde~~~~ 802 (1432)
|+|+ .+++||+|||||.||++||.|+++++...|+. |+|+.+|++ ||+||+++.
T Consensus 127 qaGi~naVAslGTALT~~q~~lLkr~~~~~Iil~~D~D~AG~~Aa~r~~~~L~~~G~~---v~vv~lP~~~KDwNEllk~ 203 (218)
T TIGR00646 127 KAGILNCLPLCGLTISDKQMKFFKQKKIEKIFICFDNDFAGKNAAANLEEILKKAGFI---TKVIEIKAAAKDWNDLFLL 203 (218)
T ss_pred HCCCCeEEEcCchHhHHHHHHHHhccCCCEEEEEeCCCHHHHHHHHHHHHHHHHCCCe---EEEEeCCCcCCChhHHHHH
Confidence 9999 25799999999999999999999999887766 999999974 999999987
Q ss_pred hCh
Q psy15215 803 FGY 805 (1432)
Q Consensus 803 ~g~ 805 (1432)
+|.
T Consensus 204 ~~~ 206 (218)
T TIGR00646 204 NNK 206 (218)
T ss_pred hhh
Confidence 764
|
The DNA primase DnaG of E. coli and its apparent orthologs in other eubacterial species are approximately 600 residues in length. Within this set, a conspicuous outlier in percent identity, as seen in a UPGMA difference tree, is the branch containing the Mycoplasmas. This lineage is also unique in containing the small, DNA primase-related protein modelled by this alignment, which is homologous to the central third of DNA primase. Several small regions of sequence similarity specifically to Mycoplasma sequences rather than to all DnaG homologs suggests that the divergence of this protein from DnaG post-dated the separation of bacterial lineages. The function of this DNA primase-related protein is unknown. |
| >PRK08583 RNA polymerase sigma factor SigB; Validated | Back alignment and domain information |
|---|
Probab=99.97 E-value=2.2e-29 Score=287.23 Aligned_cols=244 Identities=21% Similarity=0.348 Sum_probs=216.9
Q ss_pred cCCChhhHHHHHHHHHH-hHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHH
Q psy15215 377 IVLPLNDLRDINRKMIA-GEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 455 (1432)
Q Consensus 377 ~~l~~~e~~~l~~~i~~-gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fst 455 (1432)
..|+..+...++.+++. ||.. |++.|+..|.++|+++|++|++++.+++||+||||++||+++++|++..|.+|+|
T Consensus 8 ~~l~~~e~~~li~~~~~~gd~~---a~~~l~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~l~l~~~~~~f~~~~~~~f~t 84 (257)
T PRK08583 8 TKLTKEEVNKWIAEYQENQDEE---AQEKLVKHYKNLVESLAYKYSKGQSHHEDLVQVGMVGLLGAIRRYDPSFGRSFEA 84 (257)
T ss_pred CcCChHHHHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHcCccCCCChHH
Confidence 34677788899999986 7888 9999999999999999999999999999999999999999999999998889999
Q ss_pred HHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHc--cCCCCC
Q psy15215 456 YATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIA--KEPVSM 533 (1432)
Q Consensus 456 ya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~--~~~~sl 533 (1432)
|+++||+|.|.++++++.+.+++|++..+..+++.++...+.+.+|+.|+.+++|+.+|++.+.+..+.... ..+.|+
T Consensus 85 yl~~~i~n~~~~~lr~~~~~~~i~r~~~~~~~~~~~~~~~~~~~~~r~~~~~e~a~~~~~~~~~~~~~~~~~~~~~~~sl 164 (257)
T PRK08583 85 FAVPTIIGEIKRYLRDKTWSVHVPRRIKELGPKIKKAVDELTTELQRSPKISEIADRLGVSEEEVLEAMEMGKSYQALSV 164 (257)
T ss_pred HHHHHHHHHHHHHHHhcCCCcCCCHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCHHHHHHHHHHhccCCceec
Confidence 999999999999999999999999999999999999999999999999999999999999999999887654 367899
Q ss_pred CCCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHH
Q psy15215 534 ESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERI 613 (1432)
Q Consensus 534 ~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v 613 (1432)
+.+++++++.....+.+ ...+|++.....+....+..+|..|||+++.||.|+|+.|+ |++|||+.||+|+++|
T Consensus 165 d~~~~~~~~~~~~~~~~--~~~~~e~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~g~----s~~eIA~~l~is~~tV 238 (257)
T PRK08583 165 DHSIEADSDGSTVTLLD--IVGQQEDGYELTEQRMILEKILPVLSDREKSIIQCTFIENL----SQKETGERLGISQMHV 238 (257)
T ss_pred CccccCCCCCccchHhh--hcCCcchhHHHHHHHHHHHHHHHhCCHHHHHHHHHHHhCCC----CHHHHHHHHCCCHHHH
Confidence 98887654432111111 12356677777778888999999999999999999998888 9999999999999999
Q ss_pred HHHHHHHHHHHHHHHH
Q psy15215 614 RQIEAKALRKLRPLAH 629 (1432)
Q Consensus 614 ~~~~~rAl~kLr~~l~ 629 (1432)
+++.++|+++|+..+.
T Consensus 239 ~~~~~ra~~kLr~~l~ 254 (257)
T PRK08583 239 SRLQRQAIKKLREAAF 254 (257)
T ss_pred HHHHHHHHHHHHHHhc
Confidence 9999999999998764
|
|
| >PRK12427 flagellar biosynthesis sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.97 E-value=1.7e-29 Score=281.69 Aligned_cols=209 Identities=21% Similarity=0.342 Sum_probs=181.9
Q ss_pred HHHHHHHHHHHHHHHHHhccc---CCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhcccccc
Q psy15215 402 KREMTEANLRLVISIAKKYTD---RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 478 (1432)
Q Consensus 402 ~~~li~~~~~lV~~ia~ky~~---~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~iri 478 (1432)
...|+..|+|+|.++|++|.. .+.+.+||+|||+||||+|+++|++..| +|+|||+|||||+|.+++++..+ .
T Consensus 17 ~~~lv~~y~~lV~~la~~~~~~~~~~~~~eDLvQeg~igL~~a~~~fd~~~~-~F~tYa~~~Ir~~il~~lr~~~~---~ 92 (231)
T PRK12427 17 EGKYLNAYLPLVKKVVRQLAFQADSVIDREDMEQIALMGLLEALRRYGHPDE-QFAAYAVHRIRGAILDELRELDW---R 92 (231)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhCCCCCCHHHHHHHHHHHHHHHHHhcCCCCC-ChHHHHHHHHHHHHHHHHHhcCC---C
Confidence 338999999999999999875 4679999999999999999999997666 89999999999999999999766 6
Q ss_pred chhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHH--ccCCCCCCCCCCCCCCCCcCcccccCCCCC
Q psy15215 479 PVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKI--AKEPVSMESPVGDDEDSHLGDFIEDENMLA 556 (1432)
Q Consensus 479 p~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~--~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~ 556 (1432)
|+++....++++++.+.+.+++|++||.+|||+.||+++++|..++.. .....||+.+++++++.. .+++ .+
T Consensus 93 ~r~vr~~~~~i~~~~~~l~~~~g~~pt~~eiA~~lg~~~~~v~~~~~~~~~~~~~SLd~~~~~~~~~~---~~~~---~~ 166 (231)
T PRK12427 93 PRRLRQKTHKTNDAIREIAKRLGHEPNFEEISAELNLTAEEYQEYLLLENAGTLESLDELLALEAHND---ILQS---RD 166 (231)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHhCCCHHHHHHHHHHhccCCceeccCcccCCCccc---ccCC---CC
Confidence 899999999999999999999999999999999999999999999864 456799999987654422 2221 23
Q ss_pred hHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHH
Q psy15215 557 PSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPL 627 (1432)
Q Consensus 557 p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~ 627 (1432)
|++.. .....+..++..||++++.||.++|+.|+ |++|||+.+|+|.++|+++.++++.+|+..
T Consensus 167 ~~~~~---~~~~~l~~~l~~L~~~er~vi~l~~~~~~----t~~EIA~~lgis~~~V~q~~~~~~~kLr~~ 230 (231)
T PRK12427 167 LEENI---IIEDNLKQALSQLDEREQLILHLYYQHEM----SLKEIALVLDLTEARICQLNKKIAQKIKSF 230 (231)
T ss_pred HHHHH---HHHHHHHHHHHcCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHhh
Confidence 44333 24667899999999999999999998887 999999999999999999999999999854
|
|
| >PRK06986 fliA flagellar biosynthesis sigma factor; Validated | Back alignment and domain information |
|---|
Probab=99.97 E-value=2.5e-29 Score=283.01 Aligned_cols=221 Identities=27% Similarity=0.417 Sum_probs=197.6
Q ss_pred hhHHHHHHHHHHHHHHHHHhcc---CCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccc
Q psy15215 1190 KAKREMTEANLRLVISIAKKYT---DRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTI 1266 (1432)
Q Consensus 1190 ~A~~~Li~~~~~lV~~ia~~y~---~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~i 1266 (1432)
-++++|+..|.++|+++|++|+ +++.+++||+||||+|||+++++|++..|.+|+||+++|++|.|.+++|++.+
T Consensus 8 ~~~~~L~~~~~~~v~~~a~~~~~~~~~~~~aeDlvQe~~i~l~~~~~~f~~~~~~~f~tyl~~~irn~~~~~lR~~~~-- 85 (236)
T PRK06986 8 MDQDELVEQYAPLVKRIALRLKARLPASVDLDDLIQAGMIGLLEAARRYDGEQGASFETYAGQRIRGAMLDELRSLDW-- 85 (236)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcCcccCCChHHHHHHHHHHHHHHHHHHcCC--
Confidence 3789999999999999999997 67899999999999999999999999989999999999999999999999875
Q ss_pred cccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHc--cCCCCCCCCCCCCCCCCcCcccccCCC
Q psy15215 1267 RIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIA--KEPVSMESPVGDDEDSHLGDFIEDENM 1344 (1432)
Q Consensus 1267 rip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~--~~~~Sl~~~~~~~~~~~~~d~i~d~~~ 1344 (1432)
+|.++....+++.+....+.+.+|++||.++||+.+|+++++|..++... ..++|++.+++++++. +.. ..+...
T Consensus 86 -~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ela~~l~i~~~~v~~~~~~~~~~~~~sl~~~~~~~~~~-~~~-~~~~~~ 162 (236)
T PRK06986 86 -VPRSVRRNAREVAQAIRQLEQELGREPTDTEVAEKLGLSLEEYREMLLDTNISQLFSIDELRGEHGDS-ILV-TEDHQD 162 (236)
T ss_pred -CCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHcCCCHHHHHHHHHHHhccCCccccccccCCCcc-ccc-ccCCCC
Confidence 68888888888999999999999999999999999999999999999754 3567898887665543 222 223345
Q ss_pred CChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchh
Q psy15215 1345 LAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1345 ~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~ 1419 (1432)
.+|++.+...+....|..+|+.|||++|.||.++|+.|+ |++|||+.+|+|.++|++++++|+++||+...
T Consensus 163 ~~~~~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~g~----s~~EIA~~lgis~~tV~~~~~ra~~~Lr~~l~ 233 (236)
T PRK06986 163 EDPLQQLEDEELREALVEAIESLPEREQLVLSLYYQEEL----NLKEIGAVLGVSESRVSQIHSQAIKRLRARLG 233 (236)
T ss_pred CCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHhHhccCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHh
Confidence 678888888889999999999999999999999998888 99999999999999999999999999998543
|
|
| >PRK06986 fliA flagellar biosynthesis sigma factor; Validated | Back alignment and domain information |
|---|
Probab=99.97 E-value=1.2e-28 Score=277.39 Aligned_cols=221 Identities=27% Similarity=0.423 Sum_probs=198.1
Q ss_pred hHHHHHHHHHHHHHHHHHhcc---cCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccc
Q psy15215 401 AKREMTEANLRLVISIAKKYT---DRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIR 477 (1432)
Q Consensus 401 A~~~li~~~~~lV~~ia~ky~---~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~ir 477 (1432)
++++|+..|.++|+++|++|+ +.+.+++||+||||+|||+++++|++..|.+|+||+++|++|.|.++++++.+
T Consensus 9 ~~~~L~~~~~~~v~~~a~~~~~~~~~~~~aeDlvQe~~i~l~~~~~~f~~~~~~~f~tyl~~~irn~~~~~lR~~~~--- 85 (236)
T PRK06986 9 DQDELVEQYAPLVKRIALRLKARLPASVDLDDLIQAGMIGLLEAARRYDGEQGASFETYAGQRIRGAMLDELRSLDW--- 85 (236)
T ss_pred cHHHHHHHHHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHHHHHHhcCcccCCChHHHHHHHHHHHHHHHHHHcCC---
Confidence 789999999999999999997 67899999999999999999999999988999999999999999999999875
Q ss_pred cchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHc--cCCCCCCCCCCCCCCCCcCcccccCCCC
Q psy15215 478 IPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIA--KEPVSMESPVGDDEDSHLGDFIEDENML 555 (1432)
Q Consensus 478 ip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~--~~~~sl~~~~~~~~~~~~~~~i~d~~~~ 555 (1432)
+|.++....+++.++...+.+.+|++||.++||+.+|+++++|..++... ..++|++.+++++++. +.. ..+....
T Consensus 86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ela~~l~i~~~~v~~~~~~~~~~~~~sl~~~~~~~~~~-~~~-~~~~~~~ 163 (236)
T PRK06986 86 VPRSVRRNAREVAQAIRQLEQELGREPTDTEVAEKLGLSLEEYREMLLDTNISQLFSIDELRGEHGDS-ILV-TEDHQDE 163 (236)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHcCCCHHHHHHHHHHHhccCCccccccccCCCcc-ccc-ccCCCCC
Confidence 68888888888999999999999999999999999999999999998754 4567888887665443 222 2233456
Q ss_pred ChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 556 APSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 556 ~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
+|++.+...+....|..+|+.||+++|.||.++|..|+ |++|||+.+|+|.++|+++.++|+++|++.+..
T Consensus 164 ~~~~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~g~----s~~EIA~~lgis~~tV~~~~~ra~~~Lr~~l~~ 234 (236)
T PRK06986 164 DPLQQLEDEELREALVEAIESLPEREQLVLSLYYQEEL----NLKEIGAVLGVSESRVSQIHSQAIKRLRARLGE 234 (236)
T ss_pred CHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHhHhccCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHhc
Confidence 78888888889999999999999999999999998888 999999999999999999999999999988754
|
|
| >PF04546 Sigma70_ner: Sigma-70, non-essential region; InterPro: IPR007631 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription | Back alignment and domain information |
|---|
Probab=99.97 E-value=2.6e-31 Score=291.66 Aligned_cols=204 Identities=29% Similarity=0.534 Sum_probs=154.0
Q ss_pred ChHHHHHHHHHHHHhhhcccchhhhhccccCCCCCCc---chhc---cCCCCCC-hhhhhhhcCCCCCCHHHHHHhHHHH
Q psy15215 171 CPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSN---NRVI---KGNKNNN-EEKILIESSSADLSTEQLEKLKYES 243 (1432)
Q Consensus 171 ~P~~v~~il~~~e~l~~ge~rl~dii~g~~d~~~~~~---~~~~---~~~~~~~-e~~d~~~~~~~~~~~~~~~~l~~~~ 243 (1432)
||.||..||+||++|.+|+++|+|||+||+|++..+. .... ++.++++ ++++++++++..........+++.+
T Consensus 1 ~P~~v~~ll~~~~~v~~ge~rl~diI~gf~d~~~~~~~~~~~~~~~~~~~e~~~~dddd~d~d~~~~~~~~~~~~~~e~v 80 (211)
T PF04546_consen 1 YPGTVEELLEWYDRVEEGEIRLRDIIDGFIDPEAEEEEEAEEEEEDEDDEEDEEDDDDDEDDDEDDASEAADEGPDPEEV 80 (211)
T ss_dssp -HHHHHHHHHHHCCCCTTSS-GGGTEEEE-S-S--S--S-TTTT-SS-CCCT------------------------HHHH
T ss_pred CCHHHHHHHHHHHHHHcCCcchHHHHhhccccccccccccCcccccccccccccccccccccccccccchhhccCCHHHH
Confidence 8999999999999999999999999999999831111 1000 1111111 1111111111122334445678999
Q ss_pred HHHHHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCC
Q psy15215 244 LIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGM 323 (1432)
Q Consensus 244 ~~~f~~l~~~~~~~~~~~~~~g~~~~~~~k~~~~i~~~l~~ikl~~k~ie~l~~~l~~~~~~ir~~Er~i~~~~v~~~gm 323 (1432)
+++|..|++.|.++.++++++|..++.|.+++.+|++.|+.|||+|++|++|++.||..+.+||.+||+||++||++|||
T Consensus 81 ~~~f~~i~~~~~~~~~~~~~~g~~~~~~~~~~~~l~~~~~~ikl~~k~id~L~~~lr~~~~~Ir~~Er~i~~l~v~~~gm 160 (211)
T PF04546_consen 81 LERFDEIRKLYEKLQKALKKHGRDSKKYQKLREELAEEFMEIKLSPKQIDRLVEQLREIVERIRQQERRIMRLCVRRAGM 160 (211)
T ss_dssp HHHHHHHCCCHHHHCCCTTT--S-SHHHHHHHHHHHHHHTTCEE-HHHHHHHCHHHHCCCHHHHHHHHHHHHCCCTTTT-
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ChHHHHHhcCCCccchhhhhhHhhhcCchHHHHhhchHHHHHHHHHHHhhh
Q psy15215 324 PRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQ 374 (1432)
Q Consensus 324 pr~~fi~~f~~~e~~~~wl~~~~~~~~~~~~~L~~~~~~i~~~q~~L~~iE 374 (1432)
||++|++.|+|||||++|++++++.+++|+..|.++.+.|.++|++|.+||
T Consensus 161 pR~~Fi~~f~gnEtn~~Wl~~~~~~~~~~~~~l~~~~~~I~~~q~kL~~iE 211 (211)
T PF04546_consen 161 PRKEFIKSFPGNETNPNWLDKLIKAKKKWAEALERHAPEIREAQRKLAEIE 211 (211)
T ss_dssp -HHHCCCCCTTT-SSCCCTHHHHTT-SCCHHHGGGTHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHccCcccHHHHHHHHHHcCChHHHHHHHhHHHHHHHHHHHHHhC
Confidence 999999999999999999999999999999999999999999999999886
|
Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. This domain is found in the primary vegetative sigma factor. Its function is unclear, and it can be removed without apparent loss of function [, ].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1SIG_A 3IYD_F. |
| >PF04546 Sigma70_ner: Sigma-70, non-essential region; InterPro: IPR007631 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription | Back alignment and domain information |
|---|
Probab=99.96 E-value=3.8e-31 Score=290.27 Aligned_cols=204 Identities=29% Similarity=0.535 Sum_probs=153.9
Q ss_pred ChHHHHHHHHHHHHhhhcccchhhhhccccCCCCCCc---hhhc-cCC--CCCc-hhhhhhhccCCCCCHHHHHHhHHHH
Q psy15215 961 CPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSN---NRVI-KGN--KNNN-EEKILIESSSADLSTEQLEKLKYES 1033 (1432)
Q Consensus 961 ~P~~v~~il~~~e~l~~ge~~l~dii~g~~d~~~~~~---~~~~-~~~--~~~e-~~~d~~~~~~~~~~~~~l~~l~~~~ 1033 (1432)
||.+|+.||+||++|.+|+++|+|||+||+|++.... .... +.+ +.++ +++|++++++..........+++.+
T Consensus 1 ~P~~v~~ll~~~~~v~~ge~rl~diI~gf~d~~~~~~~~~~~~~~~~~~~e~~~~dddd~d~d~~~~~~~~~~~~~~e~v 80 (211)
T PF04546_consen 1 YPGTVEELLEWYDRVEEGEIRLRDIIDGFIDPEAEEEEEAEEEEEDEDDEEDEEDDDDDEDDDEDDASEAADEGPDPEEV 80 (211)
T ss_dssp -HHHHHHHHHHHCCCCTTSS-GGGTEEEE-S-S--S--S-TTTT-SS-CCCT------------------------HHHH
T ss_pred CCHHHHHHHHHHHHHHcCCcchHHHHhhccccccccccccCcccccccccccccccccccccccccccchhhccCCHHHH
Confidence 8999999999999999999999999999999831111 0000 000 0011 1111111111123334445678999
Q ss_pred HHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhhccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q psy15215 1034 LIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGM 1113 (1432)
Q Consensus 1034 ~~~f~~l~~~~~~~~~~~~~~~~~~~~~~k~~~~i~~~l~~irl~~k~i~~l~~~l~~~~~~ir~~Er~i~~~~~~~~~m 1113 (1432)
+++|..|++.|+++.+++.++|..+++|.+++.+|++.|+.|||+|++|++|++.||..+++||.+||+||++||++|||
T Consensus 81 ~~~f~~i~~~~~~~~~~~~~~g~~~~~~~~~~~~l~~~~~~ikl~~k~id~L~~~lr~~~~~Ir~~Er~i~~l~v~~~gm 160 (211)
T PF04546_consen 81 LERFDEIRKLYEKLQKALKKHGRDSKKYQKLREELAEEFMEIKLSPKQIDRLVEQLREIVERIRQQERRIMRLCVRRAGM 160 (211)
T ss_dssp HHHHHHHCCCHHHHCCCTTT--S-SHHHHHHHHHHHHHHTTCEE-HHHHHHHCHHHHCCCHHHHHHHHHHHHCCCTTTT-
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ChHHHHHhcCCCccchhhHHHHhhhcCchhHHHhhchHHHHHHHHHHHHhh
Q psy15215 1114 PRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQ 1164 (1432)
Q Consensus 1114 ~r~~fl~~f~~~e~~~~wl~~~~~~~~~~~~~L~~~~~~I~~~q~~L~~ie 1164 (1432)
||++|++.|+|||||++|++++++.+++|+..|.++.+.|.++|++|.+||
T Consensus 161 pR~~Fi~~f~gnEtn~~Wl~~~~~~~~~~~~~l~~~~~~I~~~q~kL~~iE 211 (211)
T PF04546_consen 161 PRKEFIKSFPGNETNPNWLDKLIKAKKKWAEALERHAPEIREAQRKLAEIE 211 (211)
T ss_dssp -HHHCCCCCTTT-SSCCCTHHHHTT-SCCHHHGGGTHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHccCcccHHHHHHHHHHcCChHHHHHHHhHHHHHHHHHHHHHhC
Confidence 999999999999999999999999999999999999999999999999886
|
Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. This domain is found in the primary vegetative sigma factor. Its function is unclear, and it can be removed without apparent loss of function [, ].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1SIG_A 3IYD_F. |
| >PHA02540 61 DNA primase; Provisional | Back alignment and domain information |
|---|
Probab=99.95 E-value=1.5e-27 Score=271.92 Aligned_cols=162 Identities=12% Similarity=0.096 Sum_probs=129.6
Q ss_pred hhhhhhhhH-hhcC--CCcccccccccCCCCCchhhHHHHHHH----HHHhhhccEEEEee-----eeeeeeeeeeCC-C
Q psy15215 635 RTHQNEKII-ACSS--DSSNHNEHVTNNNFPPGFNIFHKLLRI----LQEYLESFLISFFL-----RNHGISGFLLTT-P 701 (1432)
Q Consensus 635 ~l~~~~~~~-~l~~--l~~~~~~~f~~Gyap~~~~~l~~~~~~----~~~~~~~fri~fpi-----r~igf~gR~~~~-~ 701 (1432)
++..+..|+ ||+. ||+++++. ||+|++|+.|.+++.. ....++ |||||| |||||+||+|++ .
T Consensus 123 ~l~~~~~a~~YL~~RGi~~~~~~~---~~~~~~~~~l~~~l~~~~~~~~~d~~--RImFPI~d~~G~vigFgGR~l~~~~ 197 (337)
T PHA02540 123 TLPEDHPIIKYVENRCIPKDKWKL---LYFTREWQKLVNSIKPDTYKKEKPEP--RLVIPIFNKDGKIESFQGRALRKDA 197 (337)
T ss_pred hCcccHHHHHHHHHcCCCHHHHHh---cCCCccHHHHHHHHhhccCchhccCC--eeEEEEECCCCCEEEEEeEECCCCC
Confidence 355677788 9988 99998775 5778899999988851 112234 599999 799999999986 4
Q ss_pred CC-CCCCCCcccCccccCchHhHHhhccCCeEEEEecchhHHHHhhhCC-------------CCCeEEEEecCcHHHHHH
Q psy15215 702 DP-VHETPLFHKSNELYGLFEAKNAIGKSGYVLITEGYMDVIGLSQFGF-------------FANSSYTCFDGDQAGRRA 767 (1432)
Q Consensus 702 ~~-s~et~~f~K~~~Ly~~~~a~~~~~~~~~~~~vEG~~D~ia~~~~g~-------------~~~~i~~~~D~D~aG~~a 767 (1432)
.| --+||+|+|++.|||++.|+ +.+.+||||||||||++. +++ ++.+||+||||| ||++|
T Consensus 198 ~pKYlNSp~f~K~~~LYGl~~a~----~~~~vilvEGYmDvi~i~-naVAtlGTaLT~~~~~~~~~vvl~~D~D-a~~~a 271 (337)
T PHA02540 198 PQKYITIKADEEATKIYGLDRID----PGKTVYVVEGPIDSLFLP-NSIAITGGDLDLNEVPFKDTRVWVLDNE-PRHPD 271 (337)
T ss_pred CCCeeeCCcccccccccChhHhc----cCCEEEEEeCCcceeeec-cceeeCccccCHhHhCccceEEEEECCc-hhHHH
Confidence 55 34457999999999999765 468999999999999863 333 678999999999 88899
Q ss_pred HHHHHHHhhhhcCCCceEEEecCC--CCCCHHHHHHHhCh--hhhhh
Q psy15215 768 ARRALEVCLLYATDDKIIKFLFLP--DKYDPDSYIRKFGY--KIFSK 810 (1432)
Q Consensus 768 ~~~~~~~~~~~~~~~~~~~~~~lp--~~~Dpde~~~~~g~--~~~~~ 810 (1432)
|.|++++|+..|+. |.++..| ++||||||++++|+ +.|.+
T Consensus 272 t~r~~~~l~~~g~~---v~v~~~~~~~~kDpde~i~~~G~~~~~~~~ 315 (337)
T PHA02540 272 TIKRISKLIDAGEK---VVIWDKCPWPSKDINDMIMKGGATPEDIME 315 (337)
T ss_pred HHHHHHHHHHCCCe---EEEecCCCCCCcCHHHHHHhcCCCHHHHHH
Confidence 99999999988864 6665555 56999999999996 55544
|
|
| >PHA02031 putative DnaG-like primase | Back alignment and domain information |
|---|
Probab=99.94 E-value=1.3e-26 Score=251.16 Aligned_cols=123 Identities=18% Similarity=0.213 Sum_probs=105.6
Q ss_pred HHHHhhhccEEEEeeeeeeeeeeeeCCCCC----CCCCCCcccCccccCchHhHHhhccCCeEEEEecchhHHHHhh---
Q psy15215 674 ILQEYLESFLISFFLRNHGISGFLLTTPDP----VHETPLFHKSNELYGLFEAKNAIGKSGYVLITEGYMDVIGLSQ--- 746 (1432)
Q Consensus 674 ~~~~~~~~fri~fpir~igf~gR~~~~~~~----s~et~~f~K~~~Ly~~~~a~~~~~~~~~~~~vEG~~D~ia~~~--- 746 (1432)
.||+|++| |||||+. |||||.|++.+| |+ || +..|||++. ++++.+.+||||||||||++|+
T Consensus 111 ~yDrFr~R--imFPI~d-gFgGR~l~~~~PKYLN~~-SP----~~~l~~~~~---~~~~~~~vIlvEGYmDVI~l~~a~~ 179 (266)
T PHA02031 111 EYSERQGR--LIFRTDA-GWLGRATADQQPKWVGYG-YP----APDYVGWPP---ELSMPRPVVLTEDYLSALKVRWACN 179 (266)
T ss_pred ceeeeCCE--EEEeecc-ccccccCCCCCCCcCCCC-CC----cHHHhhchh---hhccCCeEEEEcCcHHHHHHHHHHh
Confidence 36777777 9999988 999999987766 22 22 346788765 4467899999999999999986
Q ss_pred hCC---------------------C-CCeEEEEecCcHHHHHHHHHHHHHhhhhcCCCceEEEecCCCCCCHHHHHHHhC
Q psy15215 747 FGF---------------------F-ANSSYTCFDGDQAGRRAARRALEVCLLYATDDKIIKFLFLPDKYDPDSYIRKFG 804 (1432)
Q Consensus 747 ~g~---------------------~-~~~i~~~~D~D~aG~~a~~~~~~~~~~~~~~~~~~~~~~lp~~~Dpde~~~~~g 804 (1432)
+|| . +++||||||||.||++||.|++.+++..++. ++|+.||+|+|||||+++.|
T Consensus 180 aG~~naVA~LGTALT~~q~~~L~r~~~~~Vil~fDgD~AG~~Aa~ra~~~l~~~~~~---v~vv~lP~g~DPDd~ir~~i 256 (266)
T PHA02031 180 KPEVFAVALLGTRLRDRLAAILLQQTCPRVLIFLDGDPAGVDGSAGAMRRLRPLLIE---GQVIITPDGFDPKDLEREQI 256 (266)
T ss_pred cCcceEEECCcccCCHHHHHHHHhcCCCCEEEEeCCCHHHHHHHHHHHHHHHHcCCc---eEEEECCCCCChHHHHHHHH
Confidence 688 3 7999999999999999999999999988876 99999999999999999999
Q ss_pred hhhhhh
Q psy15215 805 YKIFSK 810 (1432)
Q Consensus 805 ~~~~~~ 810 (1432)
.+++..
T Consensus 257 ~eal~~ 262 (266)
T PHA02031 257 RELLIG 262 (266)
T ss_pred HHHHhc
Confidence 988754
|
|
| >PRK05803 sporulation sigma factor SigK; Reviewed | Back alignment and domain information |
|---|
Probab=99.90 E-value=1.5e-22 Score=227.37 Aligned_cols=214 Identities=29% Similarity=0.390 Sum_probs=171.4
Q ss_pred HHHHHHHHHHHHhhhhcCCChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHH
Q psy15215 1151 PSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMK 1230 (1432)
Q Consensus 1151 ~~I~~~q~~L~~ie~~~~l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~k 1230 (1432)
.+|.=+.+.+..+.....+++.+...++..+..|+.. |++.|+..|.++|+++|.+|++++.+++||+||||+++|+
T Consensus 13 ~~~~~~~~~~~~~~~~~~~~~~~e~~l~~~~~~gd~~---a~~~l~~~y~~~l~~~a~~~~~~~~daeDlvQE~fi~l~~ 89 (233)
T PRK05803 13 KEILFLVSYVKNNSFPQPLSEEEERKYLELMKEGDEE---ARNILIERNLRLVAHIVKKFENTGEDVDDLISIGTIGLIK 89 (233)
T ss_pred HHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHcCCHH---HHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHH
Confidence 3455566677777555567788888999999999888 9999999999999999999999999999999999999999
Q ss_pred HHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHH
Q psy15215 1231 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 1310 (1432)
Q Consensus 1231 av~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v 1310 (1432)
++++|++.++.+|+||+++|+||.+.+++|+..+..
T Consensus 90 ~~~~f~~~~~~~f~~wl~~i~rn~~id~~Rk~~~~~-------------------------------------------- 125 (233)
T PRK05803 90 AIESFDAGKGTKLATYAARCIENEILMHLRNLKKTK-------------------------------------------- 125 (233)
T ss_pred HHHhcCcccCCChHHHHHHHHHHHHHHHHHHHhccc--------------------------------------------
Confidence 999999988889999999999999999999876410
Q ss_pred HHHHHHccCCCCCCCCCCCC---CCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCC
Q psy15215 1311 RKIMKIAKEPVSMESPVGDD---EDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDH 1387 (1432)
Q Consensus 1311 ~~~~~~~~~~~Sl~~~~~~~---~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~ 1387 (1432)
...+++.+.+.+ ...++.+..++. ..+|++..........+..+|+.|||++|.|+.++|+.+..+++
T Consensus 126 --------~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~l~~Lp~~~R~i~~l~y~~~~~e~~ 196 (233)
T PRK05803 126 --------KEVSLQDPIGVDKEGNEISLIDILGSE-EDDVIEQVELKMEVEKLYKKIDILDEREKEVIEMRYGLGNGKEK 196 (233)
T ss_pred --------cCCCccccccCCCCcCcccHHHHccCC-CCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHhCCCCCCCc
Confidence 011222221111 111222333332 23577777777888899999999999999999999964434566
Q ss_pred CHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhh
Q psy15215 1388 TLEEVGKQFDVTRERIRQIEAKALRKLRHPSRY 1420 (1432)
Q Consensus 1388 t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~ 1420 (1432)
|++|||+.+|+|+++|++++++|+++||..+..
T Consensus 197 S~~EIA~~lgis~~tV~~~~~rA~~kLr~~l~~ 229 (233)
T PRK05803 197 TQREIAKALGISRSYVSRIEKRALKKLFKELYR 229 (233)
T ss_pred CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999986543
|
|
| >PRK05803 sporulation sigma factor SigK; Reviewed | Back alignment and domain information |
|---|
Probab=99.90 E-value=4.4e-22 Score=223.71 Aligned_cols=214 Identities=29% Similarity=0.399 Sum_probs=174.4
Q ss_pred hHHHHHHHHHHHhhhhccCCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHH
Q psy15215 360 IPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLM 439 (1432)
Q Consensus 360 ~~~i~~~q~~L~~iE~~~~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~ 439 (1432)
..+|.-+.+++.++.....+++.+...++..++.|+.. |++.|+..|.++|+++|.+|++++.+++||+|||++++|
T Consensus 12 ~~~~~~~~~~~~~~~~~~~~~~~~e~~l~~~~~~gd~~---a~~~l~~~y~~~l~~~a~~~~~~~~daeDlvQE~fi~l~ 88 (233)
T PRK05803 12 VKEILFLVSYVKNNSFPQPLSEEEERKYLELMKEGDEE---ARNILIERNLRLVAHIVKKFENTGEDVDDLISIGTIGLI 88 (233)
T ss_pred HHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHcCCHH---HHHHHHHHhHHHHHHHHHHHhcCCCCHHHHHHHHHHHHH
Confidence 34566777888888666778888889999999999988 999999999999999999999999999999999999999
Q ss_pred HHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHH
Q psy15215 440 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEK 519 (1432)
Q Consensus 440 kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~ 519 (1432)
+++.+|++.++.+|.||+++|++|.+.+++|+..+..
T Consensus 89 ~~~~~f~~~~~~~f~~wl~~i~rn~~id~~Rk~~~~~------------------------------------------- 125 (233)
T PRK05803 89 KAIESFDAGKGTKLATYAARCIENEILMHLRNLKKTK------------------------------------------- 125 (233)
T ss_pred HHHHhcCcccCCChHHHHHHHHHHHHHHHHHHHhccc-------------------------------------------
Confidence 9999999988889999999999999999999775410
Q ss_pred HHHHHHHccCCCCCCCCCC-CC--CCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCC
Q psy15215 520 IRKIMKIAKEPVSMESPVG-DD--EDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSD 596 (1432)
Q Consensus 520 v~~~~~~~~~~~sl~~~~~-~~--~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~ 596 (1432)
...+++.+.+ ++ ...++.+..++. ..+|.+..........+..+|+.||+++|.|+.++|+.+...+
T Consensus 126 ---------~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~~l~~Lp~~~R~i~~l~y~~~~~e~ 195 (233)
T PRK05803 126 ---------KEVSLQDPIGVDKEGNEISLIDILGSE-EDDVIEQVELKMEVEKLYKKIDILDEREKEVIEMRYGLGNGKE 195 (233)
T ss_pred ---------cCCCccccccCCCCcCcccHHHHccCC-CCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHhCCCCCCC
Confidence 0112222211 11 111222333332 2357777777788889999999999999999999996443456
Q ss_pred CcHHHHHhhcccchhHHHHHHHHHHHHHHHHHH
Q psy15215 597 HTLEEVGKQFDVTRERIRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 597 ~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~ 629 (1432)
+|++|||+.+|+|+++|+++.++|+++|+..+.
T Consensus 196 ~S~~EIA~~lgis~~tV~~~~~rA~~kLr~~l~ 228 (233)
T PRK05803 196 KTQREIAKALGISRSYVSRIEKRALKKLFKELY 228 (233)
T ss_pred cCHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHH
Confidence 699999999999999999999999999998875
|
|
| >PRK08624 hypothetical protein; Provisional | Back alignment and domain information |
|---|
Probab=99.89 E-value=5.1e-23 Score=234.05 Aligned_cols=113 Identities=19% Similarity=0.163 Sum_probs=94.3
Q ss_pred hhcC-CCcccccccccCCCCCchhhHHHHHHHHHHhhhccEEEEee-----eeeeeeeeeeCCCC---C----C--CCCC
Q psy15215 644 ACSS-DSSNHNEHVTNNNFPPGFNIFHKLLRILQEYLESFLISFFL-----RNHGISGFLLTTPD---P----V--HETP 708 (1432)
Q Consensus 644 ~l~~-l~~~~~~~f~~Gyap~~~~~l~~~~~~~~~~~~~fri~fpi-----r~igf~gR~~~~~~---~----s--~et~ 708 (1432)
|+.. +|++|+++|+|||+| |+|++| ||||| |||||+||++++.. | + .+|+
T Consensus 158 ~l~RGIs~etik~F~lGy~~-------------D~Fr~R--ImFPI~d~~GrvIGFgGR~l~~~~~~~~KY~p~y~Nst~ 222 (373)
T PRK08624 158 WLDEGISEKTQKYWEIKFYL-------------DVISQR--IIIPHRDESGELIGIRGRLLDKELVDKNKYFPIYVNDTG 222 (373)
T ss_pred HHHcCCCHHHHHHhCCCccc-------------cccCCe--eEEEEECCCCCEEEEeCeEcCCCccccccccccCCCCcc
Confidence 5544 999999999999997 567777 99999 79999999998642 2 2 2344
Q ss_pred C-cccCccccCchHhHHhhccCCeEEEEecchhHH---HHhhhCC--------------------C-CCeEEEEecC---
Q psy15215 709 L-FHKSNELYGLFEAKNAIGKSGYVLITEGYMDVI---GLSQFGF--------------------F-ANSSYTCFDG--- 760 (1432)
Q Consensus 709 ~-f~K~~~Ly~~~~a~~~~~~~~~~~~vEG~~D~i---a~~~~g~--------------------~-~~~i~~~~D~--- 760 (1432)
+ |+||++|||+|.|+.+|++.+.+|||||||||| ++|++|- + .++|||||||
T Consensus 223 ~~F~Kg~~LYGl~~Ak~~irk~~~vIivEGymDVI~~~a~~~~G~naVA~lGTalT~~q~~lL~r~~~~~Vil~~Dgd~~ 302 (373)
T PRK08624 223 YNHPKGKILYGLWQNKKYIKEKKKVIIVESEKSVLFSDKFYGEGNFVVAICGSNISEVQAEKLLRLGVEEVTIALDKEYM 302 (373)
T ss_pred cccccchhhcCHHHHHHHhccCCeEEEEeccHHHHHHHHHhcCCCcEEECChhhCCHHHHHHHHhcCCCcEEEEecCCcc
Confidence 4 999999999999999999999999999999999 8899983 3 4699999999
Q ss_pred cHHHHHHHHHH
Q psy15215 761 DQAGRRAARRA 771 (1432)
Q Consensus 761 D~aG~~a~~~~ 771 (1432)
|.+|-.+....
T Consensus 303 d~~~~~~~~~~ 313 (373)
T PRK08624 303 DVTEEEVYEYI 313 (373)
T ss_pred ccchHHHHHHH
Confidence 56666555444
|
|
| >TIGR02846 spore_sigmaK RNA polymerase sigma-K factor | Back alignment and domain information |
|---|
Probab=99.88 E-value=2.6e-21 Score=216.48 Aligned_cols=193 Identities=29% Similarity=0.435 Sum_probs=153.8
Q ss_pred CChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHH
Q psy15215 1169 LPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 1248 (1432)
Q Consensus 1169 l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~ 1248 (1432)
+++.+...++.+++.|+.. |++.|+..|.+.|+++|.+|++++.+++||+||+|+++|+++++|++..+.+|.||++
T Consensus 30 ~~~~~~~~li~~~~~gd~~---af~~l~~~y~~~v~~~~~~~~~~~~dAEDlvQevfi~l~~~~~~~~~~~~~~f~twl~ 106 (227)
T TIGR02846 30 LSEEEEKKYLDRLKEGDEE---ARNVLIERNLRLVAHIVKKFSNTGEDVDDLISIGTIGLIKAIDSFDPDKGTRLATYAA 106 (227)
T ss_pred CCHHHHHHHHHHHHcCCHH---HHHHHHHHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhCCcccCCChHHHHH
Confidence 5566778888999999888 9999999999999999999999999999999999999999999999988888999999
Q ss_pred HHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCC
Q psy15215 1249 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVG 1328 (1432)
Q Consensus 1249 ~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~ 1328 (1432)
+|++|.|.+++|+..+..+ ..+++.+.+
T Consensus 107 ~i~rN~~~d~~Rk~~r~~~----------------------------------------------------~~~~~~~~~ 134 (227)
T TIGR02846 107 RCIENEILMHLRALKKTKG----------------------------------------------------EVSLQDPIG 134 (227)
T ss_pred HHHHHHHHHHHHHHhcccc----------------------------------------------------ceecccccc
Confidence 9999999999998765210 011111111
Q ss_pred CCC---CCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHH
Q psy15215 1329 DDE---DSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQ 1405 (1432)
Q Consensus 1329 ~~~---~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq 1405 (1432)
.+. ...+.+...+ ...+|.+..........|..+|+.|||++|.|+.|+|+.+...++|++|||+.+|+|+++|++
T Consensus 135 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~i~~L~~~~r~il~l~y~~~~~e~~S~~EIAe~lgis~~tV~~ 213 (227)
T TIGR02846 135 VDKEGNEISLIDILGS-DGDSVIEQVELNLEIKKLYKKLSVLDGREREVIEMRYGLGDGRRKTQREIAKILGISRSYVSR 213 (227)
T ss_pred CCcccCcccHHHHhcC-CCCChHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHcCCCCCCcCHHHHHHHHCCCHHHHHH
Confidence 000 0111121111 123566777777777889999999999999999999974433445999999999999999999
Q ss_pred HHHHHHHHhhCc
Q psy15215 1406 IEAKALRKLRHP 1417 (1432)
Q Consensus 1406 ~~~rAl~kLr~~ 1417 (1432)
++++|+++||+.
T Consensus 214 ~~~rAl~~Lr~~ 225 (227)
T TIGR02846 214 IEKRALMKLYKE 225 (227)
T ss_pred HHHHHHHHHHHH
Confidence 999999999974
|
The sporulation-specific transcription factor sigma-K (also called sigma-27) is expressed in the mother cell compartment of endospore-forming bacteria such as Bacillus subtilis. Like its close homolog sigma-E (sigma-29) (see TIGR02835), also specific to the mother cell compartment, it must be activated by a proteolytic cleavage. Note that in Bacillus subtilis (and apparently also Clostridium tetani), but not in other endospore forming species such as Bacillus anthracis, the sigK gene is generated by a non-germline (mother cell only) chromosomal rearrangement that recombines coding regions for the N-terminal and C-terminal regions of sigma-K. |
| >PRK08301 sporulation sigma factor SigE; Reviewed | Back alignment and domain information |
|---|
Probab=99.87 E-value=4.7e-21 Score=215.86 Aligned_cols=194 Identities=26% Similarity=0.449 Sum_probs=149.9
Q ss_pred CChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHH
Q psy15215 1169 LPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 1248 (1432)
Q Consensus 1169 l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~ 1248 (1432)
++......++.+++.|+.. |++.++..|.++|+++|++|++++.+++|++||+|+++|+++++|++..+.+|+||++
T Consensus 34 ~~~~~~~~L~~~~~~gd~~---af~~l~~~y~~~l~~~a~~~~~~~~~AeDlvQevfl~l~~~~~~f~~~~~~~f~twl~ 110 (234)
T PRK08301 34 LSKEEEEYLLNKLPKGDEA---VRSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGLIKAVNTFNPEKKIKLATYAS 110 (234)
T ss_pred CCHHHHHHHHHHHHccCHH---HHHHHHHHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHhcCcccCCCHHHHHH
Confidence 4455677888999999988 9999999999999999999999999999999999999999999999887778999999
Q ss_pred HHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCC
Q psy15215 1249 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVG 1328 (1432)
Q Consensus 1249 ~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~ 1328 (1432)
++++|.|.+++|++.+.. ...+++.+..
T Consensus 111 ~iarn~~~d~lRk~~~~~----------------------------------------------------~~~~~~~~~~ 138 (234)
T PRK08301 111 RCIENEILMYLRRNNKVK----------------------------------------------------AEVSFDEPLN 138 (234)
T ss_pred HHHHHHHHHHHHHHhccc----------------------------------------------------cccccccccc
Confidence 999999999999876410 0112222211
Q ss_pred CC--CC-CCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHH
Q psy15215 1329 DD--ED-SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQ 1405 (1432)
Q Consensus 1329 ~~--~~-~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq 1405 (1432)
.+ +. ....+...+. ...+............+..+|++|||++|.|+.|+|+.....++|++|||+.||+|.+||++
T Consensus 139 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~al~~Lp~~~R~v~~L~y~l~~~eg~s~~EIA~~lgis~~tVk~ 217 (234)
T PRK08301 139 IDWDGNELLLSDVLGTD-NDIIYKDIEDEVDRKLLKKALKKLSDREKQIMELRFGLNGGEEKTQKEVADMLGISQSYISR 217 (234)
T ss_pred cccCCCcccHHHhccCc-ccchHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHhccCCCCCCCHHHHHHHHCCCHHHHHH
Confidence 00 00 0011111111 12334445555567789999999999999999999943222334999999999999999999
Q ss_pred HHHHHHHHhhCch
Q psy15215 1406 IEAKALRKLRHPS 1418 (1432)
Q Consensus 1406 ~~~rAl~kLr~~~ 1418 (1432)
+++||+++||+..
T Consensus 218 ~~~rA~~~Lr~~l 230 (234)
T PRK08301 218 LEKRIIKRLKKEI 230 (234)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999999854
|
|
| >TIGR02846 spore_sigmaK RNA polymerase sigma-K factor | Back alignment and domain information |
|---|
Probab=99.86 E-value=1.1e-20 Score=211.33 Aligned_cols=194 Identities=29% Similarity=0.424 Sum_probs=155.3
Q ss_pred CChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHH
Q psy15215 379 LPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 458 (1432)
Q Consensus 379 l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~ 458 (1432)
+++.+...++.+++.|+.. |++.++..|.+.|+++|.+|.++..+++||+||+|+++|+++++|++..+.+|.||++
T Consensus 30 ~~~~~~~~li~~~~~gd~~---af~~l~~~y~~~v~~~~~~~~~~~~dAEDlvQevfi~l~~~~~~~~~~~~~~f~twl~ 106 (227)
T TIGR02846 30 LSEEEEKKYLDRLKEGDEE---ARNVLIERNLRLVAHIVKKFSNTGEDVDDLISIGTIGLIKAIDSFDPDKGTRLATYAA 106 (227)
T ss_pred CCHHHHHHHHHHHHcCCHH---HHHHHHHHhHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHhCCcccCCChHHHHH
Confidence 5677788899999999988 9999999999999999999999999999999999999999999999988889999999
Q ss_pred HHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCC
Q psy15215 459 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVG 538 (1432)
Q Consensus 459 ~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~ 538 (1432)
+|++|.|.+++|+..+..+ ..+++...+
T Consensus 107 ~i~rN~~~d~~Rk~~r~~~----------------------------------------------------~~~~~~~~~ 134 (227)
T TIGR02846 107 RCIENEILMHLRALKKTKG----------------------------------------------------EVSLQDPIG 134 (227)
T ss_pred HHHHHHHHHHHHHHhcccc----------------------------------------------------ceecccccc
Confidence 9999999999998765210 011111111
Q ss_pred CC---CCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHH
Q psy15215 539 DD---EDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQ 615 (1432)
Q Consensus 539 ~~---~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~ 615 (1432)
.+ ....+.+...+ ...+|.+.....+....|..+++.|||++|.||.|+|+.+...++|++|||+.+|+|+++|++
T Consensus 135 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~i~~L~~~~r~il~l~y~~~~~e~~S~~EIAe~lgis~~tV~~ 213 (227)
T TIGR02846 135 VDKEGNEISLIDILGS-DGDSVIEQVELNLEIKKLYKKLSVLDGREREVIEMRYGLGDGRRKTQREIAKILGISRSYVSR 213 (227)
T ss_pred CCcccCcccHHHHhcC-CCCChHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHcCCCCCCcCHHHHHHHHCCCHHHHHH
Confidence 00 01111121111 123567777777777889999999999999999999974433445999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q psy15215 616 IEAKALRKLRPLA 628 (1432)
Q Consensus 616 ~~~rAl~kLr~~l 628 (1432)
+.++|+++|++.+
T Consensus 214 ~~~rAl~~Lr~~~ 226 (227)
T TIGR02846 214 IEKRALMKLYKEL 226 (227)
T ss_pred HHHHHHHHHHHHh
Confidence 9999999999764
|
The sporulation-specific transcription factor sigma-K (also called sigma-27) is expressed in the mother cell compartment of endospore-forming bacteria such as Bacillus subtilis. Like its close homolog sigma-E (sigma-29) (see TIGR02835), also specific to the mother cell compartment, it must be activated by a proteolytic cleavage. Note that in Bacillus subtilis (and apparently also Clostridium tetani), but not in other endospore forming species such as Bacillus anthracis, the sigK gene is generated by a non-germline (mother cell only) chromosomal rearrangement that recombines coding regions for the N-terminal and C-terminal regions of sigma-K. |
| >PRK08301 sporulation sigma factor SigE; Reviewed | Back alignment and domain information |
|---|
Probab=99.86 E-value=2.3e-20 Score=210.25 Aligned_cols=196 Identities=26% Similarity=0.443 Sum_probs=152.3
Q ss_pred CChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHH
Q psy15215 379 LPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 458 (1432)
Q Consensus 379 l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~ 458 (1432)
++......++.+++.||.. |+..++..|.++|+++|++|++.+.+++|++||+|+++|+++++|++..+++|.||++
T Consensus 34 ~~~~~~~~L~~~~~~gd~~---af~~l~~~y~~~l~~~a~~~~~~~~~AeDlvQevfl~l~~~~~~f~~~~~~~f~twl~ 110 (234)
T PRK08301 34 LSKEEEEYLLNKLPKGDEA---VRSLLIERNLRLVVYIARKFENTGINIEDLISIGTIGLIKAVNTFNPEKKIKLATYAS 110 (234)
T ss_pred CCHHHHHHHHHHHHccCHH---HHHHHHHHhHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHHHHhcCcccCCCHHHHHH
Confidence 5556778899999999998 9999999999999999999999999999999999999999999999887788999999
Q ss_pred HHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCC
Q psy15215 459 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVG 538 (1432)
Q Consensus 459 ~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~ 538 (1432)
++++|.|.+++|++.+.. ...+++.+..
T Consensus 111 ~iarn~~~d~lRk~~~~~----------------------------------------------------~~~~~~~~~~ 138 (234)
T PRK08301 111 RCIENEILMYLRRNNKVK----------------------------------------------------AEVSFDEPLN 138 (234)
T ss_pred HHHHHHHHHHHHHHhccc----------------------------------------------------cccccccccc
Confidence 999999999999876420 0011222111
Q ss_pred CC--CC-CCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHH
Q psy15215 539 DD--ED-SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQ 615 (1432)
Q Consensus 539 ~~--~~-~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~ 615 (1432)
.+ +. ..+.+..++. ...+............+..+|++||+++|.|+.|+|+.....++|++|||+.+|+|+++|++
T Consensus 139 ~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~~al~~Lp~~~R~v~~L~y~l~~~eg~s~~EIA~~lgis~~tVk~ 217 (234)
T PRK08301 139 IDWDGNELLLSDVLGTD-NDIIYKDIEDEVDRKLLKKALKKLSDREKQIMELRFGLNGGEEKTQKEVADMLGISQSYISR 217 (234)
T ss_pred cccCCCcccHHHhccCc-ccchHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHhccCCCCCCCHHHHHHHHCCCHHHHHH
Confidence 00 00 0111111111 12344445555567789999999999999999999953222334999999999999999999
Q ss_pred HHHHHHHHHHHHHHH
Q psy15215 616 IEAKALRKLRPLAHD 630 (1432)
Q Consensus 616 ~~~rAl~kLr~~l~~ 630 (1432)
+.++|+++||+.+..
T Consensus 218 ~~~rA~~~Lr~~l~~ 232 (234)
T PRK08301 218 LEKRIIKRLKKEINK 232 (234)
T ss_pred HHHHHHHHHHHHHHh
Confidence 999999999988753
|
|
| >TIGR02835 spore_sigmaE RNA polymerase sigma-E factor | Back alignment and domain information |
|---|
Probab=99.85 E-value=2.8e-20 Score=209.08 Aligned_cols=191 Identities=28% Similarity=0.472 Sum_probs=147.0
Q ss_pred hhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHH
Q psy15215 1172 NDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 1251 (1432)
Q Consensus 1172 ~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~i 1251 (1432)
.+...++.++..|+.. |++.++..|.+.|+++|++|++++.+++|++||+|+++|+++++|++..+.+|+||+++++
T Consensus 37 ~~~~~l~~~~~~~d~~---a~~~l~~~y~~~l~~~~~~~~~~~~~AEDlvQE~fl~l~~~~~~f~~~~~~~f~~wl~~ia 113 (234)
T TIGR02835 37 EEEEALLQKLTQGDES---AKSTLIERNLRLVVYIARKFENTGIGIEDLVSIGTIGLIKAVNTFNPSKKIKLATYASRCI 113 (234)
T ss_pred HHHHHHHHHHHcCCHH---HHHHHHHHhHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHhCcccCCCHHHHHHHHH
Confidence 3455677788889887 9999999999999999999999999999999999999999999999887778999999999
Q ss_pred HHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCC--
Q psy15215 1252 RQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGD-- 1329 (1432)
Q Consensus 1252 r~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~-- 1329 (1432)
+|.+.+++|++.+.. ...+++.+...
T Consensus 114 rN~~~d~~Rk~~r~~----------------------------------------------------~~~~~~~~~~~~~ 141 (234)
T TIGR02835 114 ENEILMYLRRNNKTR----------------------------------------------------SEVSFDEPLNVDW 141 (234)
T ss_pred HHHHHHHHHHhcccc----------------------------------------------------CcccccccccCCC
Confidence 999999999876510 01111211110
Q ss_pred CCCC-CcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHH
Q psy15215 1330 DEDS-HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEA 1408 (1432)
Q Consensus 1330 ~~~~-~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~ 1408 (1432)
++.. ...+.. +.....+.+..........+..+|+.||+++|.|+.|+|+.....++|++|||+.+|+|.+||+++++
T Consensus 142 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~l~~ai~~Lp~~~R~ii~L~~~l~~~eg~s~~EIA~~Lgis~~tV~~~l~ 220 (234)
T TIGR02835 142 DGNELLLSDVL-GTDSDIVYKYLEEEVDRELLRKALAKLNDREKKIMELRFGLVGGTEKTQKEVADMLGISQSYISRLEK 220 (234)
T ss_pred CCCcchHHHhc-CCCCCcHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHccCCCCCCCHHHHHHHHCCCHHHHHHHHH
Confidence 0000 001111 11112344455555667789999999999999999999963222344999999999999999999999
Q ss_pred HHHHHhhCch
Q psy15215 1409 KALRKLRHPS 1418 (1432)
Q Consensus 1409 rAl~kLr~~~ 1418 (1432)
+|+++||+..
T Consensus 221 ra~~~LR~~l 230 (234)
T TIGR02835 221 RILKRLKKEI 230 (234)
T ss_pred HHHHHHHHHh
Confidence 9999999854
|
Members of this family comprise the Firmicutes lineage endospore formation-specific sigma factor SigE, also called SpoIIGB and sigma-29. As characterized in Bacillus subtilis, this protein is synthesized as a precursor, specifically in the mother cell compartment, and must cleaved by the SpoIIGA protein to be made active. |
| >TIGR02835 spore_sigmaE RNA polymerase sigma-E factor | Back alignment and domain information |
|---|
Probab=99.84 E-value=1.2e-19 Score=203.91 Aligned_cols=194 Identities=27% Similarity=0.451 Sum_probs=149.3
Q ss_pred ChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHH
Q psy15215 380 PLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 459 (1432)
Q Consensus 380 ~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~ 459 (1432)
+..+...++..+..|+.. |+..++..|.+.|+++|++|++++.+++||+||+++++|+++++|++..+++|+||++.
T Consensus 35 ~~~~~~~l~~~~~~~d~~---a~~~l~~~y~~~l~~~~~~~~~~~~~AEDlvQE~fl~l~~~~~~f~~~~~~~f~~wl~~ 111 (234)
T TIGR02835 35 TGEEEEALLQKLTQGDES---AKSTLIERNLRLVVYIARKFENTGIGIEDLVSIGTIGLIKAVNTFNPSKKIKLATYASR 111 (234)
T ss_pred CHHHHHHHHHHHHcCCHH---HHHHHHHHhHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHhCcccCCCHHHHHHH
Confidence 344556778888999988 99999999999999999999999999999999999999999999998877889999999
Q ss_pred HHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCC
Q psy15215 460 WIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGD 539 (1432)
Q Consensus 460 ~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~ 539 (1432)
+++|.+.++++++.+.. ...+++.++..
T Consensus 112 iarN~~~d~~Rk~~r~~----------------------------------------------------~~~~~~~~~~~ 139 (234)
T TIGR02835 112 CIENEILMYLRRNNKTR----------------------------------------------------SEVSFDEPLNV 139 (234)
T ss_pred HHHHHHHHHHHHhcccc----------------------------------------------------CcccccccccC
Confidence 99999999999876520 00111111110
Q ss_pred --CCC-CCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHH
Q psy15215 540 --DED-SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQI 616 (1432)
Q Consensus 540 --~~~-~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~ 616 (1432)
++. ....+.. +.....+.+..........+..+|++||+++|.|+.|+|++....++|++|||+.+|+|+++|+++
T Consensus 140 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~l~~ai~~Lp~~~R~ii~L~~~l~~~eg~s~~EIA~~Lgis~~tV~~~ 218 (234)
T TIGR02835 140 DWDGNELLLSDVL-GTDSDIVYKYLEEEVDRELLRKALAKLNDREKKIMELRFGLVGGTEKTQKEVADMLGISQSYISRL 218 (234)
T ss_pred CCCCCcchHHHhc-CCCCCcHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHccCCCCCCCHHHHHHHHCCCHHHHHHH
Confidence 000 0011111 111123344455555677899999999999999999999632223449999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q psy15215 617 EAKALRKLRPLAH 629 (1432)
Q Consensus 617 ~~rAl~kLr~~l~ 629 (1432)
.++|+.+||+.+.
T Consensus 219 l~ra~~~LR~~l~ 231 (234)
T TIGR02835 219 EKRILKRLKKEIN 231 (234)
T ss_pred HHHHHHHHHHHhh
Confidence 9999999998764
|
Members of this family comprise the Firmicutes lineage endospore formation-specific sigma factor SigE, also called SpoIIGB and sigma-29. As characterized in Bacillus subtilis, this protein is synthesized as a precursor, specifically in the mother cell compartment, and must cleaved by the SpoIIGA protein to be made active. |
| >PRK08295 RNA polymerase factor sigma-70; Validated | Back alignment and domain information |
|---|
Probab=99.84 E-value=6.5e-20 Score=203.02 Aligned_cols=193 Identities=22% Similarity=0.321 Sum_probs=152.4
Q ss_pred HHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHH
Q psy15215 1174 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 1253 (1432)
Q Consensus 1174 ~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~ 1253 (1432)
...++..++.|+.. |++.|+..|.++|+++|.+|++++.+++|++||+|++||+++.+|++.++.+|.||++.++++
T Consensus 11 ~~~l~~~~~~~d~~---a~~~l~~~y~~~v~~~~~~~~~~~~~aeDlvQe~~l~l~~~~~~~~~~~~~~f~twl~~i~~n 87 (208)
T PRK08295 11 DEELVELARSGDKE---ALEYLIEKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDYDKDKLSSFKSFAELCITR 87 (208)
T ss_pred hHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCcccCCCHHHHHHHHHHH
Confidence 34567788889888 999999999999999999999999999999999999999999999988777999999999999
Q ss_pred HHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCC-CCC
Q psy15215 1254 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGD-DED 1332 (1432)
Q Consensus 1254 ~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~-~~~ 1332 (1432)
.+.+++++..+..+.|. ....|++.+..+ +.+
T Consensus 88 ~~~d~~r~~~r~~~~~~-----------------------------------------------~~~~s~~~~~~~~~~~ 120 (208)
T PRK08295 88 QIITAIKTANRQKHIPL-----------------------------------------------NSYVSLDKPIYDEESD 120 (208)
T ss_pred HHHHHHHHhhhhccccc-----------------------------------------------cceeecCCcccCCccc
Confidence 99999997655222111 011233433222 222
Q ss_pred CCcCcccccCCCCChHHHHHHHHHHHHH-HHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHH
Q psy15215 1333 SHLGDFIEDENMLAPSDAALNASMRSVV-KDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKAL 1411 (1432)
Q Consensus 1333 ~~~~d~i~d~~~~~p~~~~~~~~~~~~l-~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl 1411 (1432)
..+.+.+.+....+|++.+........+ ..+++.||++++.||.+ |+.|+ |++|||+.||+|+++|+++++||+
T Consensus 121 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~L~~~~r~vl~l-~~e~~----s~~EIA~~lgis~~tV~~~l~rar 195 (208)
T PRK08295 121 RTLLDVISEAKVTDPEELIISKEELEDIEEKIEELLSELEKEVLEL-YLDGK----SYQEIAEELNRHVKSIDNALQRVK 195 (208)
T ss_pred hhHHHHhcCcccCCHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHH-HHccC----CHHHHHHHHCCCHHHHHHHHHHHH
Confidence 2333334444445787777666555565 56779999999999999 88887 999999999999999999999999
Q ss_pred HHhhCchhhh
Q psy15215 1412 RKLRHPSRYY 1421 (1432)
Q Consensus 1412 ~kLr~~~~~~ 1421 (1432)
++||+.....
T Consensus 196 ~~Lr~~l~~~ 205 (208)
T PRK08295 196 RKLEKYLENR 205 (208)
T ss_pred HHHHHHHHhh
Confidence 9999966543
|
|
| >PRK09648 RNA polymerase sigma factor SigD; Reviewed | Back alignment and domain information |
|---|
Probab=99.83 E-value=1.7e-19 Score=196.56 Aligned_cols=178 Identities=20% Similarity=0.313 Sum_probs=149.3
Q ss_pred CChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCC----CCChhHHHHHHHHHHHHHHHhccccCCCcch
Q psy15215 1169 LPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDR----GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 1244 (1432)
Q Consensus 1169 l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~----~~~~~DLiQEg~igl~kav~kfd~~~g~~Fs 1244 (1432)
.++.++..++..++.|+.. |+..|+..|.+.|+++|.+++++ +.+++|++||+|+++|+++.+|+.. +.+|.
T Consensus 6 ~~~~~~~~l~~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~~~~~~~~~~~aeDlvQe~fi~l~~~~~~~~~~-~~~~~ 81 (189)
T PRK09648 6 DTGEELDALVAEAVAGDRR---ALREVLEIIRPLVVRYCRARLGGVERPGLSADDVAQEVCLAVITALPRYRDQ-GRPFL 81 (189)
T ss_pred CCchHHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhcccccCCCCHHHHHHHHHHHHHHHHHHHhcc-CCcHH
Confidence 4667888999999999988 99999999999999999998765 4689999999999999999999864 45899
Q ss_pred hHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCC
Q psy15215 1245 TYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSME 1324 (1432)
Q Consensus 1245 tya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~ 1324 (1432)
||++.+++|.+.++++++.+....+ .+
T Consensus 82 ~wl~~i~~n~~~d~~r~~~r~~~~~-----------------------------------------------------~~ 108 (189)
T PRK09648 82 AFVYGIAAHKVADAHRAAGRDKAVP-----------------------------------------------------TE 108 (189)
T ss_pred HHHHHHHHHHHHHHHHHhCCCcccc-----------------------------------------------------cc
Confidence 9999999999999999877521100 00
Q ss_pred CCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHH
Q psy15215 1325 SPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIR 1404 (1432)
Q Consensus 1325 ~~~~~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vr 1404 (1432)
. ..+... ...+|++.....+....+..+|..|||++|+||.++|+.|+ |++|||+.||+|..+|+
T Consensus 109 ~---------~~~~~~--~~~~~~~~~~~~e~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~EIA~~lgis~~tV~ 173 (189)
T PRK09648 109 E---------VPERPS--DDAGPEERALRSESSNRMRELLDTLPEKQREILILRVVVGL----SAEETAEAVGSTPGAVR 173 (189)
T ss_pred c---------cccccc--cCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHH
Confidence 0 000000 12367777777788888999999999999999999999888 99999999999999999
Q ss_pred HHHHHHHHHhhCch
Q psy15215 1405 QIEAKALRKLRHPS 1418 (1432)
Q Consensus 1405 q~~~rAl~kLr~~~ 1418 (1432)
++++||+++||+..
T Consensus 174 ~~l~Ra~~~Lr~~l 187 (189)
T PRK09648 174 VAQHRALARLRAEI 187 (189)
T ss_pred HHHHHHHHHHHHHh
Confidence 99999999999854
|
|
| >PRK09646 RNA polymerase sigma factor SigK; Reviewed | Back alignment and domain information |
|---|
Probab=99.83 E-value=1.4e-19 Score=197.76 Aligned_cols=180 Identities=16% Similarity=0.187 Sum_probs=148.0
Q ss_pred CChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHH
Q psy15215 1169 LPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 1248 (1432)
Q Consensus 1169 l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~ 1248 (1432)
+...+...++..+.+|+.. |+++|+..|.++|+++|.+|+++..+++|++||+|+++|+++++|++.+| +|.+|++
T Consensus 12 ~~~~~~~~li~~~~~g~~~---a~~~l~~~y~~~l~~~~~~~~~~~~dAeDivQe~fi~l~~~~~~~~~~~~-~~~~wl~ 87 (194)
T PRK09646 12 AESPDLDALLRRVARGDQD---AFAELYDRTSSRVYGLVRRVLRDPGYSEETTQEVYLEVWRTASRFDPARG-SALAWLL 87 (194)
T ss_pred CCcccHHHHHHHHHccCHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhhhcCcccc-cHHHHHH
Confidence 4446678899999999888 99999999999999999999999999999999999999999999998665 7999999
Q ss_pred HHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCC
Q psy15215 1249 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVG 1328 (1432)
Q Consensus 1249 ~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~ 1328 (1432)
.+++|.+.+++|++.+..+.- .+. .
T Consensus 88 ~ia~n~~~d~~r~~~~~~~~~---------------------------------------------------~~~----~ 112 (194)
T PRK09646 88 TLAHRRAVDRVRSEQAASQRE---------------------------------------------------VRY----G 112 (194)
T ss_pred HHHHHHHHHHHHhhccccccc---------------------------------------------------ccc----c
Confidence 999999999999876421100 000 0
Q ss_pred CCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHH
Q psy15215 1329 DDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEA 1408 (1432)
Q Consensus 1329 ~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~ 1408 (1432)
.. +. .....++.+.....+....+..+|+.||+++|.||.|+|+.|+ |++|||+.||+|.++|+++++
T Consensus 113 ~~------~~--~~~~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~~~----s~~EIA~~Lgis~~tVk~~l~ 180 (194)
T PRK09646 113 AR------NV--DPAFDQVAEEVEARLERERVRDCLDALTDTQRESVTLAYYGGL----TYREVAERLAVPLGTVKTRMR 180 (194)
T ss_pred cc------cc--cccccchHHHHHHHhHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHhCCChHhHHHHHH
Confidence 00 00 0011234445555566788999999999999999999999888 999999999999999999999
Q ss_pred HHHHHhhCchh
Q psy15215 1409 KALRKLRHPSR 1419 (1432)
Q Consensus 1409 rAl~kLr~~~~ 1419 (1432)
||+++||....
T Consensus 181 ra~~~Lr~~l~ 191 (194)
T PRK09646 181 DGLIRLRDCLG 191 (194)
T ss_pred HHHHHHHHHhc
Confidence 99999998653
|
|
| >PRK05602 RNA polymerase sigma factor; Reviewed | Back alignment and domain information |
|---|
Probab=99.82 E-value=1.9e-19 Score=195.63 Aligned_cols=172 Identities=16% Similarity=0.223 Sum_probs=144.8
Q ss_pred HHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHH
Q psy15215 1174 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 1253 (1432)
Q Consensus 1174 ~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~ 1253 (1432)
...++..++.|+.. |++.|+..|.++|+++|++|++++.+++|++||+|+++|+++.+|++. +.+|.+|++.+++|
T Consensus 7 ~~~l~~~~~~~d~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeDlvQe~fi~l~~~~~~~~~~-~~~f~~wl~~ia~n 82 (186)
T PRK05602 7 DEELLARVAAGDPA---AFRVLVARKLPRLLALATRMLGDPAEAEDVAQETFLRIWKQAPSWRPG-EARFDTWLHRVVLN 82 (186)
T ss_pred HHHHHHHHHCcCHH---HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHhhhcCCC-CCcHHHHHHHHHHH
Confidence 45688889999888 999999999999999999999999999999999999999999999975 35899999999999
Q ss_pred HHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCC
Q psy15215 1254 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS 1333 (1432)
Q Consensus 1254 ~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~ 1333 (1432)
.+.+++|++... + .+. . ..
T Consensus 83 ~~~d~~R~~~~~---~-----------------------------------------------------~~~-~---~~- 101 (186)
T PRK05602 83 LCYDRLRRRREV---P-----------------------------------------------------VED-A---PD- 101 (186)
T ss_pred HHHHHHHhcCCC---C-----------------------------------------------------ccc-c---cc-
Confidence 999999976531 0 000 0 00
Q ss_pred CcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHH
Q psy15215 1334 HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRK 1413 (1432)
Q Consensus 1334 ~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~k 1413 (1432)
..+ ....|+..+...+....+..+|+.||+++|.||.|+|+.|+ |++|||+.||+|+.+|+++++||+++
T Consensus 102 -----~~~-~~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~EIA~~lgis~~tV~~~l~Rar~~ 171 (186)
T PRK05602 102 -----VPD-PAPGPDAGLEARQRARRVEQALAALPERQREAIVLQYYQGL----SNIEAAAVMDISVDALESLLARGRRA 171 (186)
T ss_pred -----cCC-CCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHhhHHHhcCC----CHHHHHHHhCcCHHHHHHHHHHHHHH
Confidence 001 11245666666677788999999999999999999999888 99999999999999999999999999
Q ss_pred hhCchhh
Q psy15215 1414 LRHPSRY 1420 (1432)
Q Consensus 1414 Lr~~~~~ 1420 (1432)
||+....
T Consensus 172 Lr~~l~~ 178 (186)
T PRK05602 172 LRAQLAD 178 (186)
T ss_pred HHHHHHh
Confidence 9996554
|
|
| >PRK08295 RNA polymerase factor sigma-70; Validated | Back alignment and domain information |
|---|
Probab=99.82 E-value=3.8e-19 Score=196.89 Aligned_cols=191 Identities=23% Similarity=0.335 Sum_probs=151.3
Q ss_pred HHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHH
Q psy15215 384 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 463 (1432)
Q Consensus 384 ~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~ 463 (1432)
...++..++.||.. |+..|+..|.++|+++|.+|+++..+++||+||++++||+++.+|++.++.+|.||++.++++
T Consensus 11 ~~~l~~~~~~~d~~---a~~~l~~~y~~~v~~~~~~~~~~~~~aeDlvQe~~l~l~~~~~~~~~~~~~~f~twl~~i~~n 87 (208)
T PRK08295 11 DEELVELARSGDKE---ALEYLIEKYKNFVRAKARSYFLIGADREDIVQEGMIGLYKAIRDYDKDKLSSFKSFAELCITR 87 (208)
T ss_pred hHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHHHhCcccCCCHHHHHHHHHHH
Confidence 34567788899988 999999999999999999999999999999999999999999999988777999999999999
Q ss_pred HHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCC-CCC
Q psy15215 464 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGD-DED 542 (1432)
Q Consensus 464 ~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~-~~~ 542 (1432)
.+.+++++..+..+.|. ....|.+.+..+ +.+
T Consensus 88 ~~~d~~r~~~r~~~~~~-----------------------------------------------~~~~s~~~~~~~~~~~ 120 (208)
T PRK08295 88 QIITAIKTANRQKHIPL-----------------------------------------------NSYVSLDKPIYDEESD 120 (208)
T ss_pred HHHHHHHHhhhhccccc-----------------------------------------------cceeecCCcccCCccc
Confidence 99999987655222111 011233333222 222
Q ss_pred CCcCcccccCCCCChHHHHHHHHHHHHH-HHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHH
Q psy15215 543 SHLGDFIEDENMLAPSDAALNASMRSVV-KDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKAL 621 (1432)
Q Consensus 543 ~~~~~~i~d~~~~~p~~~~~~~~~~~~l-~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl 621 (1432)
..+.+.+.+....+|++.+...+....+ ..+++.||++++.||.+ |..|+ |++|||+.+|+|+++|+.+.+||+
T Consensus 121 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~L~~~~r~vl~l-~~e~~----s~~EIA~~lgis~~tV~~~l~rar 195 (208)
T PRK08295 121 RTLLDVISEAKVTDPEELIISKEELEDIEEKIEELLSELEKEVLEL-YLDGK----SYQEIAEELNRHVKSIDNALQRVK 195 (208)
T ss_pred hhHHHHhcCcccCCHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHH-HHccC----CHHHHHHHHCCCHHHHHHHHHHHH
Confidence 2333334443345787777666555555 56779999999999999 88888 999999999999999999999999
Q ss_pred HHHHHHHH
Q psy15215 622 RKLRPLAH 629 (1432)
Q Consensus 622 ~kLr~~l~ 629 (1432)
++|++.+.
T Consensus 196 ~~Lr~~l~ 203 (208)
T PRK08295 196 RKLEKYLE 203 (208)
T ss_pred HHHHHHHH
Confidence 99998775
|
|
| >PRK12519 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.81 E-value=3.3e-19 Score=195.12 Aligned_cols=179 Identities=20% Similarity=0.247 Sum_probs=145.2
Q ss_pred CChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHH
Q psy15215 1169 LPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 1248 (1432)
Q Consensus 1169 l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~ 1248 (1432)
++......++.+++.|+.. |+..|+..|.+.|+++|++++++..+++|++||+|+++|+. ..|++..+ +|.||++
T Consensus 11 ~~~~~~~~l~~~~~~gd~~---a~~~L~~~y~~~l~~~~~~~~~~~~~aeDlvQe~fl~l~~~-~~~~~~~~-~f~~wl~ 85 (194)
T PRK12519 11 LSSRSDAELFSALKAGQSA---ALGVLYDRHAGLVYGLALKILGNSQEAEDLTQEIFLSLWRK-SSYDPKRG-SLSSYLL 85 (194)
T ss_pred CCcccHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh-cCCCcccc-cHHHHHH
Confidence 4445567889999999888 99999999999999999999999999999999999999976 57876554 7999999
Q ss_pred HHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCC
Q psy15215 1249 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVG 1328 (1432)
Q Consensus 1249 ~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~ 1328 (1432)
++++|.+.+++|++.+..+.. + ....
T Consensus 86 ~iarn~~~d~~Rk~~~~~~~~-~--------------------------------------------------~~~~--- 111 (194)
T PRK12519 86 TLTRSRAIDRLRSRRSRQRLL-E--------------------------------------------------RWQQ--- 111 (194)
T ss_pred HHHHHHHHHHHHhcccccchh-h--------------------------------------------------hhhh---
Confidence 999999999999876411000 0 0000
Q ss_pred CCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHH
Q psy15215 1329 DDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEA 1408 (1432)
Q Consensus 1329 ~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~ 1408 (1432)
.... +....+|.+.+...+....|..+|+.||++++.||.|+|+.|+ |++|||+.||+|+++|+++++
T Consensus 112 ----~~~~----~~~~~~~~~~~~~~~~~~~l~~~l~~L~~~~~~v~~l~~~~g~----s~~EIA~~lgis~~tV~~~l~ 179 (194)
T PRK12519 112 ----ELLG----EASEDTPLEQASLAERSQRVQTALAQLPESQRQVLELAYYEGL----SQSEIAKRLGIPLGTVKARAR 179 (194)
T ss_pred ----hhcc----cccCCCHHHHHHHHHHHHHHHHHHHhCCHHHhhhhhhhhhcCC----CHHHHHHHhCCCHHHHHHHHH
Confidence 0000 0012346666666677778999999999999999999999888 999999999999999999999
Q ss_pred HHHHHhhCch
Q psy15215 1409 KALRKLRHPS 1418 (1432)
Q Consensus 1409 rAl~kLr~~~ 1418 (1432)
||+++||...
T Consensus 180 Ra~~~Lr~~l 189 (194)
T PRK12519 180 QGLLKLRELL 189 (194)
T ss_pred HHHHHHHHHH
Confidence 9999999843
|
|
| >TIGR02859 spore_sigH RNA polymerase sigma-H factor | Back alignment and domain information |
|---|
Probab=99.81 E-value=4.1e-19 Score=195.07 Aligned_cols=190 Identities=24% Similarity=0.303 Sum_probs=147.1
Q ss_pred HHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHH
Q psy15215 1174 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 1253 (1432)
Q Consensus 1174 ~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~ 1253 (1432)
...++..++.|+.. |++.|+..|.+.|+++|.+++++..+++|++||+|+++|+++.+|++..+.+|+||++.++++
T Consensus 6 ~~~l~~~~~~~d~~---a~~~l~~~~~~~l~~~a~~~~~~~~~aeDlvQe~fl~~~~~~~~~~~~~~~~f~~wl~~~~~~ 82 (198)
T TIGR02859 6 DEEIVELARQGNTH---ALEYLINKYKNFVRAKARSYFLIGADKEDIIQEGMIGLYKAIRDFRPDKLSSFKAFAELCVTR 82 (198)
T ss_pred hHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHccccCcHHHHHHHHHHHHHHHHHHhCcccCCChHHHHHHHHHH
Confidence 34677788899888 999999999999999999999999999999999999999999999998777999999999999
Q ss_pred HHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCC-CC
Q psy15215 1254 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDD-ED 1332 (1432)
Q Consensus 1254 ~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~-~~ 1332 (1432)
.+.+++++..+..+.+. ....|++.+..++ ++
T Consensus 83 ~~~~~~r~~~~~~~~~~-----------------------------------------------~~~~~~~~~~~~~~~~ 115 (198)
T TIGR02859 83 QIITAIKTATRQKHIPL-----------------------------------------------NSYVSLNKPIYDEESD 115 (198)
T ss_pred HHHHHHHHHHHhcccch-----------------------------------------------hhhcCccccccccccc
Confidence 99999886543111110 1123333332211 11
Q ss_pred CCcCcccccCCCCChHHHHHHHHHHHHHHHHHccC-CHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHH
Q psy15215 1333 SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSL-TPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKAL 1411 (1432)
Q Consensus 1333 ~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L-~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl 1411 (1432)
.++.+.+.+....+|++.+...+....+.++|+.| |+.++.|+ ++|..|+ |++|||+.||+|.++|++.++||+
T Consensus 116 ~~~~~~~~~~~~~~~e~~~~~~e~~~~l~~~l~~Ll~~~~~~i~-~~~~~~~----s~~eIA~~l~~s~~tV~~~l~r~r 190 (198)
T TIGR02859 116 RTLLDVISGAKVTDPEELIISQEEYGDIESKMNELLSDLEWKVL-QSYLDGK----SYQEIACDLNRHVKSIDNALQRVK 190 (198)
T ss_pred chHHHHhhccccCCHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH-HHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHH
Confidence 12223332223357888888888888899999995 55555555 5687887 999999999999999999999999
Q ss_pred HHhhCch
Q psy15215 1412 RKLRHPS 1418 (1432)
Q Consensus 1412 ~kLr~~~ 1418 (1432)
++||...
T Consensus 191 ~~L~~~l 197 (198)
T TIGR02859 191 RKLEKYL 197 (198)
T ss_pred HHHHHhc
Confidence 9999753
|
Members of this protein family are RNA polymerase sigma-H factor for sporulation in endospore-forming bacteria. This protein is also called Sigma-30 and SigH. Although rather close homologs are detected in Listeria, Listeria does not form spores and the role of the related sigma factor in that genus is in doubt. |
| >PRK12513 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.81 E-value=3.6e-19 Score=194.82 Aligned_cols=180 Identities=17% Similarity=0.174 Sum_probs=149.3
Q ss_pred hHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHH
Q psy15215 1173 DLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 1252 (1432)
Q Consensus 1173 e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir 1252 (1432)
....++..++.|+.. |++.|+..|.+.|+++|.+++++..+++|++||+|+++|++..+|+.. ..|.+|++++++
T Consensus 12 ~~~~l~~~~~~gd~~---a~~~l~~~y~~~l~~~~~~~~~~~~daeDlvQe~fi~l~~~~~~~~~~--~~f~~wl~~i~~ 86 (194)
T PRK12513 12 SDEALMLRYRAGDAA---AFEALYARHRTGLYRFLLRLARDRALAEDIFQETWLRVIRARAQYQPR--ARFRTWLYQIAR 86 (194)
T ss_pred CHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhcCCC--CchHHHHHHHHH
Confidence 346788999999988 999999999999999999999999999999999999999999999964 379999999999
Q ss_pred HHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCC
Q psy15215 1253 QAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDED 1332 (1432)
Q Consensus 1253 ~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~ 1332 (1432)
|.+.+++|++.+..+.+ .+. +. .
T Consensus 87 n~~~~~~R~~~~~~~~~-----------------------------------------------------~~~---~~-~ 109 (194)
T PRK12513 87 NLLIDHWRRHGARQAPS-----------------------------------------------------LDA---DE-Q 109 (194)
T ss_pred HHHHHHHHHhccccccc-----------------------------------------------------ccc---ch-h
Confidence 99999999887621111 000 00 0
Q ss_pred CCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHH
Q psy15215 1333 SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALR 1412 (1432)
Q Consensus 1333 ~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~ 1412 (1432)
.. ... ....+|............+..+|+.||+++|.||.|+|+.|+ |++|||+.||+|+++|+++++||++
T Consensus 110 --~~-~~~-~~~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~EIA~~lgis~~tV~~~l~ra~~ 181 (194)
T PRK12513 110 --LH-ALA-DDGAAPEQQLSLFRDRRRLQAALETLPDEQREVFLLREHGDL----ELEEIAELTGVPEETVKSRLRYALQ 181 (194)
T ss_pred --hh-hcC-CCCCCHHHHHHHHHHHHHHHHHHHhCCHhHhhheeeehccCC----CHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 00 000 112357777777778889999999999999999999998888 9999999999999999999999999
Q ss_pred HhhCchhhhh
Q psy15215 1413 KLRHPSRYYK 1422 (1432)
Q Consensus 1413 kLr~~~~~~~ 1422 (1432)
+||....+..
T Consensus 182 ~Lr~~l~~~~ 191 (194)
T PRK12513 182 KLRELLAEEV 191 (194)
T ss_pred HHHHHHHHhh
Confidence 9999766543
|
|
| >PRK09648 RNA polymerase sigma factor SigD; Reviewed | Back alignment and domain information |
|---|
Probab=99.81 E-value=1e-18 Score=190.29 Aligned_cols=179 Identities=20% Similarity=0.313 Sum_probs=150.5
Q ss_pred CChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccC----CCChhhHHHHHHHHHHHHHhhccccCCCccH
Q psy15215 379 LPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDR----GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFS 454 (1432)
Q Consensus 379 l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~----~~~~~DLiQEg~igL~kav~~fd~~~g~~Fs 454 (1432)
.++.++..++..++.|+.. |+..|+..|.+.|+++|.++++. +.+++|++||+|+++|+++.+|+.. +.+|.
T Consensus 6 ~~~~~~~~l~~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~~~~~~~~~~~aeDlvQe~fi~l~~~~~~~~~~-~~~~~ 81 (189)
T PRK09648 6 DTGEELDALVAEAVAGDRR---ALREVLEIIRPLVVRYCRARLGGVERPGLSADDVAQEVCLAVITALPRYRDQ-GRPFL 81 (189)
T ss_pred CCchHHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhcccccCCCCHHHHHHHHHHHHHHHHHHHhcc-CCcHH
Confidence 3677889999999999998 99999999999999999998765 4689999999999999999999864 45899
Q ss_pred HHHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCC
Q psy15215 455 TYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSME 534 (1432)
Q Consensus 455 tya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~ 534 (1432)
||++..++|.+.++++++.+....+ .+
T Consensus 82 ~wl~~i~~n~~~d~~r~~~r~~~~~-----------------------------------------------------~~ 108 (189)
T PRK09648 82 AFVYGIAAHKVADAHRAAGRDKAVP-----------------------------------------------------TE 108 (189)
T ss_pred HHHHHHHHHHHHHHHHHhCCCcccc-----------------------------------------------------cc
Confidence 9999999999999999876521100 00
Q ss_pred CCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHH
Q psy15215 535 SPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIR 614 (1432)
Q Consensus 535 ~~~~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~ 614 (1432)
.+ .+... ...+|.+.....+....+..+|..|||++|+||.|+|+.|+ |++|||+.||+|+++|+
T Consensus 109 -~~--------~~~~~--~~~~~~~~~~~~e~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~EIA~~lgis~~tV~ 173 (189)
T PRK09648 109 -EV--------PERPS--DDAGPEERALRSESSNRMRELLDTLPEKQREILILRVVVGL----SAEETAEAVGSTPGAVR 173 (189)
T ss_pred -cc--------ccccc--cCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHH
Confidence 00 00000 12367777777788889999999999999999999999988 99999999999999999
Q ss_pred HHHHHHHHHHHHHHH
Q psy15215 615 QIEAKALRKLRPLAH 629 (1432)
Q Consensus 615 ~~~~rAl~kLr~~l~ 629 (1432)
++.+||+++|++.+.
T Consensus 174 ~~l~Ra~~~Lr~~l~ 188 (189)
T PRK09648 174 VAQHRALARLRAEIE 188 (189)
T ss_pred HHHHHHHHHHHHHhc
Confidence 999999999998763
|
|
| >TIGR02948 SigW_bacill RNA polymerase sigma-W factor | Back alignment and domain information |
|---|
Probab=99.81 E-value=6.7e-19 Score=191.52 Aligned_cols=180 Identities=14% Similarity=0.270 Sum_probs=145.4
Q ss_pred HHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHH
Q psy15215 1175 RDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 1254 (1432)
Q Consensus 1175 ~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~ 1254 (1432)
..++..+.+|+.. |+.+|+..|.+.|+++|.+|++++.+++|++||+|+++|+++.+|++.. +|.||++.+++|.
T Consensus 6 ~~li~~~~~gd~~---a~~~l~~~y~~~v~~~~~~~~~~~~~aeDlvQe~~l~l~~~~~~~~~~~--~~~~wl~~i~~n~ 80 (187)
T TIGR02948 6 KKRIKEVRKGDEN---AFADLVDLYKDKIYQLCYRMLGNVHEAEDVAQEAFIRAYTNIDTYDIQR--KFSTWLYRIATNL 80 (187)
T ss_pred HHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhHHhcCCCC--chHHHHHHHHHHH
Confidence 4578889999888 9999999999999999999999999999999999999999999999765 6999999999999
Q ss_pred HHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCC
Q psy15215 1255 ITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSH 1334 (1432)
Q Consensus 1255 i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~ 1334 (1432)
+.+++|+..+... ++......+...
T Consensus 81 ~~~~~rk~~~~~~-------------------------------------------------------~~~~~~~~~~~~ 105 (187)
T TIGR02948 81 TIDRLRKRKPDFY-------------------------------------------------------LDDEVQGTDGLT 105 (187)
T ss_pred HHHHHHhhccccc-------------------------------------------------------ccccccCccccc
Confidence 9999987553100 000000000001
Q ss_pred cCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHh
Q psy15215 1335 LGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKL 1414 (1432)
Q Consensus 1335 ~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kL 1414 (1432)
..+...+ ..++|++.+...+....+..+|+.|||++|.|+.++|+.|+ |++|||+.||+|+++|+++++||+++|
T Consensus 106 ~~~~~~~-~~~~~~~~~~~~e~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~eIA~~lgis~~~v~~~l~Rar~~L 180 (187)
T TIGR02948 106 MESQLAA-DEAPPEDQVISLELRDTIQQEIQALPPKYRMVIVLKYMEDL----SLKEISEILDLPVGTVKTRIHRGREAL 180 (187)
T ss_pred ccccccc-CcCCHHHHHHHHHHHHHHHHHHHhCCHHHhHHhhhHHhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 1111111 12357777777777888999999999999999999999888 999999999999999999999999999
Q ss_pred hCchh
Q psy15215 1415 RHPSR 1419 (1432)
Q Consensus 1415 r~~~~ 1419 (1432)
|..++
T Consensus 181 r~~l~ 185 (187)
T TIGR02948 181 RKQLR 185 (187)
T ss_pred HHHhh
Confidence 98554
|
This sigma factor is restricted to certain lineages of the order Bacillales. |
| >PRK09641 RNA polymerase sigma factor SigW; Provisional | Back alignment and domain information |
|---|
Probab=99.81 E-value=7.5e-19 Score=191.13 Aligned_cols=181 Identities=13% Similarity=0.243 Sum_probs=146.7
Q ss_pred HHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHH
Q psy15215 1174 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 1253 (1432)
Q Consensus 1174 ~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~ 1253 (1432)
...++..++.|+.. |+..++..|.++|+++|+++.++..+++|++||+|++||++..+|++.. +|.+|++.+++|
T Consensus 5 ~~~li~~~~~~d~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeDivQe~~l~l~~~~~~~~~~~--~~~~wl~~iarn 79 (187)
T PRK09641 5 IKRLIKQVKKGDQN---AFAELVDLYKDKIYQLCYRMLGNRHEAEDAAQEAFIRAYVNIDSYDINR--KFSTWLYRIATN 79 (187)
T ss_pred HHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhCCCc--chhHHHHHHHHH
Confidence 34678888899888 9999999999999999999999999999999999999999999998753 799999999999
Q ss_pred HHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCC
Q psy15215 1254 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS 1333 (1432)
Q Consensus 1254 ~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~ 1333 (1432)
.+.+++|++.+.. +++.+...++..
T Consensus 80 ~~~d~~R~~~~~~-------------------------------------------------------~~~~~~~~~~~~ 104 (187)
T PRK09641 80 LTIDRLRKRKPDY-------------------------------------------------------YLDAEVAGTEGL 104 (187)
T ss_pred HHHHHHHhcCccc-------------------------------------------------------cccccccCCcch
Confidence 9999999865410 011111111111
Q ss_pred CcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHH
Q psy15215 1334 HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRK 1413 (1432)
Q Consensus 1334 ~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~k 1413 (1432)
...+.+.+ ...+|++.....+....+..+|+.||++++.||.|+|+.|. |++|||+.||+|.++|++.++||+++
T Consensus 105 ~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~il~l~~~~~~----s~~eIA~~lgis~~~v~~~l~Rar~~ 179 (187)
T PRK09641 105 TMYSQLAA-DDALPEEQVVSLELQETIQEAILQLPEKYRTVIVLKYIEDL----SLKEISEILDLPVGTVKTRIHRGREA 179 (187)
T ss_pred hhhccccc-CcCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHhhhHHhhCC----CHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 11111111 22357777777778888999999999999999999998888 99999999999999999999999999
Q ss_pred hhCchh
Q psy15215 1414 LRHPSR 1419 (1432)
Q Consensus 1414 Lr~~~~ 1419 (1432)
||..++
T Consensus 180 Lr~~l~ 185 (187)
T PRK09641 180 LRKQLR 185 (187)
T ss_pred HHHHHh
Confidence 998553
|
|
| >PRK09646 RNA polymerase sigma factor SigK; Reviewed | Back alignment and domain information |
|---|
Probab=99.81 E-value=8.2e-19 Score=191.83 Aligned_cols=181 Identities=15% Similarity=0.184 Sum_probs=149.0
Q ss_pred CCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHH
Q psy15215 378 VLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 457 (1432)
Q Consensus 378 ~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya 457 (1432)
++...+...++..+..|+.. |+..++..|.++|+++|.+|+++..+++|++||+++++|+++++|++..| +|.+|+
T Consensus 11 ~~~~~~~~~li~~~~~g~~~---a~~~l~~~y~~~l~~~~~~~~~~~~dAeDivQe~fi~l~~~~~~~~~~~~-~~~~wl 86 (194)
T PRK09646 11 PAESPDLDALLRRVARGDQD---AFAELYDRTSSRVYGLVRRVLRDPGYSEETTQEVYLEVWRTASRFDPARG-SALAWL 86 (194)
T ss_pred CCCcccHHHHHHHHHccCHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhhhcCcccc-cHHHHH
Confidence 44556788999999999988 99999999999999999999999999999999999999999999998655 799999
Q ss_pred HHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCC
Q psy15215 458 TWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPV 537 (1432)
Q Consensus 458 ~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~ 537 (1432)
+..++|.+.++++++.+..+.- .+ .
T Consensus 87 ~~ia~n~~~d~~r~~~~~~~~~---------------------------------------------------~~----~ 111 (194)
T PRK09646 87 LTLAHRRAVDRVRSEQAASQRE---------------------------------------------------VR----Y 111 (194)
T ss_pred HHHHHHHHHHHHHhhccccccc---------------------------------------------------cc----c
Confidence 9999999999999876421100 00 0
Q ss_pred CCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHH
Q psy15215 538 GDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIE 617 (1432)
Q Consensus 538 ~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~ 617 (1432)
... .. .....++.+.....+....+..+|++||++++.||.|+|..|+ |++|||+.||+|.++|+++.
T Consensus 112 ~~~---~~-----~~~~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~~~----s~~EIA~~Lgis~~tVk~~l 179 (194)
T PRK09646 112 GAR---NV-----DPAFDQVAEEVEARLERERVRDCLDALTDTQRESVTLAYYGGL----TYREVAERLAVPLGTVKTRM 179 (194)
T ss_pred ccc---cc-----cccccchHHHHHHHhHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHhCCChHhHHHHH
Confidence 000 00 0011234455555566788999999999999999999999888 99999999999999999999
Q ss_pred HHHHHHHHHHHH
Q psy15215 618 AKALRKLRPLAH 629 (1432)
Q Consensus 618 ~rAl~kLr~~l~ 629 (1432)
++|+++|+..+.
T Consensus 180 ~ra~~~Lr~~l~ 191 (194)
T PRK09646 180 RDGLIRLRDCLG 191 (194)
T ss_pred HHHHHHHHHHhc
Confidence 999999998874
|
|
| >TIGR02952 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02952 family | Back alignment and domain information |
|---|
Probab=99.80 E-value=8e-19 Score=187.78 Aligned_cols=168 Identities=18% Similarity=0.272 Sum_probs=141.2
Q ss_pred HHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHH
Q psy15215 1178 NRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 1257 (1432)
Q Consensus 1178 ~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~ 1257 (1432)
+.++++||.. |+..|+..|.+.+++++.+++++..+++|++||+|+.+|++.++|+...+ +|.+|++.+++|.+.+
T Consensus 2 i~~~~~~d~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~vQe~~l~l~~~~~~~~~~~~-~~~~wl~~i~~n~~~d 77 (170)
T TIGR02952 2 LERAQDREED---AFARIYETYSDRVYRYIYYRVGCKYTAEDLTSEVFERVLRKIDSFKEQKN-SFEAWLFTIARNVVND 77 (170)
T ss_pred hHHHHccCHH---HHHHHHHHHHHHHHHHHHHHHCChhhHHHHHHHHHHHHHHhHHhcccccc-cHHHHHHHHHHHHHHH
Confidence 5567788888 99999999999999999999998899999999999999999999997555 8999999999999999
Q ss_pred HHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCc
Q psy15215 1258 SIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGD 1337 (1432)
Q Consensus 1258 ~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d 1337 (1432)
++|++.+.... +++. ...
T Consensus 78 ~~R~~~~~~~~-----------------------------------------------------~~~~---------~~~ 95 (170)
T TIGR02952 78 YFRGSKRHPLF-----------------------------------------------------SLDV---------FKE 95 (170)
T ss_pred HHHhcCCCCCC-----------------------------------------------------cHHH---------Hhh
Confidence 99987652110 0000 000
Q ss_pred ccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1338 FIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1338 ~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
... ...+|++.+...+....+..+|..|||++|.||.++|+.|+ |++|||+.||+|.++|+++++||+++||+.
T Consensus 96 ~~~--~~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~g~----s~~eIA~~l~is~~tv~~~l~ra~~~Lr~~ 169 (170)
T TIGR02952 96 LLS--NEPNPEEAILKEEANEKLLKALKILTPKQQHVIALRFGQNL----PIAEVARILGKTEGAVKILQFRAIKKLARQ 169 (170)
T ss_pred cCC--CCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHh
Confidence 000 11256777777777889999999999999999999999888 999999999999999999999999999974
|
This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in a limited number of Gram-positive bacterial lineages. |
| >PRK09652 RNA polymerase sigma factor RpoE; Provisional | Back alignment and domain information |
|---|
Probab=99.80 E-value=1e-18 Score=189.07 Aligned_cols=175 Identities=20% Similarity=0.243 Sum_probs=142.1
Q ss_pred HHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHH
Q psy15215 1179 RKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRS 1258 (1432)
Q Consensus 1179 ~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~ 1258 (1432)
.+++.||.. |++.|+..|.++|+++|++|++++.+.+|++||++++||+++++|+ .+.+|.||++.++++.+.++
T Consensus 2 ~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeDl~Qe~~l~l~~~~~~~~--~~~~~~~~l~~~~~~~~~~~ 76 (182)
T PRK09652 2 ERVQRGDRA---AFALLVRRYQPRVKRLLSRLTRDPADAEDLVQETFIKAYRALHSFR--GGAAFYTWLYRIARNTAINY 76 (182)
T ss_pred chhhcCCHH---HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHhcC--CCcchHHHHHHHHHHHHHHH
Confidence 356788888 9999999999999999999999999999999999999999999999 44589999999999999999
Q ss_pred HHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcc
Q psy15215 1259 IADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDF 1338 (1432)
Q Consensus 1259 i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~ 1338 (1432)
+++..+....+ +.. ..+.++....+.
T Consensus 77 ~r~~~~~~~~~----------------------------------------------------~~~--~~~~~~~~~~~~ 102 (182)
T PRK09652 77 LRKQGRRPPAS----------------------------------------------------DVD--AEEAEDFDLADA 102 (182)
T ss_pred HHcccCCCCcc----------------------------------------------------ccc--cccccccccccc
Confidence 98876521100 000 001111111111
Q ss_pred cccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCch
Q psy15215 1339 IEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 1418 (1432)
Q Consensus 1339 i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~ 1418 (1432)
+.+ ..+|++.+........+..+|..|||+++.||.++|+.|+ |++|||+.||+|+.+|++++++|+++||+.+
T Consensus 103 ~~~--~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~~~----s~~eIA~~lgis~~tV~~~l~ra~~~Lr~~l 176 (182)
T PRK09652 103 LRD--ISTPENELLSAELEQRVRAAIESLPEELRTAITLREIEGL----SYEEIAEIMGCPIGTVRSRIFRAREALRAKL 176 (182)
T ss_pred ccc--ccChHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
Confidence 111 2357777777778889999999999999999999998888 9999999999999999999999999999844
|
|
| >PRK11923 algU RNA polymerase sigma factor AlgU; Provisional | Back alignment and domain information |
|---|
Probab=99.80 E-value=1.8e-18 Score=189.07 Aligned_cols=184 Identities=14% Similarity=0.184 Sum_probs=148.2
Q ss_pred ChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHH
Q psy15215 1170 PLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 1249 (1432)
Q Consensus 1170 ~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~ 1249 (1432)
++.....++..++.|+.. |+..|+..|.+.|+++|++++++..+++|++||+|+++|+++.+|++.. .|.+|++.
T Consensus 3 ~~~~~~~ll~~~~~gd~~---a~~~l~~~y~~~l~~~~~~~~~~~~daeDlvQe~~i~l~~~~~~~~~~~--~~~~wl~~ 77 (193)
T PRK11923 3 TQEEDQQLVERVQRGDKR---AFDLLVLKYQHKILGLIVRFVHDTAEAQDVAQEAFIKAYRALGNFRGDS--AFYTWLYR 77 (193)
T ss_pred ccccHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHhCcCCCC--ccHhHHHH
Confidence 344456788888999888 9999999999999999999999999999999999999999999999764 59999999
Q ss_pred HHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCC-CC
Q psy15215 1250 WIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESP-VG 1328 (1432)
Q Consensus 1250 ~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~-~~ 1328 (1432)
+++|.+.++++++.+..... ..+++.. ..
T Consensus 78 ia~n~~~d~~rk~~~~~~~~--------------------------------------------------~~~~~~~~~~ 107 (193)
T PRK11923 78 IAINTAKNHLVSRGRRPPDS--------------------------------------------------DVSSEDAEFY 107 (193)
T ss_pred HHHHHHHHHHHHhcCCCccc--------------------------------------------------cccccchhhh
Confidence 99999999999876521000 0001100 00
Q ss_pred CCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHH
Q psy15215 1329 DDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEA 1408 (1432)
Q Consensus 1329 ~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~ 1408 (1432)
++ . ..+. ...+|++.+...+....+..+|..||+++|.|+.++|..|+ |++|||+.||+|..+|+++++
T Consensus 108 ~~-~----~~~~--~~~~~e~~~~~~~~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~eIA~~lgis~~tv~~~l~ 176 (193)
T PRK11923 108 DG-D----HALK--DIESPERALLRDEIEGTVHRTIQQLPEDLRTALTLREFDGL----SYEDIASVMQCPVGTVRSRIF 176 (193)
T ss_pred cc-c----cccc--CcCCHHHHHHHHHHHHHHHHHHHhCCHHHhHHHhhHHhcCC----CHHHHHHHHCCCHHHHHHHHH
Confidence 00 0 0011 12357777777788889999999999999999999998888 999999999999999999999
Q ss_pred HHHHHhhCchh
Q psy15215 1409 KALRKLRHPSR 1419 (1432)
Q Consensus 1409 rAl~kLr~~~~ 1419 (1432)
||+++||...+
T Consensus 177 Rar~~Lr~~l~ 187 (193)
T PRK11923 177 RAREAIDKALQ 187 (193)
T ss_pred HHHHHHHHHHH
Confidence 99999999543
|
|
| >PRK05602 RNA polymerase sigma factor; Reviewed | Back alignment and domain information |
|---|
Probab=99.80 E-value=1.3e-18 Score=189.00 Aligned_cols=173 Identities=16% Similarity=0.234 Sum_probs=146.0
Q ss_pred hHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHH
Q psy15215 383 DLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 462 (1432)
Q Consensus 383 e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir 462 (1432)
....++..++.|+.. |+..|+..|.++|+++|.+|++++.+++|++||+|+++|+++.+|++. +.+|.+|++..++
T Consensus 6 ~~~~l~~~~~~~d~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeDlvQe~fi~l~~~~~~~~~~-~~~f~~wl~~ia~ 81 (186)
T PRK05602 6 PDEELLARVAAGDPA---AFRVLVARKLPRLLALATRMLGDPAEAEDVAQETFLRIWKQAPSWRPG-EARFDTWLHRVVL 81 (186)
T ss_pred cHHHHHHHHHCcCHH---HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHhhhcCCC-CCcHHHHHHHHHH
Confidence 345688899999998 999999999999999999999999999999999999999999999975 4589999999999
Q ss_pred HHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCC
Q psy15215 463 QAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDED 542 (1432)
Q Consensus 463 ~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~ 542 (1432)
|.+.++++++... + .+. ..+
T Consensus 82 n~~~d~~R~~~~~---~-----------------------------------------------------~~~-~~~--- 101 (186)
T PRK05602 82 NLCYDRLRRRREV---P-----------------------------------------------------VED-APD--- 101 (186)
T ss_pred HHHHHHHHhcCCC---C-----------------------------------------------------ccc-ccc---
Confidence 9999999876431 0 000 000
Q ss_pred CCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHH
Q psy15215 543 SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALR 622 (1432)
Q Consensus 543 ~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~ 622 (1432)
..+ ....|+..+...+....+..+|..||++++.||.|+|..|+ |++|||+.||+|+++|+++.++|+.
T Consensus 102 ------~~~-~~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~EIA~~lgis~~tV~~~l~Rar~ 170 (186)
T PRK05602 102 ------VPD-PAPGPDAGLEARQRARRVEQALAALPERQREAIVLQYYQGL----SNIEAAAVMDISVDALESLLARGRR 170 (186)
T ss_pred ------cCC-CCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHhhHHHhcCC----CHHHHHHHhCcCHHHHHHHHHHHHH
Confidence 001 11245666666677788999999999999999999999888 9999999999999999999999999
Q ss_pred HHHHHHHH
Q psy15215 623 KLRPLAHD 630 (1432)
Q Consensus 623 kLr~~l~~ 630 (1432)
+|++.+..
T Consensus 171 ~Lr~~l~~ 178 (186)
T PRK05602 171 ALRAQLAD 178 (186)
T ss_pred HHHHHHHh
Confidence 99998864
|
|
| >TIGR02859 spore_sigH RNA polymerase sigma-H factor | Back alignment and domain information |
|---|
Probab=99.80 E-value=1.5e-18 Score=190.54 Aligned_cols=190 Identities=24% Similarity=0.308 Sum_probs=147.0
Q ss_pred HHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHH
Q psy15215 384 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 463 (1432)
Q Consensus 384 ~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~ 463 (1432)
...++..++.||.. |+..|+..|.+.|+++|.+++++..+++||+||+++.+|+++.+|++..+.+|+||++.++++
T Consensus 6 ~~~l~~~~~~~d~~---a~~~l~~~~~~~l~~~a~~~~~~~~~aeDlvQe~fl~~~~~~~~~~~~~~~~f~~wl~~~~~~ 82 (198)
T TIGR02859 6 DEEIVELARQGNTH---ALEYLINKYKNFVRAKARSYFLIGADKEDIIQEGMIGLYKAIRDFRPDKLSSFKAFAELCVTR 82 (198)
T ss_pred hHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHccccCcHHHHHHHHHHHHHHHHHHhCcccCCChHHHHHHHHHH
Confidence 34677888999988 999999999999999999999999999999999999999999999987777999999999999
Q ss_pred HHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCC-CCC
Q psy15215 464 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGD-DED 542 (1432)
Q Consensus 464 ~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~-~~~ 542 (1432)
.+.++++...+..+.++ ....|++.+..+ +++
T Consensus 83 ~~~~~~r~~~~~~~~~~-----------------------------------------------~~~~~~~~~~~~~~~~ 115 (198)
T TIGR02859 83 QIITAIKTATRQKHIPL-----------------------------------------------NSYVSLNKPIYDEESD 115 (198)
T ss_pred HHHHHHHHHHHhcccch-----------------------------------------------hhhcCccccccccccc
Confidence 99998886543211110 012233332211 111
Q ss_pred CCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcC-CHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHH
Q psy15215 543 SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSL-TPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKAL 621 (1432)
Q Consensus 543 ~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L-~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl 621 (1432)
.++.+.+++....+|++.+...+....+.++|+.| ++.++.|+ ++|..|+ |++|||+.||+|.++|+...++++
T Consensus 116 ~~~~~~~~~~~~~~~e~~~~~~e~~~~l~~~l~~Ll~~~~~~i~-~~~~~~~----s~~eIA~~l~~s~~tV~~~l~r~r 190 (198)
T TIGR02859 116 RTLLDVISGAKVTDPEELIISQEEYGDIESKMNELLSDLEWKVL-QSYLDGK----SYQEIACDLNRHVKSIDNALQRVK 190 (198)
T ss_pred chHHHHhhccccCCHHHHHHHHHHHHHHHHHHHHhcCHHHHHHH-HHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHH
Confidence 12223332223357888888888888899999995 55555555 5687888 999999999999999999999999
Q ss_pred HHHHHHH
Q psy15215 622 RKLRPLA 628 (1432)
Q Consensus 622 ~kLr~~l 628 (1432)
++|+..+
T Consensus 191 ~~L~~~l 197 (198)
T TIGR02859 191 RKLEKYL 197 (198)
T ss_pred HHHHHhc
Confidence 9999765
|
Members of this protein family are RNA polymerase sigma-H factor for sporulation in endospore-forming bacteria. This protein is also called Sigma-30 and SigH. Although rather close homologs are detected in Listeria, Listeria does not form spores and the role of the related sigma factor in that genus is in doubt. |
| >PRK12514 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.80 E-value=1.4e-18 Score=187.63 Aligned_cols=174 Identities=14% Similarity=0.202 Sum_probs=144.0
Q ss_pred hhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHH
Q psy15215 1172 NDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 1251 (1432)
Q Consensus 1172 ~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~i 1251 (1432)
.+...++..+..|+.. |+..|+..|.+.|+++|.+++++..+++|++||+|+++|+++++|++.. ..|.||++.++
T Consensus 4 ~~~~~li~~~~~g~~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~fl~~~~~~~~~~~~~-~~~~~wl~~ia 79 (179)
T PRK12514 4 DDIEKLIVRVSLGDRD---AFSSLYDATSAKLFGICLRVLKDRSEAEEALQDVYVKIWTKADRFAVSG-LSPMTWLITIA 79 (179)
T ss_pred hHHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhHHhcCccc-ccHHHHHHHHH
Confidence 4567788888999888 9999999999999999999999999999999999999999999998654 36999999999
Q ss_pred HHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCC
Q psy15215 1252 RQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDE 1331 (1432)
Q Consensus 1252 r~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~ 1331 (1432)
+|.+.+++|++.+. ..+ .+.
T Consensus 80 ~n~~~d~~R~~~~~-~~~-----------------------------------------------------~~~------ 99 (179)
T PRK12514 80 RNHAIDRLRARKAV-AVD-----------------------------------------------------IDE------ 99 (179)
T ss_pred HHHHHHHHHhcCCc-ccc-----------------------------------------------------ccc------
Confidence 99999999976531 000 000
Q ss_pred CCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHH
Q psy15215 1332 DSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKAL 1411 (1432)
Q Consensus 1332 ~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl 1411 (1432)
..+. .+ ...+|++.....+....+..+|..||++++.||.++|+.|+ |++|||+.||+|..+|+++++||+
T Consensus 100 ---~~~~-~~-~~~~~e~~~~~~~~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~eIA~~lgis~~tV~~~l~Rar 170 (179)
T PRK12514 100 ---AHDL-AD-PSPGPEAEVIAGDEGQRIDACLEELEKDRAAAVRRAYLEGL----SYKELAERHDVPLNTMRTWLRRSL 170 (179)
T ss_pred ---chhc-cc-cCCCHHHHHHhHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCChHHHHHHHHHHH
Confidence 0000 00 11256666655555677999999999999999999999888 999999999999999999999999
Q ss_pred HHhhCch
Q psy15215 1412 RKLRHPS 1418 (1432)
Q Consensus 1412 ~kLr~~~ 1418 (1432)
++||+..
T Consensus 171 ~~Lr~~l 177 (179)
T PRK12514 171 LKLRECL 177 (179)
T ss_pred HHHHHHh
Confidence 9999864
|
|
| >PRK11923 algU RNA polymerase sigma factor AlgU; Provisional | Back alignment and domain information |
|---|
Probab=99.79 E-value=2.7e-18 Score=187.77 Aligned_cols=190 Identities=15% Similarity=0.190 Sum_probs=153.7
Q ss_pred CChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHH
Q psy15215 379 LPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 458 (1432)
Q Consensus 379 l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~ 458 (1432)
+++.....++..++.||.. |+..|+..|.+.|+++|++++++..+++|++||+++++|+++.+|++.. .|.+|++
T Consensus 2 ~~~~~~~~ll~~~~~gd~~---a~~~l~~~y~~~l~~~~~~~~~~~~daeDlvQe~~i~l~~~~~~~~~~~--~~~~wl~ 76 (193)
T PRK11923 2 LTQEEDQQLVERVQRGDKR---AFDLLVLKYQHKILGLIVRFVHDTAEAQDVAQEAFIKAYRALGNFRGDS--AFYTWLY 76 (193)
T ss_pred CccccHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHhCcCCCC--ccHhHHH
Confidence 3445566888899999988 9999999999999999999999999999999999999999999999753 6999999
Q ss_pred HHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCC-CC
Q psy15215 459 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMES-PV 537 (1432)
Q Consensus 459 ~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~-~~ 537 (1432)
..++|.+.++++++.+.... ...+++. ..
T Consensus 77 ~ia~n~~~d~~rk~~~~~~~--------------------------------------------------~~~~~~~~~~ 106 (193)
T PRK11923 77 RIAINTAKNHLVSRGRRPPD--------------------------------------------------SDVSSEDAEF 106 (193)
T ss_pred HHHHHHHHHHHHHhcCCCcc--------------------------------------------------ccccccchhh
Confidence 99999999999876652100 0000000 00
Q ss_pred CCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHH
Q psy15215 538 GDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIE 617 (1432)
Q Consensus 538 ~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~ 617 (1432)
.++ . ..+. ...+|++.+...+....+..+|..||++++.|+.|+|..|+ |++|||+.||+|+.+|+++.
T Consensus 107 ~~~-~----~~~~--~~~~~e~~~~~~~~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~eIA~~lgis~~tv~~~l 175 (193)
T PRK11923 107 YDG-D----HALK--DIESPERALLRDEIEGTVHRTIQQLPEDLRTALTLREFDGL----SYEDIASVMQCPVGTVRSRI 175 (193)
T ss_pred hcc-c----cccc--CcCCHHHHHHHHHHHHHHHHHHHhCCHHHhHHHhhHHhcCC----CHHHHHHHHCCCHHHHHHHH
Confidence 000 0 0011 12357777777788889999999999999999999999888 99999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHH
Q psy15215 618 AKALRKLRPLAHDWLEQ 634 (1432)
Q Consensus 618 ~rAl~kLr~~l~~~~~~ 634 (1432)
+||+++|+.++..++++
T Consensus 176 ~Rar~~Lr~~l~~~~~~ 192 (193)
T PRK11923 176 FRAREAIDKALQPLLQE 192 (193)
T ss_pred HHHHHHHHHHHHHHhcC
Confidence 99999999999887653
|
|
| >PRK13919 putative RNA polymerase sigma E protein; Provisional | Back alignment and domain information |
|---|
Probab=99.79 E-value=1.4e-18 Score=188.78 Aligned_cols=177 Identities=18% Similarity=0.228 Sum_probs=139.5
Q ss_pred hhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHH
Q psy15215 1171 LNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 1250 (1432)
Q Consensus 1171 ~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ 1250 (1432)
......++..++.|+.. |+..++..|.+.|+++|++|.+++.+++|++||+|+++|++..+|++..+ .|.+|++++
T Consensus 7 ~~~~~~l~~~~~~~d~~---a~~~l~~~y~~~l~~~~~~~~~~~~~aeDlvQe~~i~l~~~~~~~~~~~~-~~~~wl~~i 82 (186)
T PRK13919 7 SLSDEALLALVARGEEE---ALRALFRRYAGAFLALARRMGLDGAAAEDVVQEVFIRVWKKAKEFDPRRG-SARAWLLAL 82 (186)
T ss_pred ccCHHHHHHHHHcCcHH---HHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhhccCcccc-chHHHHHHH
Confidence 34567888888999888 99999999999999999999999999999999999999999999987543 699999999
Q ss_pred HHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCC
Q psy15215 1251 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDD 1330 (1432)
Q Consensus 1251 ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~ 1330 (1432)
++|.+.+++|++.+..+ ..+.+ .
T Consensus 83 a~n~~~d~~rk~~~~~~----------------------------------------------------~~~~~-----~ 105 (186)
T PRK13919 83 AHHAAVDHVRRRAARPQ----------------------------------------------------PLEPD-----E 105 (186)
T ss_pred HHHHHHHHHHhhhcccc----------------------------------------------------ccccc-----c
Confidence 99999999998764100 00000 0
Q ss_pred CCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHH
Q psy15215 1331 EDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 1410 (1432)
Q Consensus 1331 ~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rA 1410 (1432)
......+ .. +|............+..+++.||++++.||.|+|..|+ |++|||+.+|+|.++|+.+++||
T Consensus 106 ~~~~~~~-~~-----~~~~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~~~----s~~eIA~~lgis~~~V~~~l~ra 175 (186)
T PRK13919 106 REPEAFD-LP-----GPGLDEEGHLDRTRLGRALKALSPEERRVIEVLYYQGY----THREAAQLLGLPLGTLKTRARRA 175 (186)
T ss_pred ccccccc-CC-----CccccHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHH
Confidence 0000000 00 11111122233567899999999999999999999888 99999999999999999999999
Q ss_pred HHHhhCch
Q psy15215 1411 LRKLRHPS 1418 (1432)
Q Consensus 1411 l~kLr~~~ 1418 (1432)
+++||...
T Consensus 176 ~~~Lr~~l 183 (186)
T PRK13919 176 LSRLKEVL 183 (186)
T ss_pred HHHHHHHh
Confidence 99999854
|
|
| >PRK06811 RNA polymerase factor sigma-70; Validated | Back alignment and domain information |
|---|
Probab=99.79 E-value=1.9e-18 Score=188.06 Aligned_cols=172 Identities=14% Similarity=0.175 Sum_probs=143.7
Q ss_pred HHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCC---CChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHH
Q psy15215 1175 RDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRG---LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 1251 (1432)
Q Consensus 1175 ~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~---~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~i 1251 (1432)
..|+.+++.|+.. |+..++..|.+.|+++|.++++++ .+++|++||+++++|+++.+|++..+ +|.||++.++
T Consensus 6 ~~li~~~~~gd~~---a~~~l~~~y~~~l~~~~~~~~~~~~~~~daeDi~Qe~~i~l~~~~~~~~~~~~-~~~~wl~~ia 81 (189)
T PRK06811 6 DNFIKELKKKNEK---ALEFIVDTYGNLVKKIVHKVLGTVNYSQLIEECVNDIFLSIWNNIDKFDEEKG-SFKKWIAAIS 81 (189)
T ss_pred HHHHHHHHccCHH---HHHHHHHHHHHHHHHHHHHHHcccCchhHHHHHHHHHHHHHHHhHHHhccccc-cHHHHHHHHH
Confidence 5788899999988 999999999999999999998753 47999999999999999999987554 7999999999
Q ss_pred HHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCC
Q psy15215 1252 RQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDE 1331 (1432)
Q Consensus 1252 r~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~ 1331 (1432)
+|.+.+++|++.+.... .+.+.
T Consensus 82 rn~~~d~~rk~~~~~~~----------------------------------------------------~~~~~------ 103 (189)
T PRK06811 82 KYKAIDYKRKLTKNNEI----------------------------------------------------DSIDE------ 103 (189)
T ss_pred HHHHHHHHHHhcccccc----------------------------------------------------ccchh------
Confidence 99999999987752100 00000
Q ss_pred CCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHH
Q psy15215 1332 DSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKAL 1411 (1432)
Q Consensus 1332 ~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl 1411 (1432)
.. .....+|++.....+....+..+|..|||+++.||.|+|..|+ |++|||+.||+|+.+|+++++||+
T Consensus 104 ~~-------~~~~~~~~~~~~~~e~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~EIAe~lgis~~~V~~~l~Ra~ 172 (189)
T PRK06811 104 FI-------LISEESIENEIILKENKEEILKLINDLEKLDREIFIRRYLLGE----KIEEIAKKLGLTRSAIDNRLSRGR 172 (189)
T ss_pred hh-------hcccCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHccC----CHHHHHHHHCCCHHHHHHHHHHHH
Confidence 00 0011356677777777888999999999999999999999888 999999999999999999999999
Q ss_pred HHhhCchh
Q psy15215 1412 RKLRHPSR 1419 (1432)
Q Consensus 1412 ~kLr~~~~ 1419 (1432)
++||...-
T Consensus 173 ~~Lr~~~~ 180 (189)
T PRK06811 173 KKLQKNKL 180 (189)
T ss_pred HHHHHccc
Confidence 99998543
|
|
| >PRK12524 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.79 E-value=2e-18 Score=189.09 Aligned_cols=175 Identities=14% Similarity=0.170 Sum_probs=146.6
Q ss_pred hHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHH
Q psy15215 1173 DLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 1252 (1432)
Q Consensus 1173 e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir 1252 (1432)
....++.++..|+.. |++.|+..|.+.|+.+|.+++++..+++|++||+++++|++..+|++.. ..|.||++..++
T Consensus 12 ~~~~li~~~~~gd~~---a~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~~l~l~~~~~~~~~~~-~~~~~wl~~ia~ 87 (196)
T PRK12524 12 SDEALLVLYANGDPA---AARALTLRLAPRALAVATRVLGDRAEAEDVTQEAMLRLWRIAPDWRQGE-ARVSTWLYRVVC 87 (196)
T ss_pred CHHHHHHHHHCCCHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhhcccccc-chHHHHHHHHHH
Confidence 356889999999988 9999999999999999999999999999999999999999999998533 479999999999
Q ss_pred HHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCC
Q psy15215 1253 QAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDED 1332 (1432)
Q Consensus 1253 ~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~ 1332 (1432)
+.+.+++|++.+. . ..++. ..+
T Consensus 88 n~~~d~~Rk~~~~-~-----------------------------------------------------~~~~~-~~~--- 109 (196)
T PRK12524 88 NLCTDRLRRRRRA-S-----------------------------------------------------VDLDD-APE--- 109 (196)
T ss_pred HHHHHHHHhhcCC-C-----------------------------------------------------CCccc-ccc---
Confidence 9999999976541 0 00000 000
Q ss_pred CCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHH
Q psy15215 1333 SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALR 1412 (1432)
Q Consensus 1333 ~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~ 1412 (1432)
..+ ...+|++.+...+....+..+|+.||+++|.||.|+|+.|. |++|||+.||+|..+|+++++||++
T Consensus 110 ------~~~-~~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~i~~L~~~~g~----s~~eIA~~lgis~~tV~~~l~Ra~~ 178 (196)
T PRK12524 110 ------PAD-AAPGAEEALIEGDRMRALDAALAALPERQRQAVVLRHIEGL----SNPEIAEVMEIGVEAVESLTARGKR 178 (196)
T ss_pred ------ccc-cCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 001 11346666777777888999999999999999999999888 9999999999999999999999999
Q ss_pred HhhCchhh
Q psy15215 1413 KLRHPSRY 1420 (1432)
Q Consensus 1413 kLr~~~~~ 1420 (1432)
+||.....
T Consensus 179 ~Lr~~l~~ 186 (196)
T PRK12524 179 ALAALLAG 186 (196)
T ss_pred HHHHHHHh
Confidence 99987654
|
|
| >PRK12542 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.79 E-value=6.9e-19 Score=190.99 Aligned_cols=181 Identities=15% Similarity=0.143 Sum_probs=145.0
Q ss_pred HHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHH
Q psy15215 1181 MIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 1260 (1432)
Q Consensus 1181 ~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~ 1260 (1432)
+..|+.. |+..|+..|.+.|+++|.+++++..+++|++||+|+.+|++.++|++..+..|.||++.+++|.+.+++|
T Consensus 3 ~~~gd~~---a~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~~~~~~~~wL~~Iarn~~~d~~R 79 (185)
T PRK12542 3 VTNNDYE---KMEELYELYEQKVYYVAYSILNNIQQAEDAVQETFITLYKNLEKLHSLNTQELKRYILRVAKNKAIDSYR 79 (185)
T ss_pred ccccCHH---HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHH
Confidence 4467777 9999999999999999999999999999999999999999999998654458999999999999999999
Q ss_pred HhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccc
Q psy15215 1261 DQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIE 1340 (1432)
Q Consensus 1261 ~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~ 1340 (1432)
++.+..... +. ... +...
T Consensus 80 k~~~~~~~~------------------------------------------------------~~-~~~-------~~~~ 97 (185)
T PRK12542 80 KNKRHETFL------------------------------------------------------EE-YER-------ESIE 97 (185)
T ss_pred Hhhhhhhhh------------------------------------------------------hh-ccc-------cchh
Confidence 876410000 00 000 0000
Q ss_pred cCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhh
Q psy15215 1341 DENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRY 1420 (1432)
Q Consensus 1341 d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~ 1420 (1432)
. ...+|.+..........|..+|..|||++|+||.|+|+.|+ |++|||+.||+|.++|+++++||+++||+....
T Consensus 98 ~-~~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~EIA~~lgis~~tVk~~l~Rar~~Lr~~l~~ 172 (185)
T PRK12542 98 A-VDENIEEWEKRKMSEVQIDTLLKELNESNRQVFKYKVFYNL----TYQEISSVMGITEANVRKQFERARKRVQNMIGG 172 (185)
T ss_pred h-hhccHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHcc
Confidence 0 01123343334445567999999999999999999999998 999999999999999999999999999999888
Q ss_pred hhHHhhhcccC
Q psy15215 1421 YKLKIFLEGKK 1431 (1432)
Q Consensus 1421 ~~l~~~~~~~~ 1431 (1432)
.....|+...+
T Consensus 173 ~~~~~~~~~~~ 183 (185)
T PRK12542 173 IQHDEFKELQR 183 (185)
T ss_pred cchHHHHHHhc
Confidence 88888876543
|
|
| >PRK09652 RNA polymerase sigma factor RpoE; Provisional | Back alignment and domain information |
|---|
Probab=99.79 E-value=2.2e-18 Score=186.39 Aligned_cols=179 Identities=20% Similarity=0.240 Sum_probs=146.0
Q ss_pred HHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHH
Q psy15215 389 RKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRS 468 (1432)
Q Consensus 389 ~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~ 468 (1432)
.+++.||.. |++.|+..|.++|+++|++|.+++.+.+|++||++++||+++++|+ .+.+|.||++.++++.+.++
T Consensus 2 ~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeDl~Qe~~l~l~~~~~~~~--~~~~~~~~l~~~~~~~~~~~ 76 (182)
T PRK09652 2 ERVQRGDRA---AFALLVRRYQPRVKRLLSRLTRDPADAEDLVQETFIKAYRALHSFR--GGAAFYTWLYRIARNTAINY 76 (182)
T ss_pred chhhcCCHH---HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHhcC--CCcchHHHHHHHHHHHHHHH
Confidence 457889988 9999999999999999999999999999999999999999999998 44589999999999999999
Q ss_pred HHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcc
Q psy15215 469 IADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDF 548 (1432)
Q Consensus 469 i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~ 548 (1432)
+++..+....+ +. ...+.++....+.
T Consensus 77 ~r~~~~~~~~~----------------------------------------------------~~--~~~~~~~~~~~~~ 102 (182)
T PRK09652 77 LRKQGRRPPAS----------------------------------------------------DV--DAEEAEDFDLADA 102 (182)
T ss_pred HHcccCCCCcc----------------------------------------------------cc--ccccccccccccc
Confidence 98876521110 00 0001111111111
Q ss_pred cccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 549 IEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 549 i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
.++ ..+|++.+...+....+..+|..|||+++.||.++|+.|+ |++|||+.||+|+.+|+++.++|+++|++.+
T Consensus 103 ~~~--~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~~~----s~~eIA~~lgis~~tV~~~l~ra~~~Lr~~l 176 (182)
T PRK09652 103 LRD--ISTPENELLSAELEQRVRAAIESLPEELRTAITLREIEGL----SYEEIAEIMGCPIGTVRSRIFRAREALRAKL 176 (182)
T ss_pred ccc--ccChHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
Confidence 111 2357777777778889999999999999999999998888 9999999999999999999999999999988
Q ss_pred HHHH
Q psy15215 629 HDWL 632 (1432)
Q Consensus 629 ~~~~ 632 (1432)
..++
T Consensus 177 ~~~~ 180 (182)
T PRK09652 177 QPLL 180 (182)
T ss_pred HHHh
Confidence 7664
|
|
| >PRK12538 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.79 E-value=2.1e-18 Score=192.96 Aligned_cols=173 Identities=12% Similarity=0.171 Sum_probs=143.5
Q ss_pred HHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHH
Q psy15215 1174 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 1253 (1432)
Q Consensus 1174 ~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~ 1253 (1432)
...|+..++.|+.. |+..|+..|.+.|++++++++++..+++|++||+|+.+|++.++|++..+ +|.+|++.+++|
T Consensus 50 d~~Li~~~~~gd~~---af~~L~~~y~~~l~~~~~~~~~d~~dAEDivQEvfl~l~~~~~~~~~~~~-~f~~WL~~IarN 125 (233)
T PRK12538 50 DEELLDRLATDDEA---AFRLLVERHIDRAYAIALRIVGNRADAEDVVQDTMLKVWTHRGRWQHGRA-KFSTWLYRVVSN 125 (233)
T ss_pred HHHHHHHHHhCCHH---HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHcccccc-cHHHHHHHHHHH
Confidence 45678888999888 99999999999999999999999999999999999999999999986544 799999999999
Q ss_pred HHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCC
Q psy15215 1254 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS 1333 (1432)
Q Consensus 1254 ~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~ 1333 (1432)
.+.+++|++.+. .. ..+. +.
T Consensus 126 ~~id~~Rk~~~~-~~----------------------------------------------------~~~~----~~--- 145 (233)
T PRK12538 126 RCIDLRRKPRTE-NV----------------------------------------------------DAVP----EV--- 145 (233)
T ss_pred HHHHHHHhhccc-cc----------------------------------------------------cccc----cc---
Confidence 999999875320 00 0000 00
Q ss_pred CcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHH
Q psy15215 1334 HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRK 1413 (1432)
Q Consensus 1334 ~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~k 1413 (1432)
. + ...++++.+...+....+..+|..||+++|.||.|+|+.|+ |++|||+.||+|.++|+++++||+++
T Consensus 146 -----~-~-~~~~~~~~~~~~e~~~~l~~~L~~Lp~~~R~v~~L~~~eg~----s~~EIA~~Lgis~~tVk~~l~RAr~k 214 (233)
T PRK12538 146 -----A-D-GKPDAVSVIERNELSDLLEAAMQRLPEQQRIAVILSYHENM----SNGEIAEVMDTTVAAVESLLKRGRQQ 214 (233)
T ss_pred -----c-c-CCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHhhhHHhcCC----CHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence 0 0 01234555566667788999999999999999999999998 99999999999999999999999999
Q ss_pred hhCchhhh
Q psy15215 1414 LRHPSRYY 1421 (1432)
Q Consensus 1414 Lr~~~~~~ 1421 (1432)
||+.....
T Consensus 215 Lr~~l~~~ 222 (233)
T PRK12538 215 LRDLLRRH 222 (233)
T ss_pred HHHHHHHh
Confidence 99866543
|
|
| >PRK11922 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.79 E-value=2.2e-18 Score=193.53 Aligned_cols=189 Identities=16% Similarity=0.219 Sum_probs=153.1
Q ss_pred CCChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHH
Q psy15215 1168 VLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 1247 (1432)
Q Consensus 1168 ~l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya 1247 (1432)
.++......++..+..|+.. |++.++..|.+.|+++|.++++.+.+++|++||+|+++|+++++|++. ..|.||+
T Consensus 11 ~~~~~~~~~l~~~~~~gd~~---a~~~l~~~y~~~l~~~a~~~~~~~~~AEDlvQE~fi~l~~~~~~~~~~--~~~~~wL 85 (231)
T PRK11922 11 PLSAASDRELVARVLAGDEA---AFEALMRRHNRRLYRTARAILRNDAEAEDVVQEAYLRAFRALGTFRGD--ASLSTWL 85 (231)
T ss_pred CcCcccHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHHHHHhcCCC--chhHHHH
Confidence 34555667788899999988 999999999999999999999999999999999999999999999875 3799999
Q ss_pred HHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCC
Q psy15215 1248 TWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPV 1327 (1432)
Q Consensus 1248 ~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~ 1327 (1432)
+.+++|.+.+++|+..+..+.+.. ... ..
T Consensus 86 ~~iarn~~~d~~Rk~~r~~~~~~~--------------------------------------------------~~~-~~ 114 (231)
T PRK11922 86 SRIVLNEALGRLRRRRRLVNLAEM--------------------------------------------------VMA-ST 114 (231)
T ss_pred HHHHHHHHHHHHHhhcccccchhc--------------------------------------------------ccc-cc
Confidence 999999999999987752111000 000 00
Q ss_pred CCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHH
Q psy15215 1328 GDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIE 1407 (1432)
Q Consensus 1328 ~~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~ 1407 (1432)
.. ++ ..... .....+|++.....+....+..+|+.||++++.||.|+|+.|+ |++|||+.||+|.++|++++
T Consensus 115 ~~-~~--~~~~~-~~~~~~~e~~~~~~e~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~EIAe~lgis~~tVk~~l 186 (231)
T PRK11922 115 IA-GG--ERTPL-ADPAEDPERAAARREIRALLERAIDALPDAFRAVFVLRVVEEL----SVEETAQALGLPEETVKTRL 186 (231)
T ss_pred cc-cc--ccccc-CcccCChHHHHHHHHHHHHHHHHHHhCCHHHhhhheeehhcCC----CHHHHHHHHCcCHHHHHHHH
Confidence 00 00 00001 1123467888888888899999999999999999999998888 99999999999999999999
Q ss_pred HHHHHHhhCchhh
Q psy15215 1408 AKALRKLRHPSRY 1420 (1432)
Q Consensus 1408 ~rAl~kLr~~~~~ 1420 (1432)
+||+++||+....
T Consensus 187 ~Rar~kLr~~l~~ 199 (231)
T PRK11922 187 HRARRLLRESLAR 199 (231)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999997654
|
|
| >PRK12519 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.79 E-value=2.7e-18 Score=187.88 Aligned_cols=184 Identities=21% Similarity=0.266 Sum_probs=149.3
Q ss_pred CCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHH
Q psy15215 378 VLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 457 (1432)
Q Consensus 378 ~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya 457 (1432)
.++......++.+++.||.. |+..|+..|.+.|+++|++++++..+++|++||+|+++|+. ..|++..+ +|.||+
T Consensus 10 ~~~~~~~~~l~~~~~~gd~~---a~~~L~~~y~~~l~~~~~~~~~~~~~aeDlvQe~fl~l~~~-~~~~~~~~-~f~~wl 84 (194)
T PRK12519 10 SLSSRSDAELFSALKAGQSA---ALGVLYDRHAGLVYGLALKILGNSQEAEDLTQEIFLSLWRK-SSYDPKRG-SLSSYL 84 (194)
T ss_pred CCCcccHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh-cCCCcccc-cHHHHH
Confidence 34556677899999999998 99999999999999999999999999999999999999976 67876554 799999
Q ss_pred HHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCC
Q psy15215 458 TWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPV 537 (1432)
Q Consensus 458 ~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~ 537 (1432)
+.+++|.+.++++++.+..+.. + .....
T Consensus 85 ~~iarn~~~d~~Rk~~~~~~~~-~--------------------------------------------------~~~~~- 112 (194)
T PRK12519 85 LTLTRSRAIDRLRSRRSRQRLL-E--------------------------------------------------RWQQE- 112 (194)
T ss_pred HHHHHHHHHHHHHhcccccchh-h--------------------------------------------------hhhhh-
Confidence 9999999999999876521000 0 00000
Q ss_pred CCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHH
Q psy15215 538 GDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIE 617 (1432)
Q Consensus 538 ~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~ 617 (1432)
...+ ....+|.+.+...+....|..+|+.||++++.||.|+|..|+ |++|||+.||+|+++|+++.
T Consensus 113 ------~~~~----~~~~~~~~~~~~~~~~~~l~~~l~~L~~~~~~v~~l~~~~g~----s~~EIA~~lgis~~tV~~~l 178 (194)
T PRK12519 113 ------LLGE----ASEDTPLEQASLAERSQRVQTALAQLPESQRQVLELAYYEGL----SQSEIAKRLGIPLGTVKARA 178 (194)
T ss_pred ------hccc----ccCCCHHHHHHHHHHHHHHHHHHHhCCHHHhhhhhhhhhcCC----CHHHHHHHhCCCHHHHHHHH
Confidence 0000 011346666666677778999999999999999999999888 99999999999999999999
Q ss_pred HHHHHHHHHHHHHHH
Q psy15215 618 AKALRKLRPLAHDWL 632 (1432)
Q Consensus 618 ~rAl~kLr~~l~~~~ 632 (1432)
+||+++|+..+..++
T Consensus 179 ~Ra~~~Lr~~l~~~~ 193 (194)
T PRK12519 179 RQGLLKLRELLQDLL 193 (194)
T ss_pred HHHHHHHHHHHHHHh
Confidence 999999999887654
|
|
| >TIGR02939 RpoE_Sigma70 RNA polymerase sigma factor RpoE | Back alignment and domain information |
|---|
Probab=99.79 E-value=4e-18 Score=185.91 Aligned_cols=180 Identities=16% Similarity=0.199 Sum_probs=145.2
Q ss_pred HHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHH
Q psy15215 1175 RDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 1254 (1432)
Q Consensus 1175 ~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~ 1254 (1432)
..++..+..|+.. |+..|+..|.+.|+.+|++++++..+++|++||+|+++|+++++|++. .+|.+|++.+++|.
T Consensus 8 ~~l~~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeDlvQe~fi~l~~~~~~~~~~--~~~~~wl~~iarn~ 82 (190)
T TIGR02939 8 LELVERVQRGEKQ---AFDLLVRKYQHKVVALVGRYVRDSSEVEDVAQEAFVKAYRALSSFRGD--SAFYTWLYRIAVNT 82 (190)
T ss_pred HHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHHhcCCC--CccHhHHHHHHHHH
Confidence 4678888899888 999999999999999999999999999999999999999999999865 37999999999999
Q ss_pred HHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCC
Q psy15215 1255 ITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSH 1334 (1432)
Q Consensus 1255 i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~ 1334 (1432)
+.++++++.+..... ..+.+.. ...+.
T Consensus 83 ~~~~~r~~~r~~~~~--------------------------------------------------~~~~~~~-~~~~~-- 109 (190)
T TIGR02939 83 AKNHLVAQGRRPPTS--------------------------------------------------DVEIEDA-EHFEG-- 109 (190)
T ss_pred HHHHHHHhccCCCcc--------------------------------------------------cccccch-hhhcc--
Confidence 999998766421100 0000000 00000
Q ss_pred cCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHh
Q psy15215 1335 LGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKL 1414 (1432)
Q Consensus 1335 ~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kL 1414 (1432)
.+.+ ....+|++.+...+....+..+|..||++++.||.++|..|+ |++|||+.||+|.++|++.++||+++|
T Consensus 110 -~~~~--~~~~~~e~~~~~~~~~~~l~~~l~~L~~~~r~v~~l~~~~~~----s~~EIA~~lgis~~tv~~~l~rar~~L 182 (190)
T TIGR02939 110 -ADRL--REIDTPERLLLSRELEQTVMRAVEALPEDLRTAITLRELEGL----SYEDIARIMDCPVGTVRSRIFRAREAI 182 (190)
T ss_pred -cccc--cccCChHHHHHHHHHHHHHHHHHHcCCHHHhhhhhhhhhcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence 0000 012357777777778888999999999999999999998888 999999999999999999999999999
Q ss_pred hCchh
Q psy15215 1415 RHPSR 1419 (1432)
Q Consensus 1415 r~~~~ 1419 (1432)
|+..+
T Consensus 183 r~~l~ 187 (190)
T TIGR02939 183 AIRLR 187 (190)
T ss_pred HHHhh
Confidence 99654
|
A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoE. This protein may be called sigma-24, sigma-E factor, sigma-H factor, fecI-like sigma factor or alternative sigma factor AlgU. |
| >TIGR02948 SigW_bacill RNA polymerase sigma-W factor | Back alignment and domain information |
|---|
Probab=99.79 E-value=3.7e-18 Score=185.65 Aligned_cols=180 Identities=13% Similarity=0.259 Sum_probs=146.0
Q ss_pred HHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHH
Q psy15215 385 RDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 464 (1432)
Q Consensus 385 ~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~ 464 (1432)
..++..+++||.. |+.+++..|.+.|+++|.+|++.+.+++|++||+++++|+++.+|++.. +|.||++..++|.
T Consensus 6 ~~li~~~~~gd~~---a~~~l~~~y~~~v~~~~~~~~~~~~~aeDlvQe~~l~l~~~~~~~~~~~--~~~~wl~~i~~n~ 80 (187)
T TIGR02948 6 KKRIKEVRKGDEN---AFADLVDLYKDKIYQLCYRMLGNVHEAEDVAQEAFIRAYTNIDTYDIQR--KFSTWLYRIATNL 80 (187)
T ss_pred HHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhHHhcCCCC--chHHHHHHHHHHH
Confidence 4578889999998 9999999999999999999999999999999999999999999999754 6999999999999
Q ss_pred HHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCC
Q psy15215 465 ITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSH 544 (1432)
Q Consensus 465 i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~ 544 (1432)
+.+++++..+... ++......+...
T Consensus 81 ~~~~~rk~~~~~~-------------------------------------------------------~~~~~~~~~~~~ 105 (187)
T TIGR02948 81 TIDRLRKRKPDFY-------------------------------------------------------LDDEVQGTDGLT 105 (187)
T ss_pred HHHHHHhhccccc-------------------------------------------------------ccccccCccccc
Confidence 9999987543100 000000000001
Q ss_pred cCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHH
Q psy15215 545 LGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKL 624 (1432)
Q Consensus 545 ~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kL 624 (1432)
+.+...+ ..++|++.+...+....+..+|++|||+++.|+.|+|..|+ |++|||+.||+|+++|+++.+||+++|
T Consensus 106 ~~~~~~~-~~~~~~~~~~~~e~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~eIA~~lgis~~~v~~~l~Rar~~L 180 (187)
T TIGR02948 106 MESQLAA-DEAPPEDQVISLELRDTIQQEIQALPPKYRMVIVLKYMEDL----SLKEISEILDLPVGTVKTRIHRGREAL 180 (187)
T ss_pred ccccccc-CcCCHHHHHHHHHHHHHHHHHHHhCCHHHhHHhhhHHhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 1111111 12367777777777888999999999999999999999888 999999999999999999999999999
Q ss_pred HHHHH
Q psy15215 625 RPLAH 629 (1432)
Q Consensus 625 r~~l~ 629 (1432)
+..+.
T Consensus 181 r~~l~ 185 (187)
T TIGR02948 181 RKQLR 185 (187)
T ss_pred HHHhh
Confidence 98774
|
This sigma factor is restricted to certain lineages of the order Bacillales. |
| >PRK12537 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.78 E-value=3.5e-18 Score=184.87 Aligned_cols=173 Identities=12% Similarity=0.159 Sum_probs=141.8
Q ss_pred hHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHH
Q psy15215 1173 DLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 1252 (1432)
Q Consensus 1173 e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir 1252 (1432)
....++..+..|+.. |+..|+..|.+.|+.+|.+++++..+++|++||+|+.+|++.++|++..+ +|.+|++.+++
T Consensus 9 ~~~~l~~~~~~~d~~---a~~~l~~~~~~~l~~~~~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~~~-~~~~wL~~iar 84 (182)
T PRK12537 9 DYEACLLACARGDRR---ALQALYQQESARLLGVARRIVRDRALAEDIVHDAFIKIWTGAASFDPARG-SARGWIYSVTR 84 (182)
T ss_pred hHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHhccccCCcccc-cHHHHHHHHHH
Confidence 446788899999888 99999999999999999999999999999999999999999999986443 79999999999
Q ss_pred HHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCC
Q psy15215 1253 QAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDED 1332 (1432)
Q Consensus 1253 ~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~ 1332 (1432)
|.+.++++++.+.... +.. .
T Consensus 85 n~~~d~~r~~~~~~~~-------------------------------------------------------~~~---~-- 104 (182)
T PRK12537 85 HLALNVLRDTRREVVL-------------------------------------------------------DDD---A-- 104 (182)
T ss_pred HHHHHHHHhccccCcc-------------------------------------------------------ccc---h--
Confidence 9999999987641100 000 0
Q ss_pred CCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHH
Q psy15215 1333 SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALR 1412 (1432)
Q Consensus 1333 ~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~ 1412 (1432)
.+...+ ..++.+..........+..+|+.|||++|.|+.|+|..|+ |++|||+.||+|.++|+++++||++
T Consensus 105 ---~~~~~~--~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~i~~l~~~~~~----s~~eIA~~lgis~~tV~~~l~ra~~ 175 (182)
T PRK12537 105 ---EETAQT--LHEIIDDFDLWANSGKIHRCLEQLEPARRNCILHAYVDGC----SHAEIAQRLGAPLGTVKAWIKRSLK 175 (182)
T ss_pred ---hhhccc--ccchHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCChhhHHHHHHHHHH
Confidence 000000 1123344444455678999999999999999999999999 9999999999999999999999999
Q ss_pred HhhCch
Q psy15215 1413 KLRHPS 1418 (1432)
Q Consensus 1413 kLr~~~ 1418 (1432)
+||...
T Consensus 176 ~Lr~~l 181 (182)
T PRK12537 176 ALRECM 181 (182)
T ss_pred HHHHHh
Confidence 999853
|
|
| >PRK06759 RNA polymerase factor sigma-70; Validated | Back alignment and domain information |
|---|
Probab=99.78 E-value=2.6e-18 Score=180.69 Aligned_cols=150 Identities=22% Similarity=0.259 Sum_probs=123.9
Q ss_pred hhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccccccc
Q psy15215 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 1269 (1432)
Q Consensus 1190 ~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 1269 (1432)
.||..|++.|.++|+++++++ +...+++|++|||++++|+++++|++..+ +|.+|++.+++|.+.+++|++.+...
T Consensus 4 ~af~~l~~~y~~~l~~~~~~~-~~~~~aeDi~Qe~~l~l~~~~~~~~~~~~-~f~~wl~~i~~n~~ld~~rk~~~~~~-- 79 (154)
T PRK06759 4 ATFTEAVVLYEGLIVNQIKKL-GIYQDYEEYYQCGLIGLWHAYERYDEKKG-SFPAYAVVTVRGYILERLKKEFAVQE-- 79 (154)
T ss_pred ccHHHHHHHHHHHHHHHHHHh-CCcccHHHHHHHHHHHHHHHHHHhCccCC-chHHHHHHHHHHHHHHHHHHHHhhcc--
Confidence 389999999999999999986 55679999999999999999999997666 79999999999999999998753100
Q ss_pred ccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 1270 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 1349 (1432)
Q Consensus 1270 ~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~ 1349 (1432)
..+ . . .+|++
T Consensus 80 --------------------------------------------------~~~-~-----~--------------~~~~~ 89 (154)
T PRK06759 80 --------------------------------------------------KCV-C-----V--------------GEYED 89 (154)
T ss_pred --------------------------------------------------ccc-c-----c--------------CCCcc
Confidence 000 0 0 01111
Q ss_pred HHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1350 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1350 ~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
.....+....+..+|..|||++|.||.++|+.|+ |++|||+.+|+|.++|+++++||+++||+.
T Consensus 90 ~~~~~~~~~~l~~~l~~L~~~~r~ii~l~~~~~~----s~~EIA~~l~is~~tV~~~~~ra~~~Lr~~ 153 (154)
T PRK06759 90 HFHFEDVEMKVKDFMSVLDEKEKYIIFERFFVGK----TMGEIALETEMTYYQVRWIYRQALEKMRNS 153 (154)
T ss_pred cccHHHHHHHHHHHHHhCCHHHHHHHHHHHhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHhhc
Confidence 1222334567999999999999999999999888 999999999999999999999999999973
|
|
| >PRK09641 RNA polymerase sigma factor SigW; Provisional | Back alignment and domain information |
|---|
Probab=99.78 E-value=5.9e-18 Score=184.11 Aligned_cols=181 Identities=13% Similarity=0.233 Sum_probs=147.3
Q ss_pred HHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHH
Q psy15215 384 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 463 (1432)
Q Consensus 384 ~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~ 463 (1432)
...++..++.|+.. |+..++..|.++|+++|+++.+...+++|++||++++||++..+|++.. +|.+|++..++|
T Consensus 5 ~~~li~~~~~~d~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeDivQe~~l~l~~~~~~~~~~~--~~~~wl~~iarn 79 (187)
T PRK09641 5 IKRLIKQVKKGDQN---AFAELVDLYKDKIYQLCYRMLGNRHEAEDAAQEAFIRAYVNIDSYDINR--KFSTWLYRIATN 79 (187)
T ss_pred HHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhhCCCc--chhHHHHHHHHH
Confidence 45778889999988 9999999999999999999999999999999999999999999998743 799999999999
Q ss_pred HHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCC
Q psy15215 464 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS 543 (1432)
Q Consensus 464 ~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~ 543 (1432)
.+.+++|++.+.. +++.+..+++..
T Consensus 80 ~~~d~~R~~~~~~-------------------------------------------------------~~~~~~~~~~~~ 104 (187)
T PRK09641 80 LTIDRLRKRKPDY-------------------------------------------------------YLDAEVAGTEGL 104 (187)
T ss_pred HHHHHHHhcCccc-------------------------------------------------------cccccccCCcch
Confidence 9999999765410 001111111111
Q ss_pred CcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHH
Q psy15215 544 HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRK 623 (1432)
Q Consensus 544 ~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~k 623 (1432)
...+.+.+ ...+|++.....+....+..+|+.||++++.||.|+|..|. |++|||+.||+|.++|++..+||+.+
T Consensus 105 ~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~il~l~~~~~~----s~~eIA~~lgis~~~v~~~l~Rar~~ 179 (187)
T PRK09641 105 TMYSQLAA-DDALPEEQVVSLELQETIQEAILQLPEKYRTVIVLKYIEDL----SLKEISEILDLPVGTVKTRIHRGREA 179 (187)
T ss_pred hhhccccc-CcCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHhhhHHhhCC----CHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 11111111 12357777777777888999999999999999999998888 99999999999999999999999999
Q ss_pred HHHHHH
Q psy15215 624 LRPLAH 629 (1432)
Q Consensus 624 Lr~~l~ 629 (1432)
|+..+.
T Consensus 180 Lr~~l~ 185 (187)
T PRK09641 180 LRKQLR 185 (187)
T ss_pred HHHHHh
Confidence 998764
|
|
| >PRK12513 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.78 E-value=4.1e-18 Score=186.45 Aligned_cols=178 Identities=17% Similarity=0.201 Sum_probs=148.3
Q ss_pred hhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHH
Q psy15215 382 NDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 461 (1432)
Q Consensus 382 ~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~i 461 (1432)
.....++.+++.||.. |++.|+..|.+.|+++|.+++++..+++|++||+|+++|++..+|+.. .+|.+|+++++
T Consensus 11 ~~~~~l~~~~~~gd~~---a~~~l~~~y~~~l~~~~~~~~~~~~daeDlvQe~fi~l~~~~~~~~~~--~~f~~wl~~i~ 85 (194)
T PRK12513 11 ASDEALMLRYRAGDAA---AFEALYARHRTGLYRFLLRLARDRALAEDIFQETWLRVIRARAQYQPR--ARFRTWLYQIA 85 (194)
T ss_pred CCHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhcCCC--CchHHHHHHHH
Confidence 3356789999999998 999999999999999999999999999999999999999999999864 37999999999
Q ss_pred HHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCC
Q psy15215 462 RQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDE 541 (1432)
Q Consensus 462 r~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~ 541 (1432)
+|.+.+++|++.+..+.+ .+. +.
T Consensus 86 ~n~~~~~~R~~~~~~~~~-----------------------------------------------------~~~---~~- 108 (194)
T PRK12513 86 RNLLIDHWRRHGARQAPS-----------------------------------------------------LDA---DE- 108 (194)
T ss_pred HHHHHHHHHHhccccccc-----------------------------------------------------ccc---ch-
Confidence 999999999887521110 000 00
Q ss_pred CCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHH
Q psy15215 542 DSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKAL 621 (1432)
Q Consensus 542 ~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl 621 (1432)
.+. ... ....+|.......+....+..+|+.||++++.||.|+|+.|+ |++|||+.||+|+++|+++.++|+
T Consensus 109 --~~~-~~~-~~~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~EIA~~lgis~~tV~~~l~ra~ 180 (194)
T PRK12513 109 --QLH-ALA-DDGAAPEQQLSLFRDRRRLQAALETLPDEQREVFLLREHGDL----ELEEIAELTGVPEETVKSRLRYAL 180 (194)
T ss_pred --hhh-hcC-CCCCCHHHHHHHHHHHHHHHHHHHhCCHhHhhheeeehccCC----CHHHHHHHHCCCHHHHHHHHHHHH
Confidence 000 000 112357777777778889999999999999999999998888 999999999999999999999999
Q ss_pred HHHHHHHH
Q psy15215 622 RKLRPLAH 629 (1432)
Q Consensus 622 ~kLr~~l~ 629 (1432)
++|+..+.
T Consensus 181 ~~Lr~~l~ 188 (194)
T PRK12513 181 QKLRELLA 188 (194)
T ss_pred HHHHHHHH
Confidence 99998875
|
|
| >PRK12534 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.78 E-value=3.4e-18 Score=186.01 Aligned_cols=176 Identities=16% Similarity=0.207 Sum_probs=143.6
Q ss_pred hhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHH
Q psy15215 1172 NDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 1251 (1432)
Q Consensus 1172 ~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~i 1251 (1432)
.+...++..+..|+.. +++.++..|.++|+++|++++++..+++|++||+|+++|++.++|++.++ +|.||++.++
T Consensus 10 ~~~~~l~~~~~~~~~~---~~~~l~~~y~~~l~~~~~~~~~~~~~aeDlvQe~fl~~~~~~~~~~~~~~-~~~~wl~~I~ 85 (187)
T PRK12534 10 DETGRLLTATAGGDRH---AFEALYRQTSPKLFGVCLRMIPQRAEAEEVLQDVFTLIWHKAGQFDPSRA-RGLTWLAMIA 85 (187)
T ss_pred chHHHHHHHHHcCCHH---HHHHHHHHhhHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccCCcccc-cHHHHHHHHH
Confidence 3456778888889887 99999999999999999999999999999999999999999999997654 6899999999
Q ss_pred HHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCC
Q psy15215 1252 RQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDE 1331 (1432)
Q Consensus 1252 r~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~ 1331 (1432)
+|.+.+++|+..+..+. .+.+.
T Consensus 86 ~n~~~d~~R~~~~~~~~----------------------------------------------------~~~~~------ 107 (187)
T PRK12534 86 RNKAIDHLRANAPQRRN----------------------------------------------------VALDD------ 107 (187)
T ss_pred HHHHHHHHHhccccccc----------------------------------------------------ccccc------
Confidence 99999999876531000 00000
Q ss_pred CCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHH
Q psy15215 1332 DSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKAL 1411 (1432)
Q Consensus 1332 ~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl 1411 (1432)
...... ...+|.+.....+....+..+|..||++++.|+.++|..|+ |++|||+.||+|.++|+++++||+
T Consensus 108 ---~~~~~~--~~~~~~~~~~~~e~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~eIA~~lgis~~~v~~~l~Rar 178 (187)
T PRK12534 108 ---AGELRA--ADASPLERTERASTRRRIDHCLAELEPPRSELIRTAFFEGI----TYEELAARTDTPIGTVKSWIRRGL 178 (187)
T ss_pred ---hhhhcc--ccCChhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHhCCChhHHHHHHHHHH
Confidence 000000 01134555555677789999999999999999999998888 999999999999999999999999
Q ss_pred HHhhCch
Q psy15215 1412 RKLRHPS 1418 (1432)
Q Consensus 1412 ~kLr~~~ 1418 (1432)
++||+..
T Consensus 179 ~~Lr~~l 185 (187)
T PRK12534 179 AKLKACL 185 (187)
T ss_pred HHHHHHH
Confidence 9999854
|
|
| >PRK12526 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.78 E-value=5.5e-18 Score=186.95 Aligned_cols=179 Identities=13% Similarity=0.097 Sum_probs=140.0
Q ss_pred HHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHH
Q psy15215 1174 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 1253 (1432)
Q Consensus 1174 ~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~ 1253 (1432)
...+...+.+|+.. |+..|+..|.+.|+++|.+++++..+++|++||+|+.+|+++++|++.++ .|.||+++++||
T Consensus 25 ~~~l~~~~~~~d~~---a~~~l~~~y~~~l~~~~~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~~~-~~~~wl~~I~rn 100 (206)
T PRK12526 25 SQWLILVAISRDKQ---AFTHLFQFFAPKIKRFGIKQLGNEAQANELVQETMSNVWRKAHLYNGDKG-AATTWVYTVMRN 100 (206)
T ss_pred HHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHHhcCCccc-chhHHHHHHHHH
Confidence 44556667889888 99999999999999999999999899999999999999999999987655 699999999999
Q ss_pred HHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCC
Q psy15215 1254 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS 1333 (1432)
Q Consensus 1254 ~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~ 1333 (1432)
.+.+++|++.+..... +. ++ ..
T Consensus 101 ~~~d~~Rk~~~~~~~~-----------------------------------------------------~~----~~-~~ 122 (206)
T PRK12526 101 AAFDMLRKIKAKKEQN-----------------------------------------------------LG----DD-IW 122 (206)
T ss_pred HHHHHHHHhccccccc-----------------------------------------------------cc----cc-cc
Confidence 9999999876521000 00 00 00
Q ss_pred CcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHH
Q psy15215 1334 HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRK 1413 (1432)
Q Consensus 1334 ~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~k 1413 (1432)
...+.+.+. ...+. ..........|..+|++||++++.||.|+|+.|+ |++|||+.+|+|.++|+.+++||+++
T Consensus 123 ~~~~~~~~~-~~~~~-~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~g~----s~~EIA~~lgis~~tV~~~l~Ra~~~ 196 (206)
T PRK12526 123 PIEQALAES-QSESE-EFSDHLMDKQILSYIEKLPEAQQTVVKGVYFQEL----SQEQLAQQLNVPLGTVKSRLRLALAK 196 (206)
T ss_pred hhhhhcccc-cCchH-HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 000001111 11222 2333344567999999999999999999999998 99999999999999999999999999
Q ss_pred hhCchhh
Q psy15215 1414 LRHPSRY 1420 (1432)
Q Consensus 1414 Lr~~~~~ 1420 (1432)
||.....
T Consensus 197 Lr~~l~~ 203 (206)
T PRK12526 197 LKVQMGE 203 (206)
T ss_pred HHHHHhh
Confidence 9986643
|
|
| >TIGR02952 Sig70_famx2 RNA polymerase sigma-70 factor, TIGR02952 family | Back alignment and domain information |
|---|
Probab=99.77 E-value=6.6e-18 Score=180.71 Aligned_cols=169 Identities=18% Similarity=0.267 Sum_probs=141.9
Q ss_pred HHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHH
Q psy15215 387 INRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 466 (1432)
Q Consensus 387 l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~ 466 (1432)
|+.++++||.. |+..|+..|.+.+++++.++++...+++|++||+++.+|++.++|+...+ +|.+|++.+++|.+.
T Consensus 1 li~~~~~~d~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~vQe~~l~l~~~~~~~~~~~~-~~~~wl~~i~~n~~~ 76 (170)
T TIGR02952 1 LLERAQDREED---AFARIYETYSDRVYRYIYYRVGCKYTAEDLTSEVFERVLRKIDSFKEQKN-SFEAWLFTIARNVVN 76 (170)
T ss_pred ChHHHHccCHH---HHHHHHHHHHHHHHHHHHHHHCChhhHHHHHHHHHHHHHHhHHhcccccc-cHHHHHHHHHHHHHH
Confidence 35678889988 99999999999999999999988899999999999999999999987555 899999999999999
Q ss_pred HHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcC
Q psy15215 467 RSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLG 546 (1432)
Q Consensus 467 ~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~ 546 (1432)
+++|++.+....+ .+. ..
T Consensus 77 d~~R~~~~~~~~~-----------------------------------------------------~~~---------~~ 94 (170)
T TIGR02952 77 DYFRGSKRHPLFS-----------------------------------------------------LDV---------FK 94 (170)
T ss_pred HHHHhcCCCCCCc-----------------------------------------------------HHH---------Hh
Confidence 9999876521100 000 00
Q ss_pred cccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 547 DFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 547 ~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
.... ...+|++.+...+....+..+|..|||+++.||.|+|..|+ |++|||+.||+|.++|+++.+||+++|++
T Consensus 95 ~~~~--~~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~g~----s~~eIA~~l~is~~tv~~~l~ra~~~Lr~ 168 (170)
T TIGR02952 95 ELLS--NEPNPEEAILKEEANEKLLKALKILTPKQQHVIALRFGQNL----PIAEVARILGKTEGAVKILQFRAIKKLAR 168 (170)
T ss_pred hcCC--CCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHH
Confidence 0000 11256777777777889999999999999999999999888 99999999999999999999999999997
Q ss_pred H
Q psy15215 627 L 627 (1432)
Q Consensus 627 ~ 627 (1432)
.
T Consensus 169 ~ 169 (170)
T TIGR02952 169 Q 169 (170)
T ss_pred h
Confidence 5
|
This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in a limited number of Gram-positive bacterial lineages. |
| >PRK13919 putative RNA polymerase sigma E protein; Provisional | Back alignment and domain information |
|---|
Probab=99.77 E-value=6.3e-18 Score=183.72 Aligned_cols=180 Identities=17% Similarity=0.218 Sum_probs=141.9
Q ss_pred CChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHH
Q psy15215 379 LPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 458 (1432)
Q Consensus 379 l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~ 458 (1432)
|.......++..++.||.. |+..++..|.+.|+.+|++|.+++.+++|++||+++++|++..+|++.. .+|.+|++
T Consensus 5 ~~~~~~~~l~~~~~~~d~~---a~~~l~~~y~~~l~~~~~~~~~~~~~aeDlvQe~~i~l~~~~~~~~~~~-~~~~~wl~ 80 (186)
T PRK13919 5 LESLSDEALLALVARGEEE---ALRALFRRYAGAFLALARRMGLDGAAAEDVVQEVFIRVWKKAKEFDPRR-GSARAWLL 80 (186)
T ss_pred ccccCHHHHHHHHHcCcHH---HHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhhhccCccc-cchHHHHH
Confidence 4445567888999999988 9999999999999999999999999999999999999999999998654 37999999
Q ss_pred HHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCC
Q psy15215 459 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVG 538 (1432)
Q Consensus 459 ~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~ 538 (1432)
+.++|.+.++++++.+..+ .++.+
T Consensus 81 ~ia~n~~~d~~rk~~~~~~----------------------------------------------------~~~~~---- 104 (186)
T PRK13919 81 ALAHHAAVDHVRRRAARPQ----------------------------------------------------PLEPD---- 104 (186)
T ss_pred HHHHHHHHHHHHhhhcccc----------------------------------------------------ccccc----
Confidence 9999999999988654100 00000
Q ss_pred CCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHH
Q psy15215 539 DDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEA 618 (1432)
Q Consensus 539 ~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~ 618 (1432)
.......+ .+ +|............+..+++.||++++.||.|+|..|+ |++|||+.+|+|+++|+.+.+
T Consensus 105 -~~~~~~~~-~~-----~~~~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~~~----s~~eIA~~lgis~~~V~~~l~ 173 (186)
T PRK13919 105 -EREPEAFD-LP-----GPGLDEEGHLDRTRLGRALKALSPEERRVIEVLYYQGY----THREAAQLLGLPLGTLKTRAR 173 (186)
T ss_pred -cccccccc-CC-----CccccHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHH
Confidence 00000000 00 11111122233567899999999999999999999888 999999999999999999999
Q ss_pred HHHHHHHHHHH
Q psy15215 619 KALRKLRPLAH 629 (1432)
Q Consensus 619 rAl~kLr~~l~ 629 (1432)
||+.+|+..+.
T Consensus 174 ra~~~Lr~~l~ 184 (186)
T PRK13919 174 RALSRLKEVLR 184 (186)
T ss_pred HHHHHHHHHhc
Confidence 99999998764
|
|
| >PRK12531 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.77 E-value=5.2e-18 Score=185.47 Aligned_cols=182 Identities=16% Similarity=0.141 Sum_probs=142.2
Q ss_pred hhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHH
Q psy15215 1172 NDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 1251 (1432)
Q Consensus 1172 ~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~i 1251 (1432)
.++..++.++..|+.. |++.|+..|.+.|+.+|.+++++...++|++||+|+.+|++.++|++..+ +|.||++.++
T Consensus 12 ~~~~~li~~~~~~d~~---af~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQev~l~l~~~~~~~~~~~~-~~~~wL~~ia 87 (194)
T PRK12531 12 QEWLECMEKVKSRDKQ---AFALVFSYYAPKLKQFAMKHVGNEQVAMEMVQETMSTVWQKAHLFDGQKS-ALSTWIYTII 87 (194)
T ss_pred HhHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcCcccc-hHHHHHHHHH
Confidence 4567788889999888 99999999999999999999999899999999999999999999997544 7999999999
Q ss_pred HHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCC
Q psy15215 1252 RQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDE 1331 (1432)
Q Consensus 1252 r~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~ 1331 (1432)
+|.+.+++|++.+..... +.+....++
T Consensus 88 rn~~ld~~Rk~~~~~~~~----------------------------------------------------~~~~~~~~~- 114 (194)
T PRK12531 88 RNLCFDLLRKQKGKDLHI----------------------------------------------------HADDIWPSD- 114 (194)
T ss_pred HHHHHHHHHHhccccccc----------------------------------------------------chhhccccc-
Confidence 999999999876410000 000000000
Q ss_pred CCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHH
Q psy15215 1332 DSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKAL 1411 (1432)
Q Consensus 1332 ~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl 1411 (1432)
.....+.+ ...|+.. .....+..++++||++++.||.|+|..|+ |++|||+.||+|.++|+.++++|+
T Consensus 115 --~~~~~~~~--~~~~e~~----~~~~~l~~~l~~Lp~~~r~v~~l~~~eg~----s~~EIA~~lgis~~tVk~rl~ra~ 182 (194)
T PRK12531 115 --YYPPDLVD--HYSPEQD----MLKEQVMKFLDRLPKAQRDVLQAVYLEEL----PHQQVAEMFDIPLGTVKSRLRLAV 182 (194)
T ss_pred --cccccccc--ccCHHHH----HHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHhCcCHHHHHHHHHHHH
Confidence 00000000 1123322 23456888999999999999999999998 999999999999999999999999
Q ss_pred HHhhCchhhhh
Q psy15215 1412 RKLRHPSRYYK 1422 (1432)
Q Consensus 1412 ~kLr~~~~~~~ 1422 (1432)
++||+......
T Consensus 183 ~~Lr~~l~~~~ 193 (194)
T PRK12531 183 EKLRHSMDAES 193 (194)
T ss_pred HHHHHHhhhcc
Confidence 99999766543
|
|
| >PRK09643 RNA polymerase sigma factor SigM; Reviewed | Back alignment and domain information |
|---|
Probab=99.77 E-value=9.7e-18 Score=182.92 Aligned_cols=173 Identities=12% Similarity=0.114 Sum_probs=142.5
Q ss_pred ChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHH
Q psy15215 1170 PLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 1249 (1432)
Q Consensus 1170 ~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~ 1249 (1432)
.......++..+..|+.. ++..++..|.+.|+++|.+++++..+++|++||+|+.+|++.++|++.. +|.+|++.
T Consensus 10 ~~~~~~~l~~~~~~gd~~---~~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQEvfl~l~~~~~~~~~~~--~f~~wL~~ 84 (192)
T PRK09643 10 GERSDAELLAAHVAGDRY---AFGELFRRHHRRLWAVARRTSGTREDAADALQDAMLSAHRAAGSFRGDA--AVSSWLHR 84 (192)
T ss_pred CCcCHHHHHHHHHCcCHH---HHHHHHHHHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHHHHHhcCCCC--ccHHHHHH
Confidence 334457788899999888 9999999999999999999999999999999999999999999999653 69999999
Q ss_pred HHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCC
Q psy15215 1250 WIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGD 1329 (1432)
Q Consensus 1250 ~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~ 1329 (1432)
+++|.+.+++|+..+..+. +++ +
T Consensus 85 i~rn~~~d~~Rk~~~~~~~-----------------------------------------------------~~~----~ 107 (192)
T PRK09643 85 IVVNACLDRLRRAKARPTV-----------------------------------------------------PLD----D 107 (192)
T ss_pred HHHHHHHHHHHccccCCCC-----------------------------------------------------Ccc----c
Confidence 9999999999986541100 000 0
Q ss_pred CCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHH
Q psy15215 1330 DEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 1409 (1432)
Q Consensus 1330 ~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~r 1409 (1432)
... .. .+|.+.+...+....+..+|..||+++|.|+.|+|..|+ |++|||+.||+|..+|+++++|
T Consensus 108 ~~~------~~----~~~~~~~~~~e~~~~l~~~l~~Lp~~~r~i~~l~~~~g~----s~~EIA~~lg~s~~tV~~rl~r 173 (192)
T PRK09643 108 VYP------VA----QLERDPTARVETALAVQRALMRLPVEQRAALVAVDMQGY----SVADAARMLGVAEGTVKSRCAR 173 (192)
T ss_pred ccc------cc----CCcccHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHH
Confidence 000 00 012233444556778999999999999999999999888 9999999999999999999999
Q ss_pred HHHHhhCch
Q psy15215 1410 ALRKLRHPS 1418 (1432)
Q Consensus 1410 Al~kLr~~~ 1418 (1432)
|+++||...
T Consensus 174 ar~~Lr~~l 182 (192)
T PRK09643 174 GRARLAELL 182 (192)
T ss_pred HHHHHHHHH
Confidence 999999944
|
|
| >TIGR02984 Sig-70_plancto1 RNA polymerase sigma-70 factor, Planctomycetaceae-specific subfamily 1 | Back alignment and domain information |
|---|
Probab=99.77 E-value=9.3e-18 Score=182.87 Aligned_cols=180 Identities=17% Similarity=0.217 Sum_probs=139.6
Q ss_pred hhhhhhhhhHHHHHHHHHHHHHHHHHhccC----CCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHH
Q psy15215 1183 AGEMKARKAKREMTEANLRLVISIAKKYTD----RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRS 1258 (1432)
Q Consensus 1183 ~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~----~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~ 1258 (1432)
.|+.. |+..|+..|.+.|+++|++|+. +..+++|++||+|+.+|+++.+|+...+.+|.+|++..++|.+.++
T Consensus 3 ~~~~~---a~~~l~~~y~~~l~~~~~~~l~~~~~~~~~aeD~vQe~~l~l~~~~~~~~~~~~~~~~~wl~~i~~n~~~d~ 79 (189)
T TIGR02984 3 GGDQE---ALGELLDRYRNYLRLLARVQLDPRLRRRVDPSDLVQETLLEAHRRFDQFRGKTEGEFAGWLRGILSNVLADA 79 (189)
T ss_pred CCCHH---HHHHHHHHHHHHHHHHHHHHhhhhcCCccCHHHHHHHHHHHHHHHHHhccCcccchHHHHHHHHHHHHHHHH
Confidence 56666 9999999999999999999753 5678999999999999999999987655689999999999999999
Q ss_pred HHHhcc-cccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCC-CCcC
Q psy15215 1259 IADQAR-TIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDED-SHLG 1336 (1432)
Q Consensus 1259 i~~~~r-~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~-~~~~ 1336 (1432)
++++.+ .-|.+ ....+++.+.+.++. ..+.
T Consensus 80 ~r~~~~~~~r~~------------------------------------------------~~~~~~~~~~~~~~~~~~~~ 111 (189)
T TIGR02984 80 LRRHLGAQKRDI------------------------------------------------RREQSLDAGGRLDESSVRLA 111 (189)
T ss_pred HHHHHHHHhhhc------------------------------------------------ccccCCCcccccCCcchhHH
Confidence 997631 00000 001222222111111 1122
Q ss_pred cccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhC
Q psy15215 1337 DFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 1416 (1432)
Q Consensus 1337 d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~ 1416 (1432)
+.+.+ ...+|++.....+....|..+|..|||+++.||.++|+.|+ |++|||+.||+|+++|++.++||+++||+
T Consensus 112 ~~~~~-~~~~~~~~~~~~e~~~~l~~~l~~L~~~~r~vi~l~~~~g~----s~~eIA~~lgis~~~v~~~l~Ra~~~Lr~ 186 (189)
T TIGR02984 112 AQLAA-DGPSPSQVAARREAAVRLAQALAKLPEDYREVILLRHLEGL----SFAEVAERMDRSEGAVSMLWVRGLARLRQ 186 (189)
T ss_pred HHccC-CCCCHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHH
Confidence 22222 23467777777777889999999999999999999999888 99999999999999999999999999997
Q ss_pred ch
Q psy15215 1417 PS 1418 (1432)
Q Consensus 1417 ~~ 1418 (1432)
.+
T Consensus 187 ~l 188 (189)
T TIGR02984 187 IL 188 (189)
T ss_pred Hh
Confidence 43
|
This group of sigma factors are members of the sigma-70 family (TIGR02937) and are apparently found only in the Planctomycetaceae family including the genuses Gemmata and Pirellula (in which seven sequences are found). |
| >PRK12514 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.77 E-value=1.2e-17 Score=180.20 Aligned_cols=176 Identities=14% Similarity=0.198 Sum_probs=145.3
Q ss_pred hhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHH
Q psy15215 381 LNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460 (1432)
Q Consensus 381 ~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ 460 (1432)
+.+...++..+..|+.. |+..++..|.+.|+++|.+++++..+++|++||+|+++|+++++|++.. .+|.||++..
T Consensus 3 ~~~~~~li~~~~~g~~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~fl~~~~~~~~~~~~~-~~~~~wl~~i 78 (179)
T PRK12514 3 PDDIEKLIVRVSLGDRD---AFSSLYDATSAKLFGICLRVLKDRSEAEEALQDVYVKIWTKADRFAVSG-LSPMTWLITI 78 (179)
T ss_pred chHHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHhHHhcCccc-ccHHHHHHHH
Confidence 35567788899999988 9999999999999999999999999999999999999999999998643 4799999999
Q ss_pred HHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCC
Q psy15215 461 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDD 540 (1432)
Q Consensus 461 ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~ 540 (1432)
++|.+.+++|++.+. ..+ .+.
T Consensus 79 a~n~~~d~~R~~~~~-~~~-----------------------------------------------------~~~----- 99 (179)
T PRK12514 79 ARNHAIDRLRARKAV-AVD-----------------------------------------------------IDE----- 99 (179)
T ss_pred HHHHHHHHHHhcCCc-ccc-----------------------------------------------------ccc-----
Confidence 999999999876531 000 000
Q ss_pred CCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHH
Q psy15215 541 EDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 620 (1432)
Q Consensus 541 ~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rA 620 (1432)
..+. .+ ...+|++.+...+....+..+|..||++++.||.++|+.|+ |++|||+.||+|..+|+++.+||
T Consensus 100 ----~~~~-~~-~~~~~e~~~~~~~~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~eIA~~lgis~~tV~~~l~Ra 169 (179)
T PRK12514 100 ----AHDL-AD-PSPGPEAEVIAGDEGQRIDACLEELEKDRAAAVRRAYLEGL----SYKELAERHDVPLNTMRTWLRRS 169 (179)
T ss_pred ----chhc-cc-cCCCHHHHHHhHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCChHHHHHHHHHH
Confidence 0000 00 11246666655555667999999999999999999999888 99999999999999999999999
Q ss_pred HHHHHHHHH
Q psy15215 621 LRKLRPLAH 629 (1432)
Q Consensus 621 l~kLr~~l~ 629 (1432)
+++|++++.
T Consensus 170 r~~Lr~~l~ 178 (179)
T PRK12514 170 LLKLRECLS 178 (179)
T ss_pred HHHHHHHhc
Confidence 999998763
|
|
| >PRK12524 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.77 E-value=1.5e-17 Score=182.26 Aligned_cols=176 Identities=15% Similarity=0.188 Sum_probs=147.1
Q ss_pred hhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHH
Q psy15215 382 NDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 461 (1432)
Q Consensus 382 ~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~i 461 (1432)
.+...++.++..||.. |+..|+..|.+.|+.+|.+++++..+++|++||+++++|+...+|++.. .+|.||++..+
T Consensus 11 ~~~~~li~~~~~gd~~---a~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~~l~l~~~~~~~~~~~-~~~~~wl~~ia 86 (196)
T PRK12524 11 VSDEALLVLYANGDPA---AARALTLRLAPRALAVATRVLGDRAEAEDVTQEAMLRLWRIAPDWRQGE-ARVSTWLYRVV 86 (196)
T ss_pred cCHHHHHHHHHCCCHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhhcccccc-chHHHHHHHHH
Confidence 3456889999999988 9999999999999999999999999999999999999999999998533 47999999999
Q ss_pred HHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCC
Q psy15215 462 RQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDE 541 (1432)
Q Consensus 462 r~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~ 541 (1432)
++.+.+++|++.+. . ..++. ..+
T Consensus 87 ~n~~~d~~Rk~~~~-~-----------------------------------------------------~~~~~-~~~-- 109 (196)
T PRK12524 87 CNLCTDRLRRRRRA-S-----------------------------------------------------VDLDD-APE-- 109 (196)
T ss_pred HHHHHHHHHhhcCC-C-----------------------------------------------------CCccc-ccc--
Confidence 99999999876541 0 00000 000
Q ss_pred CCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHH
Q psy15215 542 DSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKAL 621 (1432)
Q Consensus 542 ~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl 621 (1432)
..+ ...+|++.+...+....|..+|+.||++++.||.|+|..|+ |++|||+.||+|+++|+++.+||+
T Consensus 110 -------~~~-~~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~i~~L~~~~g~----s~~eIA~~lgis~~tV~~~l~Ra~ 177 (196)
T PRK12524 110 -------PAD-AAPGAEEALIEGDRMRALDAALAALPERQRQAVVLRHIEGL----SNPEIAEVMEIGVEAVESLTARGK 177 (196)
T ss_pred -------ccc-cCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHH
Confidence 001 11246666777777888999999999999999999999888 999999999999999999999999
Q ss_pred HHHHHHHHH
Q psy15215 622 RKLRPLAHD 630 (1432)
Q Consensus 622 ~kLr~~l~~ 630 (1432)
++|+..+..
T Consensus 178 ~~Lr~~l~~ 186 (196)
T PRK12524 178 RALAALLAG 186 (196)
T ss_pred HHHHHHHHh
Confidence 999988753
|
|
| >PRK11924 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.77 E-value=1.3e-17 Score=179.76 Aligned_cols=174 Identities=14% Similarity=0.120 Sum_probs=145.5
Q ss_pred HHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHH
Q psy15215 1176 DINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI 1255 (1432)
Q Consensus 1176 ~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i 1255 (1432)
.+...+..|+.. |+..+++.|.+.|+++|++++++..+++|++||++++||++.++|+ .+.+|.+|++.++++.+
T Consensus 2 ~~~~~~~~~~~~---a~~~l~~~y~~~l~~~~~~~~~~~~~aeDl~qe~~~~l~~~~~~~~--~~~~~~~~l~~i~~~~~ 76 (179)
T PRK11924 2 QLMPVDATGDKE---AFSELFRPHAPDLLRYARRQLGDRALAEDAVQEAFLRAWRKADLFN--GKGSARTWLLTIARNVC 76 (179)
T ss_pred hHHHHHHccCHH---HHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHHHhhcC--CcchHHHHHHHHHHHHH
Confidence 356677889888 9999999999999999999999999999999999999999999998 34589999999999999
Q ss_pred HHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCc
Q psy15215 1256 TRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHL 1335 (1432)
Q Consensus 1256 ~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~ 1335 (1432)
.+++++..+..+. +.. +..+
T Consensus 77 ~d~~r~~~~~~~~-----------------------------------------------------~~~-~~~~------ 96 (179)
T PRK11924 77 YDLLRRRRREKAV-----------------------------------------------------LSD-DALE------ 96 (179)
T ss_pred HHHHHhccccccc-----------------------------------------------------Ccc-cccc------
Confidence 9999876641100 000 0000
Q ss_pred CcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhh
Q psy15215 1336 GDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415 (1432)
Q Consensus 1336 ~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr 1415 (1432)
...+....+|++.+...+....+..+|..|||+++.|+.++|..|+ |.+|||+.||+|+.+|++++++|+++||
T Consensus 97 --~~~~~~~~~~e~~~~~~e~~~~l~~~l~~L~~~~r~i~~l~~~~~~----~~~eIA~~lgis~~tv~~~~~ra~~~lr 170 (179)
T PRK11924 97 --PEFAETAETPEAALLAKDDLARIDRCLDALPVKQREVFLLRYVEGL----SYREIAEILGVPVGTVKSRLRRARQLLR 170 (179)
T ss_pred --cccCCccCCHHHHHhhHHHHHHHHHHHHhCCHHHHHHhhHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 0000023478888888889999999999999999999999998888 9999999999999999999999999999
Q ss_pred Cchhh
Q psy15215 1416 HPSRY 1420 (1432)
Q Consensus 1416 ~~~~~ 1420 (1432)
+....
T Consensus 171 ~~l~~ 175 (179)
T PRK11924 171 ECLEA 175 (179)
T ss_pred HHHHH
Confidence 86554
|
|
| >PRK09640 RNA polymerase sigma factor SigX; Reviewed | Back alignment and domain information |
|---|
Probab=99.77 E-value=4.2e-18 Score=185.32 Aligned_cols=170 Identities=18% Similarity=0.236 Sum_probs=134.2
Q ss_pred HHHHHHHHHh---hhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHH
Q psy15215 1174 LRDINRKMIA---GEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 1250 (1432)
Q Consensus 1174 ~~~l~~~~~~---g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ 1250 (1432)
...++..++. |+.. |+..|+..|.+.|+++|.+|+++..+++|++||+|+.+|+++++|++. .+|+||++.+
T Consensus 10 ~~~li~~~~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeDlvQe~f~~l~~~~~~~~~~--~~~~~wl~~i 84 (188)
T PRK09640 10 DEELVARVHVELFHVTR---AYEELMRRYQRTLFNVCARYLGNDRDADDVCQEVMLKVLYGLKNFEGK--SKFKTWLYSI 84 (188)
T ss_pred HHHHHHHHhcccCCCHH---HHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHHHHHhcCC--CcchHHHHHH
Confidence 4456667764 5666 999999999999999999999999999999999999999999999853 4799999999
Q ss_pred HHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCC
Q psy15215 1251 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDD 1330 (1432)
Q Consensus 1251 ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~ 1330 (1432)
++|.+.+++|+..+..... .+...
T Consensus 85 a~n~~~d~~R~~~~~~~~~-----------------------------------------------------~~~~~--- 108 (188)
T PRK09640 85 TYNECITQYRKERRKRRLM-----------------------------------------------------DALSL--- 108 (188)
T ss_pred HHHHHHHHHHHhcccccCc-----------------------------------------------------chhhh---
Confidence 9999999999765411000 00000
Q ss_pred CCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHH
Q psy15215 1331 EDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 1410 (1432)
Q Consensus 1331 ~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rA 1410 (1432)
+...+.. .+.....+....|.++|+.||+++|.||.|+|..|+ |++|||+.||+|.++|+.+++||
T Consensus 109 ------~~~~~~~----~~~~~~~~~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~EIA~~lgis~~tV~~~l~Ra 174 (188)
T PRK09640 109 ------DPLEEAS----EEKAPKPEERGGLDRWLVHVNPIDREILVLRFVAEL----EFQEIADIMHMGLSATKMRYKRA 174 (188)
T ss_pred ------ccccccc----ccccccHHHHHHHHHHHHhcChhheeeeeeHHhcCC----CHHHHHHHHCCCHHHHHHHHHHH
Confidence 0000000 001112234567999999999999999999999888 99999999999999999999999
Q ss_pred HHHhhCch
Q psy15215 1411 LRKLRHPS 1418 (1432)
Q Consensus 1411 l~kLr~~~ 1418 (1432)
+++||...
T Consensus 175 ~~~Lr~~l 182 (188)
T PRK09640 175 LDKLREKF 182 (188)
T ss_pred HHHHHHHH
Confidence 99999943
|
|
| >PRK11922 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.76 E-value=1.3e-17 Score=187.25 Aligned_cols=190 Identities=16% Similarity=0.204 Sum_probs=155.0
Q ss_pred cCCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHH
Q psy15215 377 IVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 456 (1432)
Q Consensus 377 ~~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fsty 456 (1432)
.+++......++.++..|+.. |+..++..|.+.|+++|.+++..+.+++||+||+|+++|+++++|++. .+|.+|
T Consensus 10 ~~~~~~~~~~l~~~~~~gd~~---a~~~l~~~y~~~l~~~a~~~~~~~~~AEDlvQE~fi~l~~~~~~~~~~--~~~~~w 84 (231)
T PRK11922 10 PPLSAASDRELVARVLAGDEA---AFEALMRRHNRRLYRTARAILRNDAEAEDVVQEAYLRAFRALGTFRGD--ASLSTW 84 (231)
T ss_pred CCcCcccHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHHHHHhcCCC--chhHHH
Confidence 456667778899999999998 999999999999999999999999999999999999999999999875 479999
Q ss_pred HHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCC
Q psy15215 457 ATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESP 536 (1432)
Q Consensus 457 a~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~ 536 (1432)
++..++|.+.+++|++.+..+.+.. . +..
T Consensus 85 L~~iarn~~~d~~Rk~~r~~~~~~~--------------------------------------------------~-~~~ 113 (231)
T PRK11922 85 LSRIVLNEALGRLRRRRRLVNLAEM--------------------------------------------------V-MAS 113 (231)
T ss_pred HHHHHHHHHHHHHHhhcccccchhc--------------------------------------------------c-ccc
Confidence 9999999999999987763211000 0 000
Q ss_pred CCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHH
Q psy15215 537 VGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQI 616 (1432)
Q Consensus 537 ~~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~ 616 (1432)
...+ + ..... .....+|++.+...+..+.+..+|+.||++++.||.|+|..|+ |++|||+.||+|.++|+++
T Consensus 114 ~~~~-~--~~~~~-~~~~~~~e~~~~~~e~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~EIAe~lgis~~tVk~~ 185 (231)
T PRK11922 114 TIAG-G--ERTPL-ADPAEDPERAAARREIRALLERAIDALPDAFRAVFVLRVVEEL----SVEETAQALGLPEETVKTR 185 (231)
T ss_pred cccc-c--ccccc-CcccCChHHHHHHHHHHHHHHHHHHhCCHHHhhhheeehhcCC----CHHHHHHHHCcCHHHHHHH
Confidence 0000 0 00000 1123467788888888889999999999999999999998888 9999999999999999999
Q ss_pred HHHHHHHHHHHHHH
Q psy15215 617 EAKALRKLRPLAHD 630 (1432)
Q Consensus 617 ~~rAl~kLr~~l~~ 630 (1432)
.++|+.+||+.+..
T Consensus 186 l~Rar~kLr~~l~~ 199 (231)
T PRK11922 186 LHRARRLLRESLAR 199 (231)
T ss_pred HHHHHHHHHHHHHH
Confidence 99999999998864
|
|
| >PRK12538 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.76 E-value=1.7e-17 Score=185.59 Aligned_cols=173 Identities=12% Similarity=0.180 Sum_probs=143.9
Q ss_pred HHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHH
Q psy15215 384 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 463 (1432)
Q Consensus 384 ~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~ 463 (1432)
...|+..++.||.. |+..|+..|.+.|++++.+++++..+++|++||+|+.+|++.++|++..+ +|.+|++..++|
T Consensus 50 d~~Li~~~~~gd~~---af~~L~~~y~~~l~~~~~~~~~d~~dAEDivQEvfl~l~~~~~~~~~~~~-~f~~WL~~IarN 125 (233)
T PRK12538 50 DEELLDRLATDDEA---AFRLLVERHIDRAYAIALRIVGNRADAEDVVQDTMLKVWTHRGRWQHGRA-KFSTWLYRVVSN 125 (233)
T ss_pred HHHHHHHHHhCCHH---HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHcccccc-cHHHHHHHHHHH
Confidence 45678889999988 99999999999999999999999999999999999999999999986444 799999999999
Q ss_pred HHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCC
Q psy15215 464 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS 543 (1432)
Q Consensus 464 ~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~ 543 (1432)
.+.+++|++.+. .+ ..+. +.
T Consensus 126 ~~id~~Rk~~~~-~~----------------------------------------------------~~~~----~~--- 145 (233)
T PRK12538 126 RCIDLRRKPRTE-NV----------------------------------------------------DAVP----EV--- 145 (233)
T ss_pred HHHHHHHhhccc-cc----------------------------------------------------cccc----cc---
Confidence 999999865320 00 0000 00
Q ss_pred CcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHH
Q psy15215 544 HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRK 623 (1432)
Q Consensus 544 ~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~k 623 (1432)
. + ...++.+.+...+....+..+|..||+++|.||.|+|..|+ |++|||+.||+|.++|+++.+||+++
T Consensus 146 -----~-~-~~~~~~~~~~~~e~~~~l~~~L~~Lp~~~R~v~~L~~~eg~----s~~EIA~~Lgis~~tVk~~l~RAr~k 214 (233)
T PRK12538 146 -----A-D-GKPDAVSVIERNELSDLLEAAMQRLPEQQRIAVILSYHENM----SNGEIAEVMDTTVAAVESLLKRGRQQ 214 (233)
T ss_pred -----c-c-CCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHhhhHHhcCC----CHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence 0 0 01234555566667778999999999999999999999999 99999999999999999999999999
Q ss_pred HHHHHHHH
Q psy15215 624 LRPLAHDW 631 (1432)
Q Consensus 624 Lr~~l~~~ 631 (1432)
|++.+...
T Consensus 215 Lr~~l~~~ 222 (233)
T PRK12538 215 LRDLLRRH 222 (233)
T ss_pred HHHHHHHh
Confidence 99988644
|
|
| >PRK12515 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.76 E-value=1.9e-17 Score=180.42 Aligned_cols=174 Identities=17% Similarity=0.208 Sum_probs=145.3
Q ss_pred HHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHH
Q psy15215 1174 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 1253 (1432)
Q Consensus 1174 ~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~ 1253 (1432)
...++..++.|+.. |++.|+..|.+.|+.++.+++++..+++|++||+|+.+|++..+|++. .+|.||++..+++
T Consensus 9 ~~~l~~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeDivQe~f~~l~~~~~~~~~~--~~~~~wl~~i~~n 83 (189)
T PRK12515 9 DEMLLARIAQGDRT---AMQTLYGRHHVRVYRFGLRLVRDEQTAEDLVSEVFLDVWRQAGQFEGR--SQVSTWLLSIARF 83 (189)
T ss_pred HHHHHHHHHccCHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhcCCC--CChHHHHHHHHHH
Confidence 45678888899888 999999999999999999999999999999999999999999999964 3799999999999
Q ss_pred HHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCC
Q psy15215 1254 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS 1333 (1432)
Q Consensus 1254 ~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~ 1333 (1432)
.+.+++++..+. .+ + .+.
T Consensus 84 ~~~d~~r~~~~~-~~-----------------------------------------------------~------~~~-- 101 (189)
T PRK12515 84 KALSALRRRKHE-EI-----------------------------------------------------D------DEA-- 101 (189)
T ss_pred HHHHHHHccCCC-CC-----------------------------------------------------c------ccc--
Confidence 999999865431 00 0 000
Q ss_pred CcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHH
Q psy15215 1334 HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRK 1413 (1432)
Q Consensus 1334 ~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~k 1413 (1432)
. ..+.+ ...+|+......+....+..+|+.||+++|.||.|+|..|+ |++|||+.||+|.++|+++++||+++
T Consensus 102 -~-~~~~~-~~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~~~----s~~eIA~~lgis~~tV~~~l~Rar~~ 174 (189)
T PRK12515 102 -A-AAIED-GADTPEVALQKSDTSAALRACLAKLSPAHREIIDLVYYHEK----SVEEVGEIVGIPESTVKTRMFYARKK 174 (189)
T ss_pred -c-cccCC-CCCCHHHHHHhHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence 0 00111 12356666666777888999999999999999999999998 99999999999999999999999999
Q ss_pred hhCchhhh
Q psy15215 1414 LRHPSRYY 1421 (1432)
Q Consensus 1414 Lr~~~~~~ 1421 (1432)
||+.....
T Consensus 175 Lr~~l~~~ 182 (189)
T PRK12515 175 LAELLKAA 182 (189)
T ss_pred HHHHHHHh
Confidence 99966544
|
|
| >TIGR02939 RpoE_Sigma70 RNA polymerase sigma factor RpoE | Back alignment and domain information |
|---|
Probab=99.76 E-value=2.1e-17 Score=180.27 Aligned_cols=182 Identities=15% Similarity=0.179 Sum_probs=147.0
Q ss_pred HHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHH
Q psy15215 384 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 463 (1432)
Q Consensus 384 ~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~ 463 (1432)
...++..+..||.. |+..|+..|.+.|+.+|+++++...+++||+||+++++|+++++|++. .+|.+|++..++|
T Consensus 7 d~~l~~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeDlvQe~fi~l~~~~~~~~~~--~~~~~wl~~iarn 81 (190)
T TIGR02939 7 DLELVERVQRGEKQ---AFDLLVRKYQHKVVALVGRYVRDSSEVEDVAQEAFVKAYRALSSFRGD--SAFYTWLYRIAVN 81 (190)
T ss_pred HHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHHhcCCC--CccHhHHHHHHHH
Confidence 35678888999988 999999999999999999999999999999999999999999999864 4799999999999
Q ss_pred HHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCC
Q psy15215 464 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS 543 (1432)
Q Consensus 464 ~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~ 543 (1432)
.+.+++++..+..... ..+.+.. ....+
T Consensus 82 ~~~~~~r~~~r~~~~~--------------------------------------------------~~~~~~~-~~~~~- 109 (190)
T TIGR02939 82 TAKNHLVAQGRRPPTS--------------------------------------------------DVEIEDA-EHFEG- 109 (190)
T ss_pred HHHHHHHHhccCCCcc--------------------------------------------------cccccch-hhhcc-
Confidence 9999998765421100 0000000 00000
Q ss_pred CcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHH
Q psy15215 544 HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRK 623 (1432)
Q Consensus 544 ~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~k 623 (1432)
...+. ...+|++.+...+....+..+|..||++++.||.|+|..|+ |++|||+.||+|.++|+++.++|+++
T Consensus 110 --~~~~~--~~~~~e~~~~~~~~~~~l~~~l~~L~~~~r~v~~l~~~~~~----s~~EIA~~lgis~~tv~~~l~rar~~ 181 (190)
T TIGR02939 110 --ADRLR--EIDTPERLLLSRELEQTVMRAVEALPEDLRTAITLRELEGL----SYEDIARIMDCPVGTVRSRIFRAREA 181 (190)
T ss_pred --ccccc--ccCChHHHHHHHHHHHHHHHHHHcCCHHHhhhhhhhhhcCC----CHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence 00000 12357777777778888999999999999999999999888 99999999999999999999999999
Q ss_pred HHHHHHH
Q psy15215 624 LRPLAHD 630 (1432)
Q Consensus 624 Lr~~l~~ 630 (1432)
|++.+..
T Consensus 182 Lr~~l~~ 188 (190)
T TIGR02939 182 IAIRLRP 188 (190)
T ss_pred HHHHhhc
Confidence 9998864
|
A sigma factor is a DNA-binding protein protein that binds to the DNA-directed RNA polymerase core to produce the holoenzyme capable of initiating transcription at specific sites. Different sigma factors act in vegetative growth, heat shock, extracytoplasmic functions (ECF), etc. This model represents the clade of sigma factors called RpoE. This protein may be called sigma-24, sigma-E factor, sigma-H factor, fecI-like sigma factor or alternative sigma factor AlgU. |
| >PRK06811 RNA polymerase factor sigma-70; Validated | Back alignment and domain information |
|---|
Probab=99.76 E-value=2.2e-17 Score=179.83 Aligned_cols=170 Identities=14% Similarity=0.189 Sum_probs=142.6
Q ss_pred HHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCC---CChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHH
Q psy15215 385 RDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRG---LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 461 (1432)
Q Consensus 385 ~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~---~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~i 461 (1432)
..|+.+++.|+.. |+..++..|.+.|+++|.++++++ .+++|++||+++++|+++++|++..+ +|.||++..+
T Consensus 6 ~~li~~~~~gd~~---a~~~l~~~y~~~l~~~~~~~~~~~~~~~daeDi~Qe~~i~l~~~~~~~~~~~~-~~~~wl~~ia 81 (189)
T PRK06811 6 DNFIKELKKKNEK---ALEFIVDTYGNLVKKIVHKVLGTVNYSQLIEECVNDIFLSIWNNIDKFDEEKG-SFKKWIAAIS 81 (189)
T ss_pred HHHHHHHHccCHH---HHHHHHHHHHHHHHHHHHHHHcccCchhHHHHHHHHHHHHHHHhHHHhccccc-cHHHHHHHHH
Confidence 5788999999988 999999999999999999998853 47999999999999999999987544 8999999999
Q ss_pred HHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCC
Q psy15215 462 RQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDE 541 (1432)
Q Consensus 462 r~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~ 541 (1432)
+|.+.++++++.+.... .+.+..
T Consensus 82 rn~~~d~~rk~~~~~~~----------------------------------------------------~~~~~~----- 104 (189)
T PRK06811 82 KYKAIDYKRKLTKNNEI----------------------------------------------------DSIDEF----- 104 (189)
T ss_pred HHHHHHHHHHhcccccc----------------------------------------------------ccchhh-----
Confidence 99999999987652100 000000
Q ss_pred CCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHH
Q psy15215 542 DSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKAL 621 (1432)
Q Consensus 542 ~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl 621 (1432)
. . ....+|++.....+....+..+|..|||+++.||.|+|..|+ |++|||+.||+|..+|+++.+||+
T Consensus 105 -~-----~--~~~~~~~~~~~~~e~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~EIAe~lgis~~~V~~~l~Ra~ 172 (189)
T PRK06811 105 -I-----L--ISEESIENEIILKENKEEILKLINDLEKLDREIFIRRYLLGE----KIEEIAKKLGLTRSAIDNRLSRGR 172 (189)
T ss_pred -h-----h--cccCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHccC----CHHHHHHHHCCCHHHHHHHHHHHH
Confidence 0 0 011356677777777888999999999999999999999888 999999999999999999999999
Q ss_pred HHHHHH
Q psy15215 622 RKLRPL 627 (1432)
Q Consensus 622 ~kLr~~ 627 (1432)
++|+..
T Consensus 173 ~~Lr~~ 178 (189)
T PRK06811 173 KKLQKN 178 (189)
T ss_pred HHHHHc
Confidence 999864
|
|
| >PRK12537 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.75 E-value=2.4e-17 Score=178.34 Aligned_cols=174 Identities=11% Similarity=0.144 Sum_probs=143.2
Q ss_pred hhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHH
Q psy15215 382 NDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 461 (1432)
Q Consensus 382 ~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~i 461 (1432)
.+...++..++.|+.. |+..|+..|.+.|+.+|.+++++..+++|++||+|+.+|+..++|++.. .+|.+|++..+
T Consensus 8 ~~~~~l~~~~~~~d~~---a~~~l~~~~~~~l~~~~~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~~-~~~~~wL~~ia 83 (182)
T PRK12537 8 FDYEACLLACARGDRR---ALQALYQQESARLLGVARRIVRDRALAEDIVHDAFIKIWTGAASFDPAR-GSARGWIYSVT 83 (182)
T ss_pred hhHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHhccccCCccc-ccHHHHHHHHH
Confidence 3456789999999988 9999999999999999999999999999999999999999999998643 37999999999
Q ss_pred HHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCC
Q psy15215 462 RQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDE 541 (1432)
Q Consensus 462 r~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~ 541 (1432)
+|.+.++++++.+...+ ... ..
T Consensus 84 rn~~~d~~r~~~~~~~~-------------------------------------------------------~~~---~~ 105 (182)
T PRK12537 84 RHLALNVLRDTRREVVL-------------------------------------------------------DDD---AE 105 (182)
T ss_pred HHHHHHHHHhccccCcc-------------------------------------------------------ccc---hh
Confidence 99999999987642100 000 00
Q ss_pred CCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHH
Q psy15215 542 DSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKAL 621 (1432)
Q Consensus 542 ~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl 621 (1432)
+... ...++.+..........+..+|++|||+++.|+.|+|..|+ |++|||+.||+|.++|+.+.+||+
T Consensus 106 -----~~~~--~~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~i~~l~~~~~~----s~~eIA~~lgis~~tV~~~l~ra~ 174 (182)
T PRK12537 106 -----ETAQ--TLHEIIDDFDLWANSGKIHRCLEQLEPARRNCILHAYVDGC----SHAEIAQRLGAPLGTVKAWIKRSL 174 (182)
T ss_pred -----hhcc--cccchHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCChhhHHHHHHHHH
Confidence 0000 01123344444455678999999999999999999999999 999999999999999999999999
Q ss_pred HHHHHHH
Q psy15215 622 RKLRPLA 628 (1432)
Q Consensus 622 ~kLr~~l 628 (1432)
++|+..+
T Consensus 175 ~~Lr~~l 181 (182)
T PRK12537 175 KALRECM 181 (182)
T ss_pred HHHHHHh
Confidence 9999875
|
|
| >PRK12543 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.75 E-value=1.8e-17 Score=178.80 Aligned_cols=167 Identities=17% Similarity=0.262 Sum_probs=136.0
Q ss_pred HhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHH
Q psy15215 1182 IAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD 1261 (1432)
Q Consensus 1182 ~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~ 1261 (1432)
..|+.. |+..++..|.+.|++++++|+++..+++|++||+|+.+|+++.+|++.. +|.+|++.+++|.+.+++++
T Consensus 2 ~~~d~~---af~~l~~~~~~~l~~~~~~~~~~~~daeDl~Qevfl~l~~~~~~~~~~~--~f~~wl~~iarn~~~~~~r~ 76 (179)
T PRK12543 2 LSGDQE---AFSEIYDVTIQEVYKTVHFLVEDKQDVDDVVNEIYIQLWESLRKYDSNR--PFRFWLIGLVIKQIHSWRRK 76 (179)
T ss_pred cCchHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHHcCCCC--ChHHHHHHHHHHHHHHHHHh
Confidence 456666 9999999999999999999999999999999999999999999999764 69999999999999998876
Q ss_pred hcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCccccc
Q psy15215 1262 QARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIED 1341 (1432)
Q Consensus 1262 ~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d 1341 (1432)
..+..+. ++. ..+.. + .
T Consensus 77 ~~~~~~~------------------------------------------------------~~~-~~~~~-----~---~ 93 (179)
T PRK12543 77 RWRRFRI------------------------------------------------------FEK-AEEQR-----K---P 93 (179)
T ss_pred hcccccc------------------------------------------------------ccc-ccccc-----c---c
Confidence 6531000 000 00000 0 0
Q ss_pred CCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhh
Q psy15215 1342 ENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYY 1421 (1432)
Q Consensus 1342 ~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~ 1421 (1432)
....+|+. ....+....+..+|..|||++|.|+.|+|+.|+ |++|||+.||+|.++|+..++||+++||+.+...
T Consensus 94 ~~~~~~~~-~~~~~~~~~l~~~l~~Lp~~~r~i~~l~~~e~~----s~~EIA~~lgis~~tV~~~l~ra~~~Lr~~l~~~ 168 (179)
T PRK12543 94 VSIDFSED-VLSKESNQELIELIHKLPYKLRQVIILRYLHDY----SQEEIAQLLQIPIGTVKSRIHAALKKLRQKEQIE 168 (179)
T ss_pred ccccChHH-HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHccC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 01123444 566677788999999999999999999999998 9999999999999999999999999999977654
|
|
| >TIGR03001 Sig-70_gmx1 RNA polymerase sigma-70 factor, Myxococcales family 1 | Back alignment and domain information |
|---|
Probab=99.75 E-value=3.5e-17 Score=183.95 Aligned_cols=181 Identities=16% Similarity=0.189 Sum_probs=145.7
Q ss_pred HHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHH-------HHHhccccCCCcchhH
Q psy15215 1174 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMK-------AVDKFEYRRGYKFSTY 1246 (1432)
Q Consensus 1174 ~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~k-------av~kfd~~~g~~Fsty 1246 (1432)
...++..++.|+.. ||..|+..|.+.|+.++.+++++..+++|++||+|+.+|. ++++|++. .+|.||
T Consensus 26 d~~Li~~~~~gd~~---Af~~L~~~y~~~l~~~~~~~~~~~~dAEDivQEvFlkl~~~~~~~~~~~~~~~~~--~~~~tW 100 (244)
T TIGR03001 26 DLYLACACAQGEPA---ALAALERHVLSKVPARLAGLRPPTAFVDEVLQRLRQRLLVPRAERPPRIAEYSGR--GPLLSW 100 (244)
T ss_pred HHHHHHHHHcCcHH---HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhccchhhhhhccCCC--CchHhH
Confidence 44678889999887 9999999999999999999999999999999999999994 78889864 379999
Q ss_pred HHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCC
Q psy15215 1247 ATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESP 1326 (1432)
Q Consensus 1247 a~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~ 1326 (1432)
++.+++|.+.++++++.+...+ +
T Consensus 101 L~~Ia~N~~id~lRk~~r~~~~-------------------------------------------------------~-- 123 (244)
T TIGR03001 101 VRIVATRIALELQAQERRHSPV-------------------------------------------------------E-- 123 (244)
T ss_pred HHHHHHHHHHHHHHHhcccCcc-------------------------------------------------------c--
Confidence 9999999999999976641100 0
Q ss_pred CCCCCCCCcCcccccCCCCChHHHHHH----HHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHH
Q psy15215 1327 VGDDEDSHLGDFIEDENMLAPSDAALN----ASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRER 1402 (1432)
Q Consensus 1327 ~~~~~~~~~~d~i~d~~~~~p~~~~~~----~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~ 1402 (1432)
+++. ..+. .+ ...+|++.... ......+..+|++||+++|.|+.|+|..|+ |++|||+.||||.++
T Consensus 124 --~~~~--~~~~-~~-~~~~~e~~~~~~e~~~e~~~~l~~aL~~Lp~~~R~v~~L~~~eg~----S~~EIA~~Lgis~~T 193 (244)
T TIGR03001 124 --EPTE--LAAL-PA-PGSDPELDLLRERYRQDFRQALREALAALSERERHLLRLHFVDGL----SMDRIGAMYQVHRST 193 (244)
T ss_pred --cccc--cccc-cC-CCCCHHHHHHHHhhHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHH
Confidence 0000 0000 00 11244444433 246678999999999999999999999998 999999999999999
Q ss_pred HHHHHHHHHHHhhCchhhhhHHhh
Q psy15215 1403 IRQIEAKALRKLRHPSRYYKLKIF 1426 (1432)
Q Consensus 1403 Vrq~~~rAl~kLr~~~~~~~l~~~ 1426 (1432)
|+.+++||+++||+.+++.....|
T Consensus 194 Vk~rl~RAr~~Lr~~l~~~~~~~~ 217 (244)
T TIGR03001 194 VSRWVAQARERLLERTRRRLAERL 217 (244)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhc
Confidence 999999999999999888776655
|
This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in multiple copies in the order Myxococcales. This model supercedes TIGR02233, which has now been retired. |
| >PRK09649 RNA polymerase sigma factor SigC; Reviewed | Back alignment and domain information |
|---|
Probab=99.75 E-value=2.2e-17 Score=178.97 Aligned_cols=173 Identities=16% Similarity=0.098 Sum_probs=136.8
Q ss_pred CCChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHH
Q psy15215 1168 VLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 1247 (1432)
Q Consensus 1168 ~l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya 1247 (1432)
+........++.++..|+.. |+..|+..|.+.|+.+++ ++++..+++|++||+|+.+|+..++|++. .+|.+|+
T Consensus 5 ~~~~~~~~~l~~~~~~gd~~---af~~l~~~~~~~l~~~~~-~~~~~~~AeDivQe~flkl~~~~~~~~~~--~~~~~Wl 78 (185)
T PRK09649 5 ASDDEAVTALALSAAKGNGR---ALEAFIKATQQDVWRFVA-YLSDVGSADDLTQETFLRAIGAIPRFSAR--SSARTWL 78 (185)
T ss_pred ccccHHHHHHHHHHHccCHH---HHHHHHHHHHHHHHHHHH-HhCCHHHHHHHHHHHHHHHHHhccccCcc--chHHHHH
Confidence 44456677889999999988 999999999999999995 67888899999999999999999999864 3799999
Q ss_pred HHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCC
Q psy15215 1248 TWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPV 1327 (1432)
Q Consensus 1248 ~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~ 1327 (1432)
+.+++|.+.+++|++.+..+.. .+..
T Consensus 79 ~~Iarn~~~d~~Rk~~~~~~~~-----------------------------------------------------~~~~- 104 (185)
T PRK09649 79 LAIARHVVADHIRHVRSRPRTT-----------------------------------------------------RGAR- 104 (185)
T ss_pred HHHHHHHHHHHHHHhccccccc-----------------------------------------------------cccc-
Confidence 9999999999999865411100 0000
Q ss_pred CCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHH
Q psy15215 1328 GDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIE 1407 (1432)
Q Consensus 1328 ~~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~ 1407 (1432)
.+ ... .+.......+....+..+|++|||++|.||.|+|+.|+ |++|||+.||+|.++|++++
T Consensus 105 --~~------~~~-----~~~~~~~~~e~~~~l~~~l~~Lp~~~r~v~~L~~~~g~----s~~EIA~~lgis~~tVk~~l 167 (185)
T PRK09649 105 --PE------HLI-----DGDRHARGFEDLVEVTTMIADLTTDQREALLLTQLLGL----SYADAAAVCGCPVGTIRSRV 167 (185)
T ss_pred --hh------hcc-----ChhhhhhhHHHHHHHHHHHHhCCHHHhHHhhhHHHcCC----CHHHHHHHHCCCHHHHHHHH
Confidence 00 000 00000111122345888999999999999999999999 99999999999999999999
Q ss_pred HHHHHHhhCc
Q psy15215 1408 AKALRKLRHP 1417 (1432)
Q Consensus 1408 ~rAl~kLr~~ 1417 (1432)
+||+++||+.
T Consensus 168 ~Rar~~Lr~~ 177 (185)
T PRK09649 168 ARARDALLAD 177 (185)
T ss_pred HHHHHHHHhh
Confidence 9999999983
|
|
| >PRK12526 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.75 E-value=4.4e-17 Score=179.77 Aligned_cols=179 Identities=13% Similarity=0.093 Sum_probs=140.6
Q ss_pred hHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHH
Q psy15215 383 DLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 462 (1432)
Q Consensus 383 e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir 462 (1432)
....+...+..||.. |+..|+..|.+.|+++|.+++++..+++|++||+|+.+|+++.+|++.++ .|.||++.++|
T Consensus 24 ~~~~l~~~~~~~d~~---a~~~l~~~y~~~l~~~~~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~~~-~~~~wl~~I~r 99 (206)
T PRK12526 24 LSQWLILVAISRDKQ---AFTHLFQFFAPKIKRFGIKQLGNEAQANELVQETMSNVWRKAHLYNGDKG-AATTWVYTVMR 99 (206)
T ss_pred HHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHHhcCCccc-chhHHHHHHHH
Confidence 345566778889988 99999999999999999999999899999999999999999999987655 69999999999
Q ss_pred HHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCC
Q psy15215 463 QAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDED 542 (1432)
Q Consensus 463 ~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~ 542 (1432)
|.+.+++|++.+..... .. ++ .
T Consensus 100 n~~~d~~Rk~~~~~~~~-----------------------------------------------------~~----~~-~ 121 (206)
T PRK12526 100 NAAFDMLRKIKAKKEQN-----------------------------------------------------LG----DD-I 121 (206)
T ss_pred HHHHHHHHHhccccccc-----------------------------------------------------cc----cc-c
Confidence 99999999876521000 00 00 0
Q ss_pred CCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHH
Q psy15215 543 SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALR 622 (1432)
Q Consensus 543 ~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~ 622 (1432)
....+.+.+. ...+. ..........|..+|++||++++.||.|+|+.|+ |++|||+.+|+|.++|+.+.++|++
T Consensus 122 ~~~~~~~~~~-~~~~~-~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~g~----s~~EIA~~lgis~~tV~~~l~Ra~~ 195 (206)
T PRK12526 122 WPIEQALAES-QSESE-EFSDHLMDKQILSYIEKLPEAQQTVVKGVYFQEL----SQEQLAQQLNVPLGTVKSRLRLALA 195 (206)
T ss_pred chhhhhcccc-cCchH-HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 0000001111 11222 2333344567999999999999999999999999 9999999999999999999999999
Q ss_pred HHHHHHH
Q psy15215 623 KLRPLAH 629 (1432)
Q Consensus 623 kLr~~l~ 629 (1432)
+|+..+.
T Consensus 196 ~Lr~~l~ 202 (206)
T PRK12526 196 KLKVQMG 202 (206)
T ss_pred HHHHHHh
Confidence 9998874
|
|
| >PRK12536 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.75 E-value=1.9e-17 Score=178.96 Aligned_cols=172 Identities=15% Similarity=0.168 Sum_probs=136.6
Q ss_pred hhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccC-CCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHH
Q psy15215 1172 NDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTD-RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 1250 (1432)
Q Consensus 1172 ~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~-~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ 1250 (1432)
..+..++.++..|+.. |++.++..|.+.|+.+|.++++ +..+++|++||+|+.+|++.++|++. .+|.+|++.+
T Consensus 6 ~~~~~~~~~~~~~d~~---a~~~l~~~~~~~l~~~~~~~~~~~~~~aeDlvQevfl~l~~~~~~~~~~--~~~~~wl~~i 80 (181)
T PRK12536 6 ARLRALLLRGLAGDAA---AYRQFLSELAAHLRGFLRRRLPQLPDEVEDLVQEILLAVHNARHTYRAD--QPLTAWVHAI 80 (181)
T ss_pred hHHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHcCCChhhHHHHHHHHHHHHHHhHHhcCCC--CchHHHHHHH
Confidence 3456788899999988 9999999999999999998764 57899999999999999999999964 3799999999
Q ss_pred HHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCC
Q psy15215 1251 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDD 1330 (1432)
Q Consensus 1251 ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~ 1330 (1432)
++|.+.+++|++.+.... ..+..+.
T Consensus 81 arN~~~d~~Rk~~~~~~~-------------------------------------------------------~~~~~~~ 105 (181)
T PRK12536 81 ARYKLMDFLRSRARREAL-------------------------------------------------------HDPLDDE 105 (181)
T ss_pred HHHHHHHHHHHHhccccc-------------------------------------------------------cCCccch
Confidence 999999999987641000 0000000
Q ss_pred CCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHH
Q psy15215 1331 EDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 1410 (1432)
Q Consensus 1331 ~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rA 1410 (1432)
. +...+. ...+ .+....+.++|..||++++.|+.|+|..|+ |++|||+.||+|+++|++.+++|
T Consensus 106 ~-----~~~~~~-~~~~------~~~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~EIA~~l~is~~tV~~~l~ra 169 (181)
T PRK12536 106 S-----ELFATS-DDEA------AEARRDLGKLLEQLPDRQRLPIVHVKLEGL----SVAETAQLTGLSESAVKVGIHRG 169 (181)
T ss_pred h-----hhcCCC-Ccch------HHHHHHHHHHHHHCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHH
Confidence 0 000000 0111 133456899999999999999999999998 99999999999999999999999
Q ss_pred HHHhhCchh
Q psy15215 1411 LRKLRHPSR 1419 (1432)
Q Consensus 1411 l~kLr~~~~ 1419 (1432)
+++||+.+.
T Consensus 170 r~~Lr~~l~ 178 (181)
T PRK12536 170 LKALAAKIR 178 (181)
T ss_pred HHHHHHHhc
Confidence 999998554
|
|
| >PRK12534 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.75 E-value=3.1e-17 Score=178.44 Aligned_cols=178 Identities=16% Similarity=0.205 Sum_probs=145.3
Q ss_pred hhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHH
Q psy15215 381 LNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460 (1432)
Q Consensus 381 ~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ 460 (1432)
..+...++..+..|+.. |++.++..|.++|+++|.+++++..+++|++||+|+++|++.++|++.++ +|.||++..
T Consensus 9 ~~~~~~l~~~~~~~~~~---~~~~l~~~y~~~l~~~~~~~~~~~~~aeDlvQe~fl~~~~~~~~~~~~~~-~~~~wl~~I 84 (187)
T PRK12534 9 DDETGRLLTATAGGDRH---AFEALYRQTSPKLFGVCLRMIPQRAEAEEVLQDVFTLIWHKAGQFDPSRA-RGLTWLAMI 84 (187)
T ss_pred cchHHHHHHHHHcCCHH---HHHHHHHHhhHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccCCcccc-cHHHHHHHH
Confidence 34567788888899988 99999999999999999999999999999999999999999999987644 689999999
Q ss_pred HHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCC
Q psy15215 461 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDD 540 (1432)
Q Consensus 461 ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~ 540 (1432)
++|.+.++++++.+..+. .+.+.
T Consensus 85 ~~n~~~d~~R~~~~~~~~----------------------------------------------------~~~~~----- 107 (187)
T PRK12534 85 ARNKAIDHLRANAPQRRN----------------------------------------------------VALDD----- 107 (187)
T ss_pred HHHHHHHHHHhccccccc----------------------------------------------------ccccc-----
Confidence 999999999876531000 00000
Q ss_pred CCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHH
Q psy15215 541 EDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 620 (1432)
Q Consensus 541 ~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rA 620 (1432)
...... ...+|.+.....+....+..+|..||++++.|+.|+|..|+ |++|||+.||+|+++|+++.+||
T Consensus 108 ----~~~~~~--~~~~~~~~~~~~e~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~eIA~~lgis~~~v~~~l~Ra 177 (187)
T PRK12534 108 ----AGELRA--ADASPLERTERASTRRRIDHCLAELEPPRSELIRTAFFEGI----TYEELAARTDTPIGTVKSWIRRG 177 (187)
T ss_pred ----hhhhcc--ccCChhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHhCCChhHHHHHHHHH
Confidence 000000 01234455555667789999999999999999999999888 99999999999999999999999
Q ss_pred HHHHHHHHH
Q psy15215 621 LRKLRPLAH 629 (1432)
Q Consensus 621 l~kLr~~l~ 629 (1432)
+++|+..+.
T Consensus 178 r~~Lr~~l~ 186 (187)
T PRK12534 178 LAKLKACLE 186 (187)
T ss_pred HHHHHHHHc
Confidence 999998763
|
|
| >PRK12539 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.75 E-value=3.8e-17 Score=177.12 Aligned_cols=171 Identities=11% Similarity=0.131 Sum_probs=136.6
Q ss_pred hHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHH----hccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHH
Q psy15215 1173 DLRDINRKMIAGEMKARKAKREMTEANLRLVISIAK----KYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 1248 (1432)
Q Consensus 1173 e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~----~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~ 1248 (1432)
....++.+++.|+.. |+..|+..|.+.|+.+|+ ++.++..+++|++||+|+.+|++.++|++.. +|.+|++
T Consensus 7 ~~~~l~~~~~~gd~~---af~~l~~~~~~~l~~~~~~~~~~~~~~~~~AeDlvQe~~l~l~~~~~~~~~~~--~f~~wl~ 81 (184)
T PRK12539 7 ELKALMLASLDGDAA---AHRALLERLSGHLRAYYKGKLARIGRGAEEAEDLVQEALMAIHTRRHTYDPEQ--PLTPWVY 81 (184)
T ss_pred HHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHhhcCCCC--ChHHHHH
Confidence 356788889999988 999999999999999976 5667889999999999999999999998753 6999999
Q ss_pred HHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCC
Q psy15215 1249 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVG 1328 (1432)
Q Consensus 1249 ~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~ 1328 (1432)
.+++|.+.+++|+..+. +.+ .+.+.
T Consensus 82 ~i~~n~~~d~~R~~~~~-~~~---------------------------------------------------~~~~~--- 106 (184)
T PRK12539 82 AIARYKLIDHLRRTRAS-LAD---------------------------------------------------VPIDD--- 106 (184)
T ss_pred HHHHHHHHHHHHHHhcc-ccc---------------------------------------------------cChhh---
Confidence 99999999999986541 000 00000
Q ss_pred CCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHH
Q psy15215 1329 DDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEA 1408 (1432)
Q Consensus 1329 ~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~ 1408 (1432)
.+ .. .. ..+ ....+....+..++..||+++|.|+.|+|+.|+ |++|||+.||+|..+|+++++
T Consensus 107 -~~--~~---~~----~~~---~~~~e~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~eIA~~lgis~~tV~~~l~ 169 (184)
T PRK12539 107 -AD--EL---VA----HDD---HAAVESTLDLGRLLARLPEKMRLAIQAVKLEGL----SVAEAATRSGMSESAVKVSVH 169 (184)
T ss_pred -hc--cc---cC----CcH---HhhHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----cHHHHHHHHCcCHHHHHHHHH
Confidence 00 00 00 011 112234567999999999999999999999888 999999999999999999999
Q ss_pred HHHHHhhCchhh
Q psy15215 1409 KALRKLRHPSRY 1420 (1432)
Q Consensus 1409 rAl~kLr~~~~~ 1420 (1432)
||+++||+....
T Consensus 170 ra~~~Lr~~l~~ 181 (184)
T PRK12539 170 RGLKALAALIGR 181 (184)
T ss_pred HHHHHHHHHHhh
Confidence 999999986543
|
|
| >PRK12522 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.74 E-value=2.7e-17 Score=176.52 Aligned_cols=165 Identities=10% Similarity=0.170 Sum_probs=130.8
Q ss_pred hhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccccccc
Q psy15215 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 1269 (1432)
Q Consensus 1190 ~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 1269 (1432)
..+++|+..|.++|+++|++|+++..+++|++||+++.+|++.++|++.. +|.+|++.+++|.+.+++|++.+....+
T Consensus 3 ~~~~~l~~~y~~~i~~~~~~~~~~~~daeDvvQe~~i~l~~~~~~~~~~~--~~~~wl~~i~~n~~~d~~Rk~~~~~~~~ 80 (173)
T PRK12522 3 EKVEELIDIYKQQIYSLCYKLAKTKEDAEDIFQETWIKVFSSRHQLSYVE--NYKKWITTICVRTFYDFYRKKKRWKDRI 80 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHcCCcc--chHHHHHHHHHHHHHHHHHHhccccccc
Confidence 46999999999999999999999999999999999999999999999754 7999999999999999999877521100
Q ss_pred ccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 1270 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 1349 (1432)
Q Consensus 1270 ~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~ 1349 (1432)
.. ..+.. ...... ..+ ....|..
T Consensus 81 ~~--------------------------------------------------~~~~~----~~~~~~--~~~-~~~~~~~ 103 (173)
T PRK12522 81 LD--------------------------------------------------LFHKE----DGGEIE--FAD-DVNISEE 103 (173)
T ss_pred cc--------------------------------------------------ccchh----hhhhhc--ccc-CCCChHH
Confidence 00 00000 000000 000 1112333
Q ss_pred HHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCch
Q psy15215 1350 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 1418 (1432)
Q Consensus 1350 ~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~ 1418 (1432)
....+..+.+..+|..||++++.|+.|+|..|+ |++|||+.||+|.++|+.+++||+++||..+
T Consensus 104 -~~~~~~~~~l~~~l~~L~~~~r~i~~l~~~~~~----s~~EIA~~lgis~~tV~~~l~Ra~~~Lr~~l 167 (173)
T PRK12522 104 -FIQKVEAEMIREVIQLLNEKYKTVLVLYYYEQY----SYKEMSEILNIPIGTVKYRLNYAKKQMREHL 167 (173)
T ss_pred -HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHHH
Confidence 445567788999999999999999999999999 9999999999999999999999999999854
|
|
| >PRK12520 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.74 E-value=2.6e-17 Score=179.55 Aligned_cols=181 Identities=17% Similarity=0.199 Sum_probs=138.4
Q ss_pred hHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccc
Q psy15215 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 1270 (1432)
Q Consensus 1191 A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 1270 (1432)
+++.|+..|.+.|+.+|.+++++..+++|++||+|+.+|+++++|+.. .+|.||++.+++|.+.+++|++.+..+.+.
T Consensus 3 ~~~~l~~~~~~~l~~~a~~~~~~~~~AeDivQevfl~~~~~~~~~~~~--~~~~~WL~~ia~n~~~d~~Rk~~r~~~~~~ 80 (191)
T PRK12520 3 IAPAQLEALRPHLLRFARLQLRDPALAEDAVSETLLAVLEHPERFAGQ--SSLKTYLVGILKHKIIDAIRSGRREVRLSL 80 (191)
T ss_pred chHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhhhccc--ccHHHHHHHHHHHHHHHHHHhhcCcCcccc
Confidence 789999999999999999999999999999999999999999999854 379999999999999999998775221110
Q ss_pred cHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 1271 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 1350 (1432)
Q Consensus 1271 ~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~ 1350 (1432)
.... ..... . .++. .... +.. ....++ ...+|++.
T Consensus 81 ~~~~------------------~~~~~-----------~------------~~~~-~~~~-~~~-~~~~~~-~~~~~~~~ 115 (191)
T PRK12520 81 DDAD------------------EQSDD-----------D------------LFDA-LFAA-DGH-YREPPS-DWGDPDAA 115 (191)
T ss_pred cccc------------------cchhh-----------h------------hhhh-hccc-ccc-cccCcc-ccCCHHHH
Confidence 0000 00000 0 0000 0000 000 000111 12367777
Q ss_pred HHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhh
Q psy15215 1351 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422 (1432)
Q Consensus 1351 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~ 1422 (1432)
+...+....|..+|..|||++|.|+.|+|+.|+ |++|||+.||+|.++|+++++||+++||+......
T Consensus 116 ~~~~~~~~~l~~~l~~Lp~~~r~v~~l~~~~g~----s~~EIA~~lgis~~tV~~~l~Rar~~Lr~~l~~~~ 183 (191)
T PRK12520 116 LSRREFFEVLQACVDRLPPRTGRVFMMREWLEL----ETEEICQELQITATNAWVLLYRARMRLRECLDLHW 183 (191)
T ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 777788888999999999999999999999998 99999999999999999999999999999887765
|
|
| >TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family | Back alignment and domain information |
|---|
Probab=99.74 E-value=3.2e-17 Score=175.31 Aligned_cols=164 Identities=16% Similarity=0.241 Sum_probs=133.6
Q ss_pred HHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHH
Q psy15215 1175 RDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 1254 (1432)
Q Consensus 1175 ~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~ 1254 (1432)
..++..+.+|+.. |++.++..|.+.|+++|.+++++..+++|++||+|+.+|++.++|++.. +|.||++.+++|.
T Consensus 4 ~~l~~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~l~~~~~~~~~~~~~--~~~~wl~~i~~n~ 78 (169)
T TIGR02954 4 EELVKKAKRGNKP---AFESLIKKHKEKLYKTAFIYVKNEHDALDVIQETVYKAYLSIDKLKHPK--YFNTWLTRILINE 78 (169)
T ss_pred HHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhccCcc--ccHHHHHHHHHHH
Confidence 3567788899888 9999999999999999999999999999999999999999999998653 7999999999999
Q ss_pred HHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCC
Q psy15215 1255 ITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSH 1334 (1432)
Q Consensus 1255 i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~ 1334 (1432)
+.+++|+..+. .| ++.....+
T Consensus 79 ~~d~~R~~~~~--~~-----------------------------------------------------~~~~~~~~---- 99 (169)
T TIGR02954 79 CIDLLKKKKKV--IP-----------------------------------------------------FDPNTSIE---- 99 (169)
T ss_pred HHHHHHhcCCc--Cc-----------------------------------------------------cccccccc----
Confidence 99999876541 00 00000000
Q ss_pred cCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHh
Q psy15215 1335 LGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKL 1414 (1432)
Q Consensus 1335 ~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kL 1414 (1432)
+ ..+.. .. .....+..+|..||+++++|+.|+|+.|+ |++|||+.||+|.++|+.+++||+++|
T Consensus 100 ------~---~~~~~--~~-~~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~eiA~~lgis~~tv~~~l~Ra~~~L 163 (169)
T TIGR02954 100 ------K---GECET--HA-DSRLDLYKAIDTLNDKYQTAIILRYYHDL----TIKEIAEVMNKPEGTVKTYLHRALKKL 163 (169)
T ss_pred ------c---chhhh--ch-HHHHHHHHHHHhCCHHHhHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 0 00100 00 11236888999999999999999999888 999999999999999999999999999
Q ss_pred hCch
Q psy15215 1415 RHPS 1418 (1432)
Q Consensus 1415 r~~~ 1418 (1432)
|+.+
T Consensus 164 r~~l 167 (169)
T TIGR02954 164 KKRL 167 (169)
T ss_pred HHHh
Confidence 9854
|
This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species. |
| >PRK06759 RNA polymerase factor sigma-70; Validated | Back alignment and domain information |
|---|
Probab=99.74 E-value=2.4e-17 Score=173.41 Aligned_cols=150 Identities=23% Similarity=0.256 Sum_probs=123.3
Q ss_pred HhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccc
Q psy15215 400 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 479 (1432)
Q Consensus 400 ~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 479 (1432)
.|+..+++.|.++|+++++++ +...+++|++|||++++|+++++|++..+ +|.+|++..++|.+.++++++.+...
T Consensus 4 ~af~~l~~~y~~~l~~~~~~~-~~~~~aeDi~Qe~~l~l~~~~~~~~~~~~-~f~~wl~~i~~n~~ld~~rk~~~~~~-- 79 (154)
T PRK06759 4 ATFTEAVVLYEGLIVNQIKKL-GIYQDYEEYYQCGLIGLWHAYERYDEKKG-SFPAYAVVTVRGYILERLKKEFAVQE-- 79 (154)
T ss_pred ccHHHHHHHHHHHHHHHHHHh-CCcccHHHHHHHHHHHHHHHHHHhCccCC-chHHHHHHHHHHHHHHHHHHHHhhcc--
Confidence 389999999999999999986 45679999999999999999999997666 79999999999999999998743100
Q ss_pred hhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 480 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 559 (1432)
Q Consensus 480 ~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~ 559 (1432)
... + + .+|.+
T Consensus 80 -------------------------------------------------~~~----~--~---------------~~~~~ 89 (154)
T PRK06759 80 -------------------------------------------------KCV----C--V---------------GEYED 89 (154)
T ss_pred -------------------------------------------------ccc----c--c---------------CCCcc
Confidence 000 0 0 01111
Q ss_pred HHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHH
Q psy15215 560 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPL 627 (1432)
Q Consensus 560 ~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~ 627 (1432)
.....+....+..++.+|||+++.||.++|+.|+ |++|||+.+|+|.++|+++.++|+++||+.
T Consensus 90 ~~~~~~~~~~l~~~l~~L~~~~r~ii~l~~~~~~----s~~EIA~~l~is~~tV~~~~~ra~~~Lr~~ 153 (154)
T PRK06759 90 HFHFEDVEMKVKDFMSVLDEKEKYIIFERFFVGK----TMGEIALETEMTYYQVRWIYRQALEKMRNS 153 (154)
T ss_pred cccHHHHHHHHHHHHHhCCHHHHHHHHHHHhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHhhc
Confidence 1222334567999999999999999999999988 999999999999999999999999999863
|
|
| >PRK09640 RNA polymerase sigma factor SigX; Reviewed | Back alignment and domain information |
|---|
Probab=99.74 E-value=1.8e-17 Score=180.26 Aligned_cols=174 Identities=18% Similarity=0.246 Sum_probs=137.4
Q ss_pred HHHHHHHHHH---hHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHH
Q psy15215 384 LRDINRKMIA---GEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460 (1432)
Q Consensus 384 ~~~l~~~i~~---gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ 460 (1432)
...++..++. ||.. |+..|+..|.+.|+++|.+|++...+++|++||+|+.+|+++++|++ ..+|+||++.+
T Consensus 10 ~~~li~~~~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeDlvQe~f~~l~~~~~~~~~--~~~~~~wl~~i 84 (188)
T PRK09640 10 DEELVARVHVELFHVTR---AYEELMRRYQRTLFNVCARYLGNDRDADDVCQEVMLKVLYGLKNFEG--KSKFKTWLYSI 84 (188)
T ss_pred HHHHHHHHhcccCCCHH---HHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHHHHHhcC--CCcchHHHHHH
Confidence 4456667764 5787 99999999999999999999999999999999999999999999985 34799999999
Q ss_pred HHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCC
Q psy15215 461 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDD 540 (1432)
Q Consensus 461 ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~ 540 (1432)
++|.+.+++++..+..... .. .+.+.
T Consensus 85 a~n~~~d~~R~~~~~~~~~-------------------------~~------------------------~~~~~----- 110 (188)
T PRK09640 85 TYNECITQYRKERRKRRLM-------------------------DA------------------------LSLDP----- 110 (188)
T ss_pred HHHHHHHHHHHhcccccCc-------------------------ch------------------------hhhcc-----
Confidence 9999999999765421100 00 00000
Q ss_pred CCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHH
Q psy15215 541 EDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 620 (1432)
Q Consensus 541 ~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rA 620 (1432)
..+. ..+.....+....|..+|++||++++.||.|+|..|+ |++|||+.||+|.++|+.+.+||
T Consensus 111 --------~~~~----~~~~~~~~~~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~EIA~~lgis~~tV~~~l~Ra 174 (188)
T PRK09640 111 --------LEEA----SEEKAPKPEERGGLDRWLVHVNPIDREILVLRFVAEL----EFQEIADIMHMGLSATKMRYKRA 174 (188)
T ss_pred --------cccc----cccccccHHHHHHHHHHHHhcChhheeeeeeHHhcCC----CHHHHHHHHCCCHHHHHHHHHHH
Confidence 0000 0000111234567999999999999999999999888 99999999999999999999999
Q ss_pred HHHHHHHHHHHH
Q psy15215 621 LRKLRPLAHDWL 632 (1432)
Q Consensus 621 l~kLr~~l~~~~ 632 (1432)
+.+|+..+..+.
T Consensus 175 ~~~Lr~~l~~~~ 186 (188)
T PRK09640 175 LDKLREKFAGLA 186 (188)
T ss_pred HHHHHHHHHHHh
Confidence 999999886553
|
|
| >PRK09643 RNA polymerase sigma factor SigM; Reviewed | Back alignment and domain information |
|---|
Probab=99.74 E-value=6.6e-17 Score=176.37 Aligned_cols=177 Identities=12% Similarity=0.115 Sum_probs=145.8
Q ss_pred CChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHH
Q psy15215 379 LPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 458 (1432)
Q Consensus 379 l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~ 458 (1432)
........++..+..|+.. ++..++..|.+.|+++|.++++...+++|++||+|+.+|++.++|++. .+|.+|++
T Consensus 9 ~~~~~~~~l~~~~~~gd~~---~~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQEvfl~l~~~~~~~~~~--~~f~~wL~ 83 (192)
T PRK09643 9 FGERSDAELLAAHVAGDRY---AFGELFRRHHRRLWAVARRTSGTREDAADALQDAMLSAHRAAGSFRGD--AAVSSWLH 83 (192)
T ss_pred CCCcCHHHHHHHHHCcCHH---HHHHHHHHHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHHHHHhcCCC--CccHHHHH
Confidence 3344567888999999998 999999999999999999999999999999999999999999999964 36999999
Q ss_pred HHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCC
Q psy15215 459 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVG 538 (1432)
Q Consensus 459 ~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~ 538 (1432)
..++|.+.+++|+..+..+. +++
T Consensus 84 ~i~rn~~~d~~Rk~~~~~~~-----------------------------------------------------~~~---- 106 (192)
T PRK09643 84 RIVVNACLDRLRRAKARPTV-----------------------------------------------------PLD---- 106 (192)
T ss_pred HHHHHHHHHHHHccccCCCC-----------------------------------------------------Ccc----
Confidence 99999999999987542100 000
Q ss_pred CCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHH
Q psy15215 539 DDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEA 618 (1432)
Q Consensus 539 ~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~ 618 (1432)
+... .. .+|.+.+...+....+..+|++||+++|.|+.|+|..|+ |++|||+.+|+|.++|+.+.+
T Consensus 107 ~~~~------~~----~~~~~~~~~~e~~~~l~~~l~~Lp~~~r~i~~l~~~~g~----s~~EIA~~lg~s~~tV~~rl~ 172 (192)
T PRK09643 107 DVYP------VA----QLERDPTARVETALAVQRALMRLPVEQRAALVAVDMQGY----SVADAARMLGVAEGTVKSRCA 172 (192)
T ss_pred cccc------cc----CCcccHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHH
Confidence 0000 00 012233444556778999999999999999999999998 999999999999999999999
Q ss_pred HHHHHHHHHHHHH
Q psy15215 619 KALRKLRPLAHDW 631 (1432)
Q Consensus 619 rAl~kLr~~l~~~ 631 (1432)
+|+++|++.+..+
T Consensus 173 rar~~Lr~~l~~~ 185 (192)
T PRK09643 173 RGRARLAELLGYL 185 (192)
T ss_pred HHHHHHHHHHHHh
Confidence 9999999988654
|
|
| >PRK09638 RNA polymerase sigma factor SigY; Reviewed | Back alignment and domain information |
|---|
Probab=99.74 E-value=2.3e-17 Score=177.67 Aligned_cols=170 Identities=18% Similarity=0.196 Sum_probs=136.6
Q ss_pred HHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHH
Q psy15215 1174 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 1253 (1432)
Q Consensus 1174 ~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~ 1253 (1432)
...++..+.+|+.. |++.|+..|.+.|+.+|.+|+++..+++|++||+|+++|+++++|++. .+|.+|++.+++|
T Consensus 5 ~~~l~~~~~~~d~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~vQe~~l~l~~~~~~~~~~--~~~~~wl~~i~~n 79 (176)
T PRK09638 5 EKELIQKAKKGDDA---ALTTLFQQHYSFLYKYLLKLTLDPDLAEDLVQETMLKAIENLSSFQGR--SKFSTWLISIASR 79 (176)
T ss_pred HHHHHHHHHCCCHH---HHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHHHHHhcCCc--ccHHHHHHHHHHH
Confidence 34678888899888 999999999999999999999999999999999999999999999864 4899999999999
Q ss_pred HHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCC
Q psy15215 1254 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS 1333 (1432)
Q Consensus 1254 ~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~ 1333 (1432)
.+.+++++..+..... + ...+.
T Consensus 80 ~~~d~~r~~~~~~~~~------------------------------------------------------~-~~~~~--- 101 (176)
T PRK09638 80 LYKDHLRKQKREKLRL------------------------------------------------------Q-RAKEE--- 101 (176)
T ss_pred HHHHHHHHhccccchh------------------------------------------------------h-hcccc---
Confidence 9999999876421000 0 00000
Q ss_pred CcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHH
Q psy15215 1334 HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRK 1413 (1432)
Q Consensus 1334 ~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~k 1413 (1432)
..+. ...+..........+..+|..||++++.||.++|+.|+ |++|||+.||+|.++|++.++||+++
T Consensus 102 -----~~~~---~~~~~~~~~~~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~eIA~~l~is~~~V~~~l~ra~~~ 169 (176)
T PRK09638 102 -----TLRK---EKWEAAIKGAEWSEMLDALSKLDPEFRAPVILKHYYGY----TYEEIAKMLNIPEGTVKSRVHHGIKQ 169 (176)
T ss_pred -----cCCc---cchHHHHHhhhHHHHHHHHHcCCHHHhheeeehhhcCC----CHHHHHHHHCCChhHHHHHHHHHHHH
Confidence 0000 00011222334566889999999999999999998888 99999999999999999999999999
Q ss_pred hhCch
Q psy15215 1414 LRHPS 1418 (1432)
Q Consensus 1414 Lr~~~ 1418 (1432)
||+..
T Consensus 170 l~~~l 174 (176)
T PRK09638 170 LRKEW 174 (176)
T ss_pred HHHHh
Confidence 99843
|
|
| >PRK09645 RNA polymerase sigma factor SigL; Provisional | Back alignment and domain information |
|---|
Probab=99.74 E-value=3.7e-17 Score=175.51 Aligned_cols=158 Identities=15% Similarity=0.110 Sum_probs=128.0
Q ss_pred hHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccc
Q psy15215 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 1270 (1432)
Q Consensus 1191 A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 1270 (1432)
|+..|+..|.+.|+++|.+++++..+++|++||+|+.+|++.++|++.. ..|.+|++.+++|.+.+++|++.+....
T Consensus 10 ~~~~l~~~~~~~l~~~~~~~~~~~~~AeD~vQevfl~~~~~~~~~~~~~-~~~~~wL~~iarn~~~d~~Rk~~~~~~~-- 86 (173)
T PRK09645 10 LMRALYDEHAAPLWRYALRLTGDRARAEDVVQETLLRAWQHPEVLADTG-RSARAWLFTVARNLVIDERRSARARPVE-- 86 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcCccc-ccHHHHHHHHHHHHHHHHHHhhcccccc--
Confidence 9999999999999999999999989999999999999999999997533 4799999999999999999986541000
Q ss_pred cHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 1271 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 1350 (1432)
Q Consensus 1271 ~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~ 1350 (1432)
..+ + .... .+ .++.+.
T Consensus 87 ---------------------------------------------------~~~-----~-~~~~----~~---~~~~~~ 102 (173)
T PRK09645 87 ---------------------------------------------------GGD-----D-VLGV----PE---QSAPDE 102 (173)
T ss_pred ---------------------------------------------------ccc-----c-cccC----CC---CCCchH
Confidence 000 0 0000 00 112223
Q ss_pred HHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchh
Q psy15215 1351 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1351 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~ 1419 (1432)
.........|..+|+.|||++|.||.|+|+.|+ |++|||+.||+|.++|+.+++||+++||+...
T Consensus 103 ~~~~~~~~~l~~~l~~L~~~~r~vl~L~~~~g~----s~~EIA~~lgis~~tV~~~l~ra~~~Lr~~l~ 167 (173)
T PRK09645 103 VDRALDRLLVADALAQLSPEHRAVLVRSYYRGW----STAQIAADLGIPEGTVKSRLHYALRALRLALQ 167 (173)
T ss_pred HHHHhHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhh
Confidence 333344567899999999999999999999988 99999999999999999999999999998654
|
|
| >PRK12529 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.74 E-value=2.6e-17 Score=177.37 Aligned_cols=166 Identities=10% Similarity=0.051 Sum_probs=132.9
Q ss_pred HHhhhhhhhhhHHHHHHHHHHHHHHHHHhccC--CCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHH
Q psy15215 1181 MIAGEMKARKAKREMTEANLRLVISIAKKYTD--RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRS 1258 (1432)
Q Consensus 1181 ~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~--~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~ 1258 (1432)
+..|+.. ||..|+..|.+.|++++.++++ +..+++|++||+|+.+|+..++|+......|.||++.+++|.+.++
T Consensus 7 ~~~~d~~---af~~ly~~~~~~l~~~~~~~~~~~~~~~AeDivQevFl~~~~~~~~~~~~~~~~~~~wL~~ia~n~~~d~ 83 (178)
T PRK12529 7 CLSADRD---KVATLYRENHAWLRNWLAYRLRSWGRGVADDLAHDIFLRILASRDGGQREAIRQPRAYLARIANCVLVSW 83 (178)
T ss_pred CCCCCHH---HHHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHhcccccccccccCHHHHHHHHHHHHHHHH
Confidence 4567777 9999999999999998766665 4678999999999999999999985444579999999999999999
Q ss_pred HHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcc
Q psy15215 1259 IADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDF 1338 (1432)
Q Consensus 1259 i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~ 1338 (1432)
+|++.+. +.. .+.. ..
T Consensus 84 ~Rk~~~~---~~~---------------------------------------------------~~~~-~~--------- 99 (178)
T PRK12529 84 RRRQSLE---LAW---------------------------------------------------LEAL-AT--------- 99 (178)
T ss_pred HHHHHHH---hhh---------------------------------------------------hhHh-hh---------
Confidence 9876430 000 0000 00
Q ss_pred cccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1339 IEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1339 i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
......++|++.....+....|..+|.+|||++|.||.|+|..|+ |++|||+.||+|.++|+.++++|+.+++..
T Consensus 100 ~~~~~~~~~e~~~~~~~~~~~l~~~l~~Lp~~~R~v~~L~~~~g~----s~~EIA~~lgis~~tVk~~l~rAl~~~~~~ 174 (178)
T PRK12529 100 LPEPLHPSPEQQSVILETLHEIDALLDTLRPRVKQAFLMATLDGM----KQKDIAQALDIALPTVKKYIHQAYVTCLSL 174 (178)
T ss_pred ccCcCCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHh
Confidence 000112356666666677788999999999999999999999888 999999999999999999999999999874
|
|
| >PRK11924 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.73 E-value=1e-16 Score=172.89 Aligned_cols=173 Identities=15% Similarity=0.139 Sum_probs=145.8
Q ss_pred HHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHH
Q psy15215 386 DINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI 465 (1432)
Q Consensus 386 ~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i 465 (1432)
.+...+..|+.. |+..+++.|.+.|+++|+++++...+++|++||++++||++.++|+ .+.+|.+|++..+++.+
T Consensus 2 ~~~~~~~~~~~~---a~~~l~~~y~~~l~~~~~~~~~~~~~aeDl~qe~~~~l~~~~~~~~--~~~~~~~~l~~i~~~~~ 76 (179)
T PRK11924 2 QLMPVDATGDKE---AFSELFRPHAPDLLRYARRQLGDRALAEDAVQEAFLRAWRKADLFN--GKGSARTWLLTIARNVC 76 (179)
T ss_pred hHHHHHHccCHH---HHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHHHhhcC--CcchHHHHHHHHHHHHH
Confidence 356788899998 9999999999999999999999999999999999999999999998 34589999999999999
Q ss_pred HHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCc
Q psy15215 466 TRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHL 545 (1432)
Q Consensus 466 ~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~ 545 (1432)
.+++++..+..+. .. .+..+
T Consensus 77 ~d~~r~~~~~~~~----------------------------------------------------~~--~~~~~------ 96 (179)
T PRK11924 77 YDLLRRRRREKAV----------------------------------------------------LS--DDALE------ 96 (179)
T ss_pred HHHHHhccccccc----------------------------------------------------Cc--ccccc------
Confidence 9999876652100 00 00000
Q ss_pred CcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 546 GDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 546 ~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
...+....+|++.+...+....+..+|.+||++++.|+.++|..|+ |++|||+.||+|+.+|+++.++|+.+|+
T Consensus 97 --~~~~~~~~~~e~~~~~~e~~~~l~~~l~~L~~~~r~i~~l~~~~~~----~~~eIA~~lgis~~tv~~~~~ra~~~lr 170 (179)
T PRK11924 97 --PEFAETAETPEAALLAKDDLARIDRCLDALPVKQREVFLLRYVEGL----SYREIAEILGVPVGTVKSRLRRARQLLR 170 (179)
T ss_pred --cccCCccCCHHHHHhhHHHHHHHHHHHHhCCHHHHHHhhHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 0000023478888888889999999999999999999999998888 9999999999999999999999999999
Q ss_pred HHHH
Q psy15215 626 PLAH 629 (1432)
Q Consensus 626 ~~l~ 629 (1432)
+.+.
T Consensus 171 ~~l~ 174 (179)
T PRK11924 171 ECLE 174 (179)
T ss_pred HHHH
Confidence 8775
|
|
| >PRK09415 RNA polymerase factor sigma C; Reviewed | Back alignment and domain information |
|---|
Probab=99.73 E-value=5.5e-17 Score=175.04 Aligned_cols=162 Identities=12% Similarity=0.093 Sum_probs=134.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccc
Q psy15215 1189 RKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 1268 (1432)
Q Consensus 1189 ~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~iri 1268 (1432)
..|+++++..|.+.|+++|.+++++..+++|++||+|+.+|++.++|+.. .+|.+|++.+++|.+.+++|+..+....
T Consensus 15 ~~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDlvQd~fl~l~~~~~~~~~~--~~~~awl~~ia~n~~~d~~Rk~~~~~~~ 92 (179)
T PRK09415 15 EDLIDEIMNEYGQEVLQLVYSYVKNKEVAEDLTQEIFVKCYKSLHTYKGK--SSLKTWLYRIAINHCKDYLKSWHNKKVI 92 (179)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcCCC--cccHHHHHHHHHHHHHHHHHhhcccccc
Confidence 35999999999999999999999999999999999999999999999864 3799999999999999999986541000
Q ss_pred cccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChH
Q psy15215 1269 PVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPS 1348 (1432)
Q Consensus 1269 p~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~ 1348 (1432)
+ .+. . ..... ....+|+
T Consensus 93 ~-----------------------------------------------------~~~----~----~~~~~--~~~~~~e 109 (179)
T PRK09415 93 V-----------------------------------------------------TED----I----FTYME--SQKESVE 109 (179)
T ss_pred c-----------------------------------------------------ccc----c----ccccc--ccccCcH
Confidence 0 000 0 00000 1123566
Q ss_pred HHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchh
Q psy15215 1349 DAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1349 ~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~ 1419 (1432)
+.....+....+..+|++||+++|.|+.|+|+.|+ |++|||+.||+|.++|+++++||+++||....
T Consensus 110 ~~~~~~e~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~EIA~~l~is~~tv~~~l~Ra~~~Lr~~l~ 176 (179)
T PRK09415 110 EEVIQNAEDERLASAVMSLPIKYREVIYLFYYEEL----SIKEIAEVTGVNENTVKTRLKKAKELLKKGLE 176 (179)
T ss_pred HHHHHHHHHHHHHHHHHhCCHHHhhHhHhHHhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHh
Confidence 66677777888999999999999999999999998 99999999999999999999999999998543
|
|
| >TIGR02984 Sig-70_plancto1 RNA polymerase sigma-70 factor, Planctomycetaceae-specific subfamily 1 | Back alignment and domain information |
|---|
Probab=99.73 E-value=7.7e-17 Score=175.65 Aligned_cols=181 Identities=17% Similarity=0.220 Sum_probs=139.9
Q ss_pred HHhHHHHHHhHHHHHHHHHHHHHHHHHhccc----CCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHH
Q psy15215 392 IAGEMKARKAKREMTEANLRLVISIAKKYTD----RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 467 (1432)
Q Consensus 392 ~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~----~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~ 467 (1432)
+.|+.. |+..|+..|.+.|+++|++|+. +..+++|++||+++.+|+++.+|+...+.+|.+|++..++|.+.+
T Consensus 2 ~~~~~~---a~~~l~~~y~~~l~~~~~~~l~~~~~~~~~aeD~vQe~~l~l~~~~~~~~~~~~~~~~~wl~~i~~n~~~d 78 (189)
T TIGR02984 2 RGGDQE---ALGELLDRYRNYLRLLARVQLDPRLRRRVDPSDLVQETLLEAHRRFDQFRGKTEGEFAGWLRGILSNVLAD 78 (189)
T ss_pred CCCCHH---HHHHHHHHHHHHHHHHHHHHhhhhcCCccCHHHHHHHHHHHHHHHHHhccCcccchHHHHHHHHHHHHHHH
Confidence 357777 9999999999999999999753 567899999999999999999998765568999999999999999
Q ss_pred HHHHhcc-ccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCC-CCCc
Q psy15215 468 SIADQAR-TIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDE-DSHL 545 (1432)
Q Consensus 468 ~i~~~~r-~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~-~~~~ 545 (1432)
+++++.+ .-|.+ ....+++.+.+.++ ...+
T Consensus 79 ~~r~~~~~~~r~~------------------------------------------------~~~~~~~~~~~~~~~~~~~ 110 (189)
T TIGR02984 79 ALRRHLGAQKRDI------------------------------------------------RREQSLDAGGRLDESSVRL 110 (189)
T ss_pred HHHHHHHHHhhhc------------------------------------------------ccccCCCcccccCCcchhH
Confidence 9987631 00000 00112222111111 1112
Q ss_pred CcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 546 GDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 546 ~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
.+.+.+ ...+|++.+...+....|..+|.+|||+++.||.++|+.|+ |++|||..||+|+++|++..+||+++|+
T Consensus 111 ~~~~~~-~~~~~~~~~~~~e~~~~l~~~l~~L~~~~r~vi~l~~~~g~----s~~eIA~~lgis~~~v~~~l~Ra~~~Lr 185 (189)
T TIGR02984 111 AAQLAA-DGPSPSQVAARREAAVRLAQALAKLPEDYREVILLRHLEGL----SFAEVAERMDRSEGAVSMLWVRGLARLR 185 (189)
T ss_pred HHHccC-CCCCHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 222222 23467777777777889999999999999999999999888 9999999999999999999999999999
Q ss_pred HHH
Q psy15215 626 PLA 628 (1432)
Q Consensus 626 ~~l 628 (1432)
+.+
T Consensus 186 ~~l 188 (189)
T TIGR02984 186 QIL 188 (189)
T ss_pred HHh
Confidence 865
|
This group of sigma factors are members of the sigma-70 family (TIGR02937) and are apparently found only in the Planctomycetaceae family including the genuses Gemmata and Pirellula (in which seven sequences are found). |
| >PRK12512 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.73 E-value=7.3e-17 Score=175.02 Aligned_cols=172 Identities=16% Similarity=0.216 Sum_probs=136.4
Q ss_pred hhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCC----CCChhHHHHHHHHHHHHHHHhccccCCCcchhHH
Q psy15215 1172 NDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDR----GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 1247 (1432)
Q Consensus 1172 ~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~----~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya 1247 (1432)
.++..++..+..|+.. |+..|+..|.+.|+.+|.+++++ ..+++|++||+|+.+|+..++|+.. .+|.+|+
T Consensus 7 ~~~~~l~~~~~~gd~~---a~~~l~~~y~~~l~~~~~~~l~~~~~~~~~aeDlvQe~fl~l~~~~~~~~~~--~~~~~wl 81 (184)
T PRK12512 7 DEWTDLMRSANAGDAA---AYRRLLKAVTPVLRAAARRGLARAGQPADQAEDIVQEILLAVHLKRHTWDPG--APFAPWL 81 (184)
T ss_pred hHHHHHHHHHHccCHH---HHHHHHHHHHHHHHHHHHHHHHhccCCcccHHHHHHHHHHHHHHhHHhcCcc--ccHHHHH
Confidence 3466778888889888 99999999999999999998763 4689999999999999999999863 4799999
Q ss_pred HHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCC
Q psy15215 1248 TWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPV 1327 (1432)
Q Consensus 1248 ~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~ 1327 (1432)
+.++||.+.++++++.+....+ ++.
T Consensus 82 ~~i~rn~~~d~~Rr~~~~~~~~-----------------------------------------------------~~~-- 106 (184)
T PRK12512 82 FAIARNKLIDALRRRGRRVFVD-----------------------------------------------------IDD-- 106 (184)
T ss_pred HHHHHHHHHHHHHhhcccccCC-----------------------------------------------------chh--
Confidence 9999999999999876421110 000
Q ss_pred CCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHH
Q psy15215 1328 GDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIE 1407 (1432)
Q Consensus 1328 ~~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~ 1407 (1432)
..+.+++.. +.+ ......+..+|+.||++++.||.++|..|+ |++|||+.||+|..+|+..+
T Consensus 107 -------~~~~~~~~~---~~~----~~~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~eIA~~l~is~~tV~~~l 168 (184)
T PRK12512 107 -------FAETLPAEP---ATE----TLPAGDVGRHLETLPPRQRDVVQSISVEGA----SIKETAAKLSMSEGAVRVAL 168 (184)
T ss_pred -------ccccccccc---hhh----HHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHhCCCHHHHHHHH
Confidence 000011100 001 122456788999999999999999999888 99999999999999999999
Q ss_pred HHHHHHhhCchhhh
Q psy15215 1408 AKALRKLRHPSRYY 1421 (1432)
Q Consensus 1408 ~rAl~kLr~~~~~~ 1421 (1432)
++|+++||..+++.
T Consensus 169 ~ra~~~Lr~~l~~~ 182 (184)
T PRK12512 169 HRGLAALAAKFRSE 182 (184)
T ss_pred HHHHHHHHHHhhcC
Confidence 99999999866553
|
|
| >TIGR02999 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 family | Back alignment and domain information |
|---|
Probab=99.73 E-value=5.8e-17 Score=175.69 Aligned_cols=172 Identities=18% Similarity=0.211 Sum_probs=130.5
Q ss_pred HHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCC-----ChhHHHHHHHHHHHH-HHHhccccCCCcchhHH
Q psy15215 1174 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGL-----QFLDLIQEGNIGLMK-AVDKFEYRRGYKFSTYA 1247 (1432)
Q Consensus 1174 ~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~-----~~~DLiQEg~igl~k-av~kfd~~~g~~Fstya 1247 (1432)
+..++..++.|+.. |+..|+..|.+.|+++|++|+++.. +++|++||+|+.+|+ ..++|++. ..|.||+
T Consensus 4 ~~~li~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~~~~~~~~~~~~AeDlvQevfl~~~~~~~~~~~~~--~~~~~wl 78 (183)
T TIGR02999 4 VTELLQQWQNGDAA---ARDQLFPQLYQELRRIARRQLRRERSGQTLQTTALVHEAYLRLSDQDEQKWDDR--AHFFAAA 78 (183)
T ss_pred HHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhhcccccccchHHHHHHHHHHHHhhcccCCCCch--HHHHHHH
Confidence 55678889999888 9999999999999999999998877 899999999999998 78888754 3699999
Q ss_pred HHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCC
Q psy15215 1248 TWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPV 1327 (1432)
Q Consensus 1248 ~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~ 1327 (1432)
+.+++|.+.+++|++.+..+... ....+.
T Consensus 79 ~~i~~n~~~d~~R~~~~~~~~~~---------------------------------------------------~~~~~~ 107 (183)
T TIGR02999 79 AKAMRRILVDHARRRRAQKRGGG---------------------------------------------------AVRVPL 107 (183)
T ss_pred HHHHHHHHHHHHHHHHHHhccCC---------------------------------------------------cccccc
Confidence 99999999999998654111000 000000
Q ss_pred CCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHH
Q psy15215 1328 GDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIE 1407 (1432)
Q Consensus 1328 ~~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~ 1407 (1432)
+ +..++ . ++... ........+...|++|||++|.||.|+|+.|+ |++|||+.||+|.++|+.++
T Consensus 108 -~-------~~~~~-~--~~~~~-~~~~~l~~~~~~l~~Lp~~~r~v~~l~~~~g~----s~~EIA~~lgis~~tVk~~l 171 (183)
T TIGR02999 108 -D-------EVLPD-A--EADLD-EELLDLDDALDKLAQVDPRQAEVVELRFFAGL----TVEEIAELLGVSVRTVERDW 171 (183)
T ss_pred -c-------cccCC-C--CccHH-HHHHHHHHHHHHhhcCCHHHHHHHHHHHHcCC----CHHHHHHHhCCCHHHHHHHH
Confidence 0 00000 0 11111 11111233444567799999999999999999 99999999999999999999
Q ss_pred HHHHHHhhCc
Q psy15215 1408 AKALRKLRHP 1417 (1432)
Q Consensus 1408 ~rAl~kLr~~ 1417 (1432)
+||+++||+.
T Consensus 172 ~Rar~~Lr~~ 181 (183)
T TIGR02999 172 RFARAWLADE 181 (183)
T ss_pred HHHHHHHHHH
Confidence 9999999974
|
This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in a variety of species including Rhodopirellula baltica which encodes a paralogous group of five. |
| >PRK12531 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.73 E-value=8.3e-17 Score=176.03 Aligned_cols=180 Identities=16% Similarity=0.132 Sum_probs=141.2
Q ss_pred hhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHH
Q psy15215 381 LNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460 (1432)
Q Consensus 381 ~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ 460 (1432)
..++..++.++..||.. |+..|+..|.+.|+.+|.+++++..+++|++||+++.+|+..++|++..+ +|.+|++..
T Consensus 11 ~~~~~~li~~~~~~d~~---af~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQev~l~l~~~~~~~~~~~~-~~~~wL~~i 86 (194)
T PRK12531 11 RQEWLECMEKVKSRDKQ---AFALVFSYYAPKLKQFAMKHVGNEQVAMEMVQETMSTVWQKAHLFDGQKS-ALSTWIYTI 86 (194)
T ss_pred cHhHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcCcccc-hHHHHHHHH
Confidence 35677888999999998 99999999999999999999999889999999999999999999987544 799999999
Q ss_pred HHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCC
Q psy15215 461 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDD 540 (1432)
Q Consensus 461 ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~ 540 (1432)
++|.+.+++++..+..... +.+....++
T Consensus 87 arn~~ld~~Rk~~~~~~~~----------------------------------------------------~~~~~~~~~ 114 (194)
T PRK12531 87 IRNLCFDLLRKQKGKDLHI----------------------------------------------------HADDIWPSD 114 (194)
T ss_pred HHHHHHHHHHHhccccccc----------------------------------------------------chhhccccc
Confidence 9999999999876410000 000000000
Q ss_pred CCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHH
Q psy15215 541 EDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 620 (1432)
Q Consensus 541 ~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rA 620 (1432)
.....+.+ ...|+.. .....+..++.+||++++.||.|+|..|+ |++|||+.||+|.++|+.+.++|
T Consensus 115 ---~~~~~~~~--~~~~e~~----~~~~~l~~~l~~Lp~~~r~v~~l~~~eg~----s~~EIA~~lgis~~tVk~rl~ra 181 (194)
T PRK12531 115 ---YYPPDLVD--HYSPEQD----MLKEQVMKFLDRLPKAQRDVLQAVYLEEL----PHQQVAEMFDIPLGTVKSRLRLA 181 (194)
T ss_pred ---cccccccc--ccCHHHH----HHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHhCcCHHHHHHHHHHH
Confidence 00000000 1123322 23456888999999999999999999999 99999999999999999999999
Q ss_pred HHHHHHHHH
Q psy15215 621 LRKLRPLAH 629 (1432)
Q Consensus 621 l~kLr~~l~ 629 (1432)
+++|+..+.
T Consensus 182 ~~~Lr~~l~ 190 (194)
T PRK12531 182 VEKLRHSMD 190 (194)
T ss_pred HHHHHHHhh
Confidence 999998774
|
|
| >TIGR02989 Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family | Back alignment and domain information |
|---|
Probab=99.73 E-value=4.2e-17 Score=172.53 Aligned_cols=157 Identities=15% Similarity=0.193 Sum_probs=126.6
Q ss_pred hHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccc
Q psy15215 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 1270 (1432)
Q Consensus 1191 A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 1270 (1432)
|++.++..|.+.|+++|+++.++..+++|++||+++.+|++.++|++.. .|.+|++..++|.+.++++++.+.-+ +.
T Consensus 2 ~~~~~~~~~~~~l~~~~~~~~~~~~~aEDivQe~~l~l~~~~~~~~~~~--~~~~wl~~i~~n~~~d~~r~~~~~~~-~~ 78 (159)
T TIGR02989 2 AFAALLQRHQRSLRAFVRSLVPDRDDADDVLQETFVTAWRKFDEFDPGT--DFGAWARGIARNKVLNHRRKLGRDRL-VF 78 (159)
T ss_pred HHHHHHHHhHHHHHHHHHHHcCChhhHHHHHHHHHHHHHHHHHhCCCCC--chHHHHHHHHHHHHHHHHHHhccccc-cc
Confidence 7999999999999999999999999999999999999999999999754 69999999999999999999875210 00
Q ss_pred cHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 1271 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 1350 (1432)
Q Consensus 1271 ~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~ 1350 (1432)
. ++. .+.+.+. .+|.+.
T Consensus 79 ~-------------------------~~~------------------------------------~~~~~~~--~~~~~~ 95 (159)
T TIGR02989 79 D-------------------------DEL------------------------------------LEALAAE--AEATEA 95 (159)
T ss_pred C-------------------------HHH------------------------------------HHHHHhh--cccchH
Confidence 0 000 0000000 011122
Q ss_pred HHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1351 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1351 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
.........+..+++.||++++.|+.++|..|+ |.+|||+.||+|+++|++.++||+++||..
T Consensus 96 ~~~~~~~~~l~~~i~~L~~~~r~v~~l~~~~g~----~~~eIA~~l~is~~tv~~~l~Rar~~Lr~~ 158 (159)
T TIGR02989 96 DRSEDELQALEGCLEKLPERQRELLQLRYQRGV----SLTALAEQLGRTVNAVYKALSRLRVRLRDC 158 (159)
T ss_pred hhHHHHHHHHHHHHHHCCHHHHHHHHHHHhcCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHhc
Confidence 223344567899999999999999999999888 999999999999999999999999999974
|
This group of sigma factors are members of the sigma-70 family (TIGR02937) and are abundantly found in the species Rhodopirellula baltica (11), and Verrucomicrobium spinosum (16) and to a lesser extent in Gemmata obscuriglobus (2). |
| >PRK12542 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.73 E-value=2.9e-17 Score=178.30 Aligned_cols=170 Identities=15% Similarity=0.156 Sum_probs=136.4
Q ss_pred HHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHH
Q psy15215 391 MIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 470 (1432)
Q Consensus 391 i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~ 470 (1432)
+..||.. |+..|+..|.+.|+.+|.++++...+++|++||+|+.+|+++.+|+...+.+|.||++..++|.+.+++|
T Consensus 3 ~~~gd~~---a~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~~~~~~~~wL~~Iarn~~~d~~R 79 (185)
T PRK12542 3 VTNNDYE---KMEELYELYEQKVYYVAYSILNNIQQAEDAVQETFITLYKNLEKLHSLNTQELKRYILRVAKNKAIDSYR 79 (185)
T ss_pred ccccCHH---HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHHHHH
Confidence 4568877 9999999999999999999999999999999999999999999998644458999999999999999999
Q ss_pred HhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccc
Q psy15215 471 DQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIE 550 (1432)
Q Consensus 471 ~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~ 550 (1432)
++.+..... + .... +..+
T Consensus 80 k~~~~~~~~------------------------------------------------------~-~~~~-------~~~~ 97 (185)
T PRK12542 80 KNKRHETFL------------------------------------------------------E-EYER-------ESIE 97 (185)
T ss_pred Hhhhhhhhh------------------------------------------------------h-hccc-------cchh
Confidence 876410000 0 0000 0000
Q ss_pred cCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 551 DENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 551 d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
. ...+|.+.....+....|..+|.+|||++|.||.|+|..|+ |++|||+.||+|.++|+++.+||+++|+..+..
T Consensus 98 ~-~~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~EIA~~lgis~~tVk~~l~Rar~~Lr~~l~~ 172 (185)
T PRK12542 98 A-VDENIEEWEKRKMSEVQIDTLLKELNESNRQVFKYKVFYNL----TYQEISSVMGITEANVRKQFERARKRVQNMIGG 172 (185)
T ss_pred h-hhccHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHcc
Confidence 0 01133343334445567999999999999999999999998 999999999999999999999999999998854
|
|
| >PRK12533 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.73 E-value=9.1e-17 Score=177.55 Aligned_cols=168 Identities=18% Similarity=0.167 Sum_probs=136.0
Q ss_pred hhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccccccc
Q psy15215 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 1269 (1432)
Q Consensus 1190 ~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 1269 (1432)
.+|..|+..|.+.|+.+|.+++++..+++|++||+|+.+|+.+++|+. + .|.+|++++++|.+.++++++.+.....
T Consensus 18 ~~f~~l~~~~~~~l~~~~~~~~~d~~dAEDlvQEvflkl~~~~~~~~~--~-~~~aWL~~IarN~~~d~~Rk~~~~~~~~ 94 (216)
T PRK12533 18 ERFRQLVLPHLDAAYNLARWLCGNASDADDVVQEACMRALRFFDSFRG--D-NARPWLLAIVRHTWYSEWRRRANAHEVA 94 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHHhcCc--c-chHhHHHHHHHHHHHHHHHhhccccccc
Confidence 389999999999999999999999999999999999999999999984 2 5999999999999999999876410000
Q ss_pred ccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 1270 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 1349 (1432)
Q Consensus 1270 ~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~ 1349 (1432)
..+. .... . .... . +....+|++
T Consensus 95 ----------------------------------------------------~~~~-~~~~-~-~~~~-~-~~~~~~~e~ 117 (216)
T PRK12533 95 ----------------------------------------------------APDT-LDDA-D-SLDD-W-QPAGEDPLA 117 (216)
T ss_pred ----------------------------------------------------cccc-cccc-c-cccc-c-ccCCCCHHH
Confidence 0000 0000 0 0000 0 111236777
Q ss_pred HHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhh
Q psy15215 1350 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYY 1421 (1432)
Q Consensus 1350 ~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~ 1421 (1432)
.+...+....|..+|..||+++|.||.|+|+.|+ |++|||+.||||.++|+++++||+++||+.+...
T Consensus 118 ~~~~~e~~~~l~~al~~Lp~~~R~v~~L~y~eg~----s~~EIAe~LgiS~~tVk~~L~RAr~~Lr~~l~~~ 185 (216)
T PRK12533 118 LLLRAEDVRLVNAALAKLPVEYREVLVLRELEDM----SYREIAAIADVPVGTVMSRLARARRRLAALLGGA 185 (216)
T ss_pred HHHHHHHHHHHHHHHHcCCHHHHhHhhhHHhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHccc
Confidence 7888888899999999999999999999999988 9999999999999999999999999999976544
|
|
| >PRK12518 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.72 E-value=4.5e-17 Score=175.17 Aligned_cols=169 Identities=15% Similarity=0.132 Sum_probs=132.7
Q ss_pred HHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHH
Q psy15215 1178 NRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 1257 (1432)
Q Consensus 1178 ~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~ 1257 (1432)
+..++.|+.. |+..++..|.+.|+.+|+++.+ ..+++|++||+|+.+|++.++|++. ..|.+|++.+++|.+.+
T Consensus 2 ~~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~~~-~~~aeDivQe~~l~l~~~~~~~~~~--~~~~~wl~~ia~n~~~d 75 (175)
T PRK12518 2 ILRCQRGDRQ---SFRQLYRRYQQKVRSTLYQLCG-RELLDDLVQEVFLRVWKGLPKLRNP--AYFSTWLYRITWNVATD 75 (175)
T ss_pred hhHHHcCCHH---HHHHHHHHHHHHHHHHHHHHcC-HhHHHHHHHHHHHHHHHhHHhhCCc--ccHHHHHHHHHHHHHHH
Confidence 4567788888 9999999999999999999875 4789999999999999999999964 47999999999999999
Q ss_pred HHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCc
Q psy15215 1258 SIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGD 1337 (1432)
Q Consensus 1258 ~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d 1337 (1432)
++|++.+.-. . .... .....
T Consensus 76 ~~R~~~~~~~---~---------------------------------------------------~~~~-~~~~~----- 95 (175)
T PRK12518 76 ARRQFAQRPS---R---------------------------------------------------IQDD-SLNDQ----- 95 (175)
T ss_pred HHHHhhcccc---c---------------------------------------------------hhcc-ccccc-----
Confidence 9997654100 0 0000 00000
Q ss_pred ccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1338 FIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1338 ~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
.......| ..........+..+|+.||+++|.||.|+|+.|+ |++|||+.||+|.++|++.++||+++||..
T Consensus 96 --~~~~~~~~--~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~g~----s~~eIA~~lg~s~~tv~~~l~Rar~~L~~~ 167 (175)
T PRK12518 96 --PSRPSDTP--DLMQLHYQDLVQQGLQTLSLEHRAVLVLHDLEDL----PQKEIAEILNIPVGTVKSRLFYARRQLRKF 167 (175)
T ss_pred --ccCCCCcH--HHHHHHHHHHHHHHHHhCCHHHeeeeeehHhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Confidence 00001122 2222344567899999999999999999999998 999999999999999999999999999997
Q ss_pred hhh
Q psy15215 1418 SRY 1420 (1432)
Q Consensus 1418 ~~~ 1420 (1432)
..+
T Consensus 168 l~~ 170 (175)
T PRK12518 168 LQQ 170 (175)
T ss_pred HHh
Confidence 654
|
|
| >PRK12535 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.72 E-value=1.2e-16 Score=174.71 Aligned_cols=179 Identities=20% Similarity=0.126 Sum_probs=141.0
Q ss_pred hcCCChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchh
Q psy15215 1166 DIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 1245 (1432)
Q Consensus 1166 ~~~l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fst 1245 (1432)
..+++..++.+++.++..|+.. |+..++..|.+.++.+++ ++++..+++|++||+|+.+|+..++|++. .+|.+
T Consensus 4 ~~~~~~~~~~~l~~~~~~~d~~---a~~~l~~~y~~~l~~~~~-~~~~~~~AEDivQevflkl~~~~~~~~~~--~~~~~ 77 (196)
T PRK12535 4 SSERDDAHVTDLALAAGRGDRA---ALTEFIRETQDDVWRLLA-HLGGHDIADDLTQETYLRVMSALPRFAAR--SSART 77 (196)
T ss_pred ccccccHHHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHH-HhCCHHHHHHHHHHHHHHHHHHhhhcCCc--ccHHH
Confidence 3456667788899999999988 999999999999999975 56888899999999999999999999864 37999
Q ss_pred HHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCC
Q psy15215 1246 YATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMES 1325 (1432)
Q Consensus 1246 ya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~ 1325 (1432)
|++.+++|.+.+++|++.+..+. +.+
T Consensus 78 WL~~Iarn~~id~~Rk~~~~~~~-----------------------------------------------------~~~- 103 (196)
T PRK12535 78 WLLSLARRVWVDNIRHDMARPRK-----------------------------------------------------SAT- 103 (196)
T ss_pred HHHHHHHHHHHHHHHhhccCCCc-----------------------------------------------------ccc-
Confidence 99999999999999987642110 000
Q ss_pred CCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHH
Q psy15215 1326 PVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQ 1405 (1432)
Q Consensus 1326 ~~~~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq 1405 (1432)
...+ ..+ ...+|+.... ......+..+|+.|||++++||.|+|+.|+ |++|||+.||+|.++|++
T Consensus 104 ~~~~-----~~~-----~~~~~~~~~~-~~~~~~l~~~l~~Lp~~~r~v~~l~~~~g~----s~~EIAe~lgis~~tV~~ 168 (196)
T PRK12535 104 EYED-----AAA-----TTASNETTGS-WSEWIDVRTLIDALPPERREALILTQVLGY----TYEEAAKIADVRVGTIRS 168 (196)
T ss_pred cccc-----ccc-----ccCCcchhHH-HHHHHHHHHHHHcCCHHHHHHhhhHHHhCC----CHHHHHHHhCCCHHHHHH
Confidence 0000 000 0011221111 122357899999999999999999999999 999999999999999999
Q ss_pred HHHHHHHHhhCchh
Q psy15215 1406 IEAKALRKLRHPSR 1419 (1432)
Q Consensus 1406 ~~~rAl~kLr~~~~ 1419 (1432)
+++||+++||....
T Consensus 169 ~l~Rar~~Lr~~l~ 182 (196)
T PRK12535 169 RVARARADLIAATA 182 (196)
T ss_pred HHHHHHHHHHHHhc
Confidence 99999999998543
|
|
| >PRK12543 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.72 E-value=1.1e-16 Score=172.63 Aligned_cols=166 Identities=17% Similarity=0.253 Sum_probs=135.6
Q ss_pred HHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHH
Q psy15215 392 IAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD 471 (1432)
Q Consensus 392 ~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~ 471 (1432)
+.|+.. |+..++..|.+.|+++|++|+++..+++|++||+++.+|+++.+|++.. +|.+|++..+++.+.+++++
T Consensus 2 ~~~d~~---af~~l~~~~~~~l~~~~~~~~~~~~daeDl~Qevfl~l~~~~~~~~~~~--~f~~wl~~iarn~~~~~~r~ 76 (179)
T PRK12543 2 LSGDQE---AFSEIYDVTIQEVYKTVHFLVEDKQDVDDVVNEIYIQLWESLRKYDSNR--PFRFWLIGLVIKQIHSWRRK 76 (179)
T ss_pred cCchHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHHcCCCC--ChHHHHHHHHHHHHHHHHHh
Confidence 457777 9999999999999999999999999999999999999999999999753 79999999999999998876
Q ss_pred hccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCccccc
Q psy15215 472 QARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIED 551 (1432)
Q Consensus 472 ~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d 551 (1432)
..+..+. ++. ..+. .+ .
T Consensus 77 ~~~~~~~------------------------------------------------------~~~-~~~~-----~~---~ 93 (179)
T PRK12543 77 RWRRFRI------------------------------------------------------FEK-AEEQ-----RK---P 93 (179)
T ss_pred hcccccc------------------------------------------------------ccc-cccc-----cc---c
Confidence 5431000 000 0000 00 0
Q ss_pred CCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 552 ENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 552 ~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
....+|+. ....+....+..+|..|||++|.|+.|+|..|+ |++|||+.||+|.++|+.+.++|+.+|++.+..
T Consensus 94 ~~~~~~~~-~~~~~~~~~l~~~l~~Lp~~~r~i~~l~~~e~~----s~~EIA~~lgis~~tV~~~l~ra~~~Lr~~l~~ 167 (179)
T PRK12543 94 VSIDFSED-VLSKESNQELIELIHKLPYKLRQVIILRYLHDY----SQEEIAQLLQIPIGTVKSRIHAALKKLRQKEQI 167 (179)
T ss_pred ccccChHH-HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHccC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 01123444 566677788999999999999999999999999 999999999999999999999999999998864
|
|
| >TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1 | Back alignment and domain information |
|---|
Probab=99.72 E-value=5e-17 Score=172.05 Aligned_cols=159 Identities=13% Similarity=0.164 Sum_probs=130.7
Q ss_pred hHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccc
Q psy15215 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 1270 (1432)
Q Consensus 1191 A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 1270 (1432)
|+++|+..|.+.|+++|+++.++..+++|++||+++++|+++++|++. .+|.+|++.++|+.+.+++++..+.-..
T Consensus 2 a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~~~~~~~~~~~~~~--~~~~~wl~~i~r~~~~d~~r~~~~~~~~-- 77 (161)
T TIGR02985 2 AFEQLYRRYYPKLCAFAYRYVKDEEEAEDIVQDVFVKLWENRETLEEV--ESFKAYLFTIVKNRSLNYLRHKQVEEKY-- 77 (161)
T ss_pred hHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcccc--ccHHHHHHHHHHHHHHHHHHHHHhHhHH--
Confidence 899999999999999999999999999999999999999999999864 3799999999999999999987641000
Q ss_pred cHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 1271 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 1350 (1432)
Q Consensus 1271 ~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~ 1350 (1432)
...+ .+.... .....+|++.
T Consensus 78 ------------~~~~-----------------------------------------~~~~~~-------~~~~~~~~~~ 97 (161)
T TIGR02985 78 ------------QEEI-----------------------------------------LEIEVD-------ELSENDPEEE 97 (161)
T ss_pred ------------HHHH-----------------------------------------Hhhccc-------ccCCCCcHHH
Confidence 0000 000000 0011245666
Q ss_pred HHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1351 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1351 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
+...+....+..++..||++++.||.++|..|. |..|||+.+|+|+++|++++++|+++||+.
T Consensus 98 ~~~~e~~~~l~~~l~~L~~~~r~il~l~~~~~~----~~~eIA~~lgis~~tv~~~~~ra~~~Lr~~ 160 (161)
T TIGR02985 98 LEAKELQLIIYKAIEKLPEQCRKIFILSRFEGK----SYKEIAEELGISVKTVEYHISKALKELRKE 160 (161)
T ss_pred HHHHHHHHHHHHHHHHCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHhh
Confidence 666777888999999999999999999998888 999999999999999999999999999974
|
This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium. |
| >PRK12515 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.72 E-value=2e-16 Score=172.34 Aligned_cols=173 Identities=18% Similarity=0.226 Sum_probs=144.9
Q ss_pred hHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHH
Q psy15215 383 DLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 462 (1432)
Q Consensus 383 e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir 462 (1432)
....++..++.||.. |+..++..|.+.|+.++.+++++..+++|++||+|+.+|++..+|++. .+|.+|++..++
T Consensus 8 ~~~~l~~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeDivQe~f~~l~~~~~~~~~~--~~~~~wl~~i~~ 82 (189)
T PRK12515 8 TDEMLLARIAQGDRT---AMQTLYGRHHVRVYRFGLRLVRDEQTAEDLVSEVFLDVWRQAGQFEGR--SQVSTWLLSIAR 82 (189)
T ss_pred CHHHHHHHHHccCHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhcCCC--CChHHHHHHHHH
Confidence 345678888999998 999999999999999999999999999999999999999999999963 479999999999
Q ss_pred HHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCC
Q psy15215 463 QAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDED 542 (1432)
Q Consensus 463 ~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~ 542 (1432)
+.+.+++++..+. .+ + .+.
T Consensus 83 n~~~d~~r~~~~~-~~-----------------------------------------------------~------~~~- 101 (189)
T PRK12515 83 FKALSALRRRKHE-EI-----------------------------------------------------D------DEA- 101 (189)
T ss_pred HHHHHHHHccCCC-CC-----------------------------------------------------c------ccc-
Confidence 9999999865431 00 0 000
Q ss_pred CCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHH
Q psy15215 543 SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALR 622 (1432)
Q Consensus 543 ~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~ 622 (1432)
. ..+.+ ...+|+......+....+..+|+.||+++|.||.|+|..|+ |++|||+.||+|+++|+++.+||+.
T Consensus 102 --~-~~~~~-~~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~~~----s~~eIA~~lgis~~tV~~~l~Rar~ 173 (189)
T PRK12515 102 --A-AAIED-GADTPEVALQKSDTSAALRACLAKLSPAHREIIDLVYYHEK----SVEEVGEIVGIPESTVKTRMFYARK 173 (189)
T ss_pred --c-cccCC-CCCCHHHHHHhHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 0 00111 12356666666777788999999999999999999999999 9999999999999999999999999
Q ss_pred HHHHHHH
Q psy15215 623 KLRPLAH 629 (1432)
Q Consensus 623 kLr~~l~ 629 (1432)
+|++.+.
T Consensus 174 ~Lr~~l~ 180 (189)
T PRK12515 174 KLAELLK 180 (189)
T ss_pred HHHHHHH
Confidence 9998765
|
|
| >COG1595 RpoE DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription] | Back alignment and domain information |
|---|
Probab=99.72 E-value=1.9e-16 Score=171.32 Aligned_cols=170 Identities=17% Similarity=0.182 Sum_probs=136.1
Q ss_pred HHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHH
Q psy15215 1180 KMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSI 1259 (1432)
Q Consensus 1180 ~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i 1259 (1432)
....|+.. ++..++..|.+.++.+|++++++..+++||+||+|+.+|+++..| . .+.+|.||++.+++|.+.+++
T Consensus 8 ~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~dAeDlvQE~~lr~~~~~~~~-~-~~~~~~~wl~~Ia~n~~iD~~ 82 (182)
T COG1595 8 EALRGDRA---AFEELLERLRPRLRRLARRLLGDRADAEDLVQETFLRAWRAIDSF-R-GRSSFKAWLYRIARNLAIDRL 82 (182)
T ss_pred HHHhcchH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHhhc-C-CCCchHHHHHHHHHHHHHHHH
Confidence 34455555 999999999999999999999998899999999999999999999 3 334899999999999999999
Q ss_pred HHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCccc
Q psy15215 1260 ADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFI 1339 (1432)
Q Consensus 1260 ~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i 1339 (1432)
|++.+..... .+ .+. .+..
T Consensus 83 R~~~r~~~~~-----------------------------------------------------~~-----~~~---~~~~ 101 (182)
T COG1595 83 RKRKRRRARV-----------------------------------------------------EE-----ADL---LPEE 101 (182)
T ss_pred HHhccccccc-----------------------------------------------------cc-----ccc---cccc
Confidence 9988632210 00 000 0000
Q ss_pred ccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchh
Q psy15215 1340 EDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1340 ~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~ 1419 (1432)
.+.....+ +.+...+....+..+|..||+++|.+|.|+|+.|. |++|||+.+|||.+||+.++++|+++||....
T Consensus 102 ~~~~~~~~-~~~~~~~~~~~l~~al~~Lp~~~R~~~~l~~~~gl----s~~EIA~~l~i~~~tVks~l~ra~~~l~~~l~ 176 (182)
T COG1595 102 ADPAPDLA-ELLLAEEELERLRRALARLPPRQREAFLLRYLEGL----SYEEIAEILGISVGTVKSRLHRARKKLREQLE 176 (182)
T ss_pred cCcccccc-hHHHHHHHHHHHHHHHHhCCHHHhHHhhhHhhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHh
Confidence 00000011 25666778899999999999999999999999888 99999999999999999999999999998654
Q ss_pred h
Q psy15215 1420 Y 1420 (1432)
Q Consensus 1420 ~ 1420 (1432)
.
T Consensus 177 ~ 177 (182)
T COG1595 177 E 177 (182)
T ss_pred h
Confidence 3
|
|
| >TIGR02947 SigH_actino RNA polymerase sigma-70 factor, TIGR02947 family | Back alignment and domain information |
|---|
Probab=99.71 E-value=7e-17 Score=176.52 Aligned_cols=170 Identities=12% Similarity=0.079 Sum_probs=130.8
Q ss_pred hhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccccccc
Q psy15215 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 1269 (1432)
Q Consensus 1190 ~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 1269 (1432)
.+|..|+..|.+.|+.+|.+++++..+++|++||+|+.+|++.++|++. .+|.+|++.+++|.+.+++|++.+.....
T Consensus 11 ~~f~~l~~~~~~~l~~~~~~~~~~~~~AEDlvQevfl~~~~~~~~~~~~--~~~~~wL~~iarN~~~d~~Rk~~~~~~~~ 88 (193)
T TIGR02947 11 QRFERDALEYLDQLYGAALRMTRNPADAEDLVQEAYAKAFSSFHQFKPG--TNLKAWLYRILTNTYINSYRKAQRRPQQS 88 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhcccCCC--CcchHHHHHHHHHHHHHHHHHhcCCcccc
Confidence 3899999999999999999999999999999999999999999999854 47999999999999999999876521100
Q ss_pred ccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 1270 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 1349 (1432)
Q Consensus 1270 ~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~ 1349 (1432)
. .+++.. ..+. +.... .......|+.
T Consensus 89 ~-------------------------~~~~~~-------------------~~~~----~~~~~------~~~~~~~~e~ 114 (193)
T TIGR02947 89 D-------------------------DDDIED-------------------WQLA----KAASH------TSNGLRSAEL 114 (193)
T ss_pred c-------------------------chhhhh-------------------hhhc----ccccc------ccccccchhH
Confidence 0 000000 0000 00000 0000113444
Q ss_pred HHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchh
Q psy15215 1350 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1350 ~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~ 1419 (1432)
..........|..+|++||+++|.|+.|+|..|+ |++|||+.||+|.++|+.+++||+++||+.+.
T Consensus 115 ~~~~~~~~~~l~~~l~~Lp~~~r~i~~L~~~~g~----s~~EIA~~lgis~~tVk~~l~Rar~~Lr~~l~ 180 (193)
T TIGR02947 115 EALDGLPDQDIKDALQGLPEEFRQAVYLADVEGF----AYKEIAEIMGTPIGTVMSRLHRGRKQLRKQLV 180 (193)
T ss_pred HHHhhhhHHHHHHHHHhCCHHHhhheeehhhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Confidence 4444455678999999999999999999999998 99999999999999999999999999998654
|
This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and (with the exception of a paralog in Thermobifida fusca YX) one-to-a-genome distribution, to represent a conserved family. This family is restricted to the Actinobacteria and each gene examined is followed by an anti-sigma factor in an apparent operon. |
| >PRK12536 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.71 E-value=1.6e-16 Score=171.85 Aligned_cols=173 Identities=14% Similarity=0.155 Sum_probs=138.0
Q ss_pred hhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhccc-CCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHH
Q psy15215 381 LNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTD-RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 459 (1432)
Q Consensus 381 ~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~-~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~ 459 (1432)
...+..++.++..||.. |+..++..|.+.|+.+|.++++ ...+++|++||+++.||++.+.|++. .+|.+|++.
T Consensus 5 ~~~~~~~~~~~~~~d~~---a~~~l~~~~~~~l~~~~~~~~~~~~~~aeDlvQevfl~l~~~~~~~~~~--~~~~~wl~~ 79 (181)
T PRK12536 5 EARLRALLLRGLAGDAA---AYRQFLSELAAHLRGFLRRRLPQLPDEVEDLVQEILLAVHNARHTYRAD--QPLTAWVHA 79 (181)
T ss_pred HhHHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHcCCChhhHHHHHHHHHHHHHHhHHhcCCC--CchHHHHHH
Confidence 34567789999999998 9999999999999999988764 57899999999999999999999974 479999999
Q ss_pred HHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCC
Q psy15215 460 WIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGD 539 (1432)
Q Consensus 460 ~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~ 539 (1432)
.++|.+.+++|++.+.... ..+..+
T Consensus 80 iarN~~~d~~Rk~~~~~~~-------------------------------------------------------~~~~~~ 104 (181)
T PRK12536 80 IARYKLMDFLRSRARREAL-------------------------------------------------------HDPLDD 104 (181)
T ss_pred HHHHHHHHHHHHHhccccc-------------------------------------------------------cCCccc
Confidence 9999999999987642000 000000
Q ss_pred CCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHH
Q psy15215 540 DEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 619 (1432)
Q Consensus 540 ~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~r 619 (1432)
.. +...+. ...+ .+....+..+|..||++++.|+.|+|..|+ |++|||+.||+|+++|+.+.++
T Consensus 105 ~~-----~~~~~~-~~~~------~~~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~EIA~~l~is~~tV~~~l~r 168 (181)
T PRK12536 105 ES-----ELFATS-DDEA------AEARRDLGKLLEQLPDRQRLPIVHVKLEGL----SVAETAQLTGLSESAVKVGIHR 168 (181)
T ss_pred hh-----hhcCCC-Ccch------HHHHHHHHHHHHHCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHH
Confidence 00 000000 0011 134456899999999999999999999998 9999999999999999999999
Q ss_pred HHHHHHHHHH
Q psy15215 620 ALRKLRPLAH 629 (1432)
Q Consensus 620 Al~kLr~~l~ 629 (1432)
|+++|++.+.
T Consensus 169 ar~~Lr~~l~ 178 (181)
T PRK12536 169 GLKALAAKIR 178 (181)
T ss_pred HHHHHHHHhc
Confidence 9999998764
|
|
| >PRK12522 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.71 E-value=2e-16 Score=169.88 Aligned_cols=169 Identities=10% Similarity=0.190 Sum_probs=133.7
Q ss_pred HhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccc
Q psy15215 400 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 479 (1432)
Q Consensus 400 ~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 479 (1432)
..+.+|+..|.++|+.+|++|++...+++|++||+++.+|++.++|++.. +|.+|++..++|.+.+++|++.+....+
T Consensus 3 ~~~~~l~~~y~~~i~~~~~~~~~~~~daeDvvQe~~i~l~~~~~~~~~~~--~~~~wl~~i~~n~~~d~~Rk~~~~~~~~ 80 (173)
T PRK12522 3 EKVEELIDIYKQQIYSLCYKLAKTKEDAEDIFQETWIKVFSSRHQLSYVE--NYKKWITTICVRTFYDFYRKKKRWKDRI 80 (173)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHcCCcc--chHHHHHHHHHHHHHHHHHHhccccccc
Confidence 36899999999999999999999999999999999999999999999743 7999999999999999999876521000
Q ss_pred hhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 480 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 559 (1432)
Q Consensus 480 ~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~ 559 (1432)
.+ . .+. +....+. ..+ ....|..
T Consensus 81 ~~-------------------------------------------------~-~~~----~~~~~~~--~~~-~~~~~~~ 103 (173)
T PRK12522 81 LD-------------------------------------------------L-FHK----EDGGEIE--FAD-DVNISEE 103 (173)
T ss_pred cc-------------------------------------------------c-cch----hhhhhhc--ccc-CCCChHH
Confidence 00 0 000 0000000 000 1112333
Q ss_pred HHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHHHH
Q psy15215 560 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHDWL 632 (1432)
Q Consensus 560 ~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~~~ 632 (1432)
....+..+.+..+|..||++++.|+.|+|..|+ |++|||+.||+|.++|+.+.+||+++|+..+..+.
T Consensus 104 -~~~~~~~~~l~~~l~~L~~~~r~i~~l~~~~~~----s~~EIA~~lgis~~tV~~~l~Ra~~~Lr~~l~~~~ 171 (173)
T PRK12522 104 -FIQKVEAEMIREVIQLLNEKYKTVLVLYYYEQY----SYKEMSEILNIPIGTVKYRLNYAKKQMREHLEGFV 171 (173)
T ss_pred -HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 455567788999999999999999999999999 99999999999999999999999999999887653
|
|
| >PF08275 Toprim_N: DNA primase catalytic core, N-terminal domain; InterPro: IPR013264 This is the N-terminal, catalytic core domain of DNA primases | Back alignment and domain information |
|---|
Probab=99.71 E-value=1.5e-18 Score=174.40 Aligned_cols=93 Identities=27% Similarity=0.366 Sum_probs=67.0
Q ss_pred HHHHhhhhhhh--hH-hhcC--CCcccccccccCCCCCchhhHHHHHH------------------HHHHhhhcc--EEE
Q psy15215 631 WLEQRTHQNEK--II-ACSS--DSSNHNEHVTNNNFPPGFNIFHKLLR------------------ILQEYLESF--LIS 685 (1432)
Q Consensus 631 ~~~~~l~~~~~--~~-~l~~--l~~~~~~~f~~Gyap~~~~~l~~~~~------------------~~~~~~~~f--ri~ 685 (1432)
||++++..+.. |+ ||.. +|+++|+.|+|||||.+|..|.+++. ....++++| |||
T Consensus 1 fy~~~L~~~~~~~a~~YL~~Rgl~~e~i~~F~lGyap~~~~~l~~~l~~~~~~~~~l~~~GL~~~~~~~~~~d~F~~Rii 80 (128)
T PF08275_consen 1 FYHKQLKNNPGKEALEYLKKRGLSDETIKKFQLGYAPGNWDSLLEYLKKKGFSLEELLEAGLIRKNENGGYYDFFRGRII 80 (128)
T ss_dssp HHHHHCCCGHHHHHHHHHHHTT--HHHHHHTT-EEE-SCSCHHHHHHCCCCHHHHHHCCTTCEECCTTTEEEETTTTEEE
T ss_pred CchHHHcCCchHHHHHHHHHcCCCHHHHHHhCCCcccCcHHHHHHHHHhccccHHHHHHCCCcEEcCCCCcccccCCeEE
Confidence 68888776555 77 8877 89999999999999999999988773 112334445 699
Q ss_pred Eee-----eeeeeeeeeeCCC-CC----CCCCCCcccCccccCchHhH
Q psy15215 686 FFL-----RNHGISGFLLTTP-DP----VHETPLFHKSNELYGLFEAK 723 (1432)
Q Consensus 686 fpi-----r~igf~gR~~~~~-~~----s~et~~f~K~~~Ly~~~~a~ 723 (1432)
||| +||||+||.+++. .| ||||++|+|+++|||++.||
T Consensus 81 fPI~d~~G~vvgF~gR~l~~~~~pKYlNs~et~if~K~~~Lyg~~~Ak 128 (128)
T PF08275_consen 81 FPIRDERGRVVGFGGRRLDDENPPKYLNSPETPIFKKSRILYGLDQAK 128 (128)
T ss_dssp EEEE-TTS-EEEEEEEESSSSSS-SEEE---BTTB-GGG-EETHHHHH
T ss_pred EEEEcCCCCEEEEecccCCCCCCCceECCCCCccccCCceecCccccC
Confidence 999 6999999999765 34 99999999999999999996
|
DNA primase (2.7.7 from EC) is a nucleotidyltransferase which synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork. It can also prime the leading strand and has been implicated in cell division []. ; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A 2AU3_A. |
| >PRK09647 RNA polymerase sigma factor SigE; Reviewed | Back alignment and domain information |
|---|
Probab=99.71 E-value=2.3e-16 Score=173.13 Aligned_cols=162 Identities=17% Similarity=0.233 Sum_probs=134.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccc
Q psy15215 1189 RKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 1268 (1432)
Q Consensus 1189 ~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~iri 1268 (1432)
..|+..|+..|.+.|+.++.+++++...++|++||+|+.+|++..+|++ + +|.+|++.++||.+.+++|+..+ .+.
T Consensus 27 ~~a~~~l~~~~~~~L~~~~~~~~~~~~~AEDivQEvflkl~~~~~~~~~--~-~~~~wL~~iarn~~~d~~Rk~~~-~~~ 102 (203)
T PRK09647 27 MPSWEELVRQHADRVYRLAYRLSGNQHDAEDLTQETFIRVFRSLQNYQP--G-TFEGWLHRITTNLFLDMVRRRAR-IRM 102 (203)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHhHHhcCC--c-ccHHHHHHHHHHHHHHHHHhccc-Ccc
Confidence 3499999999999999999999999999999999999999999999974 3 69999999999999999998653 110
Q ss_pred cccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChH
Q psy15215 1269 PVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPS 1348 (1432)
Q Consensus 1269 p~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~ 1348 (1432)
. .++ ++ . +... ....+|.
T Consensus 103 --~--------------------------------------------------~~~-----~~---~-~~~~-~~~~~~~ 120 (203)
T PRK09647 103 --E--------------------------------------------------ALP-----ED---Y-DRVP-GDEPNPE 120 (203)
T ss_pred --c--------------------------------------------------ccc-----cc---c-cccC-CCCCCHH
Confidence 0 000 00 0 0001 1123566
Q ss_pred HHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhh
Q psy15215 1349 DAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRY 1420 (1432)
Q Consensus 1349 ~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~ 1420 (1432)
.......+...|..+|+.||++++.|+.|+|+.|+ |++|||+.||+|.++|++.++||+++||+.+..
T Consensus 121 ~~~~~~~~~~~l~~~L~~L~~~~r~v~~L~~~~g~----s~~EIA~~Lgis~~tV~~~l~RArk~Lr~~l~~ 188 (203)
T PRK09647 121 QIYHDARLDPDLQAALDSLPPEFRAAVVLCDIEGL----SYEEIAATLGVKLGTVRSRIHRGRQQLRAALAA 188 (203)
T ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 66777777888999999999999999999999888 999999999999999999999999999986654
|
|
| >PRK09642 RNA polymerase sigma factor SigW; Reviewed | Back alignment and domain information |
|---|
Probab=99.71 E-value=1e-16 Score=169.76 Aligned_cols=155 Identities=12% Similarity=0.123 Sum_probs=126.3
Q ss_pred HHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHHHHH
Q psy15215 1197 EANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETI 1276 (1432)
Q Consensus 1197 ~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~ 1276 (1432)
+.|.+.|+.+|.+++++..+++|++||+|+.+|++.++|++. .|.||++.+++|.+.+++|++.+..+.
T Consensus 2 ~~y~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~---~~~~wl~~ia~n~~~d~~Rk~~~~~~~-------- 70 (160)
T PRK09642 2 QTYRHYIFQVIFSILRHEEDAKDVTQEVFVKIHASLPNYQFR---GLKTWMARIATNHAIDYKRKKARENEE-------- 70 (160)
T ss_pred chHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcccccccc---hhHHHHHHHHHHHHHHHHHHhcccccc--------
Confidence 578999999999999999999999999999999999999853 599999999999999999987641100
Q ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHH
Q psy15215 1277 NKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASM 1356 (1432)
Q Consensus 1277 ~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~~~~~~ 1356 (1432)
.++. ++. .+.+. ...+|++.....+.
T Consensus 71 --------------------------------------------~~~~----~~~----~~~~~--~~~~~~~~~~~~e~ 96 (160)
T PRK09642 71 --------------------------------------------LSLC----KET----EENIK--SSHNIEDLLLTKEQ 96 (160)
T ss_pred --------------------------------------------cccc----hhh----hhhcc--CCCChHHHHHHHHH
Confidence 0000 000 00000 11246666666777
Q ss_pred HHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhh
Q psy15215 1357 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRY 1420 (1432)
Q Consensus 1357 ~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~ 1420 (1432)
...+..+|++|||++|.|+.|+|..|+ |++|||+.||+|.++|+++++||+++||...+.
T Consensus 97 ~~~l~~~l~~Lp~~~r~v~~l~~~~g~----s~~EIA~~lgis~~tV~~~l~Rar~~Lr~~l~~ 156 (160)
T PRK09642 97 KLLIAQKLRELPENYRDVVLAHYLEEK----SYQEIALQEKIEVKTVEMKLYRARKWIKKHWKE 156 (160)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHhh
Confidence 888999999999999999999999999 999999999999999999999999999996643
|
|
| >PRK08241 RNA polymerase factor sigma-70; Validated | Back alignment and domain information |
|---|
Probab=99.71 E-value=2.9e-16 Score=187.08 Aligned_cols=183 Identities=18% Similarity=0.221 Sum_probs=143.2
Q ss_pred HHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHH
Q psy15215 1174 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 1253 (1432)
Q Consensus 1174 ~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~ 1253 (1432)
-.+|+.+++.|+.. |+.+|+..|.+.|+++|.+++++..+++|++||+|+.+|+..++|+.. .+|.+|++.+++|
T Consensus 6 ~~~l~~~~~~gd~~---af~~l~~~y~~~l~~~~~~~~~~~~dAEDivQevfl~~~~~~~~~~~~--~~~~~wL~~Ia~n 80 (339)
T PRK08241 6 AAALLARAAAGDRD---AFAALVEPHRRELLAHCYRMLGSVHDAEDAVQETLLRAWRGYDRFEGR--SSLRTWLYRIATN 80 (339)
T ss_pred HHHHHHHhhcCCHH---HHHHHHHHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHhhhhccccc--cchHHHHHHHHHH
Confidence 35688899999988 999999999999999999999999999999999999999999999843 4799999999999
Q ss_pred HHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCC--
Q psy15215 1254 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDE-- 1331 (1432)
Q Consensus 1254 ~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~-- 1331 (1432)
.+.+++|++.+.. .+ .....+..+..
T Consensus 81 ~~~d~~Rk~~~~~-~~---------------------------------------------------~~~~~~~~~~~~~ 108 (339)
T PRK08241 81 VCLDALEGRARRP-LP---------------------------------------------------TDLGAPAADPVDE 108 (339)
T ss_pred HHHHHHHhhcccc-Cc---------------------------------------------------cccCCCcCccccc
Confidence 9999999876410 00 00000000000
Q ss_pred -----CCCcCccccc----CCCCChHHHHHHHH-HHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHH
Q psy15215 1332 -----DSHLGDFIED----ENMLAPSDAALNAS-MRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRE 1401 (1432)
Q Consensus 1332 -----~~~~~d~i~d----~~~~~p~~~~~~~~-~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~ 1401 (1432)
.....+.+.+ ....+|++.....+ ....+..+|.+||+++|.||.|+|+.|+ |++|||+.||+|.+
T Consensus 109 ~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~e~~~~~l~~~l~~Lp~~~R~v~~L~~~~g~----s~~EIA~~lgis~~ 184 (339)
T PRK08241 109 LVERPEVPWLEPYPDALLDPAAADPAARVVARESVRLAFVAALQHLPPRQRAVLILRDVLGW----SAAEVAELLDTSVA 184 (339)
T ss_pred ccccccccccCCCCcccccccCCChHHHHHHHHHHHHHHHHHHHhCCHHHhhhhhhHHhhCC----CHHHHHHHhCCCHH
Confidence 0000111111 11346776665544 4567899999999999999999999999 99999999999999
Q ss_pred HHHHHHHHHHHHhhCc
Q psy15215 1402 RIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1402 ~Vrq~~~rAl~kLr~~ 1417 (1432)
+|+++++||+++||+.
T Consensus 185 tVk~~l~RAr~~Lr~~ 200 (339)
T PRK08241 185 AVNSALQRARATLAER 200 (339)
T ss_pred HHHHHHHHHHHHHhhc
Confidence 9999999999999993
|
|
| >PRK12523 RNA polymerase sigma factor; Reviewed | Back alignment and domain information |
|---|
Probab=99.71 E-value=7.4e-17 Score=172.95 Aligned_cols=164 Identities=13% Similarity=0.108 Sum_probs=130.7
Q ss_pred HhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHH
Q psy15215 1182 IAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD 1261 (1432)
Q Consensus 1182 ~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~ 1261 (1432)
++|+.. |+..|+..|.+.|+.+|.+++++..+++|++||+|+.+|+. .+|... ..|.+|++.+++|.+.+++|+
T Consensus 5 ~~~~~~---a~~~l~~~~~~~l~~~~~~~~~~~~~AeDlvQevflk~~~~-~~~~~~--~~~~~wL~~Iarn~~~d~~Rk 78 (172)
T PRK12523 5 QSPHSE---LVGALYRDHRGWLLAWLRRNVACRQRAEDLSQDTFVRLLGR-PELPTP--REPRAFLAAVAKGLMFDHFRR 78 (172)
T ss_pred CCCCcH---HHHHHHHHHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHcc-cccCcc--hhHHHHHHHHHHHHHHHHHHH
Confidence 567777 99999999999999999999999999999999999999986 456543 379999999999999999998
Q ss_pred hcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCccccc
Q psy15215 1262 QARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIED 1341 (1432)
Q Consensus 1262 ~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d 1341 (1432)
+.+... ...+ +.. . . .
T Consensus 79 ~~~~~~------------------~~~~---------------------------------~~~-~-~-----------~ 94 (172)
T PRK12523 79 AALEQA------------------YLAE---------------------------------LAL-V-P-----------E 94 (172)
T ss_pred HHHHHH------------------HHHH---------------------------------Hhh-c-c-----------c
Confidence 763100 0000 000 0 0 0
Q ss_pred CCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchh
Q psy15215 1342 ENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1342 ~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~ 1419 (1432)
....+|+......+....+..+|+.||+++|.||.|+|+.|+ |++|||+.||+|.++|++++++|+++||....
T Consensus 95 ~~~~~~~~~~~~~~~~~~l~~~l~~Lp~~~r~v~~L~~~~g~----s~~EIA~~lgis~~tV~~~l~ra~~~~~~~l~ 168 (172)
T PRK12523 95 AEQPSPEEQHLILEDLKAIDRLLGKLSSKARAAFLYNRLDGM----GHAEIAERLGVSVSRVRQYLAQGLRQCYIALY 168 (172)
T ss_pred ccCCChHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhc
Confidence 011245555544555568999999999999999999999988 99999999999999999999999999987543
|
|
| >PRK12539 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.70 E-value=3.8e-16 Score=169.37 Aligned_cols=171 Identities=13% Similarity=0.164 Sum_probs=136.8
Q ss_pred hhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHH----hcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHH
Q psy15215 382 NDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAK----KYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 457 (1432)
Q Consensus 382 ~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~----ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya 457 (1432)
.....++.+++.||.. |+..++..|.+.|+.+|+ +|.++..+++|++||+++.+|++.++|++. .+|.+|+
T Consensus 6 ~~~~~l~~~~~~gd~~---af~~l~~~~~~~l~~~~~~~~~~~~~~~~~AeDlvQe~~l~l~~~~~~~~~~--~~f~~wl 80 (184)
T PRK12539 6 NELKALMLASLDGDAA---AHRALLERLSGHLRAYYKGKLARIGRGAEEAEDLVQEALMAIHTRRHTYDPE--QPLTPWV 80 (184)
T ss_pred hHHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHhhcCCC--CChHHHH
Confidence 3467788999999998 999999999999999986 455778899999999999999999999874 3699999
Q ss_pred HHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCC
Q psy15215 458 TWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPV 537 (1432)
Q Consensus 458 ~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~ 537 (1432)
+..++|.+.+++|+..+. +.+ .+.+
T Consensus 81 ~~i~~n~~~d~~R~~~~~-~~~---------------------------------------------------~~~~--- 105 (184)
T PRK12539 81 YAIARYKLIDHLRRTRAS-LAD---------------------------------------------------VPID--- 105 (184)
T ss_pred HHHHHHHHHHHHHHHhcc-ccc---------------------------------------------------cChh---
Confidence 999999999999986531 000 0000
Q ss_pred CCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHH
Q psy15215 538 GDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIE 617 (1432)
Q Consensus 538 ~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~ 617 (1432)
+. . .. .. ..+ ....+....+..++.+||++++.|+.|+|..|+ |++|||+.||+|+++|+++.
T Consensus 106 -~~-~-~~---~~----~~~---~~~~e~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~eIA~~lgis~~tV~~~l 168 (184)
T PRK12539 106 -DA-D-EL---VA----HDD---HAAVESTLDLGRLLARLPEKMRLAIQAVKLEGL----SVAEAATRSGMSESAVKVSV 168 (184)
T ss_pred -hh-c-cc---cC----CcH---HhhHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----cHHHHHHHHCcCHHHHHHHH
Confidence 00 0 00 00 011 112234567899999999999999999999888 99999999999999999999
Q ss_pred HHHHHHHHHHHH
Q psy15215 618 AKALRKLRPLAH 629 (1432)
Q Consensus 618 ~rAl~kLr~~l~ 629 (1432)
++|+++|++.+.
T Consensus 169 ~ra~~~Lr~~l~ 180 (184)
T PRK12539 169 HRGLKALAALIG 180 (184)
T ss_pred HHHHHHHHHHHh
Confidence 999999998774
|
|
| >PRK09649 RNA polymerase sigma factor SigC; Reviewed | Back alignment and domain information |
|---|
Probab=99.70 E-value=2.2e-16 Score=171.26 Aligned_cols=174 Identities=17% Similarity=0.113 Sum_probs=137.2
Q ss_pred CCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHH
Q psy15215 378 VLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 457 (1432)
Q Consensus 378 ~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya 457 (1432)
+........++.++..||.. |+..|+..|.+.|+.++. ++++..+++|++||+|+.+|+..++|++. .+|.+|+
T Consensus 5 ~~~~~~~~~l~~~~~~gd~~---af~~l~~~~~~~l~~~~~-~~~~~~~AeDivQe~flkl~~~~~~~~~~--~~~~~Wl 78 (185)
T PRK09649 5 ASDDEAVTALALSAAKGNGR---ALEAFIKATQQDVWRFVA-YLSDVGSADDLTQETFLRAIGAIPRFSAR--SSARTWL 78 (185)
T ss_pred ccccHHHHHHHHHHHccCHH---HHHHHHHHHHHHHHHHHH-HhCCHHHHHHHHHHHHHHHHHhccccCcc--chHHHHH
Confidence 34456678899999999998 999999999999999995 67778899999999999999999999864 4799999
Q ss_pred HHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCC
Q psy15215 458 TWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPV 537 (1432)
Q Consensus 458 ~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~ 537 (1432)
+.+++|.+.+++|++.+..+. +.+..
T Consensus 79 ~~Iarn~~~d~~Rk~~~~~~~-----------------------------------------------------~~~~~- 104 (185)
T PRK09649 79 LAIARHVVADHIRHVRSRPRT-----------------------------------------------------TRGAR- 104 (185)
T ss_pred HHHHHHHHHHHHHHhcccccc-----------------------------------------------------ccccc-
Confidence 999999999999986541110 00000
Q ss_pred CCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHH
Q psy15215 538 GDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIE 617 (1432)
Q Consensus 538 ~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~ 617 (1432)
. . .. . .+.......+....+..+|++|||++|.||.|+|+.|+ |++|||+.||+|+++|+++.
T Consensus 105 --~-~-~~----~-----~~~~~~~~~e~~~~l~~~l~~Lp~~~r~v~~L~~~~g~----s~~EIA~~lgis~~tVk~~l 167 (185)
T PRK09649 105 --P-E-HL----I-----DGDRHARGFEDLVEVTTMIADLTTDQREALLLTQLLGL----SYADAAAVCGCPVGTIRSRV 167 (185)
T ss_pred --h-h-hc----c-----ChhhhhhhHHHHHHHHHHHHhCCHHHhHHhhhHHHcCC----CHHHHHHHHCCCHHHHHHHH
Confidence 0 0 00 0 00000111122345888999999999999999999999 99999999999999999999
Q ss_pred HHHHHHHHHHH
Q psy15215 618 AKALRKLRPLA 628 (1432)
Q Consensus 618 ~rAl~kLr~~l 628 (1432)
++|+++|++.+
T Consensus 168 ~Rar~~Lr~~~ 178 (185)
T PRK09649 168 ARARDALLADA 178 (185)
T ss_pred HHHHHHHHhhC
Confidence 99999999743
|
|
| >PRK09638 RNA polymerase sigma factor SigY; Reviewed | Back alignment and domain information |
|---|
Probab=99.70 E-value=1.6e-16 Score=171.04 Aligned_cols=170 Identities=18% Similarity=0.169 Sum_probs=137.1
Q ss_pred HHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHH
Q psy15215 384 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 463 (1432)
Q Consensus 384 ~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~ 463 (1432)
...++..+.+||.. |+..++..|.+.|+.+|.+|.++..+++|++||+|+++|+++++|++. .+|.+|++..++|
T Consensus 5 ~~~l~~~~~~~d~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~vQe~~l~l~~~~~~~~~~--~~~~~wl~~i~~n 79 (176)
T PRK09638 5 EKELIQKAKKGDDA---ALTTLFQQHYSFLYKYLLKLTLDPDLAEDLVQETMLKAIENLSSFQGR--SKFSTWLISIASR 79 (176)
T ss_pred HHHHHHHHHCCCHH---HHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHHHHHhcCCc--ccHHHHHHHHHHH
Confidence 34678888999998 999999999999999999999999999999999999999999999863 4899999999999
Q ss_pred HHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCC
Q psy15215 464 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS 543 (1432)
Q Consensus 464 ~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~ 543 (1432)
.+.+++++..+.... . ....+.
T Consensus 80 ~~~d~~r~~~~~~~~--~-----------------------------------------------------~~~~~~--- 101 (176)
T PRK09638 80 LYKDHLRKQKREKLR--L-----------------------------------------------------QRAKEE--- 101 (176)
T ss_pred HHHHHHHHhccccch--h-----------------------------------------------------hhcccc---
Confidence 999999987642100 0 000000
Q ss_pred CcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHH
Q psy15215 544 HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRK 623 (1432)
Q Consensus 544 ~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~k 623 (1432)
..+ ...+ +..........|..+|..||++++.||.++|..|+ |++|||+.||+|+++|+.+.++|+.+
T Consensus 102 -~~~------~~~~-~~~~~~~~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~eIA~~l~is~~~V~~~l~ra~~~ 169 (176)
T PRK09638 102 -TLR------KEKW-EAAIKGAEWSEMLDALSKLDPEFRAPVILKHYYGY----TYEEIAKMLNIPEGTVKSRVHHGIKQ 169 (176)
T ss_pred -cCC------ccch-HHHHHhhhHHHHHHHHHcCCHHHhheeeehhhcCC----CHHHHHHHHCCChhHHHHHHHHHHHH
Confidence 000 0000 11222234466889999999999999999998888 99999999999999999999999999
Q ss_pred HHHHH
Q psy15215 624 LRPLA 628 (1432)
Q Consensus 624 Lr~~l 628 (1432)
|++.+
T Consensus 170 l~~~l 174 (176)
T PRK09638 170 LRKEW 174 (176)
T ss_pred HHHHh
Confidence 99865
|
|
| >TIGR02954 Sig70_famx3 RNA polymerase sigma-70 factor, TIGR02954 family | Back alignment and domain information |
|---|
Probab=99.70 E-value=2.9e-16 Score=167.93 Aligned_cols=165 Identities=16% Similarity=0.227 Sum_probs=134.8
Q ss_pred HHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHH
Q psy15215 385 RDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 464 (1432)
Q Consensus 385 ~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~ 464 (1432)
..++..+..||.. |+..++..|.+.|+++|.+++++..+++|++||+++.+|++.++|++. .+|.||++..++|.
T Consensus 4 ~~l~~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~l~~~~~~~~~~~~--~~~~~wl~~i~~n~ 78 (169)
T TIGR02954 4 EELVKKAKRGNKP---AFESLIKKHKEKLYKTAFIYVKNEHDALDVIQETVYKAYLSIDKLKHP--KYFNTWLTRILINE 78 (169)
T ss_pred HHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHhccCc--cccHHHHHHHHHHH
Confidence 3667788999988 999999999999999999999999999999999999999999999864 37999999999999
Q ss_pred HHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCC
Q psy15215 465 ITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSH 544 (1432)
Q Consensus 465 i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~ 544 (1432)
+.+++|+..+. .| ++.....+
T Consensus 79 ~~d~~R~~~~~--~~-----------------------------------------------------~~~~~~~~---- 99 (169)
T TIGR02954 79 CIDLLKKKKKV--IP-----------------------------------------------------FDPNTSIE---- 99 (169)
T ss_pred HHHHHHhcCCc--Cc-----------------------------------------------------cccccccc----
Confidence 99999876541 00 00000000
Q ss_pred cCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHH
Q psy15215 545 LGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKL 624 (1432)
Q Consensus 545 ~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kL 624 (1432)
. ..+.. .. .....+..+|+.||+++++|+.|+|+.|+ |++|||+.||+|+++|+.+.++|+.+|
T Consensus 100 ------~---~~~~~--~~-~~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~eiA~~lgis~~tv~~~l~Ra~~~L 163 (169)
T TIGR02954 100 ------K---GECET--HA-DSRLDLYKAIDTLNDKYQTAIILRYYHDL----TIKEIAEVMNKPEGTVKTYLHRALKKL 163 (169)
T ss_pred ------c---chhhh--ch-HHHHHHHHHHHhCCHHHhHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 0 00100 01 11237889999999999999999999998 999999999999999999999999999
Q ss_pred HHHHH
Q psy15215 625 RPLAH 629 (1432)
Q Consensus 625 r~~l~ 629 (1432)
++.+.
T Consensus 164 r~~l~ 168 (169)
T TIGR02954 164 KKRLE 168 (169)
T ss_pred HHHhc
Confidence 98763
|
This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. This family is found in certain Bacillus and Clostridium species. |
| >TIGR03001 Sig-70_gmx1 RNA polymerase sigma-70 factor, Myxococcales family 1 | Back alignment and domain information |
|---|
Probab=99.70 E-value=6.5e-16 Score=173.76 Aligned_cols=183 Identities=16% Similarity=0.198 Sum_probs=145.6
Q ss_pred hHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHH-------HHhhccccCCCccHH
Q psy15215 383 DLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMK-------AVDKFEYRRGYKFST 455 (1432)
Q Consensus 383 e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~k-------av~~fd~~~g~~Fst 455 (1432)
+...|+..++.||.. |+..|+..|.+.|+.++.+++++..+++|++||+|+.+|. ++.+|+.. .+|.|
T Consensus 25 ~d~~Li~~~~~gd~~---Af~~L~~~y~~~l~~~~~~~~~~~~dAEDivQEvFlkl~~~~~~~~~~~~~~~~~--~~~~t 99 (244)
T TIGR03001 25 ADLYLACACAQGEPA---ALAALERHVLSKVPARLAGLRPPTAFVDEVLQRLRQRLLVPRAERPPRIAEYSGR--GPLLS 99 (244)
T ss_pred cHHHHHHHHHcCcHH---HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhccchhhhhhccCCC--CchHh
Confidence 345688889999988 9999999999999999999999999999999999999994 78888853 47999
Q ss_pred HHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCC
Q psy15215 456 YATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMES 535 (1432)
Q Consensus 456 ya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~ 535 (1432)
|++.+++|.+.++++++.+...+ +
T Consensus 100 WL~~Ia~N~~id~lRk~~r~~~~-------------------------------------------------------~- 123 (244)
T TIGR03001 100 WVRIVATRIALELQAQERRHSPV-------------------------------------------------------E- 123 (244)
T ss_pred HHHHHHHHHHHHHHHHhcccCcc-------------------------------------------------------c-
Confidence 99999999999999976541100 0
Q ss_pred CCCCCCCCCcCcccccCCCCChHHHHHH----HHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchh
Q psy15215 536 PVGDDEDSHLGDFIEDENMLAPSDAALN----ASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRE 611 (1432)
Q Consensus 536 ~~~~~~~~~~~~~i~d~~~~~p~~~~~~----~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~ 611 (1432)
+++. ..+. .+ ...+|++.... .+....|..+|++||+++|.|+.|+|..|+ |++|||+.||+|.+
T Consensus 124 ---~~~~--~~~~-~~-~~~~~e~~~~~~e~~~e~~~~l~~aL~~Lp~~~R~v~~L~~~eg~----S~~EIA~~Lgis~~ 192 (244)
T TIGR03001 124 ---EPTE--LAAL-PA-PGSDPELDLLRERYRQDFRQALREALAALSERERHLLRLHFVDGL----SMDRIGAMYQVHRS 192 (244)
T ss_pred ---cccc--cccc-cC-CCCCHHHHHHHHhhHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHH
Confidence 0000 0000 00 11244444433 235678999999999999999999999998 99999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhh
Q psy15215 612 RIRQIEAKALRKLRPLAHDWLEQRTH 637 (1432)
Q Consensus 612 ~v~~~~~rAl~kLr~~l~~~~~~~l~ 637 (1432)
+|+.+.++|+++|++.+..-+-.++.
T Consensus 193 TVk~rl~RAr~~Lr~~l~~~~~~~~~ 218 (244)
T TIGR03001 193 TVSRWVAQARERLLERTRRRLAERLK 218 (244)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 99999999999999998765555543
|
This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in multiple copies in the order Myxococcales. This model supercedes TIGR02233, which has now been retired. |
| >PRK12528 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.70 E-value=2.2e-16 Score=167.32 Aligned_cols=157 Identities=10% Similarity=0.110 Sum_probs=126.2
Q ss_pred hhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccccccc
Q psy15215 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 1269 (1432)
Q Consensus 1190 ~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 1269 (1432)
.|+.+|+..|.+.|+++|.+++++..+++|++||+|+.+|+..++|++ ..|.+|++++++|.+.+++|++.+. +
T Consensus 4 ~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDivQe~flk~~~~~~~~~~---~~~~~wl~~i~~n~~~d~~R~~~~~---~ 77 (161)
T PRK12528 4 ATVEGLYSAHHHWLTGWLRRRLGCPQSAADLAQDTFVKVLVARETAQI---IEPRAFLTTIAKRVLCNHYRRQDLE---R 77 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHhccccccc---cCHHHHHHHHHHHHHHHHHHHHHHH---H
Confidence 389999999999999999999999999999999999999999888764 2699999999999999999976531 0
Q ss_pred ccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 1270 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 1349 (1432)
Q Consensus 1270 ~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~ 1349 (1432)
.. . + .++ + ..+....+++.
T Consensus 78 ~~---------------~---------~------------------------~~~----~---------~~~~~~~~~~~ 96 (161)
T PRK12528 78 AY---------------L---------E------------------------ALA----Q---------LPERVAPSEEE 96 (161)
T ss_pred hh---------------H---------H------------------------Hhh----c---------cccccCCCHHH
Confidence 00 0 0 000 0 00001123444
Q ss_pred HHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1350 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1350 ~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
.....+....+..+|..||+++|.||.|+|+.|+ |++|||+.||+|.++|++++++|+++||..
T Consensus 97 ~~~~~~~~~~l~~~l~~L~~~~r~v~~L~~~~g~----s~~EIA~~l~is~~tV~~~l~ra~~~~~~~ 160 (161)
T PRK12528 97 RAIILETLVELDQLLDGLPPLVKRAFLLAQVDGL----GYGEIATELGISLATVKRYLNKAAMRCYFA 160 (161)
T ss_pred HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHhc
Confidence 4444455678999999999999999999999999 999999999999999999999999999863
|
|
| >TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family | Back alignment and domain information |
|---|
Probab=99.70 E-value=2.6e-16 Score=164.92 Aligned_cols=156 Identities=22% Similarity=0.333 Sum_probs=132.6
Q ss_pred hHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccc
Q psy15215 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 1270 (1432)
Q Consensus 1191 A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 1270 (1432)
|++.++..|.++|+++++++..++.+++|++|||++++|+++++|++. .+|.||+.+++++.+.++++++.+ .+.
T Consensus 2 a~~~l~~~~~~~v~~~~~~~~~~~~~~~D~~qe~~~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~rk~~~---~~~ 76 (158)
T TIGR02937 2 AFEELYERYLPLLYRYARRYLGDDADAEDLVQEAFLKLLEALDRFDPE--GSFKAWLFRIARNLILDYLRRKRR---LRR 76 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHhHHhcCCc--chHHHHHHHHHHHHHHHHHHHhcc---CCc
Confidence 789999999999999999999999999999999999999999999988 589999999999999999998875 111
Q ss_pred cHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 1271 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 1350 (1432)
Q Consensus 1271 ~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~ 1350 (1432)
.+ ..+. .. .....+|.+.
T Consensus 77 ~~---------------------------------------------------~~~~------~~-----~~~~~~~~~~ 94 (158)
T TIGR02937 77 EL---------------------------------------------------DLLE------EL-----LDSDPSPEEE 94 (158)
T ss_pred ch---------------------------------------------------hhhh------hc-----ccccCCHHHH
Confidence 00 0000 00 0011256667
Q ss_pred HHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1351 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1351 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
.........+..++++||++++.||.++|+.|. |..|||+.+|+|+.+|+++..+++++||+.
T Consensus 95 ~~~~~~~~~l~~~l~~L~~~~~~ii~~~~~~g~----s~~eIA~~l~~s~~~v~~~~~~~~~kl~~~ 157 (158)
T TIGR02937 95 LEQEEEREALREALEKLPEREREVLVLRYLEGL----SYKEIAEILGISVGTVKRRLKRARKKLREL 157 (158)
T ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHhhHHhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHhh
Confidence 777777888999999999999999999998888 999999999999999999999999999974
|
Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs. |
| >PRK12516 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.70 E-value=2.3e-16 Score=171.11 Aligned_cols=159 Identities=12% Similarity=0.092 Sum_probs=127.5
Q ss_pred hhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccccccc
Q psy15215 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 1269 (1432)
Q Consensus 1190 ~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 1269 (1432)
.++..++..|.+.|+.+|.+++++..+++|++||+|+.+|+..++|+.. ..|.+|++.+++|.+.+++|++.+...
T Consensus 10 ~~f~~l~~~~~~~L~~~a~~~~~~~~~AEDivQevfl~~~~~~~~~~~~--~~~~awL~~Ia~n~~~d~~R~~~~~~~-- 85 (187)
T PRK12516 10 PPFKRELLAALPSLRAFAVSLIGRHDRADDLVQDTIMKAWAKQDHFEVG--TNMKAWLFTILRNEFYSQMRKRGREVQ-- 85 (187)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHHhhhccCCc--ccHHHHHHHHHHHHHHHHHHhhcCCcc--
Confidence 4999999999999999999999999999999999999999999999854 369999999999999999998764100
Q ss_pred ccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 1270 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 1349 (1432)
Q Consensus 1270 ~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~ 1349 (1432)
. .+... . +.... .+.+.
T Consensus 86 -~---------------------------------------------------~~~~~-~-------~~~~~--~~~~~- 102 (187)
T PRK12516 86 -D---------------------------------------------------TDGMF-T-------EQLAV--HPSQY- 102 (187)
T ss_pred -c---------------------------------------------------ccccc-c-------cccCC--Ccchh-
Confidence 0 00000 0 00000 00111
Q ss_pred HHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhh
Q psy15215 1350 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422 (1432)
Q Consensus 1350 ~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~ 1422 (1432)
.......+..+|..||+++|.||.|+|+.|+ |++|||+.||+|.++|+++++||+++||+.+....
T Consensus 103 ---~~~~~~~l~~~L~~Lp~~~r~i~~L~~~~g~----s~~EIA~~Lgis~~tVk~~l~Rar~~Lr~~l~~~~ 168 (187)
T PRK12516 103 ---GTLDLQDFRAALDQLPDDQREAIILVGASGF----AYEEAAEICGCAVGTIKSRVNRARQRLQEILQIEG 168 (187)
T ss_pred ---hHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHhhc
Confidence 1122356899999999999999999999998 99999999999999999999999999999776543
|
|
| >TIGR02943 Sig70_famx1 RNA polymerase sigma-70 factor, TIGR02943 family | Back alignment and domain information |
|---|
Probab=99.70 E-value=3.4e-16 Score=170.14 Aligned_cols=177 Identities=15% Similarity=0.147 Sum_probs=133.7
Q ss_pred HHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHH
Q psy15215 1194 EMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 1273 (1432)
Q Consensus 1194 ~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~ 1273 (1432)
+.+..|.+.|+.+|++++++..+++|++||+|+.+|+...+|++. .+|.+|++.+++|.+.+++|++.+....+.- .
T Consensus 6 ~~~~~~~~~l~~~~~~~~~~~~dAeDivQevfl~l~~~~~~~~~~--~~~~~wL~~iarn~~~d~~R~~~r~~~~~~~-~ 82 (188)
T TIGR02943 6 QELEQLRRDLLRFARLQLRDRDLAEDAVQETLLAALSHRDSFAGR--SALKTWLFAILKNKIIDALRAKGREVKVSDL-D 82 (188)
T ss_pred HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhhhccc--cHHHHHHHHHHHHHHHHHHHhhcccCCcccc-c
Confidence 578899999999999999999999999999999999999999864 3799999999999999999987652111100 0
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHH
Q psy15215 1274 ETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALN 1353 (1432)
Q Consensus 1274 ~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~~~ 1353 (1432)
. ++. .-.+....... +....... ....++|+..+..
T Consensus 83 ~------------------~~~------------------------~~~~~~~~~~~-~~~~~~~~-~~~~~~~e~~~~~ 118 (188)
T TIGR02943 83 D------------------ELD------------------------DEAFNALFTQN-GHWAQHGQ-PQHWNTPEKQLEN 118 (188)
T ss_pred c------------------ccc------------------------cchhhhhhccc-cchhcccc-ccccCCHHHHHHH
Confidence 0 000 00000000000 00000111 1122467777777
Q ss_pred HHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhh
Q psy15215 1354 ASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYY 1421 (1432)
Q Consensus 1354 ~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~ 1421 (1432)
.+....+..+|.+||+++|+||.|+|+.|+ |++|||+.||+|.++|+++++||+++||+.....
T Consensus 119 ~e~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~EIA~~lgis~~tvk~rl~Rar~~Lr~~l~~~ 182 (188)
T TIGR02943 119 KEFWEVFEACLYHLPEQTARVFMMREVLGF----ESDEICQELEISTSNCHVLLYRARLSLRACLSIN 182 (188)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 788889999999999999999999999999 9999999999999999999999999999966543
|
This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. |
| >PRK09644 RNA polymerase sigma factor SigM; Provisional | Back alignment and domain information |
|---|
Probab=99.70 E-value=2.4e-16 Score=167.77 Aligned_cols=157 Identities=11% Similarity=0.093 Sum_probs=131.2
Q ss_pred HHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccccccccc
Q psy15215 1192 KREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 1271 (1432)
Q Consensus 1192 ~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~ 1271 (1432)
++.|+..|.+.|+++|++++++..+++|++||+|+.+|+++++|++. .|.+|++.+++|.+.+++|+..+.....
T Consensus 3 ~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~---~~~~wL~~i~~n~~~d~~R~~~~~~~~~-- 77 (165)
T PRK09644 3 IEEIYKMYINDVYRYLFSLTKSHHAAEDLLQETFYRAYIYLEDYDNQ---KVKPWLFKVAYHTFIDFVRKEKKVSFVG-- 77 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcccc---chHHHHHHHHHHHHHHHHHhhhhccccc--
Confidence 67899999999999999999999999999999999999999999852 6999999999999999999876411000
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHH
Q psy15215 1272 MIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAA 1351 (1432)
Q Consensus 1272 ~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~ 1351 (1432)
.++ + +.+. ..+|++..
T Consensus 78 ------------------------~~~------------------------~-------------~~~~---~~~~~~~~ 93 (165)
T PRK09644 78 ------------------------TDE------------------------I-------------EAIQ---AESTEEYV 93 (165)
T ss_pred ------------------------hhH------------------------H-------------hhhc---ccChHHHH
Confidence 000 0 0000 12455666
Q ss_pred HHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhh
Q psy15215 1352 LNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYY 1421 (1432)
Q Consensus 1352 ~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~ 1421 (1432)
...+....+..+|..||+++++|+.|+|+.|. |++|||..||+|.++|+++++||+++||+..+..
T Consensus 94 ~~~~~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~eIA~~lgis~~tv~~~l~Rar~~Lr~~l~~~ 159 (165)
T PRK09644 94 VAKNSYEKLIQIIHTLPVIEAQAILLCDVHEL----TYEEAASVLDLKLNTYKSHLFRGRKRLKALLKEE 159 (165)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHhHHHhcC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHhh
Confidence 66677788999999999999999999999998 9999999999999999999999999999976544
|
|
| >PRK09639 RNA polymerase sigma factor SigX; Provisional | Back alignment and domain information |
|---|
Probab=99.70 E-value=3.1e-16 Score=167.16 Aligned_cols=158 Identities=16% Similarity=0.180 Sum_probs=130.9
Q ss_pred hhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccccccc
Q psy15215 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 1269 (1432)
Q Consensus 1190 ~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 1269 (1432)
.|++.++..|.+.|+.+|++++++..+++|++||+|+.+|++ +|+. +..|.||++.+++|.+.+++++..+..+..
T Consensus 3 ~~f~~l~~~y~~~l~~~~~~~~~~~~~aeDlvQe~fi~~~~~--~~~~--~~~~~~wl~~i~rn~~~d~~rk~~~~~~~~ 78 (166)
T PRK09639 3 ETFEDLFEQYYPDVVQQIFYIVKDRTQAEDLAQEVFLRLYRS--DFKG--IENEKGWLIKSARNVAYNYLRSEKRRRARI 78 (166)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH--hccc--ccchHHHHHHHHHHHHHHHHHHhccccccc
Confidence 489999999999999999999999999999999999999999 6764 347999999999999999999876521100
Q ss_pred ccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 1270 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 1349 (1432)
Q Consensus 1270 ~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~ 1349 (1432)
. ... + ..+. ...++|++
T Consensus 79 ~------------------------------------------------------~~~-~-----~~~~---~~~~~~e~ 95 (166)
T PRK09639 79 L------------------------------------------------------GEF-Q-----WQEV---DNEPSPEE 95 (166)
T ss_pred c------------------------------------------------------chh-h-----hhhc---cCCCChHH
Confidence 0 000 0 0000 11236777
Q ss_pred HHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchh
Q psy15215 1350 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1350 ~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~ 1419 (1432)
.....+....+..+|.+||+++|.||.++| .|+ |++|||+.||+|.++|++.++||+++||..+.
T Consensus 96 ~~~~~~~~~~l~~~l~~L~~~~r~il~l~~-~g~----s~~eIA~~lgis~~tV~~~i~ra~~~Lr~~l~ 160 (166)
T PRK09639 96 IWIRKEEITKVQEVLAKMTERDRTVLLLRF-SGY----SYKEIAEALGIKESSVGTTLARAKKKFRKIYE 160 (166)
T ss_pred HHHHHHHHHHHHHHHHcCCHHHHHHHHHHH-cCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Confidence 777777788899999999999999999999 999 99999999999999999999999999999654
|
|
| >PRK12529 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.70 E-value=1.6e-16 Score=171.23 Aligned_cols=168 Identities=10% Similarity=0.072 Sum_probs=134.1
Q ss_pred HHHHhHHHHHHhHHHHHHHHHHHHHHHHHhccc--CCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHH
Q psy15215 390 KMIAGEMKARKAKREMTEANLRLVISIAKKYTD--RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 467 (1432)
Q Consensus 390 ~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~--~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~ 467 (1432)
.+..||.. |+..|+..|.+.|++++.++++ ...+++|++||+|+.+|+..++|+.....+|.||++.+++|.+.+
T Consensus 6 ~~~~~d~~---af~~ly~~~~~~l~~~~~~~~~~~~~~~AeDivQevFl~~~~~~~~~~~~~~~~~~~wL~~ia~n~~~d 82 (178)
T PRK12529 6 SCLSADRD---KVATLYRENHAWLRNWLAYRLRSWGRGVADDLAHDIFLRILASRDGGQREAIRQPRAYLARIANCVLVS 82 (178)
T ss_pred cCCCCCHH---HHHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHhcccccccccccCHHHHHHHHHHHHHHH
Confidence 34578877 9999999999999998766665 357899999999999999999997544457999999999999999
Q ss_pred HHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCc
Q psy15215 468 SIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGD 547 (1432)
Q Consensus 468 ~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~ 547 (1432)
+++++.+... . .+.. .+
T Consensus 83 ~~Rk~~~~~~---~---------------------------------------------------~~~~-~~-------- 99 (178)
T PRK12529 83 WRRRQSLELA---W---------------------------------------------------LEAL-AT-------- 99 (178)
T ss_pred HHHHHHHHhh---h---------------------------------------------------hhHh-hh--------
Confidence 9887543100 0 0000 00
Q ss_pred ccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHH
Q psy15215 548 FIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPL 627 (1432)
Q Consensus 548 ~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~ 627 (1432)
.......+|++.....+....|..+|.+|||++|.||.|+|..|+ |++|||+.||+|+++|+.+.++|+.++++.
T Consensus 100 -~~~~~~~~~e~~~~~~~~~~~l~~~l~~Lp~~~R~v~~L~~~~g~----s~~EIA~~lgis~~tVk~~l~rAl~~~~~~ 174 (178)
T PRK12529 100 -LPEPLHPSPEQQSVILETLHEIDALLDTLRPRVKQAFLMATLDGM----KQKDIAQALDIALPTVKKYIHQAYVTCLSL 174 (178)
T ss_pred -ccCcCCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHh
Confidence 000112356666666677788999999999999999999999998 999999999999999999999999999876
Q ss_pred H
Q psy15215 628 A 628 (1432)
Q Consensus 628 l 628 (1432)
+
T Consensus 175 ~ 175 (178)
T PRK12529 175 M 175 (178)
T ss_pred C
Confidence 4
|
|
| >PRK12512 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.69 E-value=5e-16 Score=168.52 Aligned_cols=170 Identities=16% Similarity=0.220 Sum_probs=135.9
Q ss_pred hhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccC----CCChhhHHHHHHHHHHHHHhhccccCCCccHHHH
Q psy15215 382 NDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDR----GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYA 457 (1432)
Q Consensus 382 ~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~----~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya 457 (1432)
.++..++..+..||.. |+..|+..|.+.|+.+|.+++++ ..+++|++||+++.+|+..++|+.. .+|.+|+
T Consensus 7 ~~~~~l~~~~~~gd~~---a~~~l~~~y~~~l~~~~~~~l~~~~~~~~~aeDlvQe~fl~l~~~~~~~~~~--~~~~~wl 81 (184)
T PRK12512 7 DEWTDLMRSANAGDAA---AYRRLLKAVTPVLRAAARRGLARAGQPADQAEDIVQEILLAVHLKRHTWDPG--APFAPWL 81 (184)
T ss_pred hHHHHHHHHHHccCHH---HHHHHHHHHHHHHHHHHHHHHHhccCCcccHHHHHHHHHHHHHHhHHhcCcc--ccHHHHH
Confidence 4566788888899988 99999999999999999998863 4689999999999999999999863 4799999
Q ss_pred HHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCC
Q psy15215 458 TWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPV 537 (1432)
Q Consensus 458 ~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~ 537 (1432)
+..++|.+.++++++.+....+ ++.
T Consensus 82 ~~i~rn~~~d~~Rr~~~~~~~~-----------------------------------------------------~~~-- 106 (184)
T PRK12512 82 FAIARNKLIDALRRRGRRVFVD-----------------------------------------------------IDD-- 106 (184)
T ss_pred HHHHHHHHHHHHHhhcccccCC-----------------------------------------------------chh--
Confidence 9999999999998765421110 000
Q ss_pred CCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHH
Q psy15215 538 GDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIE 617 (1432)
Q Consensus 538 ~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~ 617 (1432)
..+.+++.. +.+ ......+..+|++||++++.||.|+|..|+ |++|||+.||+|..+|+.+.
T Consensus 107 -------~~~~~~~~~---~~~----~~~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~eIA~~l~is~~tV~~~l 168 (184)
T PRK12512 107 -------FAETLPAEP---ATE----TLPAGDVGRHLETLPPRQRDVVQSISVEGA----SIKETAAKLSMSEGAVRVAL 168 (184)
T ss_pred -------ccccccccc---hhh----HHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHhCCCHHHHHHHH
Confidence 000011100 001 122356788999999999999999999988 99999999999999999999
Q ss_pred HHHHHHHHHHHH
Q psy15215 618 AKALRKLRPLAH 629 (1432)
Q Consensus 618 ~rAl~kLr~~l~ 629 (1432)
++|+++|+..+.
T Consensus 169 ~ra~~~Lr~~l~ 180 (184)
T PRK12512 169 HRGLAALAAKFR 180 (184)
T ss_pred HHHHHHHHHHhh
Confidence 999999998874
|
|
| >TIGR02999 Sig-70_X6 RNA polymerase sigma factor, TIGR02999 family | Back alignment and domain information |
|---|
Probab=99.69 E-value=3.8e-16 Score=169.24 Aligned_cols=174 Identities=17% Similarity=0.193 Sum_probs=131.8
Q ss_pred hHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCC-----ChhhHHHHHHHHHHH-HHhhccccCCCccHHH
Q psy15215 383 DLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGL-----QFLDLIQEGNIGLMK-AVDKFEYRRGYKFSTY 456 (1432)
Q Consensus 383 e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~-----~~~DLiQEg~igL~k-av~~fd~~~g~~Fsty 456 (1432)
.+..++..++.||.. |+..|+..|.+.|+.+|.+|+++.. +++|++||+|+.+|+ ...+|++. ..|.+|
T Consensus 3 ~~~~li~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~~~~~~~~~~~~AeDlvQevfl~~~~~~~~~~~~~--~~~~~w 77 (183)
T TIGR02999 3 PVTELLQQWQNGDAA---ARDQLFPQLYQELRRIARRQLRRERSGQTLQTTALVHEAYLRLSDQDEQKWDDR--AHFFAA 77 (183)
T ss_pred cHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHHhhcccccccchHHHHHHHHHHHHhhcccCCCCch--HHHHHH
Confidence 356678899999988 9999999999999999999999877 899999999999998 78888753 379999
Q ss_pred HHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCC
Q psy15215 457 ATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESP 536 (1432)
Q Consensus 457 a~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~ 536 (1432)
++.+++|.+.+++|++.+..+.. . ....+
T Consensus 78 l~~i~~n~~~d~~R~~~~~~~~~-------------------------------------------------~--~~~~~ 106 (183)
T TIGR02999 78 AAKAMRRILVDHARRRRAQKRGG-------------------------------------------------G--AVRVP 106 (183)
T ss_pred HHHHHHHHHHHHHHHHHHHhccC-------------------------------------------------C--ccccc
Confidence 99999999999998765410000 0 00000
Q ss_pred CCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHH
Q psy15215 537 VGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQI 616 (1432)
Q Consensus 537 ~~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~ 616 (1432)
..+ ..+. .++... ........+...|++|||++|.||.|+|..|+ |++|||+.||+|+++|+.+
T Consensus 107 ~~~--------~~~~---~~~~~~-~~~~~l~~~~~~l~~Lp~~~r~v~~l~~~~g~----s~~EIA~~lgis~~tVk~~ 170 (183)
T TIGR02999 107 LDE--------VLPD---AEADLD-EELLDLDDALDKLAQVDPRQAEVVELRFFAGL----TVEEIAELLGVSVRTVERD 170 (183)
T ss_pred ccc--------ccCC---CCccHH-HHHHHHHHHHHHhhcCCHHHHHHHHHHHHcCC----CHHHHHHHhCCCHHHHHHH
Confidence 000 0000 011111 11111233444567799999999999999999 9999999999999999999
Q ss_pred HHHHHHHHHHHH
Q psy15215 617 EAKALRKLRPLA 628 (1432)
Q Consensus 617 ~~rAl~kLr~~l 628 (1432)
.+||+.+|++.+
T Consensus 171 l~Rar~~Lr~~l 182 (183)
T TIGR02999 171 WRFARAWLADEL 182 (183)
T ss_pred HHHHHHHHHHHh
Confidence 999999999875
|
This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found in a variety of species including Rhodopirellula baltica which encodes a paralogous group of five. |
| >PRK12520 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.69 E-value=4.7e-16 Score=169.70 Aligned_cols=179 Identities=17% Similarity=0.211 Sum_probs=136.9
Q ss_pred hHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccch
Q psy15215 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 480 (1432)
Q Consensus 401 A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 480 (1432)
++..|+..|.+.|+.+|.+++++..+++|++||.|+.+|+.+++|+.. .+|.||++..++|.+.+++|++.+....+.
T Consensus 3 ~~~~l~~~~~~~l~~~a~~~~~~~~~AeDivQevfl~~~~~~~~~~~~--~~~~~WL~~ia~n~~~d~~Rk~~r~~~~~~ 80 (191)
T PRK12520 3 IAPAQLEALRPHLLRFARLQLRDPALAEDAVSETLLAVLEHPERFAGQ--SSLKTYLVGILKHKIIDAIRSGRREVRLSL 80 (191)
T ss_pred chHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhhhccc--ccHHHHHHHHHHHHHHHHHHhhcCcCcccc
Confidence 789999999999999999999999999999999999999999999854 379999999999999999998765321110
Q ss_pred hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 481 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 560 (1432)
Q Consensus 481 ~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~ 560 (1432)
... ......++ ++..... +.. ....++ ...+|++.
T Consensus 81 ~~~------------------~~~~~~~~-----------------------~~~~~~~--~~~-~~~~~~-~~~~~~~~ 115 (191)
T PRK12520 81 DDA------------------DEQSDDDL-----------------------FDALFAA--DGH-YREPPS-DWGDPDAA 115 (191)
T ss_pred ccc------------------ccchhhhh-----------------------hhhhccc--ccc-cccCcc-ccCCHHHH
Confidence 000 00000000 0000000 000 000111 12367777
Q ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 561 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 561 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
+...+....|..+|.+|||++|.|+.|+|..|+ |++|||+.||+|.++|+++.+||+++|++.+..
T Consensus 116 ~~~~~~~~~l~~~l~~Lp~~~r~v~~l~~~~g~----s~~EIA~~lgis~~tV~~~l~Rar~~Lr~~l~~ 181 (191)
T PRK12520 116 LSRREFFEVLQACVDRLPPRTGRVFMMREWLEL----ETEEICQELQITATNAWVLLYRARMRLRECLDL 181 (191)
T ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 777788888999999999999999999999998 999999999999999999999999999998864
|
|
| >TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family | Back alignment and domain information |
|---|
Probab=99.69 E-value=2.4e-16 Score=167.34 Aligned_cols=158 Identities=15% Similarity=0.195 Sum_probs=128.4
Q ss_pred hhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHh
Q psy15215 1183 AGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 1262 (1432)
Q Consensus 1183 ~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~ 1262 (1432)
+|+.. |++.++..|.+.|+++|.+++++..+++|++||+|+.+|.+.++|+. ...|.+|++.+++|.+.+++++.
T Consensus 2 ~~~~~---~~~~l~~~~~~~l~~~~~~~~~~~~~aeDivQe~f~~~~~~~~~~~~--~~~~~~wl~~i~~n~~~d~~rk~ 76 (162)
T TIGR02983 2 SATEE---EFTAFVAARYPRLLRTAYLLTGDPHEAEDLVQEALVRTYVRWDRIRD--PDAPDAYVRRVLVNLARSRWRRR 76 (162)
T ss_pred CCcHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHhhcCC--cccHHHHHHHHHHHHHHHHHHhh
Confidence 46666 99999999999999999999999999999999999999999999964 34899999999999999999976
Q ss_pred cccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccC
Q psy15215 1263 ARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDE 1342 (1432)
Q Consensus 1263 ~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~ 1342 (1432)
.+. ..+ .....+. .
T Consensus 77 ~~~-~~~------------------------------------------------------~~~~~~~-~---------- 90 (162)
T TIGR02983 77 RLL-ELP------------------------------------------------------TRELPDA-A---------- 90 (162)
T ss_pred ccc-ccc------------------------------------------------------ccccCcc-c----------
Confidence 531 000 0000000 0
Q ss_pred CCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchh
Q psy15215 1343 NMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1343 ~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~ 1419 (1432)
+.+..........|..+|..||++++.|+.|+|..|+ |.+|||+.||+|.++|+++++||+++||+...
T Consensus 91 ----~~~~~~~~~~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~eIA~~lgis~~tV~~~l~ra~~~Lr~~l~ 159 (162)
T TIGR02983 91 ----APDPAPDVALRAALARALRRLPARQRAVVVLRYYEDL----SEAQVAEALGISVGTVKSRLSRALARLRELLE 159 (162)
T ss_pred ----CCccchhHHHHHHHHHHHHhCCHHHHHHhhhHHHhcC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHHhc
Confidence 0001112344567889999999999999999999888 99999999999999999999999999998553
|
This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives. |
| >PRK12530 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.69 E-value=4.4e-16 Score=169.46 Aligned_cols=174 Identities=17% Similarity=0.208 Sum_probs=131.8
Q ss_pred HHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccccH
Q psy15215 1193 REMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM 1272 (1432)
Q Consensus 1193 ~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~ 1272 (1432)
...+..|.+.|+.+|.+++++..+++|++||+|+.+|++.++|++.. +|.+|++.+++|.+.+++|++.+..... ..
T Consensus 10 ~~~~~~~~~~l~~~~~~~~~d~~~AeDivQe~flk~~~~~~~~~~~~--~~~~wL~~Ia~n~~~d~~Rk~~~~~~~~-~~ 86 (189)
T PRK12530 10 SLEIEEIRLQMLKFATLQLKDADLAEDVVQEALVSAYKNADSFKGQS--ALKTWIFAILKNKIIDLIRYRKRFVNES-EL 86 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHhchhccCCc--cHHHHHHHHHHHHHHHHHHhhccCCCcc-cc
Confidence 34688899999999999999999999999999999999999998653 6999999999999999999876521110 00
Q ss_pred HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHH
Q psy15215 1273 IETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAAL 1352 (1432)
Q Consensus 1273 ~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~~ 1352 (1432)
.. ...+.... +.......+........+|++...
T Consensus 87 ~~------------------------------------------~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~ 120 (189)
T PRK12530 87 IE------------------------------------------EDSPNSFF----DEKGHWKPEYYEPSEWQEVENTVY 120 (189)
T ss_pred cc------------------------------------------cccchhhh----cccccccccccCCccccCHHHHHH
Confidence 00 00000000 000000000000111235677777
Q ss_pred HHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchh
Q psy15215 1353 NASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1353 ~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~ 1419 (1432)
..+....+..+|++||+++|.||.|+|..|+ |++|||+.||+|.++|+++++||+++||..+.
T Consensus 121 ~~~~~~~l~~~l~~Lp~~~R~v~~L~~~~g~----s~~EIA~~lgis~~tVk~~l~RAr~~Lr~~l~ 183 (189)
T PRK12530 121 KEEFWLIFEACLNHLPAQQARVFMMREYLEL----SSEQICQECDISTSNLHVLLYRARLQLQACLS 183 (189)
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHhHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Confidence 7788889999999999999999999999998 99999999999999999999999999999764
|
|
| >PRK09645 RNA polymerase sigma factor SigL; Provisional | Back alignment and domain information |
|---|
Probab=99.69 E-value=5.6e-16 Score=166.33 Aligned_cols=162 Identities=15% Similarity=0.111 Sum_probs=130.1
Q ss_pred hHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhc
Q psy15215 394 GEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 473 (1432)
Q Consensus 394 gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~ 473 (1432)
++.. |+..++..|.+.|+++|.+++++..+++|++||.|+.+|+..++|++.. .+|.+|++..++|.+.+++|++.
T Consensus 6 ~~~~---~~~~l~~~~~~~l~~~~~~~~~~~~~AeD~vQevfl~~~~~~~~~~~~~-~~~~~wL~~iarn~~~d~~Rk~~ 81 (173)
T PRK09645 6 AEAA---LMRALYDEHAAPLWRYALRLTGDRARAEDVVQETLLRAWQHPEVLADTG-RSARAWLFTVARNLVIDERRSAR 81 (173)
T ss_pred chHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcCccc-ccHHHHHHHHHHHHHHHHHHhhc
Confidence 4555 9999999999999999999999989999999999999999999997533 47999999999999999999765
Q ss_pred cccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCC
Q psy15215 474 RTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDEN 553 (1432)
Q Consensus 474 r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~ 553 (1432)
+.... ..+ + .... ++
T Consensus 82 ~~~~~-----------------------------------------------------~~~-----~-~~~~----~~-- 96 (173)
T PRK09645 82 ARPVE-----------------------------------------------------GGD-----D-VLGV----PE-- 96 (173)
T ss_pred ccccc-----------------------------------------------------ccc-----c-cccC----CC--
Confidence 41000 000 0 0000 00
Q ss_pred CCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHH
Q psy15215 554 MLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 554 ~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~ 629 (1432)
.++.+..........+..+|+.||++++.||.|+|+.|+ |++|||+.||+|+++|+.+.++|+++|++.+.
T Consensus 97 -~~~~~~~~~~~~~~~l~~~l~~L~~~~r~vl~L~~~~g~----s~~EIA~~lgis~~tV~~~l~ra~~~Lr~~l~ 167 (173)
T PRK09645 97 -QSAPDEVDRALDRLLVADALAQLSPEHRAVLVRSYYRGW----STAQIAADLGIPEGTVKSRLHYALRALRLALQ 167 (173)
T ss_pred -CCCchHHHHHhHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhh
Confidence 112223333344567899999999999999999999998 99999999999999999999999999998875
|
|
| >PRK09415 RNA polymerase factor sigma C; Reviewed | Back alignment and domain information |
|---|
Probab=99.69 E-value=5.5e-16 Score=167.30 Aligned_cols=162 Identities=13% Similarity=0.106 Sum_probs=134.7
Q ss_pred HhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccc
Q psy15215 400 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 479 (1432)
Q Consensus 400 ~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 479 (1432)
.|+.+++..|.+.|+++|.+++++..+++|++||+++.+|+++++|+.. .+|.+|++..++|.+.+++|+..+....+
T Consensus 16 ~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDlvQd~fl~l~~~~~~~~~~--~~~~awl~~ia~n~~~d~~Rk~~~~~~~~ 93 (179)
T PRK09415 16 DLIDEIMNEYGQEVLQLVYSYVKNKEVAEDLTQEIFVKCYKSLHTYKGK--SSLKTWLYRIAINHCKDYLKSWHNKKVIV 93 (179)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcCCC--cccHHHHHHHHHHHHHHHHHhhccccccc
Confidence 4999999999999999999999999999999999999999999999864 37999999999999999999865411000
Q ss_pred hhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 480 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 559 (1432)
Q Consensus 480 ~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~ 559 (1432)
.+. . ... .. ....+|++
T Consensus 94 -----------------------------------------------------~~~----~----~~~-~~-~~~~~~e~ 110 (179)
T PRK09415 94 -----------------------------------------------------TED----I----FTY-ME-SQKESVEE 110 (179)
T ss_pred -----------------------------------------------------ccc----c----ccc-cc-ccccCcHH
Confidence 000 0 000 00 01235667
Q ss_pred HHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 560 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 560 ~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
.+...+....+..+|++||+++|.|+.|+|+.|+ |++|||+.||+|.++|+++.+||+++|++.+..
T Consensus 111 ~~~~~e~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~EIA~~l~is~~tv~~~l~Ra~~~Lr~~l~~ 177 (179)
T PRK09415 111 EVIQNAEDERLASAVMSLPIKYREVIYLFYYEEL----SIKEIAEVTGVNENTVKTRLKKAKELLKKGLEE 177 (179)
T ss_pred HHHHHHHHHHHHHHHHhCCHHHhhHhHhHHhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHhc
Confidence 7777778888999999999999999999999998 999999999999999999999999999987753
|
|
| >PRK12544 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.69 E-value=4.2e-16 Score=171.48 Aligned_cols=177 Identities=19% Similarity=0.218 Sum_probs=133.4
Q ss_pred HHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHH
Q psy15215 1194 EMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 1273 (1432)
Q Consensus 1194 ~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~ 1273 (1432)
.++..|.+.|+++|++++++...++|++||+|+.+|+.+.+|+.. .+|++|++.+++|.+.+++|++.+....+...
T Consensus 22 ~~~~~~~~~l~~~~~~~~~d~~~AEDivQEvfikl~~~~~~~~~~--~~~~~WL~~IarN~~~d~~Rk~~~~~~~~~~~- 98 (206)
T PRK12544 22 VFLEDLRKQMIKFATLQLSDLHLAEDAVQEALIGALKNADSFAGR--AAFKTWVFAILKNKIIDLLRQKKRHVSASSLL- 98 (206)
T ss_pred HHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHHHHhcCCc--ccHHHHHHHHHHHHHHHHHHhhcccccccccc-
Confidence 589999999999999999999999999999999999999999854 37999999999999999999877521111000
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHH
Q psy15215 1274 ETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALN 1353 (1432)
Q Consensus 1274 ~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~~~ 1353 (1432)
+...+. ..+..+ . +.......... .....+|+..+..
T Consensus 99 -----------------~~~~~~-----------~~~~~~---~-----------~~~~~~~~~~~-~~~~~~~e~~~~~ 135 (206)
T PRK12544 99 -----------------RDEEEE-----------EDFEEL---F-----------DESGHWQKDER-PQAWGNPEESLEQ 135 (206)
T ss_pred -----------------cccchh-----------hHHHHh---h-----------ccccccccccc-ccccCCHHHHHHH
Confidence 000000 000000 0 00000000000 0112367777777
Q ss_pred HHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhh
Q psy15215 1354 ASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRY 1420 (1432)
Q Consensus 1354 ~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~ 1420 (1432)
.+....+..+|..|||++|.||.|+|+.|+ |++|||+.||+|.++|+++++||+++||+.+..
T Consensus 136 ~e~~~~l~~~L~~L~~~~r~v~~L~~~~g~----s~~EIAe~lgis~~tV~~~l~RAr~~Lr~~l~~ 198 (206)
T PRK12544 136 EQFWRIFEACLDGLPAKYARVFMMREFIEL----ETNEICHAVDLSVSNLNVLLYRARLRLRECLEN 198 (206)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHH
Confidence 778888999999999999999999999999 999999999999999999999999999997764
|
|
| >PRK12545 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.69 E-value=4.8e-16 Score=170.80 Aligned_cols=180 Identities=11% Similarity=0.124 Sum_probs=132.5
Q ss_pred HHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHH
Q psy15215 1194 EMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 1273 (1432)
Q Consensus 1194 ~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~ 1273 (1432)
.++..|.+.|+.+|.+++++..+++|++||+|+.+|+..++|++.. +|.||++.+++|.+.+++|++.+...++..
T Consensus 12 ~~~~~~~~~l~~~~~~~~~d~~~AEDivQe~fl~~~~~~~~~~~~~--~~~~WL~~IarN~~~d~~Rk~~r~~~~~~~-- 87 (201)
T PRK12545 12 AYLAQLRHDLLRFARLQLRDADAAEDAVQEALAAAWSQAGRFAGQS--AHKTWVFGILRNKLIDTLRARQRTVNLSAL-- 87 (201)
T ss_pred HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhhccccc--hHHHHHHHHHHHHHHHHHHhhccccccccc--
Confidence 4589999999999999999999999999999999999999998653 699999999999999999987752111100
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHH
Q psy15215 1274 ETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALN 1353 (1432)
Q Consensus 1274 ~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~~~ 1353 (1432)
..++. ....++............+...+ ...+|.+....
T Consensus 88 ----------------------~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ 126 (201)
T PRK12545 88 ----------------------DAELD------------------GEALLDRELFKDNGHWAAHAKPR-PWPKPETILQQ 126 (201)
T ss_pred ----------------------ccccc------------------hhhhhhhhhhcccccccccccCc-CCCCHHHHHHH
Confidence 00000 00000000000000000000001 12356666666
Q ss_pred HHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhh
Q psy15215 1354 ASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422 (1432)
Q Consensus 1354 ~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~ 1422 (1432)
.+....+..+|..|||++|.||.|+|+.|+ |++|||+.||+|.++|+++++||+++||+......
T Consensus 127 ~~~~~~l~~~L~~Lp~~~r~v~~L~~~eg~----s~~EIA~~lgis~~tVk~~l~RAr~~Lr~~l~~~~ 191 (201)
T PRK12545 127 QQFWTLFETCLDHLPEQIGRVFMMREFLDF----EIDDICTELTLTANHCSVLLYRARTRLRTCLSEKG 191 (201)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 677778999999999999999999999998 99999999999999999999999999999876544
|
|
| >PRK12533 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.69 E-value=5.9e-16 Score=171.11 Aligned_cols=178 Identities=19% Similarity=0.177 Sum_probs=141.4
Q ss_pred hHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccch
Q psy15215 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 480 (1432)
Q Consensus 401 A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 480 (1432)
++..|+..|.+.|+.+|.++++...+++|++||+|+.+|+.+++|+. + +|.+|++.+++|.+.++++++.+....
T Consensus 19 ~f~~l~~~~~~~l~~~~~~~~~d~~dAEDlvQEvflkl~~~~~~~~~--~-~~~aWL~~IarN~~~d~~Rk~~~~~~~-- 93 (216)
T PRK12533 19 RFRQLVLPHLDAAYNLARWLCGNASDADDVVQEACMRALRFFDSFRG--D-NARPWLLAIVRHTWYSEWRRRANAHEV-- 93 (216)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHHhHHhcCc--c-chHhHHHHHHHHHHHHHHHhhcccccc--
Confidence 89999999999999999999999999999999999999999999974 2 599999999999999999987541000
Q ss_pred hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 481 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 560 (1432)
Q Consensus 481 ~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~ 560 (1432)
. ......+. . .... . +....+|++.
T Consensus 94 --------------------------------------------------~-~~~~~~~~-~-~~~~-~-~~~~~~~e~~ 118 (216)
T PRK12533 94 --------------------------------------------------A-APDTLDDA-D-SLDD-W-QPAGEDPLAL 118 (216)
T ss_pred --------------------------------------------------c-cccccccc-c-cccc-c-ccCCCCHHHH
Confidence 0 00000000 0 0000 0 0112367788
Q ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Q psy15215 561 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHDWLEQRTHQNE 640 (1432)
Q Consensus 561 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~~~~~~l~~~~ 640 (1432)
+...+....|..+|.+||++++.||.|+|..|+ |++|||+.||+|+++|+++.+||+++|++.+.+--..+-.|+.
T Consensus 119 ~~~~e~~~~l~~al~~Lp~~~R~v~~L~y~eg~----s~~EIAe~LgiS~~tVk~~L~RAr~~Lr~~l~~~~~~~~~~~~ 194 (216)
T PRK12533 119 LLRAEDVRLVNAALAKLPVEYREVLVLRELEDM----SYREIAAIADVPVGTVMSRLARARRRLAALLGGASAAQAAPGE 194 (216)
T ss_pred HHHHHHHHHHHHHHHcCCHHHHhHhhhHHhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHcccchhhcCCcc
Confidence 888888899999999999999999999999998 9999999999999999999999999999998765444444444
Q ss_pred hh
Q psy15215 641 KI 642 (1432)
Q Consensus 641 ~~ 642 (1432)
.+
T Consensus 195 ~~ 196 (216)
T PRK12533 195 RA 196 (216)
T ss_pred cc
Confidence 43
|
|
| >PRK12518 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.68 E-value=3.6e-16 Score=168.15 Aligned_cols=169 Identities=15% Similarity=0.147 Sum_probs=132.8
Q ss_pred HHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHH
Q psy15215 388 NRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 467 (1432)
Q Consensus 388 ~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~ 467 (1432)
+..++.||.. |+..++..|.+.|+.+|.++.+ ..+++|++||+|+.+|+..++|++. .+|.+|++..++|.+.+
T Consensus 2 ~~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~~~-~~~aeDivQe~~l~l~~~~~~~~~~--~~~~~wl~~ia~n~~~d 75 (175)
T PRK12518 2 ILRCQRGDRQ---SFRQLYRRYQQKVRSTLYQLCG-RELLDDLVQEVFLRVWKGLPKLRNP--AYFSTWLYRITWNVATD 75 (175)
T ss_pred hhHHHcCCHH---HHHHHHHHHHHHHHHHHHHHcC-HhHHHHHHHHHHHHHHHhHHhhCCc--ccHHHHHHHHHHHHHHH
Confidence 5577889988 9999999999999999999875 4789999999999999999999964 47999999999999999
Q ss_pred HHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCc
Q psy15215 468 SIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGD 547 (1432)
Q Consensus 468 ~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~ 547 (1432)
++|++.+.-. . .... .+....
T Consensus 76 ~~R~~~~~~~---~---------------------------------------------------~~~~-~~~~~~---- 96 (175)
T PRK12518 76 ARRQFAQRPS---R---------------------------------------------------IQDD-SLNDQP---- 96 (175)
T ss_pred HHHHhhcccc---c---------------------------------------------------hhcc-cccccc----
Confidence 9987654100 0 0000 000000
Q ss_pred ccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHH
Q psy15215 548 FIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPL 627 (1432)
Q Consensus 548 ~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~ 627 (1432)
.. ...+| .....+....+..+|+.||++++.||.|+|+.|+ |++|||+.||+|.++|++..+||+++|++.
T Consensus 97 --~~-~~~~~--~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~g~----s~~eIA~~lg~s~~tv~~~l~Rar~~L~~~ 167 (175)
T PRK12518 97 --SR-PSDTP--DLMQLHYQDLVQQGLQTLSLEHRAVLVLHDLEDL----PQKEIAEILNIPVGTVKSRLFYARRQLRKF 167 (175)
T ss_pred --cC-CCCcH--HHHHHHHHHHHHHHHHhCCHHHeeeeeehHhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Confidence 00 01122 2222334567899999999999999999999998 999999999999999999999999999988
Q ss_pred HHH
Q psy15215 628 AHD 630 (1432)
Q Consensus 628 l~~ 630 (1432)
+..
T Consensus 168 l~~ 170 (175)
T PRK12518 168 LQQ 170 (175)
T ss_pred HHh
Confidence 753
|
|
| >PRK12532 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.68 E-value=4.7e-16 Score=170.33 Aligned_cols=180 Identities=14% Similarity=0.156 Sum_probs=133.8
Q ss_pred HHHHHHHHHHHHHHHHhccCCCCC-hhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccccccccc
Q psy15215 1193 REMTEANLRLVISIAKKYTDRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 1271 (1432)
Q Consensus 1193 ~~Li~~~~~lV~~ia~~y~~~~~~-~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~ 1271 (1432)
++.+..|.+.|+++|.+++++..+ ++|++||+|+.+|++.++|+.. .+|.+|++.+++|.+.+++|++.+.......
T Consensus 8 ~~~~~~~~~~l~~~a~~~~~~~~~~AEDivQevfl~~~~~~~~~~~~--~~~~~wL~~Ia~n~~~d~~Rk~~~~~~~~~~ 85 (195)
T PRK12532 8 DAELIESRKLLLHFARLQLPDHPDLAEDLVQETLLSAYSAGDSFQGR--ALVNSWLFAILKNKIIDALRQIGRQRKVFTL 85 (195)
T ss_pred hhhHHHHHHHHHHHHHHHcCChhhhHHHHHHHHHHHHHHhccccccc--chHHHHHHHHHHHHHHHHHHHhccccccccc
Confidence 467888999999999999999888 9999999999999999999864 3799999999999999999987652111000
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHH
Q psy15215 1272 MIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAA 1351 (1432)
Q Consensus 1272 ~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~ 1351 (1432)
. ..+.+. .. ..+... .+ .....+... ....+|+..+
T Consensus 86 ~----------------------~~~~~~-----------~~------~~~~~~---~~-~~~~~~~~~-~~~~~~e~~~ 121 (195)
T PRK12532 86 L----------------------DDELLD-----------EA------FESHFS---QN-GHWTPEGQP-QHWNTPEKSL 121 (195)
T ss_pred c----------------------cccccc-----------hh------hhhhhc---cc-cccccccCc-cccCCHHHHH
Confidence 0 000000 00 000000 00 000000000 1124678888
Q ss_pred HHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhh
Q psy15215 1352 LNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422 (1432)
Q Consensus 1352 ~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~ 1422 (1432)
...+....+..+|..||+++|.||.|+|..|+ |++|||+.||+|.++|+++++||+++||+......
T Consensus 122 ~~~e~~~~l~~~l~~L~~~~r~i~~L~~~~g~----s~~EIA~~lgis~~tVk~~l~Rar~~Lr~~l~~~~ 188 (195)
T PRK12532 122 NNNEFQKILQSCLYNLPENTARVFTLKEILGF----SSDEIQQMCGISTSNYHTIMHRARESLRQCLQIKW 188 (195)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHhhhHHHhCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHhh
Confidence 77788889999999999999999999999998 99999999999999999999999999999775543
|
|
| >PRK12547 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.68 E-value=6.3e-16 Score=164.35 Aligned_cols=156 Identities=13% Similarity=0.134 Sum_probs=124.9
Q ss_pred hhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccccccc
Q psy15215 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 1269 (1432)
Q Consensus 1190 ~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 1269 (1432)
+.|.+++..|.+.|+.+|++++++..+++|++||+|+.+|+..++|+.. ..|.+|++..++|.+.+++|++.+...
T Consensus 6 ~~f~~~~~~~~~~l~~~a~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~--~~~~~wl~~i~~n~~~d~~R~~~~~~~-- 81 (164)
T PRK12547 6 KNFKQELLLALPALRAFAVSLSSKHDKAEDLVQDTLMKAWAKQDSFEMG--TNLKAWLFTILRNEFYSQMRKRGREVQ-- 81 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHHhhhhcCCc--ccHHHHHHHHHHHHHHHHHHhhccccc--
Confidence 4799999999999999999999999999999999999999999999753 369999999999999999998764100
Q ss_pred ccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 1270 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 1349 (1432)
Q Consensus 1270 ~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~ 1349 (1432)
. .......+ . ..++..
T Consensus 82 -~-----------------------------------------------~~~~~~~~-------------~---~~~~~~ 97 (164)
T PRK12547 82 -D-----------------------------------------------SDGVFTAR-------------V---AVHPAQ 97 (164)
T ss_pred -c-----------------------------------------------cccccccc-------------C---CCCchh
Confidence 0 00000000 0 001111
Q ss_pred HHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchh
Q psy15215 1350 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1350 ~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~ 1419 (1432)
. .......+..+|+.|||++|+|+.|+|..|+ |++|||+.||+|+++|+++++||+++||....
T Consensus 98 ~--~~~~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~eIA~~lgis~~tV~~~l~Rar~~Lr~~l~ 161 (164)
T PRK12547 98 Y--GSLDLQDFKKALNLLSADQREAIILIGASGF----SYEDAAAICGCAVGTIKSRVSRARNRLQELLK 161 (164)
T ss_pred h--hHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHh
Confidence 1 1122457889999999999999999999888 99999999999999999999999999998543
|
|
| >PRK12541 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.68 E-value=6.1e-16 Score=163.98 Aligned_cols=154 Identities=12% Similarity=0.113 Sum_probs=123.5
Q ss_pred hHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccc
Q psy15215 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 1270 (1432)
Q Consensus 1191 A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 1270 (1432)
|+..++..|.+.|+.+|.+++++..+++|++||+|+.+|+..++|++. .|.||++.+++|.+.+++|++.+....
T Consensus 6 a~~~l~~~~~~~l~~~~~~~~~~~~~AeDv~Qe~f~~~~~~~~~~~~~---~~~~wl~~i~~n~~~d~~R~~~~~~~~-- 80 (161)
T PRK12541 6 SLEEIYSEHMQDLFRYLLSLTGDSHFAEDLMQETFYRMLVHIDYYKGE---EIRPWLFTIAYNAFIDWYRKEKKYKTT-- 80 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhHHHccCC---ChHHHHHHHHHHHHHHHHHhccccccc--
Confidence 899999999999999999999999999999999999999999999853 599999999999999999987651000
Q ss_pred cHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 1271 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 1350 (1432)
Q Consensus 1271 ~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~ 1350 (1432)
..+. ... ......+...
T Consensus 81 ---------------------------------------------------~~~~-------~~~-----~~~~~~~~~~ 97 (161)
T PRK12541 81 ---------------------------------------------------TIEE-------FHL-----PNVPSTEHEY 97 (161)
T ss_pred ---------------------------------------------------chhh-------hhc-----cCCCCcHHHH
Confidence 0000 000 0000012222
Q ss_pred HHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1351 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1351 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
....+. ..+..+|..||+++|.||.|+|..|. |++|||+.||+|.++|+++++||+++||..
T Consensus 98 ~~~~~~-~~~~~~l~~L~~~~r~v~~l~~~~~~----s~~eIA~~lgis~~tv~~~l~Rar~~L~~~ 159 (161)
T PRK12541 98 FIKHEI-ASWLDSLSSLPLERRNVLLLRDYYGF----SYKEIAEMTGLSLAKVKIELHRGRKETKSI 159 (161)
T ss_pred HHHhHH-HHHHHHHHHCCHHHHHHhhhHHhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHhh
Confidence 333333 44557899999999999999999888 999999999999999999999999999974
|
|
| >PRK12535 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.68 E-value=7.9e-16 Score=168.16 Aligned_cols=180 Identities=19% Similarity=0.116 Sum_probs=142.8
Q ss_pred cCCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHH
Q psy15215 377 IVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTY 456 (1432)
Q Consensus 377 ~~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fsty 456 (1432)
.+++..++.+++.++..|+.. |+..++..|.+.++.++. ++++..+++|++||.|+.+|+..++|++. .+|.+|
T Consensus 5 ~~~~~~~~~~l~~~~~~~d~~---a~~~l~~~y~~~l~~~~~-~~~~~~~AEDivQevflkl~~~~~~~~~~--~~~~~W 78 (196)
T PRK12535 5 SERDDAHVTDLALAAGRGDRA---ALTEFIRETQDDVWRLLA-HLGGHDIADDLTQETYLRVMSALPRFAAR--SSARTW 78 (196)
T ss_pred cccccHHHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHH-HhCCHHHHHHHHHHHHHHHHHHhhhcCCc--ccHHHH
Confidence 456667788999999999999 999999999999999975 56778899999999999999999999863 379999
Q ss_pred HHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCC
Q psy15215 457 ATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESP 536 (1432)
Q Consensus 457 a~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~ 536 (1432)
++.+++|.+.+++|++.+..+. ..+ .
T Consensus 79 L~~Iarn~~id~~Rk~~~~~~~-----------------------------------------------------~~~-~ 104 (196)
T PRK12535 79 LLSLARRVWVDNIRHDMARPRK-----------------------------------------------------SAT-E 104 (196)
T ss_pred HHHHHHHHHHHHHHhhccCCCc-----------------------------------------------------ccc-c
Confidence 9999999999999987642110 000 0
Q ss_pred CCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHH
Q psy15215 537 VGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQI 616 (1432)
Q Consensus 537 ~~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~ 616 (1432)
..+. .+ ...+|..... ......+..+|+.|||++++||.|+|..|+ |++|||+.||+|+++|+++
T Consensus 105 ~~~~-----~~-----~~~~~~~~~~-~~~~~~l~~~l~~Lp~~~r~v~~l~~~~g~----s~~EIAe~lgis~~tV~~~ 169 (196)
T PRK12535 105 YEDA-----AA-----TTASNETTGS-WSEWIDVRTLIDALPPERREALILTQVLGY----TYEEAAKIADVRVGTIRSR 169 (196)
T ss_pred cccc-----cc-----ccCCcchhHH-HHHHHHHHHHHHcCCHHHHHHhhhHHHhCC----CHHHHHHHhCCCHHHHHHH
Confidence 0000 00 0011221111 122357899999999999999999999999 9999999999999999999
Q ss_pred HHHHHHHHHHHHHHH
Q psy15215 617 EAKALRKLRPLAHDW 631 (1432)
Q Consensus 617 ~~rAl~kLr~~l~~~ 631 (1432)
.+||+++||+.+..+
T Consensus 170 l~Rar~~Lr~~l~~~ 184 (196)
T PRK12535 170 VARARADLIAATATG 184 (196)
T ss_pred HHHHHHHHHHHhccc
Confidence 999999999888654
|
|
| >TIGR02960 SigX5 RNA polymerase sigma-70 factor, TIGR02960 family | Back alignment and domain information |
|---|
Probab=99.68 E-value=7.2e-16 Score=182.75 Aligned_cols=182 Identities=17% Similarity=0.138 Sum_probs=135.8
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhc
Q psy15215 1184 GEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 1263 (1432)
Q Consensus 1184 g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~ 1263 (1432)
|+.. |+..|+..|.+.|+++|.+++++..+++|++||+|+.+|+..++|+.. .+|.||++.+++|.|.+++|++.
T Consensus 2 gd~~---af~~l~~~~~~~l~~~a~~~~~~~~~AEDivQe~fl~~~~~~~~~~~~--~~~~~WL~~Ia~n~~~d~~Rk~~ 76 (324)
T TIGR02960 2 VDGA---AFTALAEPHRRELLAHCYRMLGSLHEAEDLVQETLLRAWRARDRFEGR--SSVRTWLYRIATNACLDALEARQ 76 (324)
T ss_pred CcHH---HHHHHHHHHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHhhhhccCcc--cchHHHHHHHHHHHHHHHHHhcc
Confidence 6666 999999999999999999999999999999999999999999999864 37999999999999999999876
Q ss_pred ccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccc---
Q psy15215 1264 RTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIE--- 1340 (1432)
Q Consensus 1264 r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~--- 1340 (1432)
+....... .. ....+...+ .++......+.+.
T Consensus 77 ~~~~~~~~------------------~~--------------------------~~~~~~~~~-~~~~~~~~~~~~~~~~ 111 (324)
T TIGR02960 77 RRPRPVGL------------------GA--------------------------PSADGTAAA-SEAAEVTWLEPLPDLT 111 (324)
T ss_pred CCcCcccc------------------CC--------------------------CCCcccccc-cccccccccCCCCccc
Confidence 41100000 00 000000000 0000000000000
Q ss_pred ----cCCCCChHHHHHHHH-HHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhh
Q psy15215 1341 ----DENMLAPSDAALNAS-MRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415 (1432)
Q Consensus 1341 ----d~~~~~p~~~~~~~~-~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr 1415 (1432)
.....+|++.....+ +...+..+|.+|||++|.||.|+|+.|+ |++|||+.||+|.++|+++++||+++||
T Consensus 112 ~~~~~~~~~~~~~~~~~~e~~~~~l~~~l~~Lp~~~R~v~~L~~~~g~----s~~EIA~~lgis~~tV~~~l~Rar~~Lr 187 (324)
T TIGR02960 112 LDLDDPAAADPSVAAGSRESVRLAFVAAIQYLPPRQRAVLLLRDVLGW----RAAETAELLGTSTASVNSALQRARATLD 187 (324)
T ss_pred cccccCCCCCHHHHHHHHHHHHHHHHHHHHhCCHHHhhHhhhHHHhCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 112236776665554 5567899999999999999999999999 9999999999999999999999999999
Q ss_pred Cchh
Q psy15215 1416 HPSR 1419 (1432)
Q Consensus 1416 ~~~~ 1419 (1432)
+...
T Consensus 188 ~~l~ 191 (324)
T TIGR02960 188 EVGP 191 (324)
T ss_pred Hhcc
Confidence 8665
|
This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. |
| >COG1595 RpoE DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription] | Back alignment and domain information |
|---|
Probab=99.68 E-value=1.2e-15 Score=164.98 Aligned_cols=172 Identities=17% Similarity=0.201 Sum_probs=138.2
Q ss_pred HHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHH
Q psy15215 388 NRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 467 (1432)
Q Consensus 388 ~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~ 467 (1432)
......|+.. ++..++..|.+.++.+|++++++..+++||+||+|+.+|+++..| . .+.+|.||++.+++|.+.+
T Consensus 6 ~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~dAeDlvQE~~lr~~~~~~~~-~-~~~~~~~wl~~Ia~n~~iD 80 (182)
T COG1595 6 LAEALRGDRA---AFEELLERLRPRLRRLARRLLGDRADAEDLVQETFLRAWRAIDSF-R-GRSSFKAWLYRIARNLAID 80 (182)
T ss_pred HHHHHhcchH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHhhc-C-CCCchHHHHHHHHHHHHHH
Confidence 3445566666 999999999999999999999998899999999999999999999 3 3458999999999999999
Q ss_pred HHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCc
Q psy15215 468 SIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGD 547 (1432)
Q Consensus 468 ~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~ 547 (1432)
++|++.+.... +.+.+.....
T Consensus 81 ~~R~~~r~~~~----------------------------------------------------------~~~~~~~~~~- 101 (182)
T COG1595 81 RLRKRKRRRAR----------------------------------------------------------VEEADLLPEE- 101 (182)
T ss_pred HHHHhcccccc----------------------------------------------------------cccccccccc-
Confidence 99988763211 0000000000
Q ss_pred ccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHH
Q psy15215 548 FIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPL 627 (1432)
Q Consensus 548 ~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~ 627 (1432)
.+.....+ +.+...+....+..+|..||+++|.+|.|+|+.|. |++|||+.+|+|.++|+.+.++|+.+|++.
T Consensus 102 --~~~~~~~~-~~~~~~~~~~~l~~al~~Lp~~~R~~~~l~~~~gl----s~~EIA~~l~i~~~tVks~l~ra~~~l~~~ 174 (182)
T COG1595 102 --ADPAPDLA-ELLLAEEELERLRRALARLPPRQREAFLLRYLEGL----SYEEIAEILGISVGTVKSRLHRARKKLREQ 174 (182)
T ss_pred --cCcccccc-hHHHHHHHHHHHHHHHHhCCHHHhHHhhhHhhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Confidence 00000011 35666778899999999999999999999999998 999999999999999999999999999988
Q ss_pred HHH
Q psy15215 628 AHD 630 (1432)
Q Consensus 628 l~~ 630 (1432)
+..
T Consensus 175 l~~ 177 (182)
T COG1595 175 LEE 177 (182)
T ss_pred Hhh
Confidence 754
|
|
| >TIGR02947 SigH_actino RNA polymerase sigma-70 factor, TIGR02947 family | Back alignment and domain information |
|---|
Probab=99.67 E-value=5.2e-16 Score=169.64 Aligned_cols=178 Identities=12% Similarity=0.077 Sum_probs=135.2
Q ss_pred HHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHH
Q psy15215 392 IAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD 471 (1432)
Q Consensus 392 ~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~ 471 (1432)
..++.. ++..|+..|.+.|+.+|.+++++..+++|++||+|+.+|+++.+|++. .+|.+|++..++|.+.+++|+
T Consensus 6 ~~~~~~---~f~~l~~~~~~~l~~~~~~~~~~~~~AEDlvQevfl~~~~~~~~~~~~--~~~~~wL~~iarN~~~d~~Rk 80 (193)
T TIGR02947 6 KTQRAQ---RFERDALEYLDQLYGAALRMTRNPADAEDLVQEAYAKAFSSFHQFKPG--TNLKAWLYRILTNTYINSYRK 80 (193)
T ss_pred hhhhHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhcccCCC--CcchHHHHHHHHHHHHHHHHH
Confidence 344445 999999999999999999999999999999999999999999999853 479999999999999999998
Q ss_pred hccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCccccc
Q psy15215 472 QARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIED 551 (1432)
Q Consensus 472 ~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d 551 (1432)
+.+...... .+++. . .... +.... ..
T Consensus 81 ~~~~~~~~~-------------------------~~~~~-----------~--------~~~~----~~~~~------~~ 106 (193)
T TIGR02947 81 AQRRPQQSD-------------------------DDDIE-----------D--------WQLA----KAASH------TS 106 (193)
T ss_pred hcCCccccc-------------------------chhhh-----------h--------hhhc----ccccc------cc
Confidence 765211000 00000 0 0000 00000 00
Q ss_pred CCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHHH
Q psy15215 552 ENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHDW 631 (1432)
Q Consensus 552 ~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~~ 631 (1432)
.....|+...........|..+|++||+++|.|+.|+|..|+ |++|||+.||+|.++|+.+.+||+++|++.+..+
T Consensus 107 ~~~~~~e~~~~~~~~~~~l~~~l~~Lp~~~r~i~~L~~~~g~----s~~EIA~~lgis~~tVk~~l~Rar~~Lr~~l~~~ 182 (193)
T TIGR02947 107 NGLRSAELEALDGLPDQDIKDALQGLPEEFRQAVYLADVEGF----AYKEIAEIMGTPIGTVMSRLHRGRKQLRKQLVDV 182 (193)
T ss_pred ccccchhHHHHhhhhHHHHHHHHHhCCHHHhhheeehhhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 001133334444455678999999999999999999999999 9999999999999999999999999999988754
Q ss_pred H
Q psy15215 632 L 632 (1432)
Q Consensus 632 ~ 632 (1432)
.
T Consensus 183 ~ 183 (193)
T TIGR02947 183 A 183 (193)
T ss_pred H
Confidence 3
|
This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and (with the exception of a paralog in Thermobifida fusca YX) one-to-a-genome distribution, to represent a conserved family. This family is restricted to the Actinobacteria and each gene examined is followed by an anti-sigma factor in an apparent operon. |
| >TIGR02985 Sig70_bacteroi1 RNA polymerase sigma-70 factor, Bacteroides expansion family 1 | Back alignment and domain information |
|---|
Probab=99.67 E-value=5.8e-16 Score=163.89 Aligned_cols=159 Identities=13% Similarity=0.159 Sum_probs=130.8
Q ss_pred hHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccch
Q psy15215 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 480 (1432)
Q Consensus 401 A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 480 (1432)
|+.+++..|.+.|+.+|+++.++..+++|++||+++++|+++++|++. .+|.+|++.++|+.+.+++++..+.-..
T Consensus 2 a~~~l~~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~~~~~~~~~~~~~~--~~~~~wl~~i~r~~~~d~~r~~~~~~~~-- 77 (161)
T TIGR02985 2 AFEQLYRRYYPKLCAFAYRYVKDEEEAEDIVQDVFVKLWENRETLEEV--ESFKAYLFTIVKNRSLNYLRHKQVEEKY-- 77 (161)
T ss_pred hHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhcccc--ccHHHHHHHHHHHHHHHHHHHHHhHhHH--
Confidence 899999999999999999999998999999999999999999999863 4799999999999999999987641000
Q ss_pred hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 481 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 560 (1432)
Q Consensus 481 ~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~ 560 (1432)
... + .+.... .....+|++.
T Consensus 78 ----------------~~~---------~----------------------------~~~~~~-------~~~~~~~~~~ 97 (161)
T TIGR02985 78 ----------------QEE---------I----------------------------LEIEVD-------ELSENDPEEE 97 (161)
T ss_pred ----------------HHH---------H----------------------------Hhhccc-------ccCCCCcHHH
Confidence 000 0 000000 0011246666
Q ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHH
Q psy15215 561 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPL 627 (1432)
Q Consensus 561 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~ 627 (1432)
+...+....+..++..||++++.||.++|..|+ |..|||+.+|+|+++|+++.++|+++|++.
T Consensus 98 ~~~~e~~~~l~~~l~~L~~~~r~il~l~~~~~~----~~~eIA~~lgis~~tv~~~~~ra~~~Lr~~ 160 (161)
T TIGR02985 98 LEAKELQLIIYKAIEKLPEQCRKIFILSRFEGK----SYKEIAEELGISVKTVEYHISKALKELRKE 160 (161)
T ss_pred HHHHHHHHHHHHHHHHCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHhh
Confidence 667777888999999999999999999998888 999999999999999999999999999875
|
This group of sigma factors are members of the sigma-70 family (TIGR02937) and are found primarily in the genus Bacteroides. This family appears to have resulted from a lineage-specific expansion as B. thetaiotaomicron VPI-5482, Bacteroides forsythus ATCC 43037, Bacteroides fragilis YCH46 and Bacteroides fragilis NCTC 9343 contain 25, 12, 24 and 23 members, respectively. There are currentlyonly two known members of this family outside of the Bacteroides, in Rhodopseudomonas and Bradyrhizobium. |
| >TIGR02989 Sig-70_gvs1 RNA polymerase sigma-70 factor, Rhodopirellula/Verrucomicrobium family | Back alignment and domain information |
|---|
Probab=99.67 E-value=4.7e-16 Score=164.51 Aligned_cols=157 Identities=15% Similarity=0.194 Sum_probs=126.4
Q ss_pred hHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccch
Q psy15215 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 480 (1432)
Q Consensus 401 A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 480 (1432)
|+..++..|.+.|+++|+++.++..+++|++||+++.+|+++++|++.. .|.+|++..++|.+.++++++.+.-+ +.
T Consensus 2 ~~~~~~~~~~~~l~~~~~~~~~~~~~aEDivQe~~l~l~~~~~~~~~~~--~~~~wl~~i~~n~~~d~~r~~~~~~~-~~ 78 (159)
T TIGR02989 2 AFAALLQRHQRSLRAFVRSLVPDRDDADDVLQETFVTAWRKFDEFDPGT--DFGAWARGIARNKVLNHRRKLGRDRL-VF 78 (159)
T ss_pred HHHHHHHHhHHHHHHHHHHHcCChhhHHHHHHHHHHHHHHHHHhCCCCC--chHHHHHHHHHHHHHHHHHHhccccc-cc
Confidence 7899999999999999999999999999999999999999999999753 69999999999999999998765210 00
Q ss_pred hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 481 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 560 (1432)
Q Consensus 481 ~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~ 560 (1432)
. ++. .+.+.+. .+|.+.
T Consensus 79 ~-------------------------~~~------------------------------------~~~~~~~--~~~~~~ 95 (159)
T TIGR02989 79 D-------------------------DEL------------------------------------LEALAAE--AEATEA 95 (159)
T ss_pred C-------------------------HHH------------------------------------HHHHHhh--cccchH
Confidence 0 000 0000000 011122
Q ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHH
Q psy15215 561 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPL 627 (1432)
Q Consensus 561 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~ 627 (1432)
....+....+..+++.||++++.|+.|+|..|+ |++|||+.||+|+++|+.+.+||+.+|++.
T Consensus 96 ~~~~~~~~~l~~~i~~L~~~~r~v~~l~~~~g~----~~~eIA~~l~is~~tv~~~l~Rar~~Lr~~ 158 (159)
T TIGR02989 96 DRSEDELQALEGCLEKLPERQRELLQLRYQRGV----SLTALAEQLGRTVNAVYKALSRLRVRLRDC 158 (159)
T ss_pred hhHHHHHHHHHHHHHHCCHHHHHHHHHHHhcCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHhc
Confidence 223344567899999999999999999999888 999999999999999999999999999875
|
This group of sigma factors are members of the sigma-70 family (TIGR02937) and are abundantly found in the species Rhodopirellula baltica (11), and Verrucomicrobium spinosum (16) and to a lesser extent in Gemmata obscuriglobus (2). |
| >PRK12540 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.67 E-value=8.1e-16 Score=166.13 Aligned_cols=160 Identities=14% Similarity=0.131 Sum_probs=127.8
Q ss_pred hhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccccccc
Q psy15215 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 1269 (1432)
Q Consensus 1190 ~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 1269 (1432)
+++..++..|.+.|+++|.+++++..+++|++||+|+.+|+..++|++.. .|.+|++.+++|.+.++++++.+....
T Consensus 5 ~~~~~~~~~~~~~l~~~~~~~~~~~~~AEDivQevflkl~~~~~~~~~~~--~~~~WL~~Ia~n~~~d~~Rk~~~~~~~- 81 (182)
T PRK12540 5 DSLRDDILAAVPSLRAFAISLSGNGDRADDLVQETLLRALANIDSFQPGS--NLPAWLFTILRNLFRSDYRKRRREVED- 81 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhHHhcCCCc--hHHHHHHHHHHHHHHHHHHhccccccc-
Confidence 47889999999999999999999999999999999999999999998653 699999999999999999987641000
Q ss_pred ccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 1270 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 1349 (1432)
Q Consensus 1270 ~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~ 1349 (1432)
. +... .+... .+|..
T Consensus 82 ----------------------------------------------------~-~~~~--------~~~~~----~~~~~ 96 (182)
T PRK12540 82 ----------------------------------------------------A-DGSY--------AKTLK----SQPGQ 96 (182)
T ss_pred ----------------------------------------------------c-cccc--------ccccc----CCCch
Confidence 0 0000 00000 01111
Q ss_pred HHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhH
Q psy15215 1350 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKL 1423 (1432)
Q Consensus 1350 ~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l 1423 (1432)
.. ......+..+|+.||+++|.||.|+|..|+ |++|||+.||+|.++|+++++||+++||+.+.....
T Consensus 97 ~~--~~~~~~l~~~l~~Lp~~~R~v~~L~~~~g~----s~~EIA~~Lgis~~tV~~~l~RAr~~Lr~~l~~~~~ 164 (182)
T PRK12540 97 NA--HLEFEEFRAALDKLPQDQREALILVGASGF----SYEDAAAICGCAVGTIKSRVNRARSKLSALLYVDGA 164 (182)
T ss_pred HH--HHHHHHHHHHHHhCCHHHHHHhhHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHhccc
Confidence 11 112356899999999999999999999888 999999999999999999999999999998776553
|
|
| >TIGR02895 spore_sigI RNA polymerase sigma-I factor | Back alignment and domain information |
|---|
Probab=99.67 E-value=1.9e-15 Score=165.13 Aligned_cols=118 Identities=14% Similarity=0.194 Sum_probs=106.9
Q ss_pred HHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCC--CChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHH
Q psy15215 1180 KMIAGEMKARKAKREMTEANLRLVISIAKKYTDRG--LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITR 1257 (1432)
Q Consensus 1180 ~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~--~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~ 1257 (1432)
.++.|+.. +++|+..|.|+|.++|++|+++. .+.+|++|+|++|||+|+++||+.+|.+|+|||.+||++.+.+
T Consensus 3 ~~~~gd~~----~e~LI~~Y~plI~~~a~~~~~~~~~~e~dDlvQ~glial~eAi~~yd~~kg~~F~sya~~~Ir~~i~d 78 (218)
T TIGR02895 3 PIQPGNEE----REELIRQYKPFIAKIVSSVCGRYIDTKSDDELSIGLIAFNEAIESYDSNKGKSFLSFAKLIIKRRLID 78 (218)
T ss_pred hhhcCChH----HHHHHHHhHHHHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHH
Confidence 46677654 99999999999999999998774 5899999999999999999999999999999999999999999
Q ss_pred HHHHhc---ccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Q psy15215 1258 SIADQA---RTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAI 1301 (1432)
Q Consensus 1258 ~i~~~~---r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~ 1301 (1432)
++|++. +.+++|....+.......+..++.++.++.|+.+||+.
T Consensus 79 ylRk~~k~~~~v~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~eEI~~ 125 (218)
T TIGR02895 79 YIRKNQKYQNLLYLDEDYDENPLEFNKSMEEYRNEIENENRRLEILE 125 (218)
T ss_pred HHHhcccccCeeeCCchHHHHHHHHHHHHHHHHHHHccccHHHHHHH
Confidence 999987 67789987777777888888899999999999999987
|
Members of this sigma factor protein family are strictly limited to endospore-forming species in the Firmicutes lineage of bacteria, but are not universally present among such species. Sigma-I was shown to be induced by heat shock (PubMed:11157964) in Bacillus subtilis and is suggested by its phylogenetic profile to be connected to the program of sporulation (PubMed:16311624). |
| >PRK09647 RNA polymerase sigma factor SigE; Reviewed | Back alignment and domain information |
|---|
Probab=99.66 E-value=2.2e-15 Score=165.50 Aligned_cols=166 Identities=17% Similarity=0.246 Sum_probs=137.2
Q ss_pred HhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHh
Q psy15215 393 AGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 472 (1432)
Q Consensus 393 ~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~ 472 (1432)
.|+.. |+..++..|.+.|+.++.++++...+.+|++||+++.+|+...+|++ + +|.+|++..+||.+.+++|+.
T Consensus 24 ~~d~~---a~~~l~~~~~~~L~~~~~~~~~~~~~AEDivQEvflkl~~~~~~~~~--~-~~~~wL~~iarn~~~d~~Rk~ 97 (203)
T PRK09647 24 KATMP---SWEELVRQHADRVYRLAYRLSGNQHDAEDLTQETFIRVFRSLQNYQP--G-TFEGWLHRITTNLFLDMVRRR 97 (203)
T ss_pred CCCHH---HHHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHhHHhcCC--c-ccHHHHHHHHHHHHHHHHHhc
Confidence 45666 99999999999999999999999999999999999999999999974 3 699999999999999999976
Q ss_pred ccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccC
Q psy15215 473 ARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDE 552 (1432)
Q Consensus 473 ~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~ 552 (1432)
.+ .+. . .++ ++ . +... .
T Consensus 98 ~~-~~~--~--------------------------------------------------~~~----~~----~-~~~~-~ 114 (203)
T PRK09647 98 AR-IRM--E--------------------------------------------------ALP----ED----Y-DRVP-G 114 (203)
T ss_pred cc-Ccc--c--------------------------------------------------ccc----cc----c-cccC-C
Confidence 53 110 0 000 00 0 0000 1
Q ss_pred CCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHHH
Q psy15215 553 NMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHDW 631 (1432)
Q Consensus 553 ~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~~ 631 (1432)
...+|.......++...|..+|.+||++++.|+.|+|+.|+ |++|||+.||+|+++|++..+||+++|++.+...
T Consensus 115 ~~~~~~~~~~~~~~~~~l~~~L~~L~~~~r~v~~L~~~~g~----s~~EIA~~Lgis~~tV~~~l~RArk~Lr~~l~~~ 189 (203)
T PRK09647 115 DEPNPEQIYHDARLDPDLQAALDSLPPEFRAAVVLCDIEGL----SYEEIAATLGVKLGTVRSRIHRGRQQLRAALAAH 189 (203)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 12356666777777888999999999999999999999888 9999999999999999999999999999888653
|
|
| >TIGR02937 sigma70-ECF RNA polymerase sigma factor, sigma-70 family | Back alignment and domain information |
|---|
Probab=99.66 E-value=1.6e-15 Score=158.97 Aligned_cols=156 Identities=22% Similarity=0.347 Sum_probs=132.2
Q ss_pred hHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccch
Q psy15215 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 480 (1432)
Q Consensus 401 A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 480 (1432)
|++.++..|.++|+++++++..++.+++|++|||++++|++++.|++. .+|.+|+.+++++.+.++++++.+ .+.
T Consensus 2 a~~~l~~~~~~~v~~~~~~~~~~~~~~~D~~qe~~~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~rk~~~---~~~ 76 (158)
T TIGR02937 2 AFEELYERYLPLLYRYARRYLGDDADAEDLVQEAFLKLLEALDRFDPE--GSFKAWLFRIARNLILDYLRRKRR---LRR 76 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHhHHhcCCc--chHHHHHHHHHHHHHHHHHHHhcc---CCc
Confidence 789999999999999999999999999999999999999999999987 689999999999999999998875 111
Q ss_pred hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 481 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 560 (1432)
Q Consensus 481 ~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~ 560 (1432)
.+ ..+. .. . ....+|.+.
T Consensus 77 ~~---------------------------------------------------~~~~------~~----~-~~~~~~~~~ 94 (158)
T TIGR02937 77 EL---------------------------------------------------DLLE------EL----L-DSDPSPEEE 94 (158)
T ss_pred ch---------------------------------------------------hhhh------hc----c-cccCCHHHH
Confidence 10 0000 00 0 011256666
Q ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHH
Q psy15215 561 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPL 627 (1432)
Q Consensus 561 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~ 627 (1432)
.........+..++++||+.++.||.++|..|. |..|||+.+|+|+.+|+++..+++.+|++.
T Consensus 95 ~~~~~~~~~l~~~l~~L~~~~~~ii~~~~~~g~----s~~eIA~~l~~s~~~v~~~~~~~~~kl~~~ 157 (158)
T TIGR02937 95 LEQEEEREALREALEKLPEREREVLVLRYLEGL----SYKEIAEILGISVGTVKRRLKRARKKLREL 157 (158)
T ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHhhHHhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHhh
Confidence 677777888999999999999999999998887 999999999999999999999999999875
|
Several PFAM models hit segments of these sequences including Sigma-70 region 2 (pfam04542) and Sigma-70, region 4 (pfam04545), but not always above their respective trusted cutoffs. |
| >PRK09637 RNA polymerase sigma factor SigZ; Provisional | Back alignment and domain information |
|---|
Probab=99.66 E-value=1.9e-15 Score=163.20 Aligned_cols=153 Identities=11% Similarity=0.126 Sum_probs=126.8
Q ss_pred HHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccccccccc
Q psy15215 1192 KREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 1271 (1432)
Q Consensus 1192 ~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~ 1271 (1432)
++.+++.|.+.|+++|.+++++..+++|++||+|+.+|+.+.+|++. .+|.+|++.+++|.+.+++|++.+....+
T Consensus 3 ~~~l~~~y~~~l~~~~~~~~~~~~~aeDi~QEvflkl~~~~~~~~~~--~~~~~wL~~i~~n~~~d~~Rk~~~~~~~~-- 78 (181)
T PRK09637 3 LESIWSEYKAQLKAFLHSRVSNEADVDDLLQEVLIKTHSNLHSLKDG--SSIKSWLYQIANNTIIDFYRKKNRSEELP-- 78 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHHhHHHhccc--cchHHHHHHHHHHHHHHHHHhccccCCcc--
Confidence 67899999999999999999999999999999999999999999853 47999999999999999999876521000
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHH
Q psy15215 1272 MIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAA 1351 (1432)
Q Consensus 1272 ~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~ 1351 (1432)
.+ .. .. .++.+..
T Consensus 79 ---------------------------------------------------------~~-~~-----~~----~~~~~~~ 91 (181)
T PRK09637 79 ---------------------------------------------------------DD-LL-----FE----DEEREEN 91 (181)
T ss_pred ---------------------------------------------------------hh-hh-----cc----CCChhHH
Confidence 00 00 00 0112233
Q ss_pred HHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchh
Q psy15215 1352 LNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1352 ~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~ 1419 (1432)
...+....+..+|+.||+++|.||.|+|+.|+ +.+|||+.||+|..+|+.+++||+++||+...
T Consensus 92 ~~~e~~~~l~~~l~~L~~~~r~i~~l~~~~g~----~~~EIA~~lgis~~tV~~~l~Rar~~Lr~~l~ 155 (181)
T PRK09637 92 AKKELAPCLRPFIDALPEKYAEALRLTELEGL----SQKEIAEKLGLSLSGAKSRVQRGRVKLKELLE 155 (181)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHhcCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHH
Confidence 34456778999999999999999999999998 99999999999999999999999999998554
|
|
| >PRK12523 RNA polymerase sigma factor; Reviewed | Back alignment and domain information |
|---|
Probab=99.65 E-value=1.2e-15 Score=163.56 Aligned_cols=164 Identities=12% Similarity=0.097 Sum_probs=131.0
Q ss_pred HHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHH
Q psy15215 392 IAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD 471 (1432)
Q Consensus 392 ~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~ 471 (1432)
++|+.. |+..++..|.+.|+.+|.++++...+++|++||+|+.+|+. .+|... .+|.+|++.+++|.+.+++|+
T Consensus 5 ~~~~~~---a~~~l~~~~~~~l~~~~~~~~~~~~~AeDlvQevflk~~~~-~~~~~~--~~~~~wL~~Iarn~~~d~~Rk 78 (172)
T PRK12523 5 QSPHSE---LVGALYRDHRGWLLAWLRRNVACRQRAEDLSQDTFVRLLGR-PELPTP--REPRAFLAAVAKGLMFDHFRR 78 (172)
T ss_pred CCCCcH---HHHHHHHHHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHcc-cccCcc--hhHHHHHHHHHHHHHHHHHHH
Confidence 568877 99999999999999999999999999999999999999986 456532 479999999999999999998
Q ss_pred hccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCccccc
Q psy15215 472 QARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIED 551 (1432)
Q Consensus 472 ~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d 551 (1432)
+.+.... . .++ .. . . .
T Consensus 79 ~~~~~~~------------------~---------~~~------------------------~~-~-~-----------~ 94 (172)
T PRK12523 79 AALEQAY------------------L---------AEL------------------------AL-V-P-----------E 94 (172)
T ss_pred HHHHHHH------------------H---------HHH------------------------hh-c-c-----------c
Confidence 7531000 0 000 00 0 0 0
Q ss_pred CCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHH
Q psy15215 552 ENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 552 ~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~ 629 (1432)
....+|.......+....+..+|..||+++|.||.|+|..|+ |++|||+.||+|.++|+++.++|+++|+..+.
T Consensus 95 ~~~~~~~~~~~~~~~~~~l~~~l~~Lp~~~r~v~~L~~~~g~----s~~EIA~~lgis~~tV~~~l~ra~~~~~~~l~ 168 (172)
T PRK12523 95 AEQPSPEEQHLILEDLKAIDRLLGKLSSKARAAFLYNRLDGM----GHAEIAERLGVSVSRVRQYLAQGLRQCYIALY 168 (172)
T ss_pred ccCCChHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhc
Confidence 011245555444455568999999999999999999999998 99999999999999999999999999987763
|
|
| >PRK09639 RNA polymerase sigma factor SigX; Provisional | Back alignment and domain information |
|---|
Probab=99.65 E-value=2.5e-15 Score=160.16 Aligned_cols=160 Identities=16% Similarity=0.177 Sum_probs=132.3
Q ss_pred HhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccc
Q psy15215 400 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 479 (1432)
Q Consensus 400 ~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 479 (1432)
.|+..++..|.+.|+.+|.+++++..+++|++||+|+.+|++ +|+. +.+|.+|++..++|.+.+++++..+..+..
T Consensus 3 ~~f~~l~~~y~~~l~~~~~~~~~~~~~aeDlvQe~fi~~~~~--~~~~--~~~~~~wl~~i~rn~~~d~~rk~~~~~~~~ 78 (166)
T PRK09639 3 ETFEDLFEQYYPDVVQQIFYIVKDRTQAEDLAQEVFLRLYRS--DFKG--IENEKGWLIKSARNVAYNYLRSEKRRRARI 78 (166)
T ss_pred hHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH--hccc--ccchHHHHHHHHHHHHHHHHHHhccccccc
Confidence 489999999999999999999999999999999999999999 6764 457999999999999999999876521100
Q ss_pred hhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 480 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 559 (1432)
Q Consensus 480 ~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~ 559 (1432)
. ... +. .+. ....+|++
T Consensus 79 ~------------------------------------------------------~~~-~~-----~~~---~~~~~~e~ 95 (166)
T PRK09639 79 L------------------------------------------------------GEF-QW-----QEV---DNEPSPEE 95 (166)
T ss_pred c------------------------------------------------------chh-hh-----hhc---cCCCChHH
Confidence 0 000 00 000 11236777
Q ss_pred HHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHHH
Q psy15215 560 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHDW 631 (1432)
Q Consensus 560 ~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~~ 631 (1432)
.....+....+..+|.+||++++.||.|+| .|+ |++|||+.||+|.++|+.+.++|+.+|+..+...
T Consensus 96 ~~~~~~~~~~l~~~l~~L~~~~r~il~l~~-~g~----s~~eIA~~lgis~~tV~~~i~ra~~~Lr~~l~~~ 162 (166)
T PRK09639 96 IWIRKEEITKVQEVLAKMTERDRTVLLLRF-SGY----SYKEIAEALGIKESSVGTTLARAKKKFRKIYEQM 162 (166)
T ss_pred HHHHHHHHHHHHHHHHcCCHHHHHHHHHHH-cCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 777777788899999999999999999999 999 9999999999999999999999999999988643
|
|
| >PRK09642 RNA polymerase sigma factor SigW; Reviewed | Back alignment and domain information |
|---|
Probab=99.65 E-value=1.6e-15 Score=160.61 Aligned_cols=154 Identities=12% Similarity=0.120 Sum_probs=126.0
Q ss_pred HHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHHHHH
Q psy15215 407 EANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETI 486 (1432)
Q Consensus 407 ~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~ 486 (1432)
+.|.+.|+.+|.+++++..+++|++||+|+.+|++.++|++. .|.+|++..++|.+.+++|++.+..+.
T Consensus 2 ~~y~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~---~~~~wl~~ia~n~~~d~~Rk~~~~~~~-------- 70 (160)
T PRK09642 2 QTYRHYIFQVIFSILRHEEDAKDVTQEVFVKIHASLPNYQFR---GLKTWMARIATNHAIDYKRKKARENEE-------- 70 (160)
T ss_pred chHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcccccccc---hhHHHHHHHHHHHHHHHHHHhcccccc--------
Confidence 579999999999999999999999999999999999999852 599999999999999999987541000
Q ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHH
Q psy15215 487 NKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASM 566 (1432)
Q Consensus 487 ~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~~~~ 566 (1432)
.+.. ++. .+.+. ...+|++.....+.
T Consensus 71 --------------------------------------------~~~~----~~~----~~~~~--~~~~~~~~~~~~e~ 96 (160)
T PRK09642 71 --------------------------------------------LSLC----KET----EENIK--SSHNIEDLLLTKEQ 96 (160)
T ss_pred --------------------------------------------cccc----hhh----hhhcc--CCCChHHHHHHHHH
Confidence 0000 000 00000 11246666666777
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHH
Q psy15215 567 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 567 ~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~ 629 (1432)
...+..+|++||+++|.|+.|+|..|+ |++|||+.||+|.++|+++.++|+.+|++.+.
T Consensus 97 ~~~l~~~l~~Lp~~~r~v~~l~~~~g~----s~~EIA~~lgis~~tV~~~l~Rar~~Lr~~l~ 155 (160)
T PRK09642 97 KLLIAQKLRELPENYRDVVLAHYLEEK----SYQEIALQEKIEVKTVEMKLYRARKWIKKHWK 155 (160)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHhCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHh
Confidence 888999999999999999999999999 99999999999999999999999999998875
|
|
| >PRK12527 RNA polymerase sigma factor; Reviewed | Back alignment and domain information |
|---|
Probab=99.65 E-value=2.1e-15 Score=159.56 Aligned_cols=154 Identities=10% Similarity=0.120 Sum_probs=125.5
Q ss_pred HHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHHHH
Q psy15215 1196 TEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET 1275 (1432)
Q Consensus 1196 i~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~ 1275 (1432)
+..|.+.++.+|.+++++..+++|++||+|+.+|+..++|++ + +|.||++.+++|.+.+++|++.+...
T Consensus 1 ~~~~~~~l~~~~~~~~~~~~~aeDi~Qevf~~l~~~~~~~~~--~-~~~~wL~~ia~n~~~d~~R~~~~~~~-------- 69 (159)
T PRK12527 1 MENYYRELVRFLSARLGNRQAAEDVAHDAYLRVLERSSSAQI--E-HPRAFLYRTALNLVVDRHRRHRVRQA-------- 69 (159)
T ss_pred ChhHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHhccccccc--c-chHHHHHHHHHHHHHHHHHHHhcccc--------
Confidence 357889999999999999899999999999999999999864 3 79999999999999999997653100
Q ss_pred HHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHH
Q psy15215 1276 INKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNAS 1355 (1432)
Q Consensus 1276 ~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~~~~~ 1355 (1432)
.+++. . ++. .....++|++.+....
T Consensus 70 ---------------------------------------------~~~~~-~-~~~--------~~~~~~~~~~~~~~~~ 94 (159)
T PRK12527 70 ---------------------------------------------EPLEV-L-DEE--------ERLHSPSPQTRLDLGQ 94 (159)
T ss_pred ---------------------------------------------cchhh-h-hcc--------ccccCCCHHHHHHHHH
Confidence 00000 0 000 0011235777777777
Q ss_pred HHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchh
Q psy15215 1356 MRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1356 ~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~ 1419 (1432)
....+..+|.+|||+++.||.|+|+.|+ |++|||+.||+|.++|++++.||+++||....
T Consensus 95 ~~~~l~~~l~~L~~~~r~v~~l~~~~~~----s~~eIA~~lgis~~tv~~~l~ra~~~Lr~~l~ 154 (159)
T PRK12527 95 RLALLQRALAELPPACRDSFLLRKLEGL----SHQQIAEHLGISRSLVEKHIVNAMKHCRVRMR 154 (159)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHH
Confidence 7888999999999999999999999999 99999999999999999999999999998654
|
|
| >PRK08241 RNA polymerase factor sigma-70; Validated | Back alignment and domain information |
|---|
Probab=99.64 E-value=4.3e-15 Score=177.11 Aligned_cols=182 Identities=18% Similarity=0.213 Sum_probs=143.0
Q ss_pred HHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHH
Q psy15215 384 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 463 (1432)
Q Consensus 384 ~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~ 463 (1432)
-.+|+.+++.||.. |+.+|+..|.+.|+++|.+++++..+++|++||+|+.+|+.+++|+. ..+|.+|++.+++|
T Consensus 6 ~~~l~~~~~~gd~~---af~~l~~~y~~~l~~~~~~~~~~~~dAEDivQevfl~~~~~~~~~~~--~~~~~~wL~~Ia~n 80 (339)
T PRK08241 6 AAALLARAAAGDRD---AFAALVEPHRRELLAHCYRMLGSVHDAEDAVQETLLRAWRGYDRFEG--RSSLRTWLYRIATN 80 (339)
T ss_pred HHHHHHHhhcCCHH---HHHHHHHHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHhhhhcccc--ccchHHHHHHHHHH
Confidence 45788999999998 99999999999999999999999999999999999999999999984 34799999999999
Q ss_pred HHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCC--
Q psy15215 464 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDE-- 541 (1432)
Q Consensus 464 ~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~-- 541 (1432)
.+.+++|++.+.. .+ .....+..++.
T Consensus 81 ~~~d~~Rk~~~~~-~~---------------------------------------------------~~~~~~~~~~~~~ 108 (339)
T PRK08241 81 VCLDALEGRARRP-LP---------------------------------------------------TDLGAPAADPVDE 108 (339)
T ss_pred HHHHHHHhhcccc-Cc---------------------------------------------------cccCCCcCccccc
Confidence 9999999876410 00 00000000000
Q ss_pred -----CCCcCcccccC----CCCChHHHHHHHH-HHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchh
Q psy15215 542 -----DSHLGDFIEDE----NMLAPSDAALNAS-MRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRE 611 (1432)
Q Consensus 542 -----~~~~~~~i~d~----~~~~p~~~~~~~~-~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~ 611 (1432)
...+.+.+.+. ...+|++.+...+ ....+..+|.+||+++|.||.|+|..|+ |++|||+.||+|.+
T Consensus 109 ~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~e~~~~~l~~~l~~Lp~~~R~v~~L~~~~g~----s~~EIA~~lgis~~ 184 (339)
T PRK08241 109 LVERPEVPWLEPYPDALLDPAAADPAARVVARESVRLAFVAALQHLPPRQRAVLILRDVLGW----SAAEVAELLDTSVA 184 (339)
T ss_pred ccccccccccCCCCcccccccCCChHHHHHHHHHHHHHHHHHHHhCCHHHhhhhhhHHhhCC----CHHHHHHHhCCCHH
Confidence 00011111110 1346776666554 4557899999999999999999999999 99999999999999
Q ss_pred HHHHHHHHHHHHHHH
Q psy15215 612 RIRQIEAKALRKLRP 626 (1432)
Q Consensus 612 ~v~~~~~rAl~kLr~ 626 (1432)
+|+++.+||+++|++
T Consensus 185 tVk~~l~RAr~~Lr~ 199 (339)
T PRK08241 185 AVNSALQRARATLAE 199 (339)
T ss_pred HHHHHHHHHHHHHhh
Confidence 999999999999998
|
|
| >PRK07037 extracytoplasmic-function sigma-70 factor; Validated | Back alignment and domain information |
|---|
Probab=99.64 E-value=3.1e-15 Score=158.90 Aligned_cols=158 Identities=18% Similarity=0.192 Sum_probs=126.6
Q ss_pred HHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHH
Q psy15215 1194 EMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 1273 (1432)
Q Consensus 1194 ~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~ 1273 (1432)
.++..|.+.|+++|.+++++..+++|++||+++.+|+....|++. +|.+|++.+++|.+.+++|++.+....
T Consensus 2 ~~~~~~~~~l~~~~~~~~~~~~~aeDivQe~~l~l~~~~~~~~~~---~~~~wl~~iarn~~~d~~R~~~~~~~~----- 73 (163)
T PRK07037 2 DVFVDNRSMLVKIAARIVGCRSRAEDVVQDAFVKLVEAPNQDAVK---QPVAYLFRIVRNLAIDHYRRQALENKY----- 73 (163)
T ss_pred hHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHhccccCCcc---cHHHHHHHHHHHHHHHHHHhhcccccc-----
Confidence 367889999999999999999999999999999999988877643 588999999999999999987641100
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHH
Q psy15215 1274 ETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALN 1353 (1432)
Q Consensus 1274 ~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~~~ 1353 (1432)
+ +.+.... .. .. ...+|+.....
T Consensus 74 ------------------------------------------------~------~~~~~~~-~~-~~-~~~~~~~~~~~ 96 (163)
T PRK07037 74 ------------------------------------------------H------GDEEDGL-DV-PS-PEASPEAALIN 96 (163)
T ss_pred ------------------------------------------------c------ccccccc-cc-CC-CCCCHHHHHHH
Confidence 0 0000000 00 01 12356666666
Q ss_pred HHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhh
Q psy15215 1354 ASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRY 1420 (1432)
Q Consensus 1354 ~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~ 1420 (1432)
.+....+..+|+.|||++|.||.++|+.|+ |.+|||+.||+|.++|++.+.||+++||..+..
T Consensus 97 ~~~~~~l~~~l~~L~~~~r~v~~l~~~~~~----s~~EIA~~lgis~~tV~~~l~ra~~~lr~~l~~ 159 (163)
T PRK07037 97 RDTLRHVADALSELPARTRYAFEMYRLHGE----TQKDIARELGVSPTLVNFMIRDALVHCRKCLDA 159 (163)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHhc
Confidence 677788999999999999999999999998 999999999999999999999999999986543
|
|
| >PRK12530 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.64 E-value=4.2e-15 Score=161.81 Aligned_cols=174 Identities=16% Similarity=0.194 Sum_probs=132.0
Q ss_pred HHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHH
Q psy15215 404 EMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 483 (1432)
Q Consensus 404 ~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~ 483 (1432)
..+..|.+.|+.+|.+++++..+++|++||+|+.+|+..++|++. .+|.+|++..++|.+.+++|++.+....+ ..
T Consensus 11 ~~~~~~~~~l~~~~~~~~~d~~~AeDivQe~flk~~~~~~~~~~~--~~~~~wL~~Ia~n~~~d~~Rk~~~~~~~~-~~- 86 (189)
T PRK12530 11 LEIEEIRLQMLKFATLQLKDADLAEDVVQEALVSAYKNADSFKGQ--SALKTWIFAILKNKIIDLIRYRKRFVNES-EL- 86 (189)
T ss_pred HHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHhchhccCC--ccHHHHHHHHHHHHHHHHHHhhccCCCcc-cc-
Confidence 557889999999999999998999999999999999999999864 37999999999999999999876521110 00
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHH
Q psy15215 484 ETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALN 563 (1432)
Q Consensus 484 ~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~ 563 (1432)
..+. .+.... +.......+........+|.+....
T Consensus 87 -----------------~~~~------------------------~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~ 121 (189)
T PRK12530 87 -----------------IEED------------------------SPNSFF----DEKGHWKPEYYEPSEWQEVENTVYK 121 (189)
T ss_pred -----------------cccc------------------------cchhhh----cccccccccccCCccccCHHHHHHH
Confidence 0000 000000 0000000000001112356777777
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 564 ASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 564 ~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
.+....+..+|++||+++|.||.|+|..|+ |++|||+.||+|+++|+.+.+||+++|++++..
T Consensus 122 ~~~~~~l~~~l~~Lp~~~R~v~~L~~~~g~----s~~EIA~~lgis~~tVk~~l~RAr~~Lr~~l~~ 184 (189)
T PRK12530 122 EEFWLIFEACLNHLPAQQARVFMMREYLEL----SSEQICQECDISTSNLHVLLYRARLQLQACLSK 184 (189)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHhHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 788889999999999999999999999999 999999999999999999999999999998864
|
|
| >PRK09651 RNA polymerase sigma factor FecI; Provisional | Back alignment and domain information |
|---|
Probab=99.64 E-value=2.7e-15 Score=160.84 Aligned_cols=158 Identities=9% Similarity=0.099 Sum_probs=125.4
Q ss_pred hhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccc
Q psy15215 1189 RKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRI 1268 (1432)
Q Consensus 1189 ~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~iri 1268 (1432)
..|+..++..|.+.++.++.+++++..+++|++||+|+.+|+. ..|..- .+|.+|++.+++|.+.+++|++.+...
T Consensus 9 ~~af~~l~~~~~~~l~~~~~~~~~~~~~AEDlvQe~flkl~~~-~~~~~~--~~~~~wL~~iarn~~~d~~R~~~~~~~- 84 (172)
T PRK09651 9 SLTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVS-ETLSTI--RDPRSFLCTIAKRVMVDLFRRNALEKA- 84 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHhh-cccccc--cCHHHHHHHHHHHHHHHHHHHHHHHhh-
Confidence 4599999999999999999999999999999999999999998 345433 268999999999999999997653100
Q ss_pred cccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChH
Q psy15215 1269 PVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPS 1348 (1432)
Q Consensus 1269 p~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~ 1348 (1432)
. .+ .+. .+ .+....+|.
T Consensus 85 --~---------------------------------------------------~~-~~~-----~~----~~~~~~~~~ 101 (172)
T PRK09651 85 --Y---------------------------------------------------LE-MLA-----LM----PEGGAPSPE 101 (172)
T ss_pred --h---------------------------------------------------hh-HHh-----hc----cccCCCChH
Confidence 0 00 000 00 000112344
Q ss_pred HHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1349 DAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1349 ~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
......+....+..+|..|||++|.|+.|+|+.|. |++|||+.||+|.++|+..++||+++|+..
T Consensus 102 ~~~~~~e~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~EIA~~lgis~~tV~~~l~Ra~~~~~~~ 166 (172)
T PRK09651 102 ERESQLETLQLLDSMLDGLNGKTREAFLLSQLDGL----TYSEIAHKLGVSVSSVKKYVAKATEHCLLF 166 (172)
T ss_pred HHHHHHHHHHHHHHHHHhCCHHHhHHhhhhhccCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHH
Confidence 44445556678999999999999999999999988 999999999999999999999999999873
|
|
| >PRK12532 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.64 E-value=3.4e-15 Score=163.52 Aligned_cols=183 Identities=13% Similarity=0.146 Sum_probs=135.9
Q ss_pred HHHHHHHHHHHHHHHHhcccCCCC-hhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchh
Q psy15215 403 REMTEANLRLVISIAKKYTDRGLQ-FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 481 (1432)
Q Consensus 403 ~~li~~~~~lV~~ia~ky~~~~~~-~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~ 481 (1432)
++.+..|.+.|+.+|.+++++..+ ++|++||+|+.+|++.++|+.. .+|.+|++.+++|.+.+++|++.+.......
T Consensus 8 ~~~~~~~~~~l~~~a~~~~~~~~~~AEDivQevfl~~~~~~~~~~~~--~~~~~wL~~Ia~n~~~d~~Rk~~~~~~~~~~ 85 (195)
T PRK12532 8 DAELIESRKLLLHFARLQLPDHPDLAEDLVQETLLSAYSAGDSFQGR--ALVNSWLFAILKNKIIDALRQIGRQRKVFTL 85 (195)
T ss_pred hhhHHHHHHHHHHHHHHHcCChhhhHHHHHHHHHHHHHHhccccccc--chHHHHHHHHHHHHHHHHHHHhccccccccc
Confidence 367888999999999999998888 9999999999999999999863 4799999999999999999987652111000
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHH
Q psy15215 482 MIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAA 561 (1432)
Q Consensus 482 ~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~ 561 (1432)
. ..+.+ ... ..+.. ..+ .....+..+ ....+|+..+
T Consensus 86 ~----------------------~~~~~-----------~~~------~~~~~---~~~-~~~~~~~~~-~~~~~~e~~~ 121 (195)
T PRK12532 86 L----------------------DDELL-----------DEA------FESHF---SQN-GHWTPEGQP-QHWNTPEKSL 121 (195)
T ss_pred c----------------------ccccc-----------chh------hhhhh---ccc-cccccccCc-cccCCHHHHH
Confidence 0 00000 000 00000 000 000000000 1124688888
Q ss_pred HHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15215 562 LNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHDWLEQR 635 (1432)
Q Consensus 562 ~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~~~~~~ 635 (1432)
...+....+..+|.+||++++.||.|+|..|+ |++|||+.||+|.++|+++.+||+++|++.+...+..+
T Consensus 122 ~~~e~~~~l~~~l~~L~~~~r~i~~L~~~~g~----s~~EIA~~lgis~~tVk~~l~Rar~~Lr~~l~~~~~~~ 191 (195)
T PRK12532 122 NNNEFQKILQSCLYNLPENTARVFTLKEILGF----SSDEIQQMCGISTSNYHTIMHRARESLRQCLQIKWFNQ 191 (195)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHhhhHHHhCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 87788889999999999999999999999998 99999999999999999999999999999997655443
|
|
| >PRK12528 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.64 E-value=2.6e-15 Score=159.12 Aligned_cols=157 Identities=10% Similarity=0.097 Sum_probs=125.6
Q ss_pred HhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccc
Q psy15215 400 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 479 (1432)
Q Consensus 400 ~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 479 (1432)
.|+..|+..|.+.|+++|.++++...+++|++||+|+.+|+..+.|++ .+|.+|++.+++|.+.+++|++.+...
T Consensus 4 ~a~~~l~~~~~~~l~~~~~~~~~~~~~AeDivQe~flk~~~~~~~~~~---~~~~~wl~~i~~n~~~d~~R~~~~~~~-- 78 (161)
T PRK12528 4 ATVEGLYSAHHHWLTGWLRRRLGCPQSAADLAQDTFVKVLVARETAQI---IEPRAFLTTIAKRVLCNHYRRQDLERA-- 78 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHhccccccc---cCHHHHHHHHHHHHHHHHHHHHHHHHh--
Confidence 389999999999999999999999999999999999999999888764 369999999999999999987653100
Q ss_pred hhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 480 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 559 (1432)
Q Consensus 480 ~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~ 559 (1432)
. . + .+. + . ++....+++.
T Consensus 79 -~---------------~---------~------------------------~~~----~-----~----~~~~~~~~~~ 96 (161)
T PRK12528 79 -Y---------------L---------E------------------------ALA----Q-----L----PERVAPSEEE 96 (161)
T ss_pred -h---------------H---------H------------------------Hhh----c-----c----ccccCCCHHH
Confidence 0 0 0 000 0 0 0001123333
Q ss_pred HHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHH
Q psy15215 560 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPL 627 (1432)
Q Consensus 560 ~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~ 627 (1432)
.....+....+..+|.+||++++.||.|+|..|+ |++|||+.+|+|.++|+.+.++|+++|+..
T Consensus 97 ~~~~~~~~~~l~~~l~~L~~~~r~v~~L~~~~g~----s~~EIA~~l~is~~tV~~~l~ra~~~~~~~ 160 (161)
T PRK12528 97 RAIILETLVELDQLLDGLPPLVKRAFLLAQVDGL----GYGEIATELGISLATVKRYLNKAAMRCYFA 160 (161)
T ss_pred HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHhc
Confidence 4444455678999999999999999999999999 999999999999999999999999999854
|
|
| >PRK09644 RNA polymerase sigma factor SigM; Provisional | Back alignment and domain information |
|---|
Probab=99.64 E-value=3.4e-15 Score=159.00 Aligned_cols=156 Identities=13% Similarity=0.124 Sum_probs=130.6
Q ss_pred HHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchh
Q psy15215 402 KREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 481 (1432)
Q Consensus 402 ~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~ 481 (1432)
++.|+..|.+.|+++|++++++..+++|++||+++.+|+++++|++ .+|.+|++..++|.+.+++|+..+....
T Consensus 3 ~~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~---~~~~~wL~~i~~n~~~d~~R~~~~~~~~--- 76 (165)
T PRK09644 3 IEEIYKMYINDVYRYLFSLTKSHHAAEDLLQETFYRAYIYLEDYDN---QKVKPWLFKVAYHTFIDFVRKEKKVSFV--- 76 (165)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhccc---cchHHHHHHHHHHHHHHHHHhhhhcccc---
Confidence 6789999999999999999999999999999999999999999985 2699999999999999999987642100
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHH
Q psy15215 482 MIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAA 561 (1432)
Q Consensus 482 ~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~ 561 (1432)
+.+++ +.+. ..+|++..
T Consensus 77 -----------------------~~~~~-------------------------------------~~~~---~~~~~~~~ 93 (165)
T PRK09644 77 -----------------------GTDEI-------------------------------------EAIQ---AESTEEYV 93 (165)
T ss_pred -----------------------chhHH-------------------------------------hhhc---ccChHHHH
Confidence 00000 0000 12455666
Q ss_pred HHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 562 LNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 562 ~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
...+....+..+|..||+++++|+.|+|..|+ |++|||+.||+|.++|+.+.+||+++|++.+..
T Consensus 94 ~~~~~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~eIA~~lgis~~tv~~~l~Rar~~Lr~~l~~ 158 (165)
T PRK09644 94 VAKNSYEKLIQIIHTLPVIEAQAILLCDVHEL----TYEEAASVLDLKLNTYKSHLFRGRKRLKALLKE 158 (165)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHhHHHhcC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHh
Confidence 66677788999999999999999999999998 999999999999999999999999999988753
|
|
| >TIGR02950 SigM_subfam RNA polymerase sigma factor, SigM family | Back alignment and domain information |
|---|
Probab=99.64 E-value=9e-16 Score=161.42 Aligned_cols=152 Identities=15% Similarity=0.158 Sum_probs=124.1
Q ss_pred HHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHHHH
Q psy15215 1196 TEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET 1275 (1432)
Q Consensus 1196 i~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~ 1275 (1432)
+..|.+.|+.+|.+++++..+++|++||+|+.+|+++++|++ .+|.||++..+++.+.++++++.+....+.
T Consensus 1 y~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~~~l~~~~~~~~~---~~f~~wl~~i~~~~~~d~~r~~~~~~~~~~----- 72 (154)
T TIGR02950 1 YREYMHDVFRYLYRLTKDKHLAEDLLQETFLKAYIHLHSFKD---SSIKPWLFRIARNAFIDWYRKDKKIQTIDD----- 72 (154)
T ss_pred CchHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHHhcC---CchHHHHHHHHHHHHHHHHHHhhhhccccH-----
Confidence 357899999999999999899999999999999999999997 379999999999999999998764110000
Q ss_pred HHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHH
Q psy15215 1276 INKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNAS 1355 (1432)
Q Consensus 1276 ~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~~~~~ 1355 (1432)
.. +.+... ....+|++.....+
T Consensus 73 -------------------------------------------------~~--------~~~~~~-~~~~~~~~~~~~~~ 94 (154)
T TIGR02950 73 -------------------------------------------------DA--------IGDLEQ-HPVESPEHHLLIKI 94 (154)
T ss_pred -------------------------------------------------hh--------hhhccc-cccCChhHHHHHHH
Confidence 00 000000 01124666666666
Q ss_pred HHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1356 MRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1356 ~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
....+..+|+.||++++.|+.|+|+.|+ |++|||+.||+|..+|++.++||+++||+.
T Consensus 95 ~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~eIA~~lgis~~tv~~~l~Ra~~~Lr~~ 152 (154)
T TIGR02950 95 EQEEITHHLSRLPENYRTVLILREFKEF----SYKEIAELLNLSLAKVKSNLFRARKELKKL 152 (154)
T ss_pred HHHHHHHHHHhCCHhheeeeeehhhccC----cHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Confidence 7788999999999999999999998888 999999999999999999999999999974
|
This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937) and is restricted to certain lineages of the order Bacillales. This family encompasses at least two distinct sigma factors as two proteins are found in each of B. anthracis, B. subtilis subsp. subtilis str. 168, and B. lichiniformis (although these are not apparently the same two in each). One of these is designated as SigM in B. subtilis (Swiss_Prot: SIGM_BACSU) and is activated by various stressors. |
| >TIGR02895 spore_sigI RNA polymerase sigma-I factor | Back alignment and domain information |
|---|
Probab=99.64 E-value=4.8e-15 Score=162.00 Aligned_cols=119 Identities=14% Similarity=0.196 Sum_probs=107.1
Q ss_pred HHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCC--CChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHH
Q psy15215 389 RKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRG--LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 466 (1432)
Q Consensus 389 ~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~--~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~ 466 (1432)
..++.||.. +++|+..|.|+|.++|.+|.++. .+.+|++|+|+||||+|+++||+.+|.+|+|||.+||++.+.
T Consensus 2 ~~~~~gd~~----~e~LI~~Y~plI~~~a~~~~~~~~~~e~dDlvQ~glial~eAi~~yd~~kg~~F~sya~~~Ir~~i~ 77 (218)
T TIGR02895 2 QPIQPGNEE----REELIRQYKPFIAKIVSSVCGRYIDTKSDDELSIGLIAFNEAIESYDSNKGKSFLSFAKLIIKRRLI 77 (218)
T ss_pred chhhcCChH----HHHHHHHhHHHHHHHHHHHHccCCCCChhHHHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHH
Confidence 356778764 99999999999999999998775 589999999999999999999999999999999999999999
Q ss_pred HHHHHhc---cccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Q psy15215 467 RSIADQA---RTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAI 511 (1432)
Q Consensus 467 ~~i~~~~---r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~ 511 (1432)
+++|+.. +.+++|....+....+..+..++.++.++.|+.+||+.
T Consensus 78 dylRk~~k~~~~v~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~eEI~~ 125 (218)
T TIGR02895 78 DYIRKNQKYQNLLYLDEDYDENPLEFNKSMEEYRNEIENENRRLEILE 125 (218)
T ss_pred HHHHhcccccCeeeCCchHHHHHHHHHHHHHHHHHHHccccHHHHHHH
Confidence 9999988 67789987777777788888899999999999999985
|
Members of this sigma factor protein family are strictly limited to endospore-forming species in the Firmicutes lineage of bacteria, but are not universally present among such species. Sigma-I was shown to be induced by heat shock (PubMed:11157964) in Bacillus subtilis and is suggested by its phylogenetic profile to be connected to the program of sporulation (PubMed:16311624). |
| >PRK12516 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.64 E-value=4.3e-15 Score=161.19 Aligned_cols=156 Identities=12% Similarity=0.096 Sum_probs=126.0
Q ss_pred hHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccch
Q psy15215 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 480 (1432)
Q Consensus 401 A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 480 (1432)
|+..++..|.+.|+.+|.+++++..+++|++||+|+.+|+..++|+.. .+|.+|++.+++|.+.++++++.+....
T Consensus 11 ~f~~l~~~~~~~L~~~a~~~~~~~~~AEDivQevfl~~~~~~~~~~~~--~~~~awL~~Ia~n~~~d~~R~~~~~~~~-- 86 (187)
T PRK12516 11 PFKRELLAALPSLRAFAVSLIGRHDRADDLVQDTIMKAWAKQDHFEVG--TNMKAWLFTILRNEFYSQMRKRGREVQD-- 86 (187)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHHhhhccCCc--ccHHHHHHHHHHHHHHHHHHhhcCCccc--
Confidence 999999999999999999999999999999999999999999999854 3699999999999999999987642000
Q ss_pred hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 481 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 560 (1432)
Q Consensus 481 ~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~ 560 (1432)
.+... .+.... .+++.
T Consensus 87 ----------------------------------------------------~~~~~--------~~~~~~--~~~~~-- 102 (187)
T PRK12516 87 ----------------------------------------------------TDGMF--------TEQLAV--HPSQY-- 102 (187)
T ss_pred ----------------------------------------------------ccccc--------ccccCC--Ccchh--
Confidence 00000 000000 00111
Q ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 561 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 561 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
.......+..+|..||+++|.||.|+|..|+ |++|||+.||+|.++|+.+.++|+++|++.+..
T Consensus 103 --~~~~~~~l~~~L~~Lp~~~r~i~~L~~~~g~----s~~EIA~~Lgis~~tVk~~l~Rar~~Lr~~l~~ 166 (187)
T PRK12516 103 --GTLDLQDFRAALDQLPDDQREAIILVGASGF----AYEEAAEICGCAVGTIKSRVNRARQRLQEILQI 166 (187)
T ss_pred --hHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHh
Confidence 1122356899999999999999999999999 999999999999999999999999999998864
|
|
| >PRK12511 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.64 E-value=2.2e-15 Score=162.62 Aligned_cols=156 Identities=13% Similarity=0.118 Sum_probs=123.1
Q ss_pred hHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccc
Q psy15215 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 1270 (1432)
Q Consensus 1191 A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 1270 (1432)
.....+..+++.|+.+|.+++++..+++|++||+|+.+|+...+|++. .+|.||++.+++|.+.+++|++.+....+.
T Consensus 5 ~~~~~~~~~~~~l~~~~~~~~~~~~dAEDivQe~flkl~~~~~~~~~~--~~~~~WL~~Iarn~~id~~Rk~~~~~~~~~ 82 (182)
T PRK12511 5 SKRFDVLDQLVPLRRYARSLTRDSAEAEDLVHDALVRALERRASFRSG--GNLRTWLMSILHNAFIDELRRRRVEARRAD 82 (182)
T ss_pred chhhhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhHHhcCCc--cchHHHHHHHHHHHHHHHHHhhcccccccc
Confidence 455678899999999999999999999999999999999999999864 379999999999999999998765210000
Q ss_pred cHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 1271 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 1350 (1432)
Q Consensus 1271 ~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~ 1350 (1432)
.+. +. .+.....+..
T Consensus 83 ---------------------------------------------------~~~----~~---------~~~~~~~~~~- 97 (182)
T PRK12511 83 ---------------------------------------------------ELA----VL---------ADASLPAAQE- 97 (182)
T ss_pred ---------------------------------------------------chh----hc---------cccCCCcchH-
Confidence 000 00 0000001111
Q ss_pred HHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchh
Q psy15215 1351 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1351 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~ 1419 (1432)
.......+..+|..||+++|.||.|+|..|+ |++|||+.||+|.++|+++++||+++||....
T Consensus 98 --~~~~~~~l~~~l~~Lp~~~R~v~~L~~~eg~----s~~EIA~~lgis~~tV~~~l~Rar~~Lr~~~~ 160 (182)
T PRK12511 98 --HAVRLAQIRDAFFDLPEEQRAALHLVAIEGL----SYQEAAAVLGIPIGTLMSRIGRARAALRAFEE 160 (182)
T ss_pred --HHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHhCcCHHHHHHHHHHHHHHHHHHHH
Confidence 1223467889999999999999999999998 99999999999999999999999999998554
|
|
| >TIGR02943 Sig70_famx1 RNA polymerase sigma-70 factor, TIGR02943 family | Back alignment and domain information |
|---|
Probab=99.64 E-value=5.1e-15 Score=160.93 Aligned_cols=176 Identities=15% Similarity=0.168 Sum_probs=134.0
Q ss_pred HHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHH
Q psy15215 404 EMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 483 (1432)
Q Consensus 404 ~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~ 483 (1432)
+.+..|.+.|+.+|.+++++..+++|++||+|+.+|+...+|+.. .+|.+|++.+++|.+.++++++.+....+.-
T Consensus 6 ~~~~~~~~~l~~~~~~~~~~~~dAeDivQevfl~l~~~~~~~~~~--~~~~~wL~~iarn~~~d~~R~~~r~~~~~~~-- 81 (188)
T TIGR02943 6 QELEQLRRDLLRFARLQLRDRDLAEDAVQETLLAALSHRDSFAGR--SALKTWLFAILKNKIIDALRAKGREVKVSDL-- 81 (188)
T ss_pred HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhhhccc--cHHHHHHHHHHHHHHHHHHHhhcccCCcccc--
Confidence 678899999999999999999999999999999999999999864 4899999999999999999987652111100
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHH
Q psy15215 484 ETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALN 563 (1432)
Q Consensus 484 ~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~ 563 (1432)
..++.. -.+.......+. +.........++|+..+..
T Consensus 82 -----------------~~~~~~------------------------~~~~~~~~~~~~--~~~~~~~~~~~~~e~~~~~ 118 (188)
T TIGR02943 82 -----------------DDELDD------------------------EAFNALFTQNGH--WAQHGQPQHWNTPEKQLEN 118 (188)
T ss_pred -----------------cccccc------------------------chhhhhhccccc--hhccccccccCCHHHHHHH
Confidence 000000 000000000000 0000111122467777888
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 564 ASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 564 ~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
.+....+..+|.+||+++++||.|+|..|+ |++|||+.||+|.++|+++.+||+++|++.+..
T Consensus 119 ~e~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~EIA~~lgis~~tvk~rl~Rar~~Lr~~l~~ 181 (188)
T TIGR02943 119 KEFWEVFEACLYHLPEQTARVFMMREVLGF----ESDEICQELEISTSNCHVLLYRARLSLRACLSI 181 (188)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHhCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 888889999999999999999999999999 999999999999999999999999999998864
|
This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. |
| >PRK12517 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.64 E-value=2.9e-15 Score=162.76 Aligned_cols=157 Identities=15% Similarity=0.161 Sum_probs=125.4
Q ss_pred hhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccccccc
Q psy15215 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 1269 (1432)
Q Consensus 1190 ~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 1269 (1432)
.+++.++..|.+.|+.+|.+++++..+++|++||+|+.+|+..++|.+. ..|.+|++.+++|.+.+..++..+. .
T Consensus 23 ~~f~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQdvflkl~~~~~~~~~~--~~~~~wL~~Iarn~~~~~~r~~~~~--~- 97 (188)
T PRK12517 23 RRYEALVKALHADIYRYAYWLCKDKHIAEDLVQETFLRAWRSLDSLKDE--KAAKAWLITILRRENARRFERKQFD--L- 97 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhhcCc--cchHHHHHHHHHHHHHHHHHHhccC--c-
Confidence 3899999999999999999999999999999999999999999999864 3799999999999887766543320 0
Q ss_pred ccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 1270 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 1349 (1432)
Q Consensus 1270 ~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~ 1349 (1432)
.+.+ +. ...+....+|+.
T Consensus 98 ---------------------------------------------------~~~~----~~-------~~~~~~~~~~e~ 115 (188)
T PRK12517 98 ---------------------------------------------------VDIE----DD-------SIEDDASHSSEE 115 (188)
T ss_pred ---------------------------------------------------cCcc----cc-------cccCccccChhH
Confidence 0000 00 001111123333
Q ss_pred HHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhh
Q psy15215 1350 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYY 1421 (1432)
Q Consensus 1350 ~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~ 1421 (1432)
.. ....|..+|..||+++|.|+.|+|+.|+ |++|||+.+|+|.++|+.+++||+++||......
T Consensus 116 ~~----~~~~l~~~l~~Lp~~~r~v~~l~~~~g~----s~~EIA~~lgis~~tV~~~l~Rar~~Lr~~l~~~ 179 (188)
T PRK12517 116 EM----EQEWLRRQIAKLDPEYREPLLLQVIGGF----SGEEIAEILDLNKNTVMTRLFRARNQLKEALEKP 179 (188)
T ss_pred HH----HHHHHHHHHHhCCHHHHHHHHHHHHhCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 22 2357899999999999999999999998 9999999999999999999999999999977643
|
|
| >TIGR02983 SigE-fam_strep RNA polymerase sigma-70 factor, sigma-E family | Back alignment and domain information |
|---|
Probab=99.63 E-value=3e-15 Score=158.87 Aligned_cols=158 Identities=16% Similarity=0.207 Sum_probs=128.7
Q ss_pred HhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHh
Q psy15215 393 AGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 472 (1432)
Q Consensus 393 ~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~ 472 (1432)
+|+.. |+..++..|.+.|+++|.+++++..+++|++||+|+.+|+..++|+. ..+|.+|++..++|.+.++++++
T Consensus 2 ~~~~~---~~~~l~~~~~~~l~~~~~~~~~~~~~aeDivQe~f~~~~~~~~~~~~--~~~~~~wl~~i~~n~~~d~~rk~ 76 (162)
T TIGR02983 2 SATEE---EFTAFVAARYPRLLRTAYLLTGDPHEAEDLVQEALVRTYVRWDRIRD--PDAPDAYVRRVLVNLARSRWRRR 76 (162)
T ss_pred CCcHH---HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHhhcCC--cccHHHHHHHHHHHHHHHHHHhh
Confidence 47777 99999999999999999999999999999999999999999999964 34899999999999999999876
Q ss_pred ccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccC
Q psy15215 473 ARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDE 552 (1432)
Q Consensus 473 ~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~ 552 (1432)
.+. ..+ .....+. .
T Consensus 77 ~~~-~~~------------------------------------------------------~~~~~~~---~-------- 90 (162)
T TIGR02983 77 RLL-ELP------------------------------------------------------TRELPDA---A-------- 90 (162)
T ss_pred ccc-ccc------------------------------------------------------ccccCcc---c--------
Confidence 531 000 0000000 0
Q ss_pred CCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHH
Q psy15215 553 NMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 553 ~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~ 629 (1432)
+.+..........|..+|..||++++.|+.|+|..|+ |.+|||+.||+|.++|+++.++|+.+|++.+.
T Consensus 91 ----~~~~~~~~~~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~eIA~~lgis~~tV~~~l~ra~~~Lr~~l~ 159 (162)
T TIGR02983 91 ----APDPAPDVALRAALARALRRLPARQRAVVVLRYYEDL----SEAQVAEALGISVGTVKSRLSRALARLRELLE 159 (162)
T ss_pred ----CCccchhHHHHHHHHHHHHhCCHHHHHHhhhHHHhcC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHHhc
Confidence 0001112344567889999999999999999999888 99999999999999999999999999998763
|
This group of similar sigma-70 factors includes the sigE factor from Streptomyces coelicolor. The family appears to include a paralagous expansion in the Streptomycetes lineage, while related Actinomycetales have at most two representatives. |
| >PRK12546 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.63 E-value=4.8e-15 Score=160.79 Aligned_cols=155 Identities=15% Similarity=0.139 Sum_probs=120.9
Q ss_pred hHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccc
Q psy15215 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 1270 (1432)
Q Consensus 1191 A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 1270 (1432)
+++.|.. |.+.|+++|.+++++..+++|++||+|+.+|++.++|+.. ..|.+|++.+++|.+.+++|++.+.. .
T Consensus 9 ~~~~l~~-~~~~l~~~a~~~l~~~~~AEDivQevfl~l~~~~~~~~~~--~~~~awL~~ia~n~~~d~~Rk~~r~~---~ 82 (188)
T PRK12546 9 PRDELVE-HLPALRAFAISLTRNVAVADDLVQDTIVKAWTNFDKFQEG--TNLRAWLFTILRNTFYSDRRKHKREV---P 82 (188)
T ss_pred HHHHHHH-HHHHHHHHHHHHcCChhhHHHHHHHHHHHHHHHHhccCCC--cchHHHHHHHHHHHHHHHHHHhcccc---c
Confidence 4555555 7899999999999999999999999999999999999864 37999999999999999999876410 0
Q ss_pred cHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 1271 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 1350 (1432)
Q Consensus 1271 ~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~ 1350 (1432)
. .+. ...+...+ .|..
T Consensus 83 ~---------------------------------------------------~~~--------~~~~~~~~----~~~~- 98 (188)
T PRK12546 83 D---------------------------------------------------PEG--------VHAASLAV----KPAH- 98 (188)
T ss_pred C---------------------------------------------------ccc--------cccccccc----CCcc-
Confidence 0 000 00000000 0100
Q ss_pred HHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhh
Q psy15215 1351 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRY 1420 (1432)
Q Consensus 1351 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~ 1420 (1432)
........+..+|+.|||+++.||.|+|..|+ |.+|||+.||+|..+|+++++||+++||+....
T Consensus 99 -~~~~~~~~l~~~L~~Lp~~~r~v~~L~~~~g~----s~~EIA~~LgiS~~tVk~~l~Rar~~Lr~~l~~ 163 (188)
T PRK12546 99 -DGRLAMSDFRAAFAQLPDEQREALILVGASGF----SYEEAAEMCGVAVGTVKSRANRARARLAELLQL 163 (188)
T ss_pred -hhHHHHHHHHHHHHhCCHHHhHHhhhHHhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHhc
Confidence 01122346889999999999999999999888 999999999999999999999999999986543
|
|
| >PRK12544 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.62 E-value=7.3e-15 Score=161.70 Aligned_cols=178 Identities=18% Similarity=0.199 Sum_probs=134.0
Q ss_pred HHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhH
Q psy15215 403 REMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHM 482 (1432)
Q Consensus 403 ~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~ 482 (1432)
..++..|.+.|+++|.++++...+++|++||+|+.+|+.+.+|+.. .+|++|++.+++|.+.+++|++.+....+..
T Consensus 21 ~~~~~~~~~~l~~~~~~~~~d~~~AEDivQEvfikl~~~~~~~~~~--~~~~~WL~~IarN~~~d~~Rk~~~~~~~~~~- 97 (206)
T PRK12544 21 PVFLEDLRKQMIKFATLQLSDLHLAEDAVQEALIGALKNADSFAGR--AAFKTWVFAILKNKIIDLLRQKKRHVSASSL- 97 (206)
T ss_pred HHHHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHHHHHhcCCc--ccHHHHHHHHHHHHHHHHHHhhccccccccc-
Confidence 3688999999999999999999999999999999999999999854 4799999999999999999987652111100
Q ss_pred HHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHH
Q psy15215 483 IETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAAL 562 (1432)
Q Consensus 483 ~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~~ 562 (1432)
.+...+...+ ..+ .+..........+ ....+|+..+.
T Consensus 98 -----------------~~~~~~~~~~-----------~~~--------------~~~~~~~~~~~~~-~~~~~~e~~~~ 134 (206)
T PRK12544 98 -----------------LRDEEEEEDF-----------EEL--------------FDESGHWQKDERP-QAWGNPEESLE 134 (206)
T ss_pred -----------------ccccchhhHH-----------HHh--------------hcccccccccccc-cccCCHHHHHH
Confidence 0000000000 000 0000000000001 11236777777
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 563 NASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 563 ~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
..+....+..+|.+|||++|.||.|+|+.|+ |++|||+.||+|.++|+++.+||+++|++.+..
T Consensus 135 ~~e~~~~l~~~L~~L~~~~r~v~~L~~~~g~----s~~EIAe~lgis~~tV~~~l~RAr~~Lr~~l~~ 198 (206)
T PRK12544 135 QEQFWRIFEACLDGLPAKYARVFMMREFIEL----ETNEICHAVDLSVSNLNVLLYRARLRLRECLEN 198 (206)
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHH
Confidence 7777788999999999999999999999999 999999999999999999999999999998864
|
|
| >PRK12547 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.62 E-value=1e-14 Score=155.06 Aligned_cols=156 Identities=13% Similarity=0.137 Sum_probs=125.1
Q ss_pred HhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccc
Q psy15215 400 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 479 (1432)
Q Consensus 400 ~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 479 (1432)
+.+..++..|.+.|+.+|++++++..+++|++||+++.+|+...+|+.. .+|.+|++..++|.+.+++|++.+....
T Consensus 6 ~~f~~~~~~~~~~l~~~a~~~~~~~~~AeDivQe~fl~l~~~~~~~~~~--~~~~~wl~~i~~n~~~d~~R~~~~~~~~- 82 (164)
T PRK12547 6 KNFKQELLLALPALRAFAVSLSSKHDKAEDLVQDTLMKAWAKQDSFEMG--TNLKAWLFTILRNEFYSQMRKRGREVQD- 82 (164)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHHhhhhcCCc--ccHHHHHHHHHHHHHHHHHHhhcccccc-
Confidence 3799999999999999999999999999999999999999999999753 3799999999999999999987541000
Q ss_pred hhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 480 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 559 (1432)
Q Consensus 480 ~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~ 559 (1432)
.......+ . + ..+..
T Consensus 83 -------------------------------------------------~~~~~~~~------~-------~---~~~~~ 97 (164)
T PRK12547 83 -------------------------------------------------SDGVFTAR------V-------A---VHPAQ 97 (164)
T ss_pred -------------------------------------------------cccccccc------C-------C---CCchh
Confidence 00000000 0 0 01111
Q ss_pred HHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHH
Q psy15215 560 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 560 ~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~ 629 (1432)
. .......+..+|+.||++++.|+.|+|..|+ |++|||+.||+|+++|+++.+||+++|+..+.
T Consensus 98 ~--~~~~~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~eIA~~lgis~~tV~~~l~Rar~~Lr~~l~ 161 (164)
T PRK12547 98 Y--GSLDLQDFKKALNLLSADQREAIILIGASGF----SYEDAAAICGCAVGTIKSRVSRARNRLQELLK 161 (164)
T ss_pred h--hHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHh
Confidence 1 1122457889999999999999999999998 99999999999999999999999999998763
|
|
| >TIGR02959 SigZ RNA polymerase sigma factor, SigZ family | Back alignment and domain information |
|---|
Probab=99.62 E-value=5.6e-15 Score=158.00 Aligned_cols=148 Identities=11% Similarity=0.181 Sum_probs=121.7
Q ss_pred HHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHHHHH
Q psy15215 1197 EANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETI 1276 (1432)
Q Consensus 1197 ~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~ 1276 (1432)
..|.+.|+.++.+++++..+++|++||+|+.+|+++++|+.. .+|.+|++.+++|.+.+++++..+...++
T Consensus 2 ~~~~~~l~~~~~~~~~~~~~AeDlvQe~fl~l~~~~~~~~~~--~~f~~wl~~iarn~~~d~~Rk~~~~~~~~------- 72 (170)
T TIGR02959 2 DEFRSELKAFIKSRVSDASDVEDLLQEVFIKIHRNLPSLKDG--QKIQSWLYQIARNTIIDFYRSKSRSVELP------- 72 (170)
T ss_pred chHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHHHHHhcCCc--ccHHHHHHHHHHHHHHHHHHhccCccccc-------
Confidence 468899999999999999999999999999999999999963 48999999999999999999876421100
Q ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHH
Q psy15215 1277 NKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASM 1356 (1432)
Q Consensus 1277 ~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~~~~~~ 1356 (1432)
+.. ... .+|.+.....+.
T Consensus 73 ----------------------------------------------------~~~-------~~~---~~~~~~~~~~e~ 90 (170)
T TIGR02959 73 ----------------------------------------------------ESL-------LAA---DSAREETFVKEL 90 (170)
T ss_pred ----------------------------------------------------hhh-------ccc---CCccHHHHHHHH
Confidence 000 000 012223334455
Q ss_pred HHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchh
Q psy15215 1357 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1357 ~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~ 1419 (1432)
...+..+|..||+++|.||.|+|..|+ |++|||+.||+|..+|+++++||+++||....
T Consensus 91 ~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~eIA~~lgis~~tV~~~l~Rar~~Lr~~l~ 149 (170)
T TIGR02959 91 SQCIPPMIKELPDEYREAIRLTELEGL----SQQEIAEKLGLSLSGAKSRVQRGRKKLKELLE 149 (170)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHH
Confidence 678999999999999999999999888 99999999999999999999999999999654
|
This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937). One of these is designated as SigZ in B. subtilis (Swiss_Prot: SIGZ_BACSU). Interestingly, this group has a very sporatic distribution, B. subtilis, for instance, being the only sequenced strain of Bacilli with a member. Dechloromonas aromatica RCB appears to have two of these sigma factors. A member appears on a plasmid found in Photobacterium profundum SS9 and Vibrio fischeri ES114 (where a second one is chromosomally encoded). |
| >PRK12541 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.62 E-value=8.1e-15 Score=155.41 Aligned_cols=154 Identities=12% Similarity=0.132 Sum_probs=123.1
Q ss_pred hHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccch
Q psy15215 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 480 (1432)
Q Consensus 401 A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 480 (1432)
|+..++..|.+.|+.+|.+++++..+++|++||+++.+|+..++|++. +|.||++..++|.+.++++++.+....
T Consensus 6 a~~~l~~~~~~~l~~~~~~~~~~~~~AeDv~Qe~f~~~~~~~~~~~~~---~~~~wl~~i~~n~~~d~~R~~~~~~~~-- 80 (161)
T PRK12541 6 SLEEIYSEHMQDLFRYLLSLTGDSHFAEDLMQETFYRMLVHIDYYKGE---EIRPWLFTIAYNAFIDWYRKEKKYKTT-- 80 (161)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhHHHccCC---ChHHHHHHHHHHHHHHHHHhccccccc--
Confidence 999999999999999999999999999999999999999999999852 699999999999999999987652000
Q ss_pred hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 481 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 560 (1432)
Q Consensus 481 ~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~ 560 (1432)
..+ + ... ......+...
T Consensus 81 ---------------------------------------------------~~~-----~--~~~-----~~~~~~~~~~ 97 (161)
T PRK12541 81 ---------------------------------------------------TIE-----E--FHL-----PNVPSTEHEY 97 (161)
T ss_pred ---------------------------------------------------chh-----h--hhc-----cCCCCcHHHH
Confidence 000 0 000 0000112222
Q ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHH
Q psy15215 561 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPL 627 (1432)
Q Consensus 561 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~ 627 (1432)
....+. ..+..+|..||++++.||.|+|..|. |++|||+.||+|+++|+++.+||+.+|++.
T Consensus 98 ~~~~~~-~~~~~~l~~L~~~~r~v~~l~~~~~~----s~~eIA~~lgis~~tv~~~l~Rar~~L~~~ 159 (161)
T PRK12541 98 FIKHEI-ASWLDSLSSLPLERRNVLLLRDYYGF----SYKEIAEMTGLSLAKVKIELHRGRKETKSI 159 (161)
T ss_pred HHHhHH-HHHHHHHHHCCHHHHHHhhhHHhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHhh
Confidence 333333 34557899999999999999999998 999999999999999999999999999864
|
|
| >TIGR02960 SigX5 RNA polymerase sigma-70 factor, TIGR02960 family | Back alignment and domain information |
|---|
Probab=99.62 E-value=8.1e-15 Score=173.79 Aligned_cols=184 Identities=18% Similarity=0.162 Sum_probs=137.3
Q ss_pred hHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhc
Q psy15215 394 GEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 473 (1432)
Q Consensus 394 gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~ 473 (1432)
||.. |+..|+..|.+.|+++|.+++++..+++|++||.|+.+|+.+++|+.. .+|.+|++.+++|.|.+++|++.
T Consensus 2 gd~~---af~~l~~~~~~~l~~~a~~~~~~~~~AEDivQe~fl~~~~~~~~~~~~--~~~~~WL~~Ia~n~~~d~~Rk~~ 76 (324)
T TIGR02960 2 VDGA---AFTALAEPHRRELLAHCYRMLGSLHEAEDLVQETLLRAWRARDRFEGR--SSVRTWLYRIATNACLDALEARQ 76 (324)
T ss_pred CcHH---HHHHHHHHHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHhhhhccCcc--cchHHHHHHHHHHHHHHHHHhcc
Confidence 6666 999999999999999999999999999999999999999999999863 47999999999999999999876
Q ss_pred cccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccc---
Q psy15215 474 RTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIE--- 550 (1432)
Q Consensus 474 r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~--- 550 (1432)
+.... .. ... + ........ +++....+.+.+.
T Consensus 77 ~~~~~-~~-----------------~~~--~------------------------~~~~~~~~-~~~~~~~~~~~~~~~~ 111 (324)
T TIGR02960 77 RRPRP-VG-----------------LGA--P------------------------SADGTAAA-SEAAEVTWLEPLPDLT 111 (324)
T ss_pred CCcCc-cc-----------------cCC--C------------------------CCcccccc-cccccccccCCCCccc
Confidence 42100 00 000 0 00000000 0000000000000
Q ss_pred ----cCCCCChHHHHHHHH-HHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 551 ----DENMLAPSDAALNAS-MRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 551 ----d~~~~~p~~~~~~~~-~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
.....+|++.....+ +...+..+|.+|||++|.||.|+|..|+ |++|||+.||+|+++|+++.+||+++|+
T Consensus 112 ~~~~~~~~~~~~~~~~~~e~~~~~l~~~l~~Lp~~~R~v~~L~~~~g~----s~~EIA~~lgis~~tV~~~l~Rar~~Lr 187 (324)
T TIGR02960 112 LDLDDPAAADPSVAAGSRESVRLAFVAAIQYLPPRQRAVLLLRDVLGW----RAAETAELLGTSTASVNSALQRARATLD 187 (324)
T ss_pred cccccCCCCCHHHHHHHHHHHHHHHHHHHHhCCHHHhhHhhhHHHhCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHH
Confidence 111246777666554 4567899999999999999999999999 9999999999999999999999999999
Q ss_pred HHHHHH
Q psy15215 626 PLAHDW 631 (1432)
Q Consensus 626 ~~l~~~ 631 (1432)
+.+...
T Consensus 188 ~~l~~~ 193 (324)
T TIGR02960 188 EVGPSA 193 (324)
T ss_pred Hhcccc
Confidence 988643
|
This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building, bidirectional best hits and one-to-a-genome distribution, to represent a conserved family. |
| >PRK12545 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.62 E-value=1e-14 Score=160.34 Aligned_cols=178 Identities=11% Similarity=0.144 Sum_probs=131.2
Q ss_pred HHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHH
Q psy15215 404 EMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 483 (1432)
Q Consensus 404 ~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~ 483 (1432)
.++..|.+.|+.+|.+++++..+++|++||+|+.+|+..++|++. .+|.+|++.+++|.+.++++++.+...++..
T Consensus 12 ~~~~~~~~~l~~~~~~~~~d~~~AEDivQe~fl~~~~~~~~~~~~--~~~~~WL~~IarN~~~d~~Rk~~r~~~~~~~-- 87 (201)
T PRK12545 12 AYLAQLRHDLLRFARLQLRDADAAEDAVQEALAAAWSQAGRFAGQ--SAHKTWVFGILRNKLIDTLRARQRTVNLSAL-- 87 (201)
T ss_pred HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhhhcccc--chHHHHHHHHHHHHHHHHHHhhccccccccc--
Confidence 568999999999999999999999999999999999999999864 3699999999999999999987652111100
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHH
Q psy15215 484 ETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALN 563 (1432)
Q Consensus 484 ~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~ 563 (1432)
..++. ....++............+..++ ...+|.+....
T Consensus 88 ----------------------~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ 126 (201)
T PRK12545 88 ----------------------DAELD------------------GEALLDRELFKDNGHWAAHAKPR-PWPKPETILQQ 126 (201)
T ss_pred ----------------------ccccc------------------hhhhhhhhhhcccccccccccCc-CCCCHHHHHHH
Confidence 00000 00000000000000000000001 12356666666
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 564 ASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 564 ~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
.+....+..+|.+|||++|.||.|+|+.|+ |++|||+.+|+|+++|+.+.+||+++||+.+..
T Consensus 127 ~~~~~~l~~~L~~Lp~~~r~v~~L~~~eg~----s~~EIA~~lgis~~tVk~~l~RAr~~Lr~~l~~ 189 (201)
T PRK12545 127 QQFWTLFETCLDHLPEQIGRVFMMREFLDF----EIDDICTELTLTANHCSVLLYRARTRLRTCLSE 189 (201)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHH
Confidence 666778999999999999999999999999 999999999999999999999999999998853
|
|
| >PRK12525 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.62 E-value=6.5e-15 Score=157.24 Aligned_cols=158 Identities=15% Similarity=0.122 Sum_probs=127.4
Q ss_pred hhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccccccc
Q psy15215 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 1269 (1432)
Q Consensus 1190 ~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 1269 (1432)
.++..++..|.+.++++|.+++++..+++|++||+|+.+|+....+.. .+|.+|++++++|.+.+++++.... +
T Consensus 9 ~~~~~~~~~~~~~l~~~~~~~~~~~~~aeDlvQevf~~l~~~~~~~~~---~~~~~wl~~Iarn~~~d~~Rr~~~~-~-- 82 (168)
T PRK12525 9 TLIGQMFQQDYDWLCKKLSRQLGCPHSAEDIASETFLQVLALPDPASI---REPRALLTTIARRLMYEGWRRQDLE-R-- 82 (168)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCcCcHHHHHHHHHHHHHhCCCcccc---cCHHHHHHHHHHHHHHHHHHHHHHH-H--
Confidence 379999999999999999999999999999999999999986555542 3799999999999999999875420 0
Q ss_pred ccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 1270 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 1349 (1432)
Q Consensus 1270 ~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~ 1349 (1432)
.... +.. + .......+|++
T Consensus 83 ---------------~~~~---------------------------------~~~----~---------~~~~~~~~~~~ 101 (168)
T PRK12525 83 ---------------AYLQ---------------------------------SLA----E---------APEAVQPSPEE 101 (168)
T ss_pred ---------------HHHH---------------------------------HHh----c---------ccccccCChHH
Confidence 0000 000 0 00011135666
Q ss_pred HHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCch
Q psy15215 1350 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 1418 (1432)
Q Consensus 1350 ~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~ 1418 (1432)
..........+..+|+.|||++|.||.|+|..|+ |++|||+.||+|.++|+..+.+|+++||...
T Consensus 102 ~~~~~~~~~~l~~~l~~L~~~~r~v~~L~~~eg~----s~~EIA~~l~is~~tV~~~l~ra~~~~~~~~ 166 (168)
T PRK12525 102 QWMVIETLLAIDRLLDGLSGKARAAFLMSQLEGL----TYVEIGERLGVSLSRIHQYMVEAFKCCYQGF 166 (168)
T ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHhh
Confidence 6666677789999999999999999999999998 9999999999999999999999999999743
|
|
| >PRK09637 RNA polymerase sigma factor SigZ; Provisional | Back alignment and domain information |
|---|
Probab=99.60 E-value=2e-14 Score=155.24 Aligned_cols=159 Identities=11% Similarity=0.133 Sum_probs=130.3
Q ss_pred HHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchh
Q psy15215 402 KREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 481 (1432)
Q Consensus 402 ~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~ 481 (1432)
++.+++.|.+.|+++|.++++...+++|++||+++.+|+.+.+|++ +.+|.+|++..++|.+.+++|++.+....+
T Consensus 3 ~~~l~~~y~~~l~~~~~~~~~~~~~aeDi~QEvflkl~~~~~~~~~--~~~~~~wL~~i~~n~~~d~~Rk~~~~~~~~-- 78 (181)
T PRK09637 3 LESIWSEYKAQLKAFLHSRVSNEADVDDLLQEVLIKTHSNLHSLKD--GSSIKSWLYQIANNTIIDFYRKKNRSEELP-- 78 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHhCChhhHHHHHHHHHHHHHHhHHHhcc--ccchHHHHHHHHHHHHHHHHHhccccCCcc--
Confidence 6789999999999999999999999999999999999999999985 348999999999999999999776521100
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHH
Q psy15215 482 MIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAA 561 (1432)
Q Consensus 482 ~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~ 561 (1432)
.++ . .+ .++.+..
T Consensus 79 --------------------------------------------------------~~~-~------~~----~~~~~~~ 91 (181)
T PRK09637 79 --------------------------------------------------------DDL-L------FE----DEEREEN 91 (181)
T ss_pred --------------------------------------------------------hhh-h------cc----CCChhHH
Confidence 000 0 00 0112233
Q ss_pred HHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15215 562 LNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHDWLEQR 635 (1432)
Q Consensus 562 ~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~~~~~~ 635 (1432)
...+....+..+|..||++++.||.|+|..|+ +.+|||+.||+|.++|+.+.++|+++|++.+.....-+
T Consensus 92 ~~~e~~~~l~~~l~~L~~~~r~i~~l~~~~g~----~~~EIA~~lgis~~tV~~~l~Rar~~Lr~~l~~~~~~~ 161 (181)
T PRK09637 92 AKKELAPCLRPFIDALPEKYAEALRLTELEGL----SQKEIAEKLGLSLSGAKSRVQRGRVKLKELLEGCCDFE 161 (181)
T ss_pred HHHHHHHHHHHHHHhCCHHHHHHHHHHHhcCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHccCce
Confidence 44456778999999999999999999999999 99999999999999999999999999999887654333
|
|
| >PRK12527 RNA polymerase sigma factor; Reviewed | Back alignment and domain information |
|---|
Probab=99.60 E-value=1.4e-14 Score=153.16 Aligned_cols=154 Identities=9% Similarity=0.106 Sum_probs=125.9
Q ss_pred HHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHHHHH
Q psy15215 407 EANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETI 486 (1432)
Q Consensus 407 ~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~ 486 (1432)
..|.+.++.+|.++++...+++|++||+++.+|+..+.|++ .+|.||++..++|.+.++++++.+....
T Consensus 2 ~~~~~~l~~~~~~~~~~~~~aeDi~Qevf~~l~~~~~~~~~---~~~~~wL~~ia~n~~~d~~R~~~~~~~~-------- 70 (159)
T PRK12527 2 ENYYRELVRFLSARLGNRQAAEDVAHDAYLRVLERSSSAQI---EHPRAFLYRTALNLVVDRHRRHRVRQAE-------- 70 (159)
T ss_pred hhHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHhccccccc---cchHHHHHHHHHHHHHHHHHHHhccccc--------
Confidence 57889999999999999899999999999999999999864 3799999999999999999976431000
Q ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHH
Q psy15215 487 NKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASM 566 (1432)
Q Consensus 487 ~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~~~~ 566 (1432)
+++. . ++.. ....++|.+.+...+.
T Consensus 71 ---------------------------------------------~~~~-~-~~~~--------~~~~~~~~~~~~~~~~ 95 (159)
T PRK12527 71 ---------------------------------------------PLEV-L-DEEE--------RLHSPSPQTRLDLGQR 95 (159)
T ss_pred ---------------------------------------------chhh-h-hccc--------cccCCCHHHHHHHHHH
Confidence 0000 0 0000 0012357777777777
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 567 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 567 ~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
...+..+|.+|||+++.||.|+|+.|+ |++|||+.||+|.++|+.+..+|+++|+..+..
T Consensus 96 ~~~l~~~l~~L~~~~r~v~~l~~~~~~----s~~eIA~~lgis~~tv~~~l~ra~~~Lr~~l~~ 155 (159)
T PRK12527 96 LALLQRALAELPPACRDSFLLRKLEGL----SHQQIAEHLGISRSLVEKHIVNAMKHCRVRMRQ 155 (159)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHh
Confidence 788999999999999999999999999 999999999999999999999999999998764
|
|
| >PRK12540 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.59 E-value=2.2e-14 Score=154.96 Aligned_cols=159 Identities=14% Similarity=0.134 Sum_probs=126.6
Q ss_pred HhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccc
Q psy15215 400 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 479 (1432)
Q Consensus 400 ~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 479 (1432)
+++..++..|.+.|+++|.+++++..+++|++||+|+.+|+..++|++. .+|.+|++.+++|.+.++++++.+....
T Consensus 5 ~~~~~~~~~~~~~l~~~~~~~~~~~~~AEDivQevflkl~~~~~~~~~~--~~~~~WL~~Ia~n~~~d~~Rk~~~~~~~- 81 (182)
T PRK12540 5 DSLRDDILAAVPSLRAFAISLSGNGDRADDLVQETLLRALANIDSFQPG--SNLPAWLFTILRNLFRSDYRKRRREVED- 81 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhHHhcCCC--chHHHHHHHHHHHHHHHHHHhccccccc-
Confidence 4788999999999999999999999999999999999999999999864 3699999999999999999887641000
Q ss_pred hhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 480 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 559 (1432)
Q Consensus 480 ~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~ 559 (1432)
. +.. ..+... .+|..
T Consensus 82 ----------------------------------------------------~-~~~--------~~~~~~----~~~~~ 96 (182)
T PRK12540 82 ----------------------------------------------------A-DGS--------YAKTLK----SQPGQ 96 (182)
T ss_pred ----------------------------------------------------c-ccc--------cccccc----CCCch
Confidence 0 000 000000 01111
Q ss_pred HHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHHHH
Q psy15215 560 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHDWL 632 (1432)
Q Consensus 560 ~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~~~ 632 (1432)
.. ......+..+|++||++++.||.|+|..|+ |++|||+.||+|.++|+++.+||+++|++.+....
T Consensus 97 ~~--~~~~~~l~~~l~~Lp~~~R~v~~L~~~~g~----s~~EIA~~Lgis~~tV~~~l~RAr~~Lr~~l~~~~ 163 (182)
T PRK12540 97 NA--HLEFEEFRAALDKLPQDQREALILVGASGF----SYEDAAAICGCAVGTIKSRVNRARSKLSALLYVDG 163 (182)
T ss_pred HH--HHHHHHHHHHHHhCCHHHHHHhhHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHhcc
Confidence 11 112346899999999999999999999888 99999999999999999999999999999886543
|
|
| >TIGR02950 SigM_subfam RNA polymerase sigma factor, SigM family | Back alignment and domain information |
|---|
Probab=99.58 E-value=7.8e-15 Score=154.29 Aligned_cols=152 Identities=16% Similarity=0.171 Sum_probs=124.1
Q ss_pred HHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHHHHH
Q psy15215 407 EANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETI 486 (1432)
Q Consensus 407 ~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~ 486 (1432)
..|.+.|+.+|.+++++..+++|++||+++.+|+++++|++ .+|.||++..+++.+.++++++.+....+.
T Consensus 2 ~~~~~~l~~~~~~~~~~~~~aeD~~Qe~~~~l~~~~~~~~~---~~f~~wl~~i~~~~~~d~~r~~~~~~~~~~------ 72 (154)
T TIGR02950 2 REYMHDVFRYLYRLTKDKHLAEDLLQETFLKAYIHLHSFKD---SSIKPWLFRIARNAFIDWYRKDKKIQTIDD------ 72 (154)
T ss_pred chHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHHhcC---CchHHHHHHHHHHHHHHHHHHhhhhccccH------
Confidence 57899999999999999899999999999999999999987 379999999999999999987764110000
Q ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHH
Q psy15215 487 NKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASM 566 (1432)
Q Consensus 487 ~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~~~~ 566 (1432)
.. +.+... ....+|++.....+.
T Consensus 73 ------------------------------------------------~~--------~~~~~~-~~~~~~~~~~~~~~~ 95 (154)
T TIGR02950 73 ------------------------------------------------DA--------IGDLEQ-HPVESPEHHLLIKIE 95 (154)
T ss_pred ------------------------------------------------hh--------hhhccc-cccCChhHHHHHHHH
Confidence 00 000000 011246666666666
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 567 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 567 ~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
...+..+|..||++++.|+.|+|+.|+ |++|||+.||+|+++|+++.++|+.+|++.+
T Consensus 96 ~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~eIA~~lgis~~tv~~~l~Ra~~~Lr~~l 153 (154)
T TIGR02950 96 QEEITHHLSRLPENYRTVLILREFKEF----SYKEIAELLNLSLAKVKSNLFRARKELKKLL 153 (154)
T ss_pred HHHHHHHHHhCCHhheeeeeehhhccC----cHHHHHHHHCCCHHHHHHHHHHHHHHHHHHh
Confidence 778999999999999999999998888 9999999999999999999999999999764
|
This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937) and is restricted to certain lineages of the order Bacillales. This family encompasses at least two distinct sigma factors as two proteins are found in each of B. anthracis, B. subtilis subsp. subtilis str. 168, and B. lichiniformis (although these are not apparently the same two in each). One of these is designated as SigM in B. subtilis (Swiss_Prot: SIGM_BACSU) and is activated by various stressors. |
| >PRK09651 RNA polymerase sigma factor FecI; Provisional | Back alignment and domain information |
|---|
Probab=99.58 E-value=2.8e-14 Score=152.90 Aligned_cols=160 Identities=9% Similarity=0.107 Sum_probs=126.1
Q ss_pred HhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccc
Q psy15215 400 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 479 (1432)
Q Consensus 400 ~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 479 (1432)
.|+..++..|.+.++.++.+++++..+++||+||.++.+|+. ..|... .+|.+|++..++|.+.++++++.+...
T Consensus 10 ~af~~l~~~~~~~l~~~~~~~~~~~~~AEDlvQe~flkl~~~-~~~~~~--~~~~~wL~~iarn~~~d~~R~~~~~~~-- 84 (172)
T PRK09651 10 LTFESLYGTHHGWLKSWLTRKLQSAFDADDIAQDTFLRVMVS-ETLSTI--RDPRSFLCTIAKRVMVDLFRRNALEKA-- 84 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHhh-cccccc--cCHHHHHHHHHHHHHHHHHHHHHHHhh--
Confidence 499999999999999999999999999999999999999998 355432 268999999999999999987643100
Q ss_pred hhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 480 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 559 (1432)
Q Consensus 480 ~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~ 559 (1432)
. . + .+. .+ .+....+|..
T Consensus 85 -~-------------------------------------------------~--~-~~~-----~~----~~~~~~~~~~ 102 (172)
T PRK09651 85 -Y-------------------------------------------------L--E-MLA-----LM----PEGGAPSPEE 102 (172)
T ss_pred -h-------------------------------------------------h--h-HHh-----hc----cccCCCChHH
Confidence 0 0 0 000 00 0001123444
Q ss_pred HHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 560 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 560 ~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
.....+....+..+|..|||+++.|+.|+|+.|+ |++|||+.||+|.++|+.+.++|+.+|+...-+
T Consensus 103 ~~~~~e~~~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~EIA~~lgis~~tV~~~l~Ra~~~~~~~~~~ 169 (172)
T PRK09651 103 RESQLETLQLLDSMLDGLNGKTREAFLLSQLDGL----TYSEIAHKLGVSVSSVKKYVAKATEHCLLFRLE 169 (172)
T ss_pred HHHHHHHHHHHHHHHHhCCHHHhHHhhhhhccCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 4444555678999999999999999999999998 999999999999999999999999999876543
|
|
| >PRK07037 extracytoplasmic-function sigma-70 factor; Validated | Back alignment and domain information |
|---|
Probab=99.58 E-value=3.7e-14 Score=150.68 Aligned_cols=158 Identities=18% Similarity=0.197 Sum_probs=127.0
Q ss_pred HHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHH
Q psy15215 404 EMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 483 (1432)
Q Consensus 404 ~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~ 483 (1432)
.++..|.+.|+++|.+++++..+++|++||+++.+|+....|++. +|.+|++..++|.+.+++|++.+....
T Consensus 2 ~~~~~~~~~l~~~~~~~~~~~~~aeDivQe~~l~l~~~~~~~~~~---~~~~wl~~iarn~~~d~~R~~~~~~~~----- 73 (163)
T PRK07037 2 DVFVDNRSMLVKIAARIVGCRSRAEDVVQDAFVKLVEAPNQDAVK---QPVAYLFRIVRNLAIDHYRRQALENKY----- 73 (163)
T ss_pred hHHHHHHHHHHHHHHHHcCCHhHHHHHHHHHHHHHHhccccCCcc---cHHHHHHHHHHHHHHHHHHhhcccccc-----
Confidence 367788999999999999999999999999999999988877642 588999999999999999987641100
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHH
Q psy15215 484 ETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALN 563 (1432)
Q Consensus 484 ~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~ 563 (1432)
+ +.+..... ... ...+|......
T Consensus 74 ------------------------------------------------~------~~~~~~~~--~~~-~~~~~~~~~~~ 96 (163)
T PRK07037 74 ------------------------------------------------H------GDEEDGLD--VPS-PEASPEAALIN 96 (163)
T ss_pred ------------------------------------------------c------cccccccc--cCC-CCCCHHHHHHH
Confidence 0 00000000 001 12356666666
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 564 ASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 564 ~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
.+..+.+..+|++|||+++.||.|+|..|+ |++|||+.+|+|.++|+....+|+++||..+..
T Consensus 97 ~~~~~~l~~~l~~L~~~~r~v~~l~~~~~~----s~~EIA~~lgis~~tV~~~l~ra~~~lr~~l~~ 159 (163)
T PRK07037 97 RDTLRHVADALSELPARTRYAFEMYRLHGE----TQKDIARELGVSPTLVNFMIRDALVHCRKCLDA 159 (163)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHhc
Confidence 677788999999999999999999999998 999999999999999999999999999988754
|
|
| >PRK12517 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.58 E-value=3e-14 Score=154.78 Aligned_cols=157 Identities=15% Similarity=0.150 Sum_probs=125.2
Q ss_pred hHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccch
Q psy15215 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 480 (1432)
Q Consensus 401 A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 480 (1432)
|+..++..|.+.|+.+|.+++++..+++|++||+|+.+|+...+|.+. .+|.+|++.+++|.+.+.+++..+. .
T Consensus 24 ~f~~l~~~y~~~l~~~~~~~~~~~~~AeDlvQdvflkl~~~~~~~~~~--~~~~~wL~~Iarn~~~~~~r~~~~~--~-- 97 (188)
T PRK12517 24 RYEALVKALHADIYRYAYWLCKDKHIAEDLVQETFLRAWRSLDSLKDE--KAAKAWLITILRRENARRFERKQFD--L-- 97 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHhhcCc--cchHHHHHHHHHHHHHHHHHHhccC--c--
Confidence 999999999999999999999999999999999999999999999864 3799999999999877665543220 0
Q ss_pred hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 481 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 560 (1432)
Q Consensus 481 ~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~ 560 (1432)
.+.+ +. . ..+....+|+..
T Consensus 98 --------------------------------------------------~~~~----~~---~----~~~~~~~~~e~~ 116 (188)
T PRK12517 98 --------------------------------------------------VDIE----DD---S----IEDDASHSSEEE 116 (188)
T ss_pred --------------------------------------------------cCcc----cc---c----ccCccccChhHH
Confidence 0000 00 0 011111233322
Q ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHHHH
Q psy15215 561 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHDWL 632 (1432)
Q Consensus 561 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~~~ 632 (1432)
. ....|..+|..||++++.|+.|+|+.|+ |++|||..+|+|.++|+.+.+||+++|+..+...-
T Consensus 117 ~----~~~~l~~~l~~Lp~~~r~v~~l~~~~g~----s~~EIA~~lgis~~tV~~~l~Rar~~Lr~~l~~~~ 180 (188)
T PRK12517 117 M----EQEWLRRQIAKLDPEYREPLLLQVIGGF----SGEEIAEILDLNKNTVMTRLFRARNQLKEALEKPD 180 (188)
T ss_pred H----HHHHHHHHHHhCCHHHHHHHHHHHHhCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 2 2357899999999999999999999998 99999999999999999999999999999987543
|
|
| >PRK09636 RNA polymerase sigma factor SigJ; Provisional | Back alignment and domain information |
|---|
Probab=99.57 E-value=3.1e-14 Score=165.88 Aligned_cols=159 Identities=14% Similarity=0.164 Sum_probs=124.2
Q ss_pred hHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccc
Q psy15215 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 1270 (1432)
Q Consensus 1191 A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 1270 (1432)
.+.+++..|.+.++.+|++++++..+++|++||+|+. |.....|+ ...|.+|++.+++|.|.+++|++.+. + ..
T Consensus 5 ~~~~l~~~~~~~l~~~a~~~~~~~~dAEDlvQe~fl~-~~~~~~~~---~~~~~~WL~~Ia~n~~~d~lR~~~~~-~-~~ 78 (293)
T PRK09636 5 DAAAEFEPLRPHLLSVAYRMLGSVADAEDIVQEAWLR-WNNADRAQ---IRDPRAWLTRVVTRLCLDRLRSARHR-R-ET 78 (293)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-HHhccccc---ccCHHHHHHHHHHHHHHHHHHhhhcc-c-cc
Confidence 5778999999999999999999999999999999999 65667775 24799999999999999999986541 0 00
Q ss_pred cHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 1271 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 1350 (1432)
Q Consensus 1271 ~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~ 1350 (1432)
. .. ..+..+. .+. ..+|.+.
T Consensus 79 ~---------------------------------------------~~--~~~~e~~------------~~~-~~~~~~~ 98 (293)
T PRK09636 79 Y---------------------------------------------VG--PWLPEPV------------VEE-LDDPLEA 98 (293)
T ss_pred c---------------------------------------------cC--CcCCcCC------------CCC-CCChHHH
Confidence 0 00 0000000 000 1134443
Q ss_pred H-HHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchh
Q psy15215 1351 A-LNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1351 ~-~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~ 1419 (1432)
. ....+...+..+|++|||++|.|+.|+|..|+ |++|||+.||+|.++|+++++||+++||+...
T Consensus 99 ~~~~~~~~~~l~~~l~~L~~~~R~v~~L~~~~g~----s~~EIA~~lg~s~~tVk~~l~RAr~~Lr~~~~ 164 (293)
T PRK09636 99 VVAAEDLSLALMLALERLSPLERAAFLLHDVFGV----PFDEIASTLGRSPAACRQLASRARKHVRAARP 164 (293)
T ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC
Confidence 3 34455677999999999999999999999988 99999999999999999999999999998543
|
|
| >PRK12511 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.57 E-value=2.9e-14 Score=153.97 Aligned_cols=156 Identities=13% Similarity=0.134 Sum_probs=123.2
Q ss_pred hHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccch
Q psy15215 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 480 (1432)
Q Consensus 401 A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 480 (1432)
..+..+..+++.|+.+|.+++++..+++|++||.|+.+|+...+|+.. .+|.+|++.+++|.+.++++++.+....+
T Consensus 5 ~~~~~~~~~~~~l~~~~~~~~~~~~dAEDivQe~flkl~~~~~~~~~~--~~~~~WL~~Iarn~~id~~Rk~~~~~~~~- 81 (182)
T PRK12511 5 SKRFDVLDQLVPLRRYARSLTRDSAEAEDLVHDALVRALERRASFRSG--GNLRTWLMSILHNAFIDELRRRRVEARRA- 81 (182)
T ss_pred chhhhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhHHhcCCc--cchHHHHHHHHHHHHHHHHHhhccccccc-
Confidence 345668899999999999999999999999999999999999999863 37999999999999999999876521000
Q ss_pred hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 481 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 560 (1432)
Q Consensus 481 ~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~ 560 (1432)
++ + .+. . +.....+..
T Consensus 82 --------------------------~~------------------------~----~~~----~-----~~~~~~~~~- 97 (182)
T PRK12511 82 --------------------------DE------------------------L----AVL----A-----DASLPAAQE- 97 (182)
T ss_pred --------------------------cc------------------------h----hhc----c-----ccCCCcchH-
Confidence 00 0 000 0 000001111
Q ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHH
Q psy15215 561 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 561 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~ 629 (1432)
.......+..+|.+||++++.||.|+|..|+ |++|||+.||+|.++|+++.++|+.+|+..+.
T Consensus 98 --~~~~~~~l~~~l~~Lp~~~R~v~~L~~~eg~----s~~EIA~~lgis~~tV~~~l~Rar~~Lr~~~~ 160 (182)
T PRK12511 98 --HAVRLAQIRDAFFDLPEEQRAALHLVAIEGL----SYQEAAAVLGIPIGTLMSRIGRARAALRAFEE 160 (182)
T ss_pred --HHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHhCcCHHHHHHHHHHHHHHHHHHHH
Confidence 1223467889999999999999999999998 99999999999999999999999999998776
|
|
| >TIGR02959 SigZ RNA polymerase sigma factor, SigZ family | Back alignment and domain information |
|---|
Probab=99.57 E-value=4.6e-14 Score=150.94 Aligned_cols=149 Identities=12% Similarity=0.210 Sum_probs=122.5
Q ss_pred HHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHHHHH
Q psy15215 407 EANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETI 486 (1432)
Q Consensus 407 ~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~ 486 (1432)
..|.+.|+.++.++++...+++|++||+++.+|+++++|+. +.+|.+|++..++|.+.+++++..+...++
T Consensus 2 ~~~~~~l~~~~~~~~~~~~~AeDlvQe~fl~l~~~~~~~~~--~~~f~~wl~~iarn~~~d~~Rk~~~~~~~~------- 72 (170)
T TIGR02959 2 DEFRSELKAFIKSRVSDASDVEDLLQEVFIKIHRNLPSLKD--GQKIQSWLYQIARNTIIDFYRSKSRSVELP------- 72 (170)
T ss_pred chHHHHHHHHHHHHcCCHhhHHHHHHHHHHHHHHHHHhcCC--cccHHHHHHHHHHHHHHHHHHhccCccccc-------
Confidence 46889999999999999999999999999999999999986 358999999999999999999876521110
Q ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHH
Q psy15215 487 NKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASM 566 (1432)
Q Consensus 487 ~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~~~~ 566 (1432)
+.. ... .+|.+.....+.
T Consensus 73 ----------------------------------------------------~~~-------~~~---~~~~~~~~~~e~ 90 (170)
T TIGR02959 73 ----------------------------------------------------ESL-------LAA---DSAREETFVKEL 90 (170)
T ss_pred ----------------------------------------------------hhh-------ccc---CCccHHHHHHHH
Confidence 000 000 012223334455
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 567 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 567 ~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
...+..+|..||++++.||.|+|..|+ |++|||+.||+|+.+|+++.+||+++|+..+..
T Consensus 91 ~~~l~~~l~~L~~~~r~v~~l~~~~g~----s~~eIA~~lgis~~tV~~~l~Rar~~Lr~~l~~ 150 (170)
T TIGR02959 91 SQCIPPMIKELPDEYREAIRLTELEGL----SQQEIAEKLGLSLSGAKSRVQRGRKKLKELLET 150 (170)
T ss_pred HHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 678999999999999999999999888 999999999999999999999999999998764
|
This family of RNA polymerase sigma factors is a member of the Sigma-70 subfamily (TIGR02937). One of these is designated as SigZ in B. subtilis (Swiss_Prot: SIGZ_BACSU). Interestingly, this group has a very sporatic distribution, B. subtilis, for instance, being the only sequenced strain of Bacilli with a member. Dechloromonas aromatica RCB appears to have two of these sigma factors. A member appears on a plasmid found in Photobacterium profundum SS9 and Vibrio fischeri ES114 (where a second one is chromosomally encoded). |
| >PRK12546 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.57 E-value=4.9e-14 Score=152.91 Aligned_cols=156 Identities=15% Similarity=0.135 Sum_probs=121.6
Q ss_pred hHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccch
Q psy15215 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 480 (1432)
Q Consensus 401 A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 480 (1432)
+++.|+. |.+.|+++|.+++++..+++|++||.|+.+|+.+.+|+.. .+|.+|++..++|.+.++++++.+...
T Consensus 9 ~~~~l~~-~~~~l~~~a~~~l~~~~~AEDivQevfl~l~~~~~~~~~~--~~~~awL~~ia~n~~~d~~Rk~~r~~~--- 82 (188)
T PRK12546 9 PRDELVE-HLPALRAFAISLTRNVAVADDLVQDTIVKAWTNFDKFQEG--TNLRAWLFTILRNTFYSDRRKHKREVP--- 82 (188)
T ss_pred HHHHHHH-HHHHHHHHHHHHcCChhhHHHHHHHHHHHHHHHHhccCCC--cchHHHHHHHHHHHHHHHHHHhccccc---
Confidence 5555555 7799999999999999999999999999999999999863 479999999999999999988764100
Q ss_pred hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 481 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 560 (1432)
Q Consensus 481 ~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~ 560 (1432)
. .+. ...+...+ .|..
T Consensus 83 ~---------------------------------------------------~~~--------~~~~~~~~----~~~~- 98 (188)
T PRK12546 83 D---------------------------------------------------PEG--------VHAASLAV----KPAH- 98 (188)
T ss_pred C---------------------------------------------------ccc--------cccccccc----CCcc-
Confidence 0 000 00000000 0100
Q ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHHH
Q psy15215 561 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHDW 631 (1432)
Q Consensus 561 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~~ 631 (1432)
........+..+|++|||+++.||.|+|..|+ |++|||+.||+|+.+|+++.+||+++|++.+...
T Consensus 99 -~~~~~~~~l~~~L~~Lp~~~r~v~~L~~~~g~----s~~EIA~~LgiS~~tVk~~l~Rar~~Lr~~l~~~ 164 (188)
T PRK12546 99 -DGRLAMSDFRAAFAQLPDEQREALILVGASGF----SYEEAAEMCGVAVGTVKSRANRARARLAELLQLE 164 (188)
T ss_pred -hhHHHHHHHHHHHHhCCHHHhHHhhhHHhcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHhcc
Confidence 01122346889999999999999999999998 9999999999999999999999999999887543
|
|
| >PRK09047 RNA polymerase factor sigma-70; Validated | Back alignment and domain information |
|---|
Probab=99.56 E-value=2.8e-14 Score=151.28 Aligned_cols=154 Identities=14% Similarity=0.168 Sum_probs=113.1
Q ss_pred CCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhC
Q psy15215 1212 DRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETG 1291 (1432)
Q Consensus 1212 ~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g 1291 (1432)
++..+++|++||+|+.+|+..+.+ .+..|++|++.+++|.|.+++|++.+..+....
T Consensus 2 ~~~~~AeDivQe~fl~~~~~~~~~---~~~~~~~wl~~ia~n~~~d~~Rk~~~~~~~~~~-------------------- 58 (161)
T PRK09047 2 RDDDAALDIVQDAMIKLAEKYGDR---PAAEWPPLFQRILQNRIHDWFRRQKVRNTWVSL-------------------- 58 (161)
T ss_pred CCHHHHHHHHHHHHHHHHHHHhhc---ccCchHHHHHHHHHHHHHHHHHhhccccccccc--------------------
Confidence 345679999999999999998863 245799999999999999999987642110000
Q ss_pred CCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCC--CCChHHHHHHHHHHHHHHHHHccCCH
Q psy15215 1292 SEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDEN--MLAPSDAALNASMRSVVKDILNSLTP 1369 (1432)
Q Consensus 1292 ~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~--~~~p~~~~~~~~~~~~l~~~L~~L~~ 1369 (1432)
..++.... +.++....+.+.+.. ..+|++.....+....+..+|..||+
T Consensus 59 ----------------------------~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lp~ 109 (161)
T PRK09047 59 ----------------------------FSSFSDDD-DDDDFDPLETLDSADEGAESPADKLERAQVLQLIEEAIQKLPA 109 (161)
T ss_pred ----------------------------cccccccc-ccccccHHHHhccccccCCCHHHHHHHHHHHHHHHHHHHhCCH
Confidence 00000000 000011111111111 24688888888888999999999999
Q ss_pred HHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhh
Q psy15215 1370 RESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYY 1421 (1432)
Q Consensus 1370 rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~ 1421 (1432)
++|.||.|+|+.|+ |++|||+.||+|.++|+++++||+++||......
T Consensus 110 ~~r~v~~l~~~~g~----s~~EIA~~lgis~~tV~~~l~ra~~~Lr~~l~~~ 157 (161)
T PRK09047 110 RQREAFLLRYWEDM----DVAETAAAMGCSEGSVKTHCSRATHALAKALEAK 157 (161)
T ss_pred HHHHHHHHHHHhcC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHhc
Confidence 99999999999988 9999999999999999999999999999876543
|
|
| >PRK06704 RNA polymerase factor sigma-70; Validated | Back alignment and domain information |
|---|
Probab=99.56 E-value=4.4e-14 Score=156.37 Aligned_cols=159 Identities=16% Similarity=0.162 Sum_probs=124.9
Q ss_pred HHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHH
Q psy15215 1177 INRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 1256 (1432)
Q Consensus 1177 l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~ 1256 (1432)
++++...++.. ++..+++.| +.|+++|.+++++..+++||+||+|+.+|+. |+.. ..|.+|++.+++|.+.
T Consensus 8 ~~~~~~~~~~~---~~~~l~~~y-~~L~r~~~~~~~d~~dAEDlvQE~flk~~~~---~~~~--~~~~~WL~~IarN~~i 78 (228)
T PRK06704 8 ILKNHIDMNHS---NINFLIEQY-GELKRYCTFLTKNKWDGEDLAQETVCKVLQK---YSNK--DICMTLVYKIARNRWL 78 (228)
T ss_pred HHhcccCCCHH---HHHHHHHHH-HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH---cCcc--ccHHHHHHHHHHHHHH
Confidence 45566677777 888777777 7899999999999999999999999999986 4432 3599999999999999
Q ss_pred HHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcC
Q psy15215 1257 RSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLG 1336 (1432)
Q Consensus 1257 ~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~ 1336 (1432)
+++|++.+.-.+ . ++ ...
T Consensus 79 d~~Rk~k~~~~~-------------------------------------------------------~----~~--~~~- 96 (228)
T PRK06704 79 DQIKSKSVHEKI-------------------------------------------------------R----DQ--ITF- 96 (228)
T ss_pred HHHhcccccccc-------------------------------------------------------c----cc--ccc-
Confidence 999987641000 0 00 000
Q ss_pred cccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhC
Q psy15215 1337 DFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 1416 (1432)
Q Consensus 1337 d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~ 1416 (1432)
.+|.... ......+..+|+.||+++|.|+.|+|+.|+ |++|||+.+|+|.++|+++++||+++||.
T Consensus 97 --------~~~~~~~--~~~~~~l~~~L~~Lp~~~R~v~lL~~~eg~----S~~EIAe~LgiS~~tVksrL~Rark~Lr~ 162 (228)
T PRK06704 97 --------EEPHEKI--ADLHEMVGKVLSSLNVQQSAILLLKDVFQY----SIADIAKVCSVSEGAVKASLFRSRNRLKT 162 (228)
T ss_pred --------CChHHHH--HHHHHHHHHHHHhCCHHHhhHhhhHHhhCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHH
Confidence 0111111 233467899999999999999999999888 99999999999999999999999999998
Q ss_pred chhh
Q psy15215 1417 PSRY 1420 (1432)
Q Consensus 1417 ~~~~ 1420 (1432)
....
T Consensus 163 ~l~~ 166 (228)
T PRK06704 163 VSEE 166 (228)
T ss_pred HHHh
Confidence 6643
|
|
| >PRK12525 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=99.55 E-value=5.4e-14 Score=150.16 Aligned_cols=158 Identities=15% Similarity=0.115 Sum_probs=127.3
Q ss_pred hHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccch
Q psy15215 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 480 (1432)
Q Consensus 401 A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 480 (1432)
++.+++..|.+.++++|.+++++..+++|++||.|+.+|+....+.. .+|.+|+++.++|.+.+++++..+. +
T Consensus 10 ~~~~~~~~~~~~l~~~~~~~~~~~~~aeDlvQevf~~l~~~~~~~~~---~~~~~wl~~Iarn~~~d~~Rr~~~~-~--- 82 (168)
T PRK12525 10 LIGQMFQQDYDWLCKKLSRQLGCPHSAEDIASETFLQVLALPDPASI---REPRALLTTIARRLMYEGWRRQDLE-R--- 82 (168)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCcCcHHHHHHHHHHHHHhCCCcccc---cCHHHHHHHHHHHHHHHHHHHHHHH-H---
Confidence 79999999999999999999999999999999999999986554432 3799999999999999998865320 0
Q ss_pred hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 481 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 560 (1432)
Q Consensus 481 ~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~ 560 (1432)
. ... +.. + .+.....+|.+.
T Consensus 83 -----------~---~~~---------------------------------~~~----~---------~~~~~~~~~~~~ 102 (168)
T PRK12525 83 -----------A---YLQ---------------------------------SLA----E---------APEAVQPSPEEQ 102 (168)
T ss_pred -----------H---HHH---------------------------------HHh----c---------ccccccCChHHH
Confidence 0 000 000 0 000011356666
Q ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHH
Q psy15215 561 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 561 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~ 629 (1432)
....+....+..+++.|||+++.||.|+|..|+ |++|||+.||+|+++|+.+..+|++.++..+.
T Consensus 103 ~~~~~~~~~l~~~l~~L~~~~r~v~~L~~~eg~----s~~EIA~~l~is~~tV~~~l~ra~~~~~~~~~ 167 (168)
T PRK12525 103 WMVIETLLAIDRLLDGLSGKARAAFLMSQLEGL----TYVEIGERLGVSLSRIHQYMVEAFKCCYQGFQ 167 (168)
T ss_pred HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhc
Confidence 666677789999999999999999999999998 99999999999999999999999999997653
|
|
| >PRK09635 sigI RNA polymerase sigma factor SigI; Provisional | Back alignment and domain information |
|---|
Probab=99.55 E-value=6.9e-14 Score=161.48 Aligned_cols=160 Identities=16% Similarity=0.153 Sum_probs=124.8
Q ss_pred hhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccccccc
Q psy15215 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 1269 (1432)
Q Consensus 1190 ~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 1269 (1432)
+.+..+++.|.+.++++|++++++..+++|++||+|+.+|++...+ . ..|.+|++.+++|.|.+++|+..+. +-
T Consensus 5 ~~~~~l~~~~~~~L~~~a~r~lgs~~dAEDvvQE~flr~~~~~~~~---~-~~~~aWL~~Ia~n~~id~lRk~~~r-r~- 78 (290)
T PRK09635 5 DPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGD---I-DDERGWLIVVTSRLCLDHIKSASTR-RE- 78 (290)
T ss_pred cHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCccc---c-ccHHHHHHHHHHHHHHHHHhhhhcc-Cc-
Confidence 3788999999999999999999999999999999999999986543 1 3699999999999999999976531 00
Q ss_pred ccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 1270 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 1349 (1432)
Q Consensus 1270 ~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~ 1349 (1432)
........ ..+ +... ...+|++
T Consensus 79 -------------------------------------------------~~~~~~~~-~~~------~~~~--~~~~~~~ 100 (290)
T PRK09635 79 -------------------------------------------------RPQDIAAW-HDG------DASV--SSVDPAD 100 (290)
T ss_pred -------------------------------------------------Cccccccc-Ccc------ccCC--CCCCcHH
Confidence 00000000 000 0000 1123443
Q ss_pred -HHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1350 -AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1350 -~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
.....+....+..+|.+|||++|.|+.|+|+.|+ |++|||+.+|+|..+|+++++||+++||..
T Consensus 101 ~~~~~~e~~~al~~~L~~L~p~~R~vf~L~~~~g~----s~~EIA~~Lgis~~tVr~~l~RAr~~Lr~~ 165 (290)
T PRK09635 101 RVTLDDEVRLALLIMLERLGPAERVVFVLHEIFGL----PYQQIATTIGSQASTCRQLAHRARRKINES 165 (290)
T ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHhhHHHHhCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHhh
Confidence 3345566778999999999999999999999998 999999999999999999999999999974
|
|
| >TIGR02957 SigX4 RNA polymerase sigma-70 factor, TIGR02957 family | Back alignment and domain information |
|---|
Probab=99.53 E-value=1.3e-13 Score=159.36 Aligned_cols=155 Identities=19% Similarity=0.178 Sum_probs=120.8
Q ss_pred HHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHH
Q psy15215 1194 EMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 1273 (1432)
Q Consensus 1194 ~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~ 1273 (1432)
+++..|.+.|+++|++++++..+++|++||+|+.+++. +|... ..|.+|++.+++|.|.+++|++.+.-...
T Consensus 1 ~l~~~~~~~l~~~a~r~lg~~~dAEDvvQE~flk~~~~--~~~~~--~~~~awL~~Ia~n~~ld~lR~~~~~~~~~---- 72 (281)
T TIGR02957 1 EEFEALRPLLFSLAYRMLGSVADAEDIVQETFLRWQEA--DRAQI--ENPKAYLTKVVTRRCIDVLRSARARREVY---- 72 (281)
T ss_pred ChHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHhC--Ccccc--cCHHHHHHHHHHHHHHHHHHHhhhccccc----
Confidence 37899999999999999999999999999999998775 55432 37999999999999999999765310000
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHH
Q psy15215 1274 ETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALN 1353 (1432)
Q Consensus 1274 ~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~~~ 1353 (1432)
..+ -+..|. .+ ...+|++....
T Consensus 73 --------------------------------------------~~~-~~~e~~------------~~-~~~~~~~~~~~ 94 (281)
T TIGR02957 73 --------------------------------------------VGP-WLPEPL------------LT-TSADPAESVEL 94 (281)
T ss_pred --------------------------------------------CCC-CCCccc------------CC-CCCChHHHHHH
Confidence 000 000010 00 01246555443
Q ss_pred H-HHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCch
Q psy15215 1354 A-SMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 1418 (1432)
Q Consensus 1354 ~-~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~ 1418 (1432)
. .+...+..+|++|||+||.||.|+|..|+ |++|||+.||+|..+|+++++||+++||+..
T Consensus 95 ~e~~~~~l~~~l~~L~~~~R~v~~L~~~~g~----s~~EIA~~lg~s~~tVr~~l~RAr~~Lr~~~ 156 (281)
T TIGR02957 95 AESLSMAYLLLLERLSPLERAVFVLREVFDY----PYEEIASIVGKSEANCRQLVSRARRHLDARR 156 (281)
T ss_pred HHHHHHHHHHHHhhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHhhC
Confidence 3 45667889999999999999999999888 9999999999999999999999999999854
|
This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building and bidirectional best hits, to represent a conserved family. This family is found in a limited number of bacterial lineages. This family includes apparent paralogous expansion in Streptomyces coelicolor A3(2), and multiple copies in Mycobacterium smegmatis MC2, Streptomyces avermitilis MA-4680 and Nocardia farcinica IFM10152. |
| >PRK09047 RNA polymerase factor sigma-70; Validated | Back alignment and domain information |
|---|
Probab=99.49 E-value=3.4e-13 Score=142.95 Aligned_cols=152 Identities=14% Similarity=0.173 Sum_probs=112.4
Q ss_pred CCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCC
Q psy15215 423 RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGS 502 (1432)
Q Consensus 423 ~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~ 502 (1432)
+..+++|++||+|+.+|+..+.+ .+.+|.+|++.+++|.|.+++|++.+..+...
T Consensus 3 ~~~~AeDivQe~fl~~~~~~~~~---~~~~~~~wl~~ia~n~~~d~~Rk~~~~~~~~~---------------------- 57 (161)
T PRK09047 3 DDDAALDIVQDAMIKLAEKYGDR---PAAEWPPLFQRILQNRIHDWFRRQKVRNTWVS---------------------- 57 (161)
T ss_pred CHHHHHHHHHHHHHHHHHHHhhc---ccCchHHHHHHHHHHHHHHHHHhhcccccccc----------------------
Confidence 44578999999999999998863 24579999999999999999998764211000
Q ss_pred CCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCC--CCChHHHHHHHHHHHHHHHHHhcCCHH
Q psy15215 503 EPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDEN--MLAPSDAALNASMRSVVKDILNSLTPR 580 (1432)
Q Consensus 503 ~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~--~~~p~~~~~~~~~~~~l~~~L~~L~~r 580 (1432)
...++.... +.++....+.+.+.. ..+|.+.+...+....+..+|.+||++
T Consensus 58 --------------------------~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~Lp~~ 110 (161)
T PRK09047 58 --------------------------LFSSFSDDD-DDDDFDPLETLDSADEGAESPADKLERAQVLQLIEEAIQKLPAR 110 (161)
T ss_pred --------------------------ccccccccc-ccccccHHHHhccccccCCCHHHHHHHHHHHHHHHHHHHhCCHH
Confidence 000000000 000011111111111 246888888888889999999999999
Q ss_pred HHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 581 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 581 er~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
+|.||.|+|+.|+ |++|||+.||+|.++|+.+.++|+++|+..+..
T Consensus 111 ~r~v~~l~~~~g~----s~~EIA~~lgis~~tV~~~l~ra~~~Lr~~l~~ 156 (161)
T PRK09047 111 QREAFLLRYWEDM----DVAETAAAMGCSEGSVKTHCSRATHALAKALEA 156 (161)
T ss_pred HHHHHHHHHHhcC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999998 999999999999999999999999999998864
|
|
| >PRK09636 RNA polymerase sigma factor SigJ; Provisional | Back alignment and domain information |
|---|
Probab=99.49 E-value=4e-13 Score=156.60 Aligned_cols=158 Identities=13% Similarity=0.151 Sum_probs=123.6
Q ss_pred hHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccch
Q psy15215 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 480 (1432)
Q Consensus 401 A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 480 (1432)
.+.+++..|.+.++.+|++++++..+++|++||+++. |.....|+ ..+|.+|++.+++|.|.+++|++.+....
T Consensus 5 ~~~~l~~~~~~~l~~~a~~~~~~~~dAEDlvQe~fl~-~~~~~~~~---~~~~~~WL~~Ia~n~~~d~lR~~~~~~~~-- 78 (293)
T PRK09636 5 DAAAEFEPLRPHLLSVAYRMLGSVADAEDIVQEAWLR-WNNADRAQ---IRDPRAWLTRVVTRLCLDRLRSARHRRET-- 78 (293)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH-HHhccccc---ccCHHHHHHHHHHHHHHHHHHhhhccccc--
Confidence 5778999999999999999999999999999999999 55667775 34799999999999999999976531000
Q ss_pred hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 481 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 560 (1432)
Q Consensus 481 ~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~ 560 (1432)
. . . ..+..+ ..+. ..+|.+.
T Consensus 79 ~---------------------------------------------~-~-~~~~e~------------~~~~-~~~~~~~ 98 (293)
T PRK09636 79 Y---------------------------------------------V-G-PWLPEP------------VVEE-LDDPLEA 98 (293)
T ss_pred c---------------------------------------------c-C-CcCCcC------------CCCC-CCChHHH
Confidence 0 0 0 000000 0000 1134444
Q ss_pred H-HHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 561 A-LNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 561 ~-~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
. ....+...+..+|++|||++|.|+.|+|..|+ |++|||+.+|+|.++|+++.+||+++|++..
T Consensus 99 ~~~~~~~~~~l~~~l~~L~~~~R~v~~L~~~~g~----s~~EIA~~lg~s~~tVk~~l~RAr~~Lr~~~ 163 (293)
T PRK09636 99 VVAAEDLSLALMLALERLSPLERAAFLLHDVFGV----PFDEIASTLGRSPAACRQLASRARKHVRAAR 163 (293)
T ss_pred HHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHhhC
Confidence 3 34455677899999999999999999999998 9999999999999999999999999999864
|
|
| >PRK06704 RNA polymerase factor sigma-70; Validated | Back alignment and domain information |
|---|
Probab=99.49 E-value=4.2e-13 Score=148.62 Aligned_cols=159 Identities=15% Similarity=0.171 Sum_probs=125.3
Q ss_pred HHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHH
Q psy15215 386 DINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAI 465 (1432)
Q Consensus 386 ~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i 465 (1432)
.+++++..|+.. ++..+++.| +.|+++|.+++++..+++||+||.|+.+|+. |+.. ..|.+|++.+++|.+
T Consensus 7 ~~~~~~~~~~~~---~~~~l~~~y-~~L~r~~~~~~~d~~dAEDlvQE~flk~~~~---~~~~--~~~~~WL~~IarN~~ 77 (228)
T PRK06704 7 HILKNHIDMNHS---NINFLIEQY-GELKRYCTFLTKNKWDGEDLAQETVCKVLQK---YSNK--DICMTLVYKIARNRW 77 (228)
T ss_pred HHHhcccCCCHH---HHHHHHHHH-HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHH---cCcc--ccHHHHHHHHHHHHH
Confidence 345667778887 888888777 7899999999999999999999999999986 4432 359999999999999
Q ss_pred HHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCc
Q psy15215 466 TRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHL 545 (1432)
Q Consensus 466 ~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~ 545 (1432)
.+.+|++.+.-.+ .++ ...
T Consensus 78 id~~Rk~k~~~~~-----------------------------------------------------------~~~--~~~ 96 (228)
T PRK06704 78 LDQIKSKSVHEKI-----------------------------------------------------------RDQ--ITF 96 (228)
T ss_pred HHHHhcccccccc-----------------------------------------------------------ccc--ccc
Confidence 9999976541000 000 000
Q ss_pred CcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 546 GDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 546 ~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
.+|.... .+....+..+|++||+++|.|+.|+|..|+ |++|||+.+|+|.++|+++.+||+++|+
T Consensus 97 ---------~~~~~~~--~~~~~~l~~~L~~Lp~~~R~v~lL~~~eg~----S~~EIAe~LgiS~~tVksrL~Rark~Lr 161 (228)
T PRK06704 97 ---------EEPHEKI--ADLHEMVGKVLSSLNVQQSAILLLKDVFQY----SIADIAKVCSVSEGAVKASLFRSRNRLK 161 (228)
T ss_pred ---------CChHHHH--HHHHHHHHHHHHhCCHHHhhHhhhHHhhCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence 0111111 223467899999999999999999999888 9999999999999999999999999999
Q ss_pred HHHH
Q psy15215 626 PLAH 629 (1432)
Q Consensus 626 ~~l~ 629 (1432)
+.+.
T Consensus 162 ~~l~ 165 (228)
T PRK06704 162 TVSE 165 (228)
T ss_pred HHHH
Confidence 8764
|
|
| >PRK09635 sigI RNA polymerase sigma factor SigI; Provisional | Back alignment and domain information |
|---|
Probab=99.46 E-value=8.2e-13 Score=152.59 Aligned_cols=161 Identities=17% Similarity=0.156 Sum_probs=125.0
Q ss_pred HhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccc
Q psy15215 400 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIP 479 (1432)
Q Consensus 400 ~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip 479 (1432)
..+..+++.|.+.++++|++++++..+++|++||.|+.+|++...+ ..+|.+|++..++|.|.++++++.+. +.
T Consensus 5 ~~~~~l~~~~~~~L~~~a~r~lgs~~dAEDvvQE~flr~~~~~~~~----~~~~~aWL~~Ia~n~~id~lRk~~~r-r~- 78 (290)
T PRK09635 5 DPVSAAWRAHRAYLVDLAFRMVGDIGVAEDMVQEAFSRLLRAPVGD----IDDERGWLIVVTSRLCLDHIKSASTR-RE- 78 (290)
T ss_pred cHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCccc----cccHHHHHHHHHHHHHHHHHhhhhcc-Cc-
Confidence 3788999999999999999999999999999999999999987543 13699999999999999999976431 00
Q ss_pred hhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHH
Q psy15215 480 VHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 559 (1432)
Q Consensus 480 ~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~ 559 (1432)
.... ++.... .+... ...+|.+
T Consensus 79 -------------------------------------------------~~~~----~~~~~~---~~~~~--~~~~~~~ 100 (290)
T PRK09635 79 -------------------------------------------------RPQD----IAAWHD---GDASV--SSVDPAD 100 (290)
T ss_pred -------------------------------------------------Cccc----ccccCc---cccCC--CCCCcHH
Confidence 0000 000000 00000 1123443
Q ss_pred -HHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 560 -AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 560 -~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
.....+....+..+|.+|||++|.|+.|+|..|+ |++|||+.+|+|+.+|+++.+||+++|+...
T Consensus 101 ~~~~~~e~~~al~~~L~~L~p~~R~vf~L~~~~g~----s~~EIA~~Lgis~~tVr~~l~RAr~~Lr~~~ 166 (290)
T PRK09635 101 RVTLDDEVRLALLIMLERLGPAERVVFVLHEIFGL----PYQQIATTIGSQASTCRQLAHRARRKINESR 166 (290)
T ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHhhHHHHhCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHhhC
Confidence 3445566778999999999999999999999998 9999999999999999999999999998753
|
|
| >TIGR02957 SigX4 RNA polymerase sigma-70 factor, TIGR02957 family | Back alignment and domain information |
|---|
Probab=99.44 E-value=1.4e-12 Score=150.86 Aligned_cols=155 Identities=19% Similarity=0.170 Sum_probs=120.5
Q ss_pred HHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHH
Q psy15215 404 EMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 483 (1432)
Q Consensus 404 ~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~ 483 (1432)
+++..|.+.|+++|++++++..+++|++||+++.+++. +|.. ...|.+|++.+++|.|.++++++.+.-..
T Consensus 1 ~l~~~~~~~l~~~a~r~lg~~~dAEDvvQE~flk~~~~--~~~~--~~~~~awL~~Ia~n~~ld~lR~~~~~~~~----- 71 (281)
T TIGR02957 1 EEFEALRPLLFSLAYRMLGSVADAEDIVQETFLRWQEA--DRAQ--IENPKAYLTKVVTRRCIDVLRSARARREV----- 71 (281)
T ss_pred ChHHHHHHHHHHHHHHHhCCHhHHHHHHHHHHHHHHhC--Cccc--ccCHHHHHHHHHHHHHHHHHHHhhhcccc-----
Confidence 36899999999999999999999999999999998775 4543 34799999999999999999976531000
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHH
Q psy15215 484 ETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALN 563 (1432)
Q Consensus 484 ~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~ 563 (1432)
...+ .+.+.... ...+|++....
T Consensus 72 -------------------------------------------------~~~~-------~~~e~~~~-~~~~~~~~~~~ 94 (281)
T TIGR02957 72 -------------------------------------------------YVGP-------WLPEPLLT-TSADPAESVEL 94 (281)
T ss_pred -------------------------------------------------cCCC-------CCCcccCC-CCCChHHHHHH
Confidence 0000 00000000 01246555543
Q ss_pred H-HHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 564 A-SMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 564 ~-~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
. .+...+..+|++|||++|.||.|+|..|+ |++|||+.||+|..+|+++.+||+++|++..
T Consensus 95 ~e~~~~~l~~~l~~L~~~~R~v~~L~~~~g~----s~~EIA~~lg~s~~tVr~~l~RAr~~Lr~~~ 156 (281)
T TIGR02957 95 AESLSMAYLLLLERLSPLERAVFVLREVFDY----PYEEIASIVGKSEANCRQLVSRARRHLDARR 156 (281)
T ss_pred HHHHHHHHHHHHhhCCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHhhC
Confidence 3 45567889999999999999999999998 9999999999999999999999999999764
|
This group of sigma factors are members of the sigma-70 family (TIGR02937). They and appear by homology, tree building and bidirectional best hits, to represent a conserved family. This family is found in a limited number of bacterial lineages. This family includes apparent paralogous expansion in Streptomyces coelicolor A3(2), and multiple copies in Mycobacterium smegmatis MC2, Streptomyces avermitilis MA-4680 and Nocardia farcinica IFM10152. |
| >TIGR03209 P21_Cbot clostridium toxin-associated regulator BotR | Back alignment and domain information |
|---|
Probab=99.39 E-value=2.6e-12 Score=133.24 Aligned_cols=138 Identities=14% Similarity=0.171 Sum_probs=101.9
Q ss_pred HHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhcc---ccCCCcchhHHHHHHHHHHHHHHHHhcccccc
Q psy15215 1192 KREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFE---YRRGYKFSTYATWWIRQAITRSIADQARTIRI 1268 (1432)
Q Consensus 1192 ~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd---~~~g~~Fstya~~~ir~~i~~~i~~~~r~iri 1268 (1432)
|+.++..|.+.++.+|++|... +.+||+|+.+|+.+.+|+ .....+|.||++.+++|.+.+++|++.+..+.
T Consensus 1 f~~~~~~y~~~l~~~~~~~~~~-----~~~qdvf~~~w~~~~~~~~~~~~~~~~~~~wL~~iarN~~id~~Rk~~~~~~~ 75 (142)
T TIGR03209 1 FEEIYMNFKNTIDIFTRKYNLY-----YDYNDILYHLWIILKKIDLNKFNTENDLEKYISTSLKRYCLDICNKKNRDKKI 75 (142)
T ss_pred ChHHHHHHHHHHHHHHHHhcch-----hhHHHHHHHHHHHHHHhhhhhcCchhHHHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence 4679999999999999999662 235999999999987642 12234799999999999999999987641000
Q ss_pred cccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChH
Q psy15215 1269 PVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPS 1348 (1432)
Q Consensus 1269 p~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~ 1348 (1432)
. . +....+. ..++.
T Consensus 76 ~----------------------------------------------------~-~~~~~~~-------------~~~~~ 89 (142)
T TIGR03209 76 I----------------------------------------------------Y-NSEITDI-------------KLSLI 89 (142)
T ss_pred h----------------------------------------------------h-hhhhhcc-------------ccchh
Confidence 0 0 0000000 00122
Q ss_pred HHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHH
Q psy15215 1349 DAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIR 1404 (1432)
Q Consensus 1349 ~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vr 1404 (1432)
+.....+....+..+|+.|||++|.|+.|+|..|+ |++|||+.||+|.+||+
T Consensus 90 ~~~~~~~~~~~l~~~l~~Lp~~~r~v~~l~~~~~~----s~~EIA~~l~is~~tV~ 141 (142)
T TIGR03209 90 NVYSSNDLEFEFNDLISILPNKQKKIIYMKFFEDM----KEIDIAKKLHISRQSVY 141 (142)
T ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHhhc
Confidence 33334445567899999999999999999999999 99999999999999997
|
Similarly, tetanus toxin production of Clostridium tetani is regulated by TetR which is a very close relative of BotR. Both BotR and TetR are members of the TIGR02937 subfamily of sigma-70 RNA polymerase sigma factors. Functional complementation experiments have been done for botR and tetR in highly transformable strain of Clostridium perfringens host cells to assess functional interchangeability of sigma factors and it has been confirmed that they are interchangeable in vivo. |
| >PF03979 Sigma70_r1_1: Sigma-70 factor, region 1 | Back alignment and domain information |
|---|
Probab=99.33 E-value=9.4e-13 Score=121.63 Aligned_cols=63 Identities=44% Similarity=0.635 Sum_probs=42.6
Q ss_pred HHHHHHHHHHhccccCcccHHHHHhhCCCCCCCHHHHHHHHHHHhhCCCcccccCCchhhhhc
Q psy15215 39 LRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLML 101 (1432)
Q Consensus 39 ~~~~l~~Li~~Gke~G~lTy~EInd~LP~~~~~~d~id~ii~~L~~~gI~v~d~~~~~~~~~~ 101 (1432)
....|+.||.+||++|||||+|||++||+..++|++||+|+.+|.++||+|++..++.+.+.+
T Consensus 5 ~~~~i~~Li~~gK~~G~lT~~eI~~~L~~~~~~~e~id~i~~~L~~~gI~Vvd~~~~~~~~~~ 67 (82)
T PF03979_consen 5 YEEAIKKLIEKGKKKGYLTYDEINDALPEDDLDPEQIDEIYDTLEDEGIEVVDEEEDEEELAL 67 (82)
T ss_dssp HHHHHHHHHHHHHHHSS-BHHHHHHH-S-S---HHHHHHHHHHHHTT----B--S--S-SS--
T ss_pred hHHHHHHHHHHHhhcCcCCHHHHHHHcCccCCCHHHHHHHHHHHHHCCCEEecCCCchhhhcc
Confidence 467899999999999999999999999999999999999999999999999997766554433
|
1; InterPro: IPR007127 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. This entry represents Region 1.1 which modulates DNA binding by region 2 and 4 when sigma is unbound by the core RNA polymerase [, ]. Region 1.1 is also involved in promoter binding.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2K6X_A. |
| >TIGR03209 P21_Cbot clostridium toxin-associated regulator BotR | Back alignment and domain information |
|---|
Probab=99.31 E-value=1.5e-11 Score=127.43 Aligned_cols=138 Identities=14% Similarity=0.216 Sum_probs=101.9
Q ss_pred HHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhcc---ccCCCccHHHHHHHHHHHHHHHHHHhcccccc
Q psy15215 402 KREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFE---YRRGYKFSTYATWWIRQAITRSIADQARTIRI 478 (1432)
Q Consensus 402 ~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd---~~~g~~Fstya~~~ir~~i~~~i~~~~r~iri 478 (1432)
++.++..|.+.++.+|++|.. .++ +||.++.+|+.+.+|+ .+...+|.||++..++|.+.+++|++.+..+.
T Consensus 1 f~~~~~~y~~~l~~~~~~~~~----~~~-~qdvf~~~w~~~~~~~~~~~~~~~~~~~wL~~iarN~~id~~Rk~~~~~~~ 75 (142)
T TIGR03209 1 FEEIYMNFKNTIDIFTRKYNL----YYD-YNDILYHLWIILKKIDLNKFNTENDLEKYISTSLKRYCLDICNKKNRDKKI 75 (142)
T ss_pred ChHHHHHHHHHHHHHHHHhcc----hhh-HHHHHHHHHHHHHHhhhhhcCchhHHHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence 467999999999999999966 234 4999999999987643 22235799999999999999999977541000
Q ss_pred chhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChH
Q psy15215 479 PVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPS 558 (1432)
Q Consensus 479 p~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~ 558 (1432)
. . +....+. ..++.
T Consensus 76 --~--------------------------------------------------~-~~~~~~~-------------~~~~~ 89 (142)
T TIGR03209 76 --I--------------------------------------------------Y-NSEITDI-------------KLSLI 89 (142)
T ss_pred --h--------------------------------------------------h-hhhhhcc-------------ccchh
Confidence 0 0 0000000 00122
Q ss_pred HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHH
Q psy15215 559 DAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIR 614 (1432)
Q Consensus 559 ~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~ 614 (1432)
+.....+....+..+|+.|||++|.|+.|+|..|+ |++|||+.||+|+++|+
T Consensus 90 ~~~~~~~~~~~l~~~l~~Lp~~~r~v~~l~~~~~~----s~~EIA~~l~is~~tV~ 141 (142)
T TIGR03209 90 NVYSSNDLEFEFNDLISILPNKQKKIIYMKFFEDM----KEIDIAKKLHISRQSVY 141 (142)
T ss_pred HHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHhhc
Confidence 33334445567899999999999999999999999 99999999999999986
|
Similarly, tetanus toxin production of Clostridium tetani is regulated by TetR which is a very close relative of BotR. Both BotR and TetR are members of the TIGR02937 subfamily of sigma-70 RNA polymerase sigma factors. Functional complementation experiments have been done for botR and tetR in highly transformable strain of Clostridium perfringens host cells to assess functional interchangeability of sigma factors and it has been confirmed that they are interchangeable in vivo. |
| >PRK08311 putative RNA polymerase sigma factor SigI; Reviewed | Back alignment and domain information |
|---|
Probab=99.30 E-value=6.6e-11 Score=131.84 Aligned_cols=93 Identities=18% Similarity=0.327 Sum_probs=84.4
Q ss_pred hHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCC--ChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHH
Q psy15215 1173 DLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGL--QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 1250 (1432)
Q Consensus 1173 e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~--~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ 1250 (1432)
++..++.+++.|+.. |++.|+..|.|+|+++|.+++++.. ..+|++|+|++++|+++++|++.+|.+|.+|+.++
T Consensus 4 ~~~~Li~~~~~gD~~---AfeeLi~~Y~p~I~~~a~~~~~~~~~~eaeDlvQe~fi~l~eai~~y~~~kg~sF~awl~~I 80 (237)
T PRK08311 4 SLEDILEKIKNGDEE---LREELIEEYKPFIAKVVSSVCGRYIDWENDDELSIGLIAFNEAIDSYDEEKGKSFLSFAELV 80 (237)
T ss_pred cHHHHHHHHHCCCHH---HHHHHHHHHHHHHHHHHHHHhcccCCCCchHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHH
Confidence 466788899999988 9999999999999999999998865 59999999999999999999999887899999999
Q ss_pred HHHHHHHHHHHhcccccc
Q psy15215 1251 IRQAITRSIADQARTIRI 1268 (1432)
Q Consensus 1251 ir~~i~~~i~~~~r~iri 1268 (1432)
++|.+.+++|++.+...+
T Consensus 81 irn~~iDylRk~~~~~~~ 98 (237)
T PRK08311 81 IKRRLIDYFRKESKHNLV 98 (237)
T ss_pred HHHHHHHHHHHhhccccc
Confidence 999999999998764443
|
|
| >PRK09191 two-component response regulator; Provisional | Back alignment and domain information |
|---|
Probab=99.29 E-value=1.6e-11 Score=140.98 Aligned_cols=136 Identities=11% Similarity=0.063 Sum_probs=111.7
Q ss_pred hHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccc
Q psy15215 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 1270 (1432)
Q Consensus 1191 A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 1270 (1432)
++..++..|.+.|+++|.+++++...++|++||+|+.+|+...+|++. ..|.||++.++++...+ ...
T Consensus 2 ~~~~l~~~~~~~l~~~~~~~~~~~~~aeDi~qd~~~~~~~~~~~~~~~--~~~~~wl~~~~~~~~~~----~~~------ 69 (261)
T PRK09191 2 SLSQRIAPHLPYLRRYARALTGSQSSGDAYVAATLEALLADPSIFPEA--SSPRVGLYRLFHRLWSS----AGA------ 69 (261)
T ss_pred chHHHHHHHhHHHHHHHHHhcCChhhHHHHHHHHHHHHHHhHHhcCCC--cchhhHHHHHHHHHhcc----ccc------
Confidence 688999999999999999999999999999999999999999999864 36999999887653210 000
Q ss_pred cHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 1271 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 1350 (1432)
Q Consensus 1271 ~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~ 1350 (1432)
..+ .. ..+..
T Consensus 70 -----------------------------------------------------~~~--~~--------------~~~~~- 79 (261)
T PRK09191 70 -----------------------------------------------------NDP--EP--------------GSPFE- 79 (261)
T ss_pred -----------------------------------------------------cCC--CC--------------CCCch-
Confidence 000 00 00111
Q ss_pred HHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchh
Q psy15215 1351 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1351 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~ 1419 (1432)
..+..+|++||+++|.|+.|+|..|+ |++|||+.+|+|.++|+.+.++|+++||....
T Consensus 80 -------~~l~~~l~~L~~~~r~v~~l~~~~~~----s~~eIA~~l~~s~~tV~~~l~ra~~~l~~~~~ 137 (261)
T PRK09191 80 -------ARAERRLAGLTPLPRQAFLLTALEGF----SVEEAAEILGVDPAEAEALLDDARAEIARQVA 137 (261)
T ss_pred -------HHHHHHHHhCCHHHhHHHHHHHHhcC----CHHHHHHHHCCCHHHHHHHHHHHHHHHhccCC
Confidence 16888999999999999999999998 99999999999999999999999999997654
|
|
| >PF07638 Sigma70_ECF: ECF sigma factor | Back alignment and domain information |
|---|
Probab=99.25 E-value=1.3e-10 Score=125.77 Aligned_cols=176 Identities=15% Similarity=0.270 Sum_probs=126.7
Q ss_pred hHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCC---CCChh--HHHHHHHHHHHHHHHhccccCCCcchhHH
Q psy15215 1173 DLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDR---GLQFL--DLIQEGNIGLMKAVDKFEYRRGYKFSTYA 1247 (1432)
Q Consensus 1173 e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~---~~~~~--DLiQEg~igl~kav~kfd~~~g~~Fstya 1247 (1432)
++-.|+.++++||.. |.+.|+..|++.++.+|++++.+ +.+.+ +|++|+|+.+...-...++..-..|-.|+
T Consensus 3 ~it~ll~~~~~GD~~---A~~~L~~~~y~~L~~~a~~~l~~~~~~~~~~~~~lv~ea~lrl~~~~~~~~~~~~~~f~~~~ 79 (185)
T PF07638_consen 3 EITELLDRWRQGDEA---ALDQLFERYYPELRRLARRRLRRERRGHDLQDTALVHEAFLRLARRGRFVQFSDRRHFWALL 79 (185)
T ss_pred hHHHHHHHHHCCCHH---HHHHHHHHHHHHHHHHHHHHHhccccCCchhHHHHHHHHHHHHhccccccCCCCHHHHHHHH
Confidence 567899999999999 99999999999999999987643 23344 45778888777633322332223689999
Q ss_pred HHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCC
Q psy15215 1248 TWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPV 1327 (1432)
Q Consensus 1248 ~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~ 1327 (1432)
...+++.+.++.|++....|-+.. ...+|+...
T Consensus 80 ~~~~rr~lid~~R~~~a~KRg~~~-----------------------------------------------~~~~l~~~~ 112 (185)
T PF07638_consen 80 ARIMRRKLIDHARRRQAQKRGGDQ-----------------------------------------------VRVELDERA 112 (185)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCC-----------------------------------------------cccchhhhh
Confidence 999999999999887653221100 011222111
Q ss_pred CCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHH
Q psy15215 1328 GDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIE 1407 (1432)
Q Consensus 1328 ~~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~ 1407 (1432)
. +...++|...+ .+.+.+..+.. |+|++++++.++|+.|+ |.+|||+.+|||+.||+..+
T Consensus 113 ~------------~~~~~~~~~~~---~l~e~l~~L~~-l~~~~~~~v~l~~~~Gl----s~~EIA~~lgiS~~tV~r~l 172 (185)
T PF07638_consen 113 D------------SGDEPSPEELL---ELEEALERLLA-LDPRQRRVVELRFFEGL----SVEEIAERLGISERTVRRRL 172 (185)
T ss_pred c------------cccCCCHHHHH---HHHHHHHHHHc-cCHHHHHHHHHHHHCCC----CHHHHHHHHCcCHHHHHHHH
Confidence 0 01113455544 34556666555 99999999999999888 99999999999999999999
Q ss_pred HHHHHHhhCch
Q psy15215 1408 AKALRKLRHPS 1418 (1432)
Q Consensus 1408 ~rAl~kLr~~~ 1418 (1432)
..|..+|+..+
T Consensus 173 ~~aR~~l~~~l 183 (185)
T PF07638_consen 173 RRARAWLRREL 183 (185)
T ss_pred HHHHHHHHHHh
Confidence 99999998743
|
|
| >PRK08311 putative RNA polymerase sigma factor SigI; Reviewed | Back alignment and domain information |
|---|
Probab=99.20 E-value=4.1e-10 Score=125.55 Aligned_cols=92 Identities=18% Similarity=0.319 Sum_probs=84.1
Q ss_pred hHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCC--ChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHH
Q psy15215 383 DLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGL--QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460 (1432)
Q Consensus 383 e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~--~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ 460 (1432)
++..++..++.||.. |++.|+..|.|+|+++|.+++++.. ..+|++|+|++++|+++++|++.+|.+|.+|+.++
T Consensus 4 ~~~~Li~~~~~gD~~---AfeeLi~~Y~p~I~~~a~~~~~~~~~~eaeDlvQe~fi~l~eai~~y~~~kg~sF~awl~~I 80 (237)
T PRK08311 4 SLEDILEKIKNGDEE---LREELIEEYKPFIAKVVSSVCGRYIDWENDDELSIGLIAFNEAIDSYDEEKGKSFLSFAELV 80 (237)
T ss_pred cHHHHHHHHHCCCHH---HHHHHHHHHHHHHHHHHHHHhcccCCCCchHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHH
Confidence 466788899999998 9999999999999999999998865 58999999999999999999998888999999999
Q ss_pred HHHHHHHHHHHhccccc
Q psy15215 461 IRQAITRSIADQARTIR 477 (1432)
Q Consensus 461 ir~~i~~~i~~~~r~ir 477 (1432)
++|.+.+++|++.+...
T Consensus 81 irn~~iDylRk~~~~~~ 97 (237)
T PRK08311 81 IKRRLIDYFRKESKHNL 97 (237)
T ss_pred HHHHHHHHHHHhhcccc
Confidence 99999999998876433
|
|
| >PF07638 Sigma70_ECF: ECF sigma factor | Back alignment and domain information |
|---|
Probab=99.20 E-value=3.9e-10 Score=122.20 Aligned_cols=177 Identities=15% Similarity=0.264 Sum_probs=124.9
Q ss_pred hHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccC---CCChh--hHHHHHHHHHHHHHhhccccCCCccHHHH
Q psy15215 383 DLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDR---GLQFL--DLIQEGNIGLMKAVDKFEYRRGYKFSTYA 457 (1432)
Q Consensus 383 e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~---~~~~~--DLiQEg~igL~kav~~fd~~~g~~Fstya 457 (1432)
++-.|+.++++||.. |.+.|+..|++.++.+|++++.. +.+.+ +||+|.|+.+...-...++..-..|..|+
T Consensus 3 ~it~ll~~~~~GD~~---A~~~L~~~~y~~L~~~a~~~l~~~~~~~~~~~~~lv~ea~lrl~~~~~~~~~~~~~~f~~~~ 79 (185)
T PF07638_consen 3 EITELLDRWRQGDEA---ALDQLFERYYPELRRLARRRLRRERRGHDLQDTALVHEAFLRLARRGRFVQFSDRRHFWALL 79 (185)
T ss_pred hHHHHHHHHHCCCHH---HHHHHHHHHHHHHHHHHHHHHhccccCCchhHHHHHHHHHHHHhccccccCCCCHHHHHHHH
Confidence 567889999999999 99999999999999999987643 23344 45777777776633222332224689999
Q ss_pred HHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCC
Q psy15215 458 TWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPV 537 (1432)
Q Consensus 458 ~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~ 537 (1432)
...+++.+.+++|.+....|-+.. ...+++...
T Consensus 80 ~~~~rr~lid~~R~~~a~KRg~~~-----------------------------------------------~~~~l~~~~ 112 (185)
T PF07638_consen 80 ARIMRRKLIDHARRRQAQKRGGDQ-----------------------------------------------VRVELDERA 112 (185)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCCC-----------------------------------------------cccchhhhh
Confidence 999999999998877653221100 001111111
Q ss_pred CCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHH
Q psy15215 538 GDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIE 617 (1432)
Q Consensus 538 ~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~ 617 (1432)
.+ ...++|...+ ++.+.+..+.. |+|++++++.++|..|+ |.+|||+.+|+|+.+|++..
T Consensus 113 ~~------------~~~~~~~~~~---~l~e~l~~L~~-l~~~~~~~v~l~~~~Gl----s~~EIA~~lgiS~~tV~r~l 172 (185)
T PF07638_consen 113 DS------------GDEPSPEELL---ELEEALERLLA-LDPRQRRVVELRFFEGL----SVEEIAERLGISERTVRRRL 172 (185)
T ss_pred cc------------ccCCCHHHHH---HHHHHHHHHHc-cCHHHHHHHHHHHHCCC----CHHHHHHHHCcCHHHHHHHH
Confidence 00 0113455443 34555555555 99999999999999888 99999999999999999999
Q ss_pred HHHHHHHHHHHH
Q psy15215 618 AKALRKLRPLAH 629 (1432)
Q Consensus 618 ~rAl~kLr~~l~ 629 (1432)
+.|..+|+..++
T Consensus 173 ~~aR~~l~~~l~ 184 (185)
T PF07638_consen 173 RRARAWLRRELR 184 (185)
T ss_pred HHHHHHHHHHhc
Confidence 999888877653
|
|
| >PRK09191 two-component response regulator; Provisional | Back alignment and domain information |
|---|
Probab=99.15 E-value=1.8e-10 Score=132.30 Aligned_cols=135 Identities=12% Similarity=0.052 Sum_probs=110.3
Q ss_pred hHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccch
Q psy15215 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 480 (1432)
Q Consensus 401 A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 480 (1432)
++..++..|.+.|+++|.+++++...++|++||+|+.+|+...+|++. .+|.+|++.++++.... ...
T Consensus 2 ~~~~l~~~~~~~l~~~~~~~~~~~~~aeDi~qd~~~~~~~~~~~~~~~--~~~~~wl~~~~~~~~~~----~~~------ 69 (261)
T PRK09191 2 SLSQRIAPHLPYLRRYARALTGSQSSGDAYVAATLEALLADPSIFPEA--SSPRVGLYRLFHRLWSS----AGA------ 69 (261)
T ss_pred chHHHHHHHhHHHHHHHHHhcCChhhHHHHHHHHHHHHHHhHHhcCCC--cchhhHHHHHHHHHhcc----ccc------
Confidence 688999999999999999999999999999999999999999999863 46999999877653210 000
Q ss_pred hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 481 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 560 (1432)
Q Consensus 481 ~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~ 560 (1432)
.... . ..+..
T Consensus 70 ---------------------------------------------------------~~~~---------~---~~~~~- 79 (261)
T PRK09191 70 ---------------------------------------------------------NDPE---------P---GSPFE- 79 (261)
T ss_pred ---------------------------------------------------------cCCC---------C---CCCch-
Confidence 0000 0 01111
Q ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 561 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 561 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
..+..+|++||+++|.|+.|+|..|+ |++|||+.+|+|.++|+.+.++|+++|+..+
T Consensus 80 -------~~l~~~l~~L~~~~r~v~~l~~~~~~----s~~eIA~~l~~s~~tV~~~l~ra~~~l~~~~ 136 (261)
T PRK09191 80 -------ARAERRLAGLTPLPRQAFLLTALEGF----SVEEAAEILGVDPAEAEALLDDARAEIARQV 136 (261)
T ss_pred -------HHHHHHHHhCCHHHhHHHHHHHHhcC----CHHHHHHHHCCCHHHHHHHHHHHHHHHhccC
Confidence 16889999999999999999999999 9999999999999999999999999998554
|
|
| >PF04542 Sigma70_r2: Sigma-70 region 2 ; InterPro: IPR007627 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription | Back alignment and domain information |
|---|
Probab=99.02 E-value=5.9e-10 Score=100.57 Aligned_cols=70 Identities=27% Similarity=0.382 Sum_probs=67.4
Q ss_pred HHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcc
Q psy15215 1195 MTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 1264 (1432)
Q Consensus 1195 Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r 1264 (1432)
|++.|.++|+++|++|++++.+++|++||++++||+++++|++..+.+|++|++.++++.+.+.++++.|
T Consensus 1 L~~~~~~~l~~~~~~~~~~~~~~eD~~qe~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~r~~~r 70 (71)
T PF04542_consen 1 LYERYYPLLYRYARRYTGDPEDAEDLVQEAFIKLWRAIDSYDPDRGDSFRAWLFRIARNRILDYLRKRRR 70 (71)
T ss_dssp HHHHTHHHHHHHHHTCTTCSSHHHHHHHHHHHHHHHHHHHTSTTSSSHHHHHHHHHHHHHHHHHHHCSSS
T ss_pred CHHHHHHHHHHHHHHHhCCHhhHHHHhhHHHHHHHhhhhcccccccCCHHHHHHHHHHHHHHHHHHHhcC
Confidence 6899999999999999999999999999999999999999999999899999999999999999998775
|
Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 2 of sigma-70 is the most conserved region of the entire protein. All members of this class of sigma-factor contain region 2. The high conservation is due to region 2 containing both the -10 promoter recognition helix and the primary core RNA polymerase binding determinant. The core-binding helix, interacts with the clamp domain of the largest polymerase subunit, beta prime [, ]. The aromatic residues of the recognition helix, found at the C terminus of this domain are thought to mediate strand separation, thereby allowing transcription initiation [, ].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1OR7_B 1H3L_B 2Z2S_C 2Q1Z_C 2O7G_B 1SMY_F 1IW7_P 2BE5_F 2A6E_F 2CW0_F .... |
| >PF13155 Toprim_2: Toprim-like | Back alignment and domain information |
|---|
Probab=99.02 E-value=4.6e-10 Score=108.01 Aligned_cols=68 Identities=25% Similarity=0.309 Sum_probs=59.7
Q ss_pred EEEecchhHHHHhhhCC----------------------------CCCeEEEEecCcHHHHHHHHHHHHHhhhhcCCCce
Q psy15215 733 LITEGYMDVIGLSQFGF----------------------------FANSSYTCFDGDQAGRRAARRALEVCLLYATDDKI 784 (1432)
Q Consensus 733 ~~vEG~~D~ia~~~~g~----------------------------~~~~i~~~~D~D~aG~~a~~~~~~~~~~~~~~~~~ 784 (1432)
|||||++|+||++|.+. ..++|++|||||.||++|+.+....+...+.....
T Consensus 1 ~v~Eg~iDaLS~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~l~~~~~~~i~l~~DnD~aG~~~~~~~~~~l~~~~~~~~~ 80 (96)
T PF13155_consen 1 VVFEGPIDALSYYQLGKENIKDNSLSLAGGGTLSEKQQIKFLKENPYKKIVLAFDNDEAGRKAAEKLQKELKEEGFPNIK 80 (96)
T ss_pred cEEeCHHHHHHHHHhCchhcCCceEEEECCchHHHHHHHHHHHhCCCCcEEEEeCCCHHHHHHHHHHHHHHHhhCCCcce
Confidence 68999999999999876 23689999999999999999999988877755666
Q ss_pred EEEecCCCCCCHHHHH
Q psy15215 785 IKFLFLPDKYDPDSYI 800 (1432)
Q Consensus 785 ~~~~~lp~~~Dpde~~ 800 (1432)
+.+..+|++||++|+|
T Consensus 81 ~~~~~~~~~KD~Nd~L 96 (96)
T PF13155_consen 81 VRIEDPPDGKDWNDYL 96 (96)
T ss_pred eeecCCCCCcCchhhC
Confidence 8888899999999985
|
|
| >TIGR02760 TraI_TIGR conjugative transfer relaxase protein TraI | Back alignment and domain information |
|---|
Probab=99.02 E-value=7.9e-10 Score=154.92 Aligned_cols=164 Identities=13% Similarity=0.083 Sum_probs=121.8
Q ss_pred HHHHHHHHHHHHhhh-hhhhhH-hh-cC--CCcccccccccCCCCCchhhHHHHHHHHHHhhhccEEEEee-----eeee
Q psy15215 623 KLRPLAHDWLEQRTH-QNEKII-AC-SS--DSSNHNEHVTNNNFPPGFNIFHKLLRILQEYLESFLISFFL-----RNHG 692 (1432)
Q Consensus 623 kLr~~l~~~~~~~l~-~~~~~~-~l-~~--l~~~~~~~f~~Gyap~~~~~l~~~~~~~~~~~~~fri~fpi-----r~ig 692 (1432)
.+...++.+|..... .+..|. || +. |+. +..|.|||+|..|.. ....|+. ++|||| +++|
T Consensus 1667 ~~~~~A~rl~~~a~pi~gt~A~~YL~~~RGI~~--~~~~~LrfhP~~y~~------~~~~~~P--aliapv~D~~G~i~g 1736 (1960)
T TIGR02760 1667 QLEKRAKSLFQGSQELKGTLAEKYLKQHRGLAS--IDNDDIRFHPTVYSS------DKKNKHP--ALIAAARNEKGEITG 1736 (1960)
T ss_pred hHHHHHHHHHHhcCCCCCHHHHHHHHhcCCCCC--CCccceEECcccccC------CCCCcCC--eEEEEEECCCCCEEE
Confidence 344556677766542 244444 99 66 543 578999999987641 1123444 499999 6999
Q ss_pred eeeeeeCC---CCC----CCCCCCcccCccccCchHhHHhhccCCeEEEEecchhHHHHhhhCC----------------
Q psy15215 693 ISGFLLTT---PDP----VHETPLFHKSNELYGLFEAKNAIGKSGYVLITEGYMDVIGLSQFGF---------------- 749 (1432)
Q Consensus 693 f~gR~~~~---~~~----s~et~~f~K~~~Ly~~~~a~~~~~~~~~~~~vEG~~D~ia~~~~g~---------------- 749 (1432)
|.++.|++ +++ +|.+.+|+|+..+|+++.+. ..+.++|||||+|++|+++++.
T Consensus 1737 v~rt~L~p~~g~~~k~l~~~kr~~G~k~g~~v~l~~~~----~~~~liiaEGiEtaLS~~~a~~~~~~vvA~lg~~~l~~ 1812 (1960)
T TIGR02760 1737 IQITYLDKDDANKDKDMDNNKRVKGSISGQFVVINKGM----QGDRSYIAEGIETGLSIALANPKATVVIAVGGKNNLSP 1812 (1960)
T ss_pred EEEEEccCCCCCCCccCCCcccccccccCcEEEecCCC----CCCeEEEEcCHHHHHHHHHhCCCCccEEEECCcccccc
Confidence 99999983 223 89999999999999998653 3578999999999999999862
Q ss_pred -----CCCeEEEEecCc--HH-HHHHHHHHHHHhhhhcCCCceEEEecCCCCCCHHHHHHHhChhhhhh
Q psy15215 750 -----FANSSYTCFDGD--QA-GRRAARRALEVCLLYATDDKIIKFLFLPDKYDPDSYIRKFGYKIFSK 810 (1432)
Q Consensus 750 -----~~~~i~~~~D~D--~a-G~~a~~~~~~~~~~~~~~~~~~~~~~lp~~~Dpde~~~~~g~~~~~~ 810 (1432)
...+||+|+|+| .| |++|+.+++..+...|+. |.|+ +|+ |.+++ |.++|.+
T Consensus 1813 i~~~~~~~~viI~~D~D~~~a~G~~Aa~k~~~~l~~~G~~---v~i~-~P~--Dfnd~----g~~~~~~ 1871 (1960)
T TIGR02760 1813 IIPKFIPKNVVIVLDNDGEEAKSQRAIEKIINKFKQDNIS---ARIV-FPD--DWNDI----GEEELQK 1871 (1960)
T ss_pred ccCCCCCceEEEEeCCCCcccchHHHHHHHHHHHHhCCCe---eEEe-CCc--hhhhh----hHHHHHH
Confidence 358899999999 55 999999999999887766 7776 664 44333 6556554
|
This protein is a component of the relaxosome complex. In the process of conjugative plasmid transfer the realaxosome binds to the plasmid at the oriT (origin of transfer) site. The relaxase protein TraI mediates the single-strand nicking and ATP-dependent unwinding (relaxation, helicase activity) of the plasmid molecule. These two activities reside in separate domains of the protein. |
| >PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription | Back alignment and domain information |
|---|
Probab=98.99 E-value=7.2e-10 Score=92.59 Aligned_cols=50 Identities=40% Similarity=0.733 Sum_probs=46.0
Q ss_pred HHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhC
Q psy15215 1363 ILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 1416 (1432)
Q Consensus 1363 ~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~ 1416 (1432)
+|++|||+|+.||.++|+.++ |++|||+.||+|+++|+++..+|++|||+
T Consensus 1 Al~~L~~~er~vi~~~y~~~~----t~~eIa~~lg~s~~~V~~~~~~al~kLR~ 50 (50)
T PF04545_consen 1 ALDQLPPREREVIRLRYFEGL----TLEEIAERLGISRSTVRRILKRALKKLRK 50 (50)
T ss_dssp HHCTS-HHHHHHHHHHHTST-----SHHHHHHHHTSCHHHHHHHHHHHHHHHHH
T ss_pred ChhhCCHHHHHHHHHHhcCCC----CHHHHHHHHCCcHHHHHHHHHHHHHHhcC
Confidence 589999999999999998888 99999999999999999999999999984
|
Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A .... |
| >PF04539 Sigma70_r3: Sigma-70 region 3; InterPro: IPR007624 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription | Back alignment and domain information |
|---|
Probab=98.99 E-value=7.8e-10 Score=101.96 Aligned_cols=78 Identities=40% Similarity=0.751 Sum_probs=67.6
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHH
Q psy15215 1274 ETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAA 1351 (1432)
Q Consensus 1274 ~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~ 1351 (1432)
+.++++.++.+++.+++||+||++|||+.|||++++|+.++.....++||+.+++.+++..+++++.|....+|++.+
T Consensus 1 E~l~~i~~a~~~L~~~lgr~Pt~eEiA~~lgis~~~v~~~l~~~~~~~Sl~~~~~~~~~~~l~~~i~d~~~~~P~e~~ 78 (78)
T PF04539_consen 1 EKLRKIERARRELEQELGREPTDEEIAEELGISVEEVRELLQASRRPVSLDLPVGDEDDSTLGDFIEDDDAPSPEEEV 78 (78)
T ss_dssp HHHHHHHHHHHHHHHHHSS--BHHHHHHHHTS-HHHHHHHHHHHSCCEESSHCCSSSSSEEGGGSSB-SSS--HHHH-
T ss_pred ChHHHHHHHHHHHHHHhCCCCCHHHHHHHHcccHHHHHHHHHhCCCCeEEeeeecCCCCCchhheecCCCCCChhhcc
Confidence 468999999999999999999999999999999999999999999999999999999889999999999888998753
|
Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 3 forms a discrete compact three helical domain within the sigma-factor. Region is not normally involved in the recognition of promoter DNA, but in some specific bacterial promoters containing an extended -10 promoter element, residues within region 3 play an important role. Region 3 primarily is involved in binding the core RNA polymerase in the holoenzyme [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1L0O_C 1KU2_B 1RP3_C 1SC5_A 1TTY_A 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P .... |
| >PF04542 Sigma70_r2: Sigma-70 region 2 ; InterPro: IPR007627 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription | Back alignment and domain information |
|---|
Probab=98.98 E-value=9.5e-10 Score=99.23 Aligned_cols=70 Identities=27% Similarity=0.382 Sum_probs=67.3
Q ss_pred HHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhcc
Q psy15215 405 MTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 474 (1432)
Q Consensus 405 li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r 474 (1432)
|++.|.++|+++|.+|++++.+.+|++||++++||+++++|++..+.+|++|++.++++.+.+.++++.|
T Consensus 1 L~~~~~~~l~~~~~~~~~~~~~~eD~~qe~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~r~~~r 70 (71)
T PF04542_consen 1 LYERYYPLLYRYARRYTGDPEDAEDLVQEAFIKLWRAIDSYDPDRGDSFRAWLFRIARNRILDYLRKRRR 70 (71)
T ss_dssp HHHHTHHHHHHHHHTCTTCSSHHHHHHHHHHHHHHHHHHHTSTTSSSHHHHHHHHHHHHHHHHHHHCSSS
T ss_pred CHHHHHHHHHHHHHHHhCCHhhHHHHhhHHHHHHHhhhhcccccccCCHHHHHHHHHHHHHHHHHHHhcC
Confidence 6899999999999999999999999999999999999999999998899999999999999999998875
|
Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 2 of sigma-70 is the most conserved region of the entire protein. All members of this class of sigma-factor contain region 2. The high conservation is due to region 2 containing both the -10 promoter recognition helix and the primary core RNA polymerase binding determinant. The core-binding helix, interacts with the clamp domain of the largest polymerase subunit, beta prime [, ]. The aromatic residues of the recognition helix, found at the C terminus of this domain are thought to mediate strand separation, thereby allowing transcription initiation [, ].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1OR7_B 1H3L_B 2Z2S_C 2Q1Z_C 2O7G_B 1SMY_F 1IW7_P 2BE5_F 2A6E_F 2CW0_F .... |
| >PF04539 Sigma70_r3: Sigma-70 region 3; InterPro: IPR007624 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription | Back alignment and domain information |
|---|
Probab=98.97 E-value=1.1e-09 Score=101.08 Aligned_cols=78 Identities=40% Similarity=0.751 Sum_probs=67.3
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHH
Q psy15215 484 ETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAA 561 (1432)
Q Consensus 484 ~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~ 561 (1432)
+.++++.++.++|.+++||+||.+|||+.|||++++|+.++..+..++||+.+++.+++.+++++++|....+|++.+
T Consensus 1 E~l~~i~~a~~~L~~~lgr~Pt~eEiA~~lgis~~~v~~~l~~~~~~~Sl~~~~~~~~~~~l~~~i~d~~~~~P~e~~ 78 (78)
T PF04539_consen 1 EKLRKIERARRELEQELGREPTDEEIAEELGISVEEVRELLQASRRPVSLDLPVGDEDDSTLGDFIEDDDAPSPEEEV 78 (78)
T ss_dssp HHHHHHHHHHHHHHHHHSS--BHHHHHHHHTS-HHHHHHHHHHHSCCEESSHCCSSSSSEEGGGSSB-SSS--HHHH-
T ss_pred ChHHHHHHHHHHHHHHhCCCCCHHHHHHHHcccHHHHHHHHHhCCCCeEEeeeecCCCCCchhheecCCCCCChhhcc
Confidence 468999999999999999999999999999999999999999999999999999998888999999999888998753
|
Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 3 forms a discrete compact three helical domain within the sigma-factor. Region is not normally involved in the recognition of promoter DNA, but in some specific bacterial promoters containing an extended -10 promoter element, residues within region 3 play an important role. Region 3 primarily is involved in binding the core RNA polymerase in the holoenzyme [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1L0O_C 1KU2_B 1RP3_C 1SC5_A 1TTY_A 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P .... |
| >PF03979 Sigma70_r1_1: Sigma-70 factor, region 1 | Back alignment and domain information |
|---|
Probab=98.95 E-value=5.9e-10 Score=103.09 Aligned_cols=64 Identities=44% Similarity=0.629 Sum_probs=42.7
Q ss_pred HHHHHHHHHHHhccccCccchHHHhhhCCCCCCCHHHHHHHHHHHHhcCccccccccchhhhhc
Q psy15215 828 NLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLML 891 (1432)
Q Consensus 828 ~~~~~~~~Li~~gk~~g~lT~~ei~~~lp~~~~~~e~ie~i~~~l~~~gI~v~e~~~~~e~~~~ 891 (1432)
.....++.|+..||++|||||++||++||+..+++++++.++..|.+.||+|++..++.+.+.+
T Consensus 4 ~~~~~i~~Li~~gK~~G~lT~~eI~~~L~~~~~~~e~id~i~~~L~~~gI~Vvd~~~~~~~~~~ 67 (82)
T PF03979_consen 4 QYEEAIKKLIEKGKKKGYLTYDEINDALPEDDLDPEQIDEIYDTLEDEGIEVVDEEEDEEELAL 67 (82)
T ss_dssp HHHHHHHHHHHHHHHHSS-BHHHHHHH-S-S---HHHHHHHHHHHHTT----B--S--S-SS--
T ss_pred hhHHHHHHHHHHHhhcCcCCHHHHHHHcCccCCCHHHHHHHHHHHHHCCCEEecCCCchhhhcc
Confidence 3466789999999999999999999999999999999999999999999999997766654433
|
1; InterPro: IPR007127 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. This entry represents Region 1.1 which modulates DNA binding by region 2 and 4 when sigma is unbound by the core RNA polymerase [, ]. Region 1.1 is also involved in promoter binding.; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2K6X_A. |
| >PRK04031 DNA primase; Provisional | Back alignment and domain information |
|---|
Probab=98.93 E-value=1.2e-09 Score=125.76 Aligned_cols=85 Identities=22% Similarity=0.314 Sum_probs=69.7
Q ss_pred hHhHHhhccCCeEEEEecchhHHHHhhhCC-------------------CCCeEEEEecCcHHHHHHHHHHHHHhhhhcC
Q psy15215 720 FEAKNAIGKSGYVLITEGYMDVIGLSQFGF-------------------FANSSYTCFDGDQAGRRAARRALEVCLLYAT 780 (1432)
Q Consensus 720 ~~a~~~~~~~~~~~~vEG~~D~ia~~~~g~-------------------~~~~i~~~~D~D~aG~~a~~~~~~~~~~~~~ 780 (1432)
-.|.+.+++.+.+||||||+||++|+++|+ ...+|++|||||.||..+..+..+ .+.
T Consensus 160 L~Agp~i~k~~~iIVVEG~~DVi~L~~aGi~nvVAt~GT~l~~~i~~l~k~~~Vil~~DgD~aGe~I~k~l~~----v~~ 235 (408)
T PRK04031 160 LPAGPNVDDSDAIIVVEGRADVLNLLRYGIKNAIAVEGTNVPETIIELSKKKTVTAFLDGDRGGELILKELLQ----VAD 235 (408)
T ss_pred cccCcccccCCeEEEEeCHHHHHHHHhcccceEEEeCCcccHHHHHHHhcCCCEEEEECCCHHHHHHHHHHHh----hcc
Confidence 367788888999999999999999999999 578999999999999888665544 222
Q ss_pred CCceEEEecCCCCCCHHHHHHHhChhhhhhc
Q psy15215 781 DDKIIKFLFLPDKYDPDSYIRKFGYKIFSKK 811 (1432)
Q Consensus 781 ~~~~~~~~~lp~~~Dpde~~~~~g~~~~~~~ 811 (1432)
..+|+.+|+|+||+++-.+.-..++.++
T Consensus 236 ---~d~VaraP~G~dVE~ls~eeI~kAL~~~ 263 (408)
T PRK04031 236 ---IDYVARAPPGKEVEELTKKEIAKALRNK 263 (408)
T ss_pred ---eeEEecCCCCCChhhCCHHHHHHHHHhc
Confidence 4778899999999999766666666554
|
|
| >PHA02415 DNA primase domain-containing protein | Back alignment and domain information |
|---|
Probab=98.88 E-value=5.2e-09 Score=127.66 Aligned_cols=172 Identities=12% Similarity=0.084 Sum_probs=107.1
Q ss_pred hhhhhH-hhcC--CCcccccc-cccCCCC-CchhhHHHHHHHHHHhhhcc-EEEEee----eeeeeeeeeeCCCCCCCCC
Q psy15215 638 QNEKII-ACSS--DSSNHNEH-VTNNNFP-PGFNIFHKLLRILQEYLESF-LISFFL----RNHGISGFLLTTPDPVHET 707 (1432)
Q Consensus 638 ~~~~~~-~l~~--l~~~~~~~-f~~Gyap-~~~~~l~~~~~~~~~~~~~f-ri~fpi----r~igf~gR~~~~~~~s~et 707 (1432)
.+..+. ||+. ||+++|.. |+.|=.- +.|..-.-..+.. .+.... -++||- .++.-.-|.+...-+....
T Consensus 120 d~rrA~AYLK~RGIS~EVI~~cIk~GlIg~~~W~s~rv~agd~-gygg~nAAFIVpf~rdGtvv~v~~Rg~d~afkG~vK 198 (930)
T PHA02415 120 ERERVREYLGGRGISAAAIDAAFAARSLGFNTWTSSKVAAGEV-GHAGPAAAFIVREPADGRVVAVDMRYVDPALNGGVK 198 (930)
T ss_pred chHHHHHHHHhcCCCHHHHHHHHHcCccccccccccccccccc-ccCCCceEEEecccCCceEEEeeeccccccccCCcc
Confidence 466677 9977 99999996 7776331 1221111010000 110110 135665 4666665654321111111
Q ss_pred CCcccCccccCchHhHHhhccCCeEEEEecchhHHHHhhhCC----------------------CCCeEEEEecCcHH--
Q psy15215 708 PLFHKSNELYGLFEAKNAIGKSGYVLITEGYMDVIGLSQFGF----------------------FANSSYTCFDGDQA-- 763 (1432)
Q Consensus 708 ~~f~K~~~Ly~~~~a~~~~~~~~~~~~vEG~~D~ia~~~~g~----------------------~~~~i~~~~D~D~a-- 763 (1432)
.=|.-+...|++..-.......+.|+||||.||+||++++|+ ..++|++|+|||.|
T Consensus 199 anf~Gs~~G~gW~~p~~~L~~a~eVwIvEGiIDAISL~q~Gi~avAaVAL~GLan~~~iD~~~l~~KrVvlcLDNDea~~ 278 (930)
T PHA02415 199 TQTQGDKAGYGWTADARRLDKAKRVFIVESAINALSIDTCAMPGAAALALRGLANVDAIDFSSLRGKQVVICLDNDEPFE 278 (930)
T ss_pred ccCCCCCCCCccCCCccccCCCCEEEEEechHhHHHHHHcCchhHHHHHHcCcCCCchhhchhhcCceEEEEecCCcccc
Confidence 122223344555432222445678999999999999999998 25699999999998
Q ss_pred ----------HHHHHHHHHHHhhhhcCCCceEEEecCCC-------CC----CHHHHHHHhChhhhhh
Q psy15215 764 ----------GRRAARRALEVCLLYATDDKIIKFLFLPD-------KY----DPDSYIRKFGYKIFSK 810 (1432)
Q Consensus 764 ----------G~~a~~~~~~~~~~~~~~~~~~~~~~lp~-------~~----Dpde~~~~~g~~~~~~ 810 (1432)
|++||.+..+.+...++..+-|.-...-. |. |.+||++.+|++.+..
T Consensus 279 ~~~~~~g~rpG~eAA~~l~e~lta~~i~~~lvd~~~w~~~~~~~~~~~~~~~d~nd~l~~~g~~~~~~ 346 (930)
T PHA02415 279 DGHPRAGHRPGPEAAWALYERLASLNISAVLVDQAGWLADLADGETKQQPINDVNDYLQLRGPEELAR 346 (930)
T ss_pred ccCcccccCccHHHHHHHHHHHhhcCCceEEeehhhhhhhcccccccccccccHHHHHHHhCHHHHHH
Confidence 99999999999998888744333222222 44 9999999999998765
|
|
| >PF00140 Sigma70_r1_2: Sigma-70 factor, region 1 | Back alignment and domain information |
|---|
Probab=98.85 E-value=9.2e-10 Score=84.76 Aligned_cols=35 Identities=40% Similarity=0.785 Sum_probs=31.9
Q ss_pred CChHHHHHHhcCCccCCCchHHHHHHHHHHHHHHH
Q psy15215 129 KDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKD 163 (1432)
Q Consensus 129 ~DPVRmYLREMG~V~LLTREgEIeIAKRIE~G~~~ 163 (1432)
+|||++||++||++||||+++|+++|++|+.|-..
T Consensus 1 ~D~l~~Yl~ei~~~~LLt~eeE~~LA~~i~~g~~~ 35 (37)
T PF00140_consen 1 SDSLRLYLKEIGRYPLLTAEEEIELARRIRKGDEA 35 (37)
T ss_dssp HHHHHHHHHHHHHS-EETTHHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHcCCCCCCHHHHHHHHHHHHHhHHh
Confidence 48999999999999999999999999999999753
|
2; InterPro: IPR009042 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. ; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1SMY_F 1IW7_P 1SIG_A 3IYD_F 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P 3DXJ_P .... |
| >PF00140 Sigma70_r1_2: Sigma-70 factor, region 1 | Back alignment and domain information |
|---|
Probab=98.83 E-value=9.2e-10 Score=84.76 Aligned_cols=35 Identities=40% Similarity=0.785 Sum_probs=31.9
Q ss_pred CChHHHHHHccCCccCCCchHHHHHHHHHHHhHHH
Q psy15215 919 KDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKD 953 (1432)
Q Consensus 919 ~DPVRmYLREMG~v~LLTREgEIeIAKRIE~G~~~ 953 (1432)
+|||++||++||++||||+++|+++|++|+.|-..
T Consensus 1 ~D~l~~Yl~ei~~~~LLt~eeE~~LA~~i~~g~~~ 35 (37)
T PF00140_consen 1 SDSLRLYLKEIGRYPLLTAEEEIELARRIRKGDEA 35 (37)
T ss_dssp HHHHHHHHHHHHHS-EETTHHHHHHHHHHHHHHHH
T ss_pred CcHHHHHHHHHcCCCCCCHHHHHHHHHHHHHhHHh
Confidence 48999999999999999999999999999999753
|
2; InterPro: IPR009042 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. ; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1SMY_F 1IW7_P 1SIG_A 3IYD_F 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P 3DXJ_P .... |
| >cd03364 TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG | Back alignment and domain information |
|---|
Probab=98.80 E-value=1.1e-08 Score=94.46 Aligned_cols=57 Identities=46% Similarity=0.713 Sum_probs=50.0
Q ss_pred CeEEEEecchhHHHHhhhCC---------------------CCCeEEEEecCcHHHHHHHHHHHHHhhhhcCCCceEEEe
Q psy15215 730 GYVLITEGYMDVIGLSQFGF---------------------FANSSYTCFDGDQAGRRAARRALEVCLLYATDDKIIKFL 788 (1432)
Q Consensus 730 ~~~~~vEG~~D~ia~~~~g~---------------------~~~~i~~~~D~D~aG~~a~~~~~~~~~~~~~~~~~~~~~ 788 (1432)
+.++||||++|++++++.|+ +..+|++|||||.||++|+.+....+.+.|.. ++++
T Consensus 1 ~~v~i~EG~~D~ls~~~~g~~~~va~~G~~~~~~~~~~L~~~~~~vii~~D~D~aG~~a~~~~~~~l~~~g~~---~~~~ 77 (79)
T cd03364 1 KKVILVEGYMDVIALHQAGIKNVVASLGTALTEEQAELLKRLAKEVILAFDGDEAGQKAALRALELLLKLGLN---VRVL 77 (79)
T ss_pred CeEEEEeCHHHHHHHHHcCCCCEEECCCccCcHHHHHHHHhcCCeEEEEECCCHHHHHHHHHHHHHHHHCCCe---EEEE
Confidence 46899999999999999987 24899999999999999999999999988765 7665
Q ss_pred c
Q psy15215 789 F 789 (1432)
Q Consensus 789 ~ 789 (1432)
.
T Consensus 78 ~ 78 (79)
T cd03364 78 T 78 (79)
T ss_pred e
Confidence 4
|
Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. E. coli DnaG is a single subunit enzyme. |
| >PF04545 Sigma70_r4: Sigma-70, region 4; InterPro: IPR007630 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription | Back alignment and domain information |
|---|
Probab=98.79 E-value=1e-08 Score=85.58 Aligned_cols=50 Identities=40% Similarity=0.725 Sum_probs=46.0
Q ss_pred HHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 573 ILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 573 ~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
||++|||+|+.||.++|+.++ |++|||+.+|+|.++|+++.++|+.+||+
T Consensus 1 Al~~L~~~er~vi~~~y~~~~----t~~eIa~~lg~s~~~V~~~~~~al~kLR~ 50 (50)
T PF04545_consen 1 ALDQLPPREREVIRLRYFEGL----TLEEIAERLGISRSTVRRILKRALKKLRK 50 (50)
T ss_dssp HHCTS-HHHHHHHHHHHTST-----SHHHHHHHHTSCHHHHHHHHHHHHHHHHH
T ss_pred ChhhCCHHHHHHHHHHhcCCC----CHHHHHHHHCCcHHHHHHHHHHHHHHhcC
Confidence 689999999999999998888 99999999999999999999999999985
|
Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors is involved in binding to the -35 promoter element via a helix-turn-helix motif []. Due to the way Pfam works, the threshold has been set artificially high to prevent overlaps with other helix-turn-helix families. Therefore there are many false negatives.; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2P7V_B 3IYD_F 1TLH_B 1KU7_A 1RIO_H 3N97_A 1KU3_A 1RP3_C 1SC5_A 1NR3_A .... |
| >PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A | Back alignment and domain information |
|---|
Probab=98.72 E-value=1.4e-08 Score=94.30 Aligned_cols=52 Identities=33% Similarity=0.470 Sum_probs=41.2
Q ss_pred CeEEEEecchhHHHHhhhCC----------------------C--CCeEEEEecCcHHHHHHHHHHHHHhhhhcCC
Q psy15215 730 GYVLITEGYMDVIGLSQFGF----------------------F--ANSSYTCFDGDQAGRRAARRALEVCLLYATD 781 (1432)
Q Consensus 730 ~~~~~vEG~~D~ia~~~~g~----------------------~--~~~i~~~~D~D~aG~~a~~~~~~~~~~~~~~ 781 (1432)
+.+|||||++||++++++|+ . ..+||+|||+|.||++++.+..+.|...|+.
T Consensus 1 k~viIvEG~~D~~~l~~~g~~~~v~~~g~~~~~~~~~~~~~~~~~~~~Vii~~D~D~~G~~~a~~i~~~l~~~gi~ 76 (81)
T PF13662_consen 1 KEVIIVEGEFDAIALEQAGYKNVVAVLGGNLSPLDQILREKLEKKVKEVIIAFDNDKAGEKAAQKIAKKLLPLGIR 76 (81)
T ss_dssp --EEEESSHHHHHHHHHTT-TTEEEESSSS---HHHHHHHHHH---SEEEEEEESSHHHHHHHHHHHHHHG-----
T ss_pred CEEEEECCHHHHHHHHHhCCCeEEEECCCCCChHHHhChHhhhccCceEEEEeCcCHHHHHHHHHHHHHHHhhccc
Confidence 46899999999999999999 2 4899999999999999999999988877765
|
|
| >PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription | Back alignment and domain information |
|---|
Probab=98.67 E-value=5.6e-08 Score=82.67 Aligned_cols=54 Identities=19% Similarity=0.400 Sum_probs=46.5
Q ss_pred HHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHh
Q psy15215 1357 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKL 1414 (1432)
Q Consensus 1357 ~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kL 1414 (1432)
++.|.++|+.|||++|.|+.++|+.|+ |+.|||+.+|+|.++|++++++|+++|
T Consensus 1 r~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~eIa~~l~~s~~~v~~~l~ra~~~L 54 (54)
T PF08281_consen 1 REALQQALAQLPERQREIFLLRYFQGM----SYAEIAEILGISESTVKRRLRRARKKL 54 (54)
T ss_dssp HHHHHHHHHCS-HHHHHHHHHHHTS-------HHHHHHHCTS-HHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHCc----CHHHHHHHHCcCHHHHHHHHHHHHhhC
Confidence 357889999999999999999999999 999999999999999999999999987
|
Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B. |
| >PF13362 Toprim_3: Toprim domain | Back alignment and domain information |
|---|
Probab=98.50 E-value=3e-07 Score=88.37 Aligned_cols=73 Identities=21% Similarity=0.233 Sum_probs=62.6
Q ss_pred eEEEEecchhHHHH-hhhCC-------------------CCCeEEEEecCcHH--HHHHHHHHHHHhhhhcCCCceEEEe
Q psy15215 731 YVLITEGYMDVIGL-SQFGF-------------------FANSSYTCFDGDQA--GRRAARRALEVCLLYATDDKIIKFL 788 (1432)
Q Consensus 731 ~~~~vEG~~D~ia~-~~~g~-------------------~~~~i~~~~D~D~a--G~~a~~~~~~~~~~~~~~~~~~~~~ 788 (1432)
.++||||+.|++|+ ++.+- ...+|+++.|+|.+ |++++.++...+...|.. +.++
T Consensus 1 tl~i~EG~etals~~~~~~~~~~~a~~~~~nl~~~~~~~~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~g~~---~~~~ 77 (96)
T PF13362_consen 1 TLIIAEGIETALSIAQQATGVPVVAALGAGNLKNVAIPEPGRRVIIAADNDKANEGQKAAEKAAERLEAAGIA---VSIV 77 (96)
T ss_pred CEEEEEhHHHHHHHHHhcCCCeEEEEEChhhhhhhcCCCCCCeEEEEECCCCchhhHHHHHHHHHHHHhCCCe---EEEE
Confidence 37999999999999 44322 56789999999999 999999999999887776 7777
Q ss_pred cC-CCCCCHHHHHHHhChh
Q psy15215 789 FL-PDKYDPDSYIRKFGYK 806 (1432)
Q Consensus 789 ~l-p~~~Dpde~~~~~g~~ 806 (1432)
.. |.|+|.+|+++.+|++
T Consensus 78 ~p~~~g~D~ND~l~~~G~e 96 (96)
T PF13362_consen 78 EPGPEGKDWNDLLQARGKE 96 (96)
T ss_pred CCCCCCchHHHHHHhhCCC
Confidence 77 6789999999999974
|
|
| >PF08281 Sigma70_r4_2: Sigma-70, region 4; InterPro: IPR013249 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription | Back alignment and domain information |
|---|
Probab=98.47 E-value=3.9e-07 Score=77.51 Aligned_cols=54 Identities=19% Similarity=0.400 Sum_probs=46.2
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHH
Q psy15215 567 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKL 624 (1432)
Q Consensus 567 ~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kL 624 (1432)
++.|.++|++|||+++.|+.++|..|+ |+.|||+.+|+|+++|+++.++|+++|
T Consensus 1 r~~l~~~l~~L~~~~r~i~~l~~~~g~----s~~eIa~~l~~s~~~v~~~l~ra~~~L 54 (54)
T PF08281_consen 1 REALQQALAQLPERQREIFLLRYFQGM----SYAEIAEILGISESTVKRRLRRARKKL 54 (54)
T ss_dssp HHHHHHHHHCS-HHHHHHHHHHHTS-------HHHHHHHCTS-HHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHCc----CHHHHHHHHCcCHHHHHHHHHHHHhhC
Confidence 357889999999999999999999999 999999999999999999999999886
|
Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 4 of sigma-70 like sigma-factors are involved in binding to the -35 promoter element via a helix-turn-helix motif [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 2LFW_A 1OR7_B 2H27_D 2O8X_B. |
| >cd01027 TOPRIM_RNase_M5_like TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea | Back alignment and domain information |
|---|
Probab=98.42 E-value=3.8e-07 Score=83.98 Aligned_cols=48 Identities=25% Similarity=0.290 Sum_probs=43.6
Q ss_pred CeEEEEecchhHHHHhhhCC----------------------CCCeEEEEecCcHHHHHHHHHHHHHhhh
Q psy15215 730 GYVLITEGYMDVIGLSQFGF----------------------FANSSYTCFDGDQAGRRAARRALEVCLL 777 (1432)
Q Consensus 730 ~~~~~vEG~~D~ia~~~~g~----------------------~~~~i~~~~D~D~aG~~a~~~~~~~~~~ 777 (1432)
+.+|||||++|+++++++|+ ....||+++|+|.||.+++.+..+.+..
T Consensus 2 ~~vIiVEG~~D~~~l~~~g~~~~~i~t~Gt~~~~~~~~~l~~~~~~VIiltD~D~aG~~i~~~~~~~l~~ 71 (81)
T cd01027 2 GEVIIVEGKNDTESLKKLGIEAEIIETNGSIINKETIELIKKAYRGVIILTDPDRKGEKIRKKLSEYLSG 71 (81)
T ss_pred CeEEEEEchHHHHHHHHhCCCccEEEECCCcCCHHHHHHHHHhCCEEEEEECCCHHHHHHHHHHHHHhcc
Confidence 56899999999999999998 3588999999999999999999997754
|
RNase M5 catalyzes the maturation of 5S rRNA in low G+C Gram-positive bacteria. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. |
| >cd01029 TOPRIM_primases TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs | Back alignment and domain information |
|---|
Probab=98.40 E-value=6.5e-07 Score=82.73 Aligned_cols=52 Identities=46% Similarity=0.677 Sum_probs=45.8
Q ss_pred CeEEEEecchhHHHHhhhCC--------------------C-CCeEEEEecCcHHHHHHHHHHHHHhhhhcCC
Q psy15215 730 GYVLITEGYMDVIGLSQFGF--------------------F-ANSSYTCFDGDQAGRRAARRALEVCLLYATD 781 (1432)
Q Consensus 730 ~~~~~vEG~~D~ia~~~~g~--------------------~-~~~i~~~~D~D~aG~~a~~~~~~~~~~~~~~ 781 (1432)
+.++||||++|++++++.|+ . ..+|++|+|||.||++++.++.+.+...+..
T Consensus 1 ~~v~i~EG~~Dals~~~~~~~~~~~~~g~~~~~~~~~~l~~~~~~vii~~D~D~~G~~~~~~~~~~~~~~~~~ 73 (79)
T cd01029 1 DEVIIVEGYMDVLALHQAGIKNVVAALGTANTEEQLRLLKRFARTVILAFDNDEAGKKAAARALELLLALGGR 73 (79)
T ss_pred CEEEEEeCHHHHHHHHHcCCCCEEECCCccCcHHHHHHHHhcCCEEEEEECCCHHHHHHHHHHHHHHHHCCCE
Confidence 36899999999999999997 2 3899999999999999999999988876543
|
Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. The prototypical bacterial primase. Escherichia coli DnaG is a single subunit enzyme. |
| >PRK06930 positive control sigma-like factor; Validated | Back alignment and domain information |
|---|
Probab=98.26 E-value=2.4e-06 Score=90.51 Aligned_cols=71 Identities=17% Similarity=0.310 Sum_probs=62.2
Q ss_pred hHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhh
Q psy15215 1347 PSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYY 1421 (1432)
Q Consensus 1347 p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~ 1421 (1432)
|.+..........+..+++.|||+++.||.|+|+.|+ |++|||+.||+|.++|++++++|+++|+......
T Consensus 95 ~~~~~~~~e~~~~l~~al~~L~~rer~V~~L~~~eg~----s~~EIA~~lgiS~~tVk~~l~Ra~~kLr~~l~~~ 165 (170)
T PRK06930 95 EPESVISEWDKIRIEDALSVLTEREKEVYLMHRGYGL----SYSEIADYLNIKKSTVQSMIERAEKKIARQINES 165 (170)
T ss_pred ChhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHh
Confidence 3344455566788999999999999999999999888 9999999999999999999999999999866543
|
|
| >PRK06930 positive control sigma-like factor; Validated | Back alignment and domain information |
|---|
Probab=98.11 E-value=1e-05 Score=85.85 Aligned_cols=70 Identities=17% Similarity=0.344 Sum_probs=62.2
Q ss_pred hHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 557 PSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 557 p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
|.+..........+..+++.|||+++.||.|+|+.|+ |++|||+.||+|+++|+.+.++|+++|+..+..
T Consensus 95 ~~~~~~~~e~~~~l~~al~~L~~rer~V~~L~~~eg~----s~~EIA~~lgiS~~tVk~~l~Ra~~kLr~~l~~ 164 (170)
T PRK06930 95 EPESVISEWDKIRIEDALSVLTEREKEVYLMHRGYGL----SYSEIADYLNIKKSTVQSMIERAEKKIARQINE 164 (170)
T ss_pred ChhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455566788999999999999999999999888 999999999999999999999999999988764
|
|
| >PRK00118 putative DNA-binding protein; Validated | Back alignment and domain information |
|---|
Probab=98.08 E-value=1.1e-05 Score=77.27 Aligned_cols=63 Identities=14% Similarity=0.216 Sum_probs=55.9
Q ss_pred HHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhh
Q psy15215 1356 MRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422 (1432)
Q Consensus 1356 ~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~ 1422 (1432)
+...+....+.||++++.|+.++|+.|+ |..|||+.+|+|++||++++.+|+++||+....-+
T Consensus 7 ~~~l~d~~~~~L~ekqRevl~L~y~eg~----S~~EIAe~lGIS~~TV~r~L~RArkkLr~~~~~~~ 69 (104)
T PRK00118 7 MNLLFDFYGSLLTEKQRNYMELYYLDDY----SLGEIAEEFNVSRQAVYDNIKRTEKLLEDYEEKLH 69 (104)
T ss_pred HHHHHHHHhccCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHHC
Confidence 3455666778999999999999999888 99999999999999999999999999999766543
|
|
| >smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins | Back alignment and domain information |
|---|
Probab=98.08 E-value=6e-06 Score=75.61 Aligned_cols=49 Identities=27% Similarity=0.280 Sum_probs=42.3
Q ss_pred CeEEEEecchhHHHHhhhCC-----------------------CC--CeEEEEecCcHHHHHHHHHHHHHhhhh
Q psy15215 730 GYVLITEGYMDVIGLSQFGF-----------------------FA--NSSYTCFDGDQAGRRAARRALEVCLLY 778 (1432)
Q Consensus 730 ~~~~~vEG~~D~ia~~~~g~-----------------------~~--~~i~~~~D~D~aG~~a~~~~~~~~~~~ 778 (1432)
+.++||||++|+++++++|+ .. .+|++|+|+|.+|++++.++.+.+...
T Consensus 1 ~~l~ivEg~~da~~~~~~~~~~~~~~~~~G~~~~~~~~~~l~~~~~~~~Iii~~D~D~~G~~~~~~i~~~l~~~ 74 (76)
T smart00493 1 KVLIIVEGPADAIALEKAGGFGGNVVALGGHLLKKEIIKLLKRLAKKKEVILATDPDREGEAIAWKLAELLKPA 74 (76)
T ss_pred CEEEEEcCHHHHHHHHHhcCCCEEEEEEeeeecHHHHHHHHHHHhcCCEEEEEcCCChhHHHHHHHHHHHhhhh
Confidence 46899999999999999986 12 569999999999999999998877653
|
|
| >cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs) | Back alignment and domain information |
|---|
Probab=97.87 E-value=3.7e-05 Score=64.83 Aligned_cols=54 Identities=33% Similarity=0.605 Sum_probs=50.0
Q ss_pred HHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhh
Q psy15215 1358 SVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415 (1432)
Q Consensus 1358 ~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr 1415 (1432)
..+..++..||+.++.++.++|..|+ |..+||+.+|+|..+|+++++++..+||
T Consensus 2 ~~~~~~~~~l~~~~~~~~~~~~~~~~----~~~~ia~~~~~s~~~i~~~~~~~~~~l~ 55 (55)
T cd06171 2 ERLEEALDKLPEREREVILLRFGEGL----SYEEIAEILGISRSTVRQRLHRALKKLR 55 (55)
T ss_pred HHHHHHHHhCCHHHHHHHHHHHhcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHcC
Confidence 45778899999999999999998787 9999999999999999999999998875
|
A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas |
| >PRK00118 putative DNA-binding protein; Validated | Back alignment and domain information |
|---|
Probab=97.85 E-value=8.7e-05 Score=71.22 Aligned_cols=66 Identities=15% Similarity=0.232 Sum_probs=57.7
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH--HHHHh
Q psy15215 566 MRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD--WLEQR 635 (1432)
Q Consensus 566 ~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~--~~~~~ 635 (1432)
+...+..+-..||++++.++.++|..|+ |..|||+.+|+|+++|.++.++++.+|++++.. +|+..
T Consensus 7 ~~~l~d~~~~~L~ekqRevl~L~y~eg~----S~~EIAe~lGIS~~TV~r~L~RArkkLr~~~~~~~~~~~~ 74 (104)
T PRK00118 7 MNLLFDFYGSLLTEKQRNYMELYYLDDY----SLGEIAEEFNVSRQAVYDNIKRTEKLLEDYEEKLHLYEKF 74 (104)
T ss_pred HHHHHHHHhccCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHHChHHHH
Confidence 3455666778999999999999999888 999999999999999999999999999998875 45543
|
|
| >TIGR00721 tfx DNA-binding protein, Tfx family | Back alignment and domain information |
|---|
Probab=97.64 E-value=9.5e-05 Score=74.64 Aligned_cols=58 Identities=26% Similarity=0.454 Sum_probs=49.8
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHhhh
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFL 1427 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~~~ 1427 (1432)
.-||++|++|+.|+ ..|+ |++|||+.||+|+++|++++++|+++||.....-.+-.++
T Consensus 5 ~~Lte~qr~VL~Lr-~~Gl----Tq~EIAe~LgiS~stV~~~e~ra~kkLr~a~~~~~l~~~~ 62 (137)
T TIGR00721 5 TFLTERQIKVLELR-EKGL----SQKEIAKELKTTRANVSAIEKRAMENIEKARNTLDFVKFI 62 (137)
T ss_pred CCCCHHHHHHHHHH-HcCC----CHHHHHHHHCcCHHHHHHHHHhHHHHHHHHhhHHHHHHHh
Confidence 35999999999996 4666 9999999999999999999999999999866555555555
|
Tfx from Methanobacterium thermoautotrophicum is associated with the operon for molybdenum formyl-methanofuran dehydrogenase and binds a DNA sequence near its promoter. |
| >PRK04217 hypothetical protein; Provisional | Back alignment and domain information |
|---|
Probab=97.61 E-value=8.4e-05 Score=72.07 Aligned_cols=61 Identities=25% Similarity=0.158 Sum_probs=54.1
Q ss_pred HccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHhhhc
Q psy15215 1364 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428 (1432)
Q Consensus 1364 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~~~~ 1428 (1432)
...|++.++.++.++|..+. |++|||+.+|||++||++++++|+++|+..+.......++.
T Consensus 40 ~~~Lt~eereai~l~~~eGl----S~~EIAk~LGIS~sTV~r~L~RArkkLre~L~~~~~~~~~~ 100 (110)
T PRK04217 40 PIFMTYEEFEALRLVDYEGL----TQEEAGKRMGVSRGTVWRALTSARKKVAQMLVEGRELIILP 100 (110)
T ss_pred cccCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHhccceeEec
Confidence 46699999999999998888 99999999999999999999999999999887766555543
|
|
| >PRK07078 hypothetical protein; Validated | Back alignment and domain information |
|---|
Probab=97.60 E-value=0.00014 Score=93.81 Aligned_cols=86 Identities=21% Similarity=0.193 Sum_probs=70.2
Q ss_pred cCccccCchHhHHhhccCCeEEEEecchhHHHHhhhCC---------------------CCCeEEEEecCcHHHHHHHHH
Q psy15215 712 KSNELYGLFEAKNAIGKSGYVLITEGYMDVIGLSQFGF---------------------FANSSYTCFDGDQAGRRAARR 770 (1432)
Q Consensus 712 K~~~Ly~~~~a~~~~~~~~~~~~vEG~~D~ia~~~~g~---------------------~~~~i~~~~D~D~aG~~a~~~ 770 (1432)
+..-|||+..... ...|+||||.-||.++...|+ ...+||+++|+|.+|.+.|.+
T Consensus 177 ~~~pLy~lp~l~~----a~~V~lvEGEk~adal~~~g~~att~~~Ga~~~~~~~d~~~L~g~~VvI~pD~D~~G~~~a~~ 252 (759)
T PRK07078 177 EPRPLYNQPGLLS----AEQVVLVEGEKCAQALIDAGVVATTAMHGANAPVDKTDWSPLAGKAVLIWPDRDKPGWEYADR 252 (759)
T ss_pred CCcCCcCchhhhc----CCeEEEEeChHHHHHHHhcCCeEEecCCCCCCCcccccccccCCCEEEEEcCCChHHHHHHHH
Confidence 4456899976543 368999999999999999999 135799999999999999999
Q ss_pred HHHHhhhhcCCCceEEEec-----CCCCCCHHHHHHHhC
Q psy15215 771 ALEVCLLYATDDKIIKFLF-----LPDKYDPDSYIRKFG 804 (1432)
Q Consensus 771 ~~~~~~~~~~~~~~~~~~~-----lp~~~Dpde~~~~~g 804 (1432)
+...|...|.. +.++. +|.|.|..|++..+.
T Consensus 253 va~~l~~~g~~---~~~v~~p~~~~~~~~D~aD~~~~G~ 288 (759)
T PRK07078 253 AAQAILSAGAS---SCAVLLPPEDLPEGWDAADAIAEGF 288 (759)
T ss_pred HHHHHHhcCCe---EEEEEecCcccCcCCCHHHHHHcCC
Confidence 99999988876 33333 456899999998753
|
|
| >PRK03975 tfx putative transcriptional regulator; Provisional | Back alignment and domain information |
|---|
Probab=97.59 E-value=0.00013 Score=74.08 Aligned_cols=51 Identities=25% Similarity=0.407 Sum_probs=45.3
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhh
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRY 1420 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~ 1420 (1432)
..|||+|++||.++ ..|+ |++|||+.||+|+++|++++++|+++||+....
T Consensus 5 ~~Lt~rqreVL~lr-~~Gl----Tq~EIAe~LGiS~~tVs~ie~ra~kkLr~~~~t 55 (141)
T PRK03975 5 SFLTERQIEVLRLR-ERGL----TQQEIADILGTSRANVSSIEKRARENIEKARET 55 (141)
T ss_pred cCCCHHHHHHHHHH-HcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 46999999999995 4566 999999999999999999999999999985543
|
|
| >PF04297 UPF0122: Putative helix-turn-helix protein, YlxM / p13 like; InterPro: IPR007394 Members of this family are predicted to contain a helix-turn-helix motif, for example residues 37-55 in Mycoplasma mycoides p13 (O05290 from SWISSPROT) | Back alignment and domain information |
|---|
Probab=97.56 E-value=0.00028 Score=67.04 Aligned_cols=48 Identities=19% Similarity=0.421 Sum_probs=40.3
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
-||++|+.++.++|..++ |+.|||+.+||||.+|...+.||.++|...
T Consensus 17 LLT~kQ~~~l~lyy~eDl----SlsEIAe~~~iSRqaV~d~ikr~~~~L~~y 64 (101)
T PF04297_consen 17 LLTEKQREILELYYEEDL----SLSEIAEELGISRQAVYDSIKRAEKKLEEY 64 (101)
T ss_dssp GS-HHHHHHHHHHCTS-------HHHHHHHCTS-HHHHHHHHHHHHHHHHHH
T ss_pred HCCHHHHHHHHHHHccCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Confidence 499999999999998888 999999999999999999999999998653
|
Genes encoding family members are often part of operons that encode components of the SRP pathway, and this protein may regulate the expression of an operon related to the SRP pathway [].; PDB: 1S7O_A 1XSV_B. |
| >cd06171 Sigma70_r4 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs) | Back alignment and domain information |
|---|
Probab=97.51 E-value=0.00022 Score=59.98 Aligned_cols=54 Identities=33% Similarity=0.605 Sum_probs=48.9
Q ss_pred HHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 568 SVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 568 ~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
+.+..++..||+.++.++.++|..|+ |..+||..+|+|..+|.++.+++..+|+
T Consensus 2 ~~~~~~~~~l~~~~~~~~~~~~~~~~----~~~~ia~~~~~s~~~i~~~~~~~~~~l~ 55 (55)
T cd06171 2 ERLEEALDKLPEREREVILLRFGEGL----SYEEIAEILGISRSTVRQRLHRALKKLR 55 (55)
T ss_pred HHHHHHHHhCCHHHHHHHHHHHhcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHcC
Confidence 45778899999999999999998777 9999999999999999999999887764
|
A SF is a dissociable subunit of RNA polymerase, it directs bacterial or plastid core RNA polymerase to specific promoter elements located upstream of transcription initiation points. The SR4 of Ec sigma70 and other essential primary SFs contact promoter sequences located 35 base-pairs upstream of the initiation point, recognizing a 6-base-pair -35 consensus TTGACA. Sigma70 related SFs also include SFs which are dispensable for bacterial cell growth for example Ec sigmaS, SFs which activate regulons in response to a specific signal for example heat-shock Ec sigmaH, and a group of SFs which includes the extracytoplasmic function (ECF) SFs and is typified by Ec sigmaE which contains SR2 and -4 only. ECF SFs direct the transcription of genes that regulate various responses including periplas |
| >PF12965 DUF3854: Domain of unknown function (DUF3854); InterPro: IPR024385 This is a family of uncharacterised proteins, found by clustering human gut metagenomic sequences [] | Back alignment and domain information |
|---|
Probab=97.50 E-value=0.00031 Score=71.01 Aligned_cols=76 Identities=25% Similarity=0.299 Sum_probs=63.6
Q ss_pred CeEEEEecchhHHHHhhhCC------------------------------------CCCeEEEEecCc------HHHHHH
Q psy15215 730 GYVLITEGYMDVIGLSQFGF------------------------------------FANSSYTCFDGD------QAGRRA 767 (1432)
Q Consensus 730 ~~~~~vEG~~D~ia~~~~g~------------------------------------~~~~i~~~~D~D------~aG~~a 767 (1432)
-.++|+||.+=+.++.+.|+ ...+|++|||.| ..-.+|
T Consensus 11 ~pi~ItEG~kKA~al~s~G~~aIalpGV~~~~~~~~~~~~~~~~~~L~p~L~~~~~~gr~v~iaFD~D~~~~Tn~~V~~a 90 (130)
T PF12965_consen 11 IPIWITEGAKKAGALLSQGYPAIALPGVNNGYRWPKDEGDKIGKRRLIPELAKLAKPGREVYIAFDADTKPKTNKNVRRA 90 (130)
T ss_pred ccEEEEechHHHHHHHcCCceEEEeCceeccccccccccccccchhcchhHHHhccCCceEEEEecCCCccchhHHHHHH
Confidence 46999999999999999988 135799999999 556677
Q ss_pred HHHHHHHhhhhcCCCceEEEecCC--CCCCHHHHHHHhChhhh
Q psy15215 768 ARRALEVCLLYATDDKIIKFLFLP--DKYDPDSYIRKFGYKIF 808 (1432)
Q Consensus 768 ~~~~~~~~~~~~~~~~~~~~~~lp--~~~Dpde~~~~~g~~~~ 808 (1432)
..+...+|...|.. |+++.+| .+|=.|||+.++|+++|
T Consensus 91 ~~~l~~~L~~~G~~---v~~~~w~~~~~KGiDD~l~~~G~~~f 130 (130)
T PF12965_consen 91 IKRLGKLLKEAGCK---VKIITWPPGEGKGIDDLLAAKGPDAF 130 (130)
T ss_pred HHHHHHHHHHCCCE---EEEEEeCCCCCCCHhHHHHhcCcccC
Confidence 77777777776665 9999999 56899999999999987
|
|
| >PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif | Back alignment and domain information |
|---|
Probab=97.41 E-value=0.00047 Score=57.58 Aligned_cols=48 Identities=25% Similarity=0.444 Sum_probs=44.1
Q ss_pred CCHHHHHHHHHHhcccCC---CCCCHHHHHHHhCCCHHHHHHHHHHHHHHh
Q psy15215 1367 LTPRESKVLRMRFGIEMS---SDHTLEEVGKQFDVTRERIRQIEAKALRKL 1414 (1432)
Q Consensus 1367 L~~rer~Vl~lr~~~~~~---~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kL 1414 (1432)
||++|+++|..-|-.|.. ...|++|+|+.||||.+++.+++.+|.+||
T Consensus 1 LT~~Q~e~L~~A~~~GYfd~PR~~tl~elA~~lgis~st~~~~LRrae~kl 51 (53)
T PF04967_consen 1 LTDRQREILKAAYELGYFDVPRRITLEELAEELGISKSTVSEHLRRAERKL 51 (53)
T ss_pred CCHHHHHHHHHHHHcCCCCCCCcCCHHHHHHHhCCCHHHHHHHHHHHHHHH
Confidence 799999999998887753 578999999999999999999999999987
|
This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator. |
| >smart00421 HTH_LUXR helix_turn_helix, Lux Regulon | Back alignment and domain information |
|---|
Probab=97.25 E-value=0.0007 Score=57.83 Aligned_cols=51 Identities=31% Similarity=0.513 Sum_probs=44.3
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhh
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRY 1420 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~ 1420 (1432)
..||++|+.++.+ +..|+ |..|||+.+|+|+.+|+++.++++++|+-..+.
T Consensus 2 ~~l~~~e~~i~~~-~~~g~----s~~eia~~l~is~~tv~~~~~~~~~kl~~~~~~ 52 (58)
T smart00421 2 ASLTPREREVLRL-LAEGL----TNKEIAERLGISEKTVKTHLSNIMRKLGVRSRT 52 (58)
T ss_pred CCCCHHHHHHHHH-HHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHH
Confidence 5699999999877 55555 999999999999999999999999999865553
|
lux regulon (activates the bioluminescence operon |
| >PRK03975 tfx putative transcriptional regulator; Provisional | Back alignment and domain information |
|---|
Probab=97.20 E-value=0.00076 Score=68.57 Aligned_cols=51 Identities=25% Similarity=0.399 Sum_probs=45.7
Q ss_pred hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 575 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 575 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
..|||+|++||.++ ..|+ |++|||+.||+|+++|++++++++++|++....
T Consensus 5 ~~Lt~rqreVL~lr-~~Gl----Tq~EIAe~LGiS~~tVs~ie~ra~kkLr~~~~t 55 (141)
T PRK03975 5 SFLTERQIEVLRLR-ERGL----TQQEIADILGTSRANVSSIEKRARENIEKARET 55 (141)
T ss_pred cCCCHHHHHHHHHH-HcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 45999999999995 4555 999999999999999999999999999988765
|
|
| >TIGR01636 phage_rinA phage transcriptional activator, RinA family | Back alignment and domain information |
|---|
Probab=97.20 E-value=0.00098 Score=68.11 Aligned_cols=61 Identities=10% Similarity=0.189 Sum_probs=55.0
Q ss_pred HHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1355 SMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1355 ~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
.....|..+|+.|++.++.||.++|+.+. .+|..+||..||+|+.+|.++..+|+.+|+..
T Consensus 71 ~~~~~I~~~l~~Ld~~er~II~~rY~~~~--~~t~~~Ia~~l~iS~~t~~r~r~~~l~kla~~ 131 (134)
T TIGR01636 71 RNRDAIENCLNEADEQTRVIIQELYMKKR--PLTLVGLAQQLFISKSTAYRLRNHIIEAVAEE 131 (134)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHccCC--CCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHH
Confidence 45688999999999999999999997554 37999999999999999999999999999863
|
This model represents a family of phage proteins, including RinA, a transcriptional activator in staphylococcal phage phi 11. This family shows similarity to ArpU, a phage-related putative autolysin regulator, and to some sporulation-specific sigma factors. |
| >TIGR03879 near_KaiC_dom probable regulatory domain | Back alignment and domain information |
|---|
Probab=97.19 E-value=0.00072 Score=60.24 Aligned_cols=47 Identities=11% Similarity=0.087 Sum_probs=41.5
Q ss_pred HHHHHHccCCHHHHHHHHHH-hcccCCCCCCHHHHHHHhCCCHHHHHHHHHH
Q psy15215 1359 VVKDILNSLTPRESKVLRMR-FGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 1409 (1432)
Q Consensus 1359 ~l~~~L~~L~~rer~Vl~lr-~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~r 1409 (1432)
.+.+-|+.||++.+.++.|. |..|+ |++|||+.+|+|+.+|++++++
T Consensus 8 ~~~~~l~~l~~~~r~af~L~R~~eGl----S~kEIAe~LGIS~~TVk~~l~~ 55 (73)
T TIGR03879 8 KLAERLTWVDSLAEAAAALAREEAGK----TASEIAEELGRTEQTVRNHLKG 55 (73)
T ss_pred hHHHHHhcCCHHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHhc
Confidence 45667899999999999994 56777 9999999999999999998874
|
This model describes a common domain shared by two different families of proteins, each of which occurs regularly next to its corresponding partner family, a probable regulatory with homology to KaiC. By implication, this protein family likely is also involved in sensory transduction and/or regulation. |
| >PF04297 UPF0122: Putative helix-turn-helix protein, YlxM / p13 like; InterPro: IPR007394 Members of this family are predicted to contain a helix-turn-helix motif, for example residues 37-55 in Mycoplasma mycoides p13 (O05290 from SWISSPROT) | Back alignment and domain information |
|---|
Probab=97.18 E-value=0.0016 Score=61.89 Aligned_cols=54 Identities=19% Similarity=0.416 Sum_probs=42.2
Q ss_pred HHHHHh-cCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHH
Q psy15215 570 VKDILN-SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPL 627 (1432)
Q Consensus 570 l~~~L~-~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~ 627 (1432)
+-.... -||++|+.++.++|..++ |+.|||+.+|||+..|....+||..+|...
T Consensus 10 L~d~Yg~LLT~kQ~~~l~lyy~eDl----SlsEIAe~~~iSRqaV~d~ikr~~~~L~~y 64 (101)
T PF04297_consen 10 LFDFYGELLTEKQREILELYYEEDL----SLSEIAEELGISRQAVYDSIKRAEKKLEEY 64 (101)
T ss_dssp HHHHHGGGS-HHHHHHHHHHCTS-------HHHHHHHCTS-HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHCCHHHHHHHHHHHccCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHH
Confidence 333444 499999999999998888 999999999999999999999999888654
|
Genes encoding family members are often part of operons that encode components of the SRP pathway, and this protein may regulate the expression of an operon related to the SRP pathway [].; PDB: 1S7O_A 1XSV_B. |
| >PRK04217 hypothetical protein; Provisional | Back alignment and domain information |
|---|
Probab=97.17 E-value=0.00087 Score=65.13 Aligned_cols=55 Identities=24% Similarity=0.185 Sum_probs=49.8
Q ss_pred HhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHHHH
Q psy15215 574 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHDWL 632 (1432)
Q Consensus 574 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~~~ 632 (1432)
...|++.++.++.++|..++ |++|||+.+|+|+++|+++.++|.++|++.+....
T Consensus 40 ~~~Lt~eereai~l~~~eGl----S~~EIAk~LGIS~sTV~r~L~RArkkLre~L~~~~ 94 (110)
T PRK04217 40 PIFMTYEEFEALRLVDYEGL----TQEEAGKRMGVSRGTVWRALTSARKKVAQMLVEGR 94 (110)
T ss_pred cccCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHhcc
Confidence 34599999999999998888 99999999999999999999999999998886443
|
|
| >PF07374 DUF1492: Protein of unknown function (DUF1492); InterPro: IPR010861 This entry is represented by Streptococcus phage 7201, Orf19 | Back alignment and domain information |
|---|
Probab=97.01 E-value=0.0024 Score=61.67 Aligned_cols=55 Identities=29% Similarity=0.552 Sum_probs=50.0
Q ss_pred HHHHHHHHHccCC-HHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHh
Q psy15215 1356 MRSVVKDILNSLT-PRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKL 1414 (1432)
Q Consensus 1356 ~~~~l~~~L~~L~-~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kL 1414 (1432)
.+..+..++++|+ +.+|.||.++|..++ +..+|+..||+|+.++-.+..+|++.|
T Consensus 44 ~k~ei~~~I~~l~d~~~r~iL~~~Yi~~~----~~~~I~~~l~~S~~t~yr~~~~Al~~L 99 (100)
T PF07374_consen 44 EKLEIRRAINKLEDPDERLILRMRYINKL----TWEQIAEELNISRRTYYRIHKKALKEL 99 (100)
T ss_pred HHHHHHHHHHHccChhHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHhc
Confidence 4566888889986 899999999999888 999999999999999999999999886
|
The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry consists of several hypothetical, highly conserved Streptococcal and related phage proteins. The function of this family is unknown. |
| >TIGR01636 phage_rinA phage transcriptional activator, RinA family | Back alignment and domain information |
|---|
Probab=97.01 E-value=0.0023 Score=65.45 Aligned_cols=62 Identities=10% Similarity=0.163 Sum_probs=55.2
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 565 SMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 565 ~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
...+.|..+|+.|++.++.||.++|+.+. .+|..+||..+|+|..++.++..+++.+|...+
T Consensus 71 ~~~~~I~~~l~~Ld~~er~II~~rY~~~~--~~t~~~Ia~~l~iS~~t~~r~r~~~l~kla~~l 132 (134)
T TIGR01636 71 RNRDAIENCLNEADEQTRVIIQELYMKKR--PLTLVGLAQQLFISKSTAYRLRNHIIEAVAEEL 132 (134)
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHccCC--CCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHHh
Confidence 45678999999999999999999997554 379999999999999999999999999998754
|
This model represents a family of phage proteins, including RinA, a transcriptional activator in staphylococcal phage phi 11. This family shows similarity to ArpU, a phage-related putative autolysin regulator, and to some sporulation-specific sigma factors. |
| >cd06170 LuxR_C_like C-terminal DNA-binding domain of LuxR-like proteins | Back alignment and domain information |
|---|
Probab=96.99 E-value=0.0022 Score=54.67 Aligned_cols=50 Identities=30% Similarity=0.407 Sum_probs=43.6
Q ss_pred CCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhh
Q psy15215 1367 LTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYY 1421 (1432)
Q Consensus 1367 L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~ 1421 (1432)
||++++.++.+. ..|+ |.++||+.+|+|+.+|+++.++++++|+-.....
T Consensus 1 l~~~e~~i~~~~-~~~~----s~~eia~~l~~s~~tv~~~~~~~~~~l~~~~~~~ 50 (57)
T cd06170 1 LTPREREVLRLL-AEGK----TNKEIADILGISEKTVKTHLRNIMRKLGVKSRTQ 50 (57)
T ss_pred CCHHHHHHHHHH-HcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHhCCCCHHH
Confidence 689999999874 4555 9999999999999999999999999999876543
|
This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental |
| >TIGR01321 TrpR trp operon repressor, proteobacterial | Back alignment and domain information |
|---|
Probab=96.94 E-value=0.0014 Score=61.20 Aligned_cols=68 Identities=19% Similarity=0.284 Sum_probs=54.1
Q ss_pred HHHHHHHHhc-CCHHHHHHHHHHhhccc---CCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHHHHHHh
Q psy15215 567 RSVVKDILNS-LTPRESKVLRMRFGIEM---SSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHDWLEQR 635 (1432)
Q Consensus 567 ~~~l~~~L~~-L~~rer~Vl~lr~~~~~---~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~~~~~~ 635 (1432)
.+.+...|.. |||+|+.++.+||++-. ..++|++|||+.+|||+.+|. +-.++++..-.....|++++
T Consensus 22 ~~~l~~~l~~lLTp~E~~~l~~R~~i~~~Ll~~~~tQrEIa~~lGiS~atIs-R~sn~lk~~~~~~~~~l~~~ 93 (94)
T TIGR01321 22 EDDMQLLLELILTRSEREDLGDRIRIVNELLNGNMSQREIASKLGVSIATIT-RGSNNLKTMDPNFKQFLRKK 93 (94)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHhCCChhhhh-HHHhhcccCCHHHHHHHHhh
Confidence 4567777855 99999999999999865 578899999999999999997 45566665556666676654
|
This model represents TrpR, the repressor of the trp operon. It is found so far only in the gamma subdivision of the proteobacteria and in Chlamydia trachomatis. All members belong to species capable of tryptophan biosynthesis. |
| >TIGR00721 tfx DNA-binding protein, Tfx family | Back alignment and domain information |
|---|
Probab=96.94 E-value=0.0016 Score=65.89 Aligned_cols=48 Identities=29% Similarity=0.476 Sum_probs=43.5
Q ss_pred cCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
.||++|++|+.|+ ..|+ |++|||+.+|+|+++|++++++|+++|+...
T Consensus 6 ~Lte~qr~VL~Lr-~~Gl----Tq~EIAe~LgiS~stV~~~e~ra~kkLr~a~ 53 (137)
T TIGR00721 6 FLTERQIKVLELR-EKGL----SQKEIAKELKTTRANVSAIEKRAMENIEKAR 53 (137)
T ss_pred CCCHHHHHHHHHH-HcCC----CHHHHHHHHCcCHHHHHHHHHhHHHHHHHHh
Confidence 4999999999996 4555 9999999999999999999999999999754
|
Tfx from Methanobacterium thermoautotrophicum is associated with the operon for molybdenum formyl-methanofuran dehydrogenase and binds a DNA sequence near its promoter. |
| >PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators | Back alignment and domain information |
|---|
Probab=96.85 E-value=0.0028 Score=54.70 Aligned_cols=53 Identities=25% Similarity=0.365 Sum_probs=43.3
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhh
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~ 1422 (1432)
..||++|..|+.+-. .|+ |.+|||..+|+|..||++...++++||.-..+..-
T Consensus 2 ~~LT~~E~~vl~~l~-~G~----~~~eIA~~l~is~~tV~~~~~~i~~Kl~~~~~~~l 54 (58)
T PF00196_consen 2 PSLTERELEVLRLLA-QGM----SNKEIAEELGISEKTVKSHRRRIMKKLGVKNRAEL 54 (58)
T ss_dssp GSS-HHHHHHHHHHH-TTS-----HHHHHHHHTSHHHHHHHHHHHHHHHHT-SSHHHH
T ss_pred CccCHHHHHHHHHHH-hcC----CcchhHHhcCcchhhHHHHHHHHHHHhCCCCHHHH
Confidence 579999999998753 444 99999999999999999999999999987766653
|
The domain is named after Vibrio fischeri luxR, a transcriptional activator for quorum-sensing control of luminescence. LuxR-type HTH domain proteins occur in a variety of organisms. The DNA-binding HTH domain is usually located in the C-terminal region; the N-terminal region often containing an autoinducer-binding domain or a response regulatory domain. Most luxR-type regulators act as transcription activators, but some can be repressors or have a dual role for different sites. LuxR-type HTH regulators control a wide variety of activities in various biological processes. The luxR-type, DNA-binding HTH domain forms a four-helical bundle structure. The HTH motif comprises the second and third helices, known as the scaffold and recognition helix, respectively. The HTH binds DNA in the major groove, where the N-terminal part of the recognition helix makes most of the DNA contacts. The fourth helix is involved in dimerisation of gerE and traR. Signalling events by one of the four activation mechanisms described below lead to multimerisation of the regulator. The regulators bind DNA as multimers [, , ]. LuxR-type HTH proteins can be activated by one of four different mechanisms: 1) Regulators which belong to a two-component sensory transduction system where the protein is activated by its phosphorylation, generally on an aspartate residue, by a transmembrane kinase [, ]. Some proteins that belong to this category are: Rhizobiaceae fixJ (global regulator inducing expression of nitrogen-fixation genes in microaerobiosis) Escherichia coli and Salmonella typhimurium uhpA (activates hexose phosphate transport gene uhpT) E. coli narL and narP (activate nitrate reductase operon) Enterobacteria rcsB (regulation of exopolysaccharide biosynthesis in enteric and plant pathogenesis) Bordetella pertussis bvgA (virulence factor) Bacillus subtilis coma (involved in expression of late-expressing competence genes) 2) Regulators which are activated, or in very rare cases repressed, when bound to N-acyl homoserine lactones, which are used as quorum sensing molecules in a variety of Gram-negative bacteria []: V. fischeri luxR (activates bioluminescence operon) Agrobacterium tumefaciens traR (regulation of Ti plasmid transfer) Erwinia carotovora carR (control of carbapenem antibiotics biosynthesis) E. carotovora expR (virulence factor for soft rot disease; activates plant tissue macerating enzyme genes) Pseudomonas aeruginosa lasR (activates elastase gene lasB) Erwinia chrysanthemi echR and Erwinia stewartii esaR Pseudomonas chlororaphis phzR (positive regulator of phenazine antibiotic production) Pseudomonas aeruginosa rhlR (activates rhlAB operon and lasB gene) 3) Autonomous effector domain regulators, without a regulatory domain, represented by gerE []. B. subtilis gerE (transcription activator and repressor for the regulation of spore formation) 4) Multiple ligand-binding regulators, exemplified by malT []. E. coli malT (activates maltose operon; MalT binds ATP and maltotriose); GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3SZT_A 3CLO_A 1H0M_A 1L3L_A 3C57_B 1ZLK_B 1ZLJ_H 3C3W_B 1RNL_A 1ZG1_A .... |
| >cd00188 TOPRIM Topoisomerase-primase domain | Back alignment and domain information |
|---|
Probab=96.79 E-value=0.0036 Score=57.37 Aligned_cols=48 Identities=31% Similarity=0.321 Sum_probs=40.8
Q ss_pred CeEEEEecchhHHHHhhhCC-------------------------CCCeEEEEecCcHHHHHHHHHHHHHhhh
Q psy15215 730 GYVLITEGYMDVIGLSQFGF-------------------------FANSSYTCFDGDQAGRRAARRALEVCLL 777 (1432)
Q Consensus 730 ~~~~~vEG~~D~ia~~~~g~-------------------------~~~~i~~~~D~D~aG~~a~~~~~~~~~~ 777 (1432)
+.++||||..|++++++.|. ...+|++++|+|.+|..++......+..
T Consensus 1 ~~viivEg~~d~~~l~~~~~~~~~~~~~~G~~~~~~~~~~~~~~~~~~~v~i~~D~D~~g~~~~~~~~~~~~~ 73 (83)
T cd00188 1 KKLIIVEGPSDALALAQAGGYGGAVVALGGHALNKTRELLKRLLGEAKEVIIATDADREGEAIALRLLELLKS 73 (83)
T ss_pred CEEEEEecHHHHHHHHHHcCCCEEEEEEccEEcHHHHHHHHHHhcCCCEEEEEcCCChhHHHHHHHHHHHHHh
Confidence 36899999999999999876 2389999999999999888877776654
|
This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from bacterial and archaea, and bacterial DNA repair proteins of the RecR/M family. This domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases and in strand joining in topoisomerases and, as a general acid in strand cleavage by topisomerases and nucleases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. |
| >PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif | Back alignment and domain information |
|---|
Probab=96.75 E-value=0.004 Score=52.14 Aligned_cols=49 Identities=24% Similarity=0.441 Sum_probs=44.2
Q ss_pred CCHHHHHHHHHHhhccc---CCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 577 LTPRESKVLRMRFGIEM---SSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 577 L~~rer~Vl~lr~~~~~---~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
||++|+++|..-|-.|. ....|+.|+|+.||||.+++..+.++|.++|-
T Consensus 1 LT~~Q~e~L~~A~~~GYfd~PR~~tl~elA~~lgis~st~~~~LRrae~kli 52 (53)
T PF04967_consen 1 LTDRQREILKAAYELGYFDVPRRITLEELAEELGISKSTVSEHLRRAERKLI 52 (53)
T ss_pred CCHHHHHHHHHHHHcCCCCCCCcCCHHHHHHHhCCCHHHHHHHHHHHHHHHh
Confidence 79999999999988775 34689999999999999999999999999874
|
This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator. |
| >TIGR03879 near_KaiC_dom probable regulatory domain | Back alignment and domain information |
|---|
Probab=96.72 E-value=0.0028 Score=56.54 Aligned_cols=47 Identities=11% Similarity=0.087 Sum_probs=40.8
Q ss_pred HHHHHHhcCCHHHHHHHHHH-hhcccCCCCcHHHHHhhcccchhHHHHHHHH
Q psy15215 569 VVKDILNSLTPRESKVLRMR-FGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 619 (1432)
Q Consensus 569 ~l~~~L~~L~~rer~Vl~lr-~~~~~~~~~t~~EIa~~l~is~~~v~~~~~r 619 (1432)
.+..-|+.||++.+.++.|. |..|+ |++|||+.+|+|+.+|+++.++
T Consensus 8 ~~~~~l~~l~~~~r~af~L~R~~eGl----S~kEIAe~LGIS~~TVk~~l~~ 55 (73)
T TIGR03879 8 KLAERLTWVDSLAEAAAALAREEAGK----TASEIAEELGRTEQTVRNHLKG 55 (73)
T ss_pred hHHHHHhcCCHHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHhc
Confidence 45667899999999999995 56777 9999999999999999987663
|
This model describes a common domain shared by two different families of proteins, each of which occurs regularly next to its corresponding partner family, a probable regulatory with homology to KaiC. By implication, this protein family likely is also involved in sensory transduction and/or regulation. |
| >PRK15201 fimbriae regulatory protein FimW; Provisional | Back alignment and domain information |
|---|
Probab=96.68 E-value=0.0039 Score=64.46 Aligned_cols=53 Identities=17% Similarity=0.285 Sum_probs=46.6
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhh
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~ 1422 (1432)
+.|||||++||.+- .+|+|.+|||+.|++|..||+....++++||.-..+...
T Consensus 132 ~~LSpRErEVLrLL-----AqGkTnKEIAe~L~IS~rTVkth~srImkKLgV~SRaEL 184 (198)
T PRK15201 132 RHFSVTERHLLKLI-----ASGYHLSETAALLSLSEEQTKSLRRSIMRKLHVKTEQQF 184 (198)
T ss_pred CCCCHHHHHHHHHH-----HCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhCCCCHHHH
Confidence 34999999999985 345599999999999999999999999999998777664
|
|
| >COG4941 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription] | Back alignment and domain information |
|---|
Probab=96.68 E-value=0.034 Score=63.04 Aligned_cols=161 Identities=14% Similarity=0.151 Sum_probs=108.9
Q ss_pred HHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccccccccc
Q psy15215 1192 KREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVH 1271 (1432)
Q Consensus 1192 ~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~ 1271 (1432)
.+..+..-.+.++.---+|+.+-...++.+||.|+...+.-.+=-+.+ .-..|++..-|+.-.|.+|+.++.-+.|.+
T Consensus 7 ie~~~r~~~~r~~a~L~r~~rd~dlAEEa~~dA~~~Ale~WPr~G~P~--~PaAWL~~v~R~~aiD~~Rr~~~~~~~~~e 84 (415)
T COG4941 7 IEAAARIERPRAMAALARYLRDLDLAEEALQDAFAAALERWPRAGPPR--NPAAWLIAVGRNRAIDRVRRRARRDAAPPE 84 (415)
T ss_pred HHHHHHHhhhHHHHHHHHHhcccchHHHHHHHHHHHHHHhCcccCCCC--ChHHHHHHHHhhhHHHHHHHHHHhccCChh
Confidence 344555555666666667777777899999999996666555444433 357899999999999999998863332221
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHH
Q psy15215 1272 MIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAA 1351 (1432)
Q Consensus 1272 ~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~ 1351 (1432)
. .+|.+ ++.....+...| +.+
T Consensus 85 l-----------------------------------------------~~~~e-----~~e~~~a~~~~d-------~~i 105 (415)
T COG4941 85 L-----------------------------------------------LLSDE-----DEEMEEAEALDD-------EHI 105 (415)
T ss_pred h-----------------------------------------------ccccc-----chhhhccccccc-------ccc
Confidence 0 01110 011101110111 111
Q ss_pred HHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1352 LNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1352 ~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
....++-.+-.|---|||.+|--|.||...|. |..|||.-|=|+..++-|++.||.++++..
T Consensus 106 ~Dd~LRLiFvccHPal~~~~riALtLR~v~GL----s~~eIArAFLv~e~am~QRivRAK~ri~~a 167 (415)
T COG4941 106 RDDRLRLIFVCCHPALPPEQRIALTLRLVGGL----STAEIARAFLVPEAAMAQRIVRAKARIREA 167 (415)
T ss_pred chhhHHhhhhhcCCCCChhhHHHHHHHHHcCC----cHHHHHHHHcCCcHHHHHHHHHHHHHHHhc
Confidence 22234444555555699999999999999999 999999999999999999999999999863
|
|
| >COG4566 TtrR Response regulator [Signal transduction mechanisms] | Back alignment and domain information |
|---|
Probab=96.66 E-value=0.0073 Score=63.42 Aligned_cols=69 Identities=19% Similarity=0.317 Sum_probs=59.1
Q ss_pred HHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHhhh
Q psy15215 1354 ASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFL 1427 (1432)
Q Consensus 1354 ~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~~~ 1427 (1432)
......+...+++||||||+|+..-- .|. ..++||..||+|..||....++.++||+..+-+..++-++
T Consensus 130 ~~~~~~~~~~l~tLT~RERqVl~~vV-~G~----~NKqIA~dLgiS~rTVe~HRanvM~Km~a~SlaeLvr~a~ 198 (202)
T COG4566 130 ADRQAAIRARLATLTPRERQVLDLVV-RGL----MNKQIAFDLGISERTVELHRANVMEKMQARSLAELVRMAL 198 (202)
T ss_pred HHHHHHHHHHHHhcCHHHHHHHHHHH-cCc----ccHHHHHHcCCchhhHHHHHHHHHHHHhhccHHHHHHHHH
Confidence 34567889999999999999998764 444 9999999999999999999999999999887777666554
|
|
| >PF07374 DUF1492: Protein of unknown function (DUF1492); InterPro: IPR010861 This entry is represented by Streptococcus phage 7201, Orf19 | Back alignment and domain information |
|---|
Probab=96.62 E-value=0.0068 Score=58.59 Aligned_cols=55 Identities=29% Similarity=0.552 Sum_probs=49.6
Q ss_pred HHHHHHHHHhcCC-HHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHH
Q psy15215 566 MRSVVKDILNSLT-PRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKL 624 (1432)
Q Consensus 566 ~~~~l~~~L~~L~-~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kL 624 (1432)
.+..+..++++|+ +.+|.||.|+|..++ +..+|+..||+|..++...+.+|++.|
T Consensus 44 ~k~ei~~~I~~l~d~~~r~iL~~~Yi~~~----~~~~I~~~l~~S~~t~yr~~~~Al~~L 99 (100)
T PF07374_consen 44 EKLEIRRAINKLEDPDERLILRMRYINKL----TWEQIAEELNISRRTYYRIHKKALKEL 99 (100)
T ss_pred HHHHHHHHHHHccChhHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHhc
Confidence 3456888899986 899999999999888 999999999999999999999999876
|
The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry consists of several hypothetical, highly conserved Streptococcal and related phage proteins. The function of this family is unknown. |
| >PRK01381 Trp operon repressor; Provisional | Back alignment and domain information |
|---|
Probab=96.54 E-value=0.0042 Score=58.47 Aligned_cols=75 Identities=24% Similarity=0.341 Sum_probs=60.3
Q ss_pred HHHHHHHHHHHHhc-CCHHHHHHHHHHhhccc---CCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHHHHHHhhhh
Q psy15215 563 NASMRSVVKDILNS-LTPRESKVLRMRFGIEM---SSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHDWLEQRTHQ 638 (1432)
Q Consensus 563 ~~~~~~~l~~~L~~-L~~rer~Vl~lr~~~~~---~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~~~~~~l~~ 638 (1432)
...-.+.+...|.. |||+|+..|..||++-. ..++|+.|||+.+|+|..+|. +-+++|+..-.....|+++.+..
T Consensus 18 ~a~~~~~~~~~l~~llTp~Er~al~~R~~I~~~L~~g~~sQREIa~~lGvSiaTIT-Rgsn~Lk~~~~~~k~~l~~~l~~ 96 (99)
T PRK01381 18 QAFEEDLHLPLLTLLLTPDEREALGTRVRIVEELLRGELSQREIKQELGVGIATIT-RGSNSLKTAPPEFKEWLEQQLLK 96 (99)
T ss_pred HhccHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHcCCcCHHHHHHHhCCceeeeh-hhHHHhccCCHHHHHHHHHHhcc
Confidence 33445667777877 99999999999999754 446899999999999999986 56777887777788888887654
|
|
| >smart00421 HTH_LUXR helix_turn_helix, Lux Regulon | Back alignment and domain information |
|---|
Probab=96.53 E-value=0.0044 Score=52.79 Aligned_cols=46 Identities=30% Similarity=0.554 Sum_probs=40.4
Q ss_pred hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 575 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 575 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
..||++|+.++.+ +..|+ |..|||+.+|+|+.+|+++..+++.+|.
T Consensus 2 ~~l~~~e~~i~~~-~~~g~----s~~eia~~l~is~~tv~~~~~~~~~kl~ 47 (58)
T smart00421 2 ASLTPREREVLRL-LAEGL----TNKEIAERLGISEKTVKTHLSNIMRKLG 47 (58)
T ss_pred CCCCHHHHHHHHH-HHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHC
Confidence 4699999999877 54555 9999999999999999999999988885
|
lux regulon (activates the bioluminescence operon |
| >PRK13719 conjugal transfer transcriptional regulator TraJ; Provisional | Back alignment and domain information |
|---|
Probab=96.45 E-value=0.0064 Score=65.95 Aligned_cols=59 Identities=15% Similarity=0.147 Sum_probs=51.0
Q ss_pred HHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHH
Q psy15215 1361 KDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1361 ~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~ 1424 (1432)
.++...|||||++||.+. ..|+ |.+|||+.|++|..||+....+.++||--..+...+.
T Consensus 138 ~~~~~~LS~RE~eVL~Li-a~G~----SnkEIA~~L~IS~~TVk~hvs~I~~KLgv~sR~eLv~ 196 (217)
T PRK13719 138 LEAKNKVTKYQNDVFILY-SFGF----SHEYIAQLLNITVGSSKNKISEILKFFGISSRDELLI 196 (217)
T ss_pred hhccCCCCHHHHHHHHHH-HCCC----CHHHHHHHhCCCHHHHHHHHHHHHHHhCCCCHHHHHH
Confidence 456788999999999985 3455 9999999999999999999999999999887777543
|
|
| >PF00196 GerE: Bacterial regulatory proteins, luxR family; InterPro: IPR000792 This domain is a DNA-binding, helix-turn-helix (HTH) domain of about 65 amino acids, present in transcription regulators of the LuxR/FixJ family of response regulators | Back alignment and domain information |
|---|
Probab=96.42 E-value=0.0061 Score=52.60 Aligned_cols=46 Identities=24% Similarity=0.430 Sum_probs=39.2
Q ss_pred hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 575 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 575 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
..||++|..||.+-. .|+|.+|||..+|+|+.+|+.+..++++||.
T Consensus 2 ~~LT~~E~~vl~~l~-----~G~~~~eIA~~l~is~~tV~~~~~~i~~Kl~ 47 (58)
T PF00196_consen 2 PSLTERELEVLRLLA-----QGMSNKEIAEELGISEKTVKSHRRRIMKKLG 47 (58)
T ss_dssp GSS-HHHHHHHHHHH-----TTS-HHHHHHHHTSHHHHHHHHHHHHHHHHT
T ss_pred CccCHHHHHHHHHHH-----hcCCcchhHHhcCcchhhHHHHHHHHHHHhC
Confidence 579999999998753 4559999999999999999999999999986
|
The domain is named after Vibrio fischeri luxR, a transcriptional activator for quorum-sensing control of luminescence. LuxR-type HTH domain proteins occur in a variety of organisms. The DNA-binding HTH domain is usually located in the C-terminal region; the N-terminal region often containing an autoinducer-binding domain or a response regulatory domain. Most luxR-type regulators act as transcription activators, but some can be repressors or have a dual role for different sites. LuxR-type HTH regulators control a wide variety of activities in various biological processes. The luxR-type, DNA-binding HTH domain forms a four-helical bundle structure. The HTH motif comprises the second and third helices, known as the scaffold and recognition helix, respectively. The HTH binds DNA in the major groove, where the N-terminal part of the recognition helix makes most of the DNA contacts. The fourth helix is involved in dimerisation of gerE and traR. Signalling events by one of the four activation mechanisms described below lead to multimerisation of the regulator. The regulators bind DNA as multimers [, , ]. LuxR-type HTH proteins can be activated by one of four different mechanisms: 1) Regulators which belong to a two-component sensory transduction system where the protein is activated by its phosphorylation, generally on an aspartate residue, by a transmembrane kinase [, ]. Some proteins that belong to this category are: Rhizobiaceae fixJ (global regulator inducing expression of nitrogen-fixation genes in microaerobiosis) Escherichia coli and Salmonella typhimurium uhpA (activates hexose phosphate transport gene uhpT) E. coli narL and narP (activate nitrate reductase operon) Enterobacteria rcsB (regulation of exopolysaccharide biosynthesis in enteric and plant pathogenesis) Bordetella pertussis bvgA (virulence factor) Bacillus subtilis coma (involved in expression of late-expressing competence genes) 2) Regulators which are activated, or in very rare cases repressed, when bound to N-acyl homoserine lactones, which are used as quorum sensing molecules in a variety of Gram-negative bacteria []: V. fischeri luxR (activates bioluminescence operon) Agrobacterium tumefaciens traR (regulation of Ti plasmid transfer) Erwinia carotovora carR (control of carbapenem antibiotics biosynthesis) E. carotovora expR (virulence factor for soft rot disease; activates plant tissue macerating enzyme genes) Pseudomonas aeruginosa lasR (activates elastase gene lasB) Erwinia chrysanthemi echR and Erwinia stewartii esaR Pseudomonas chlororaphis phzR (positive regulator of phenazine antibiotic production) Pseudomonas aeruginosa rhlR (activates rhlAB operon and lasB gene) 3) Autonomous effector domain regulators, without a regulatory domain, represented by gerE []. B. subtilis gerE (transcription activator and repressor for the regulation of spore formation) 4) Multiple ligand-binding regulators, exemplified by malT []. E. coli malT (activates maltose operon; MalT binds ATP and maltotriose); GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3SZT_A 3CLO_A 1H0M_A 1L3L_A 3C57_B 1ZLK_B 1ZLJ_H 3C3W_B 1RNL_A 1ZG1_A .... |
| >TIGR01321 TrpR trp operon repressor, proteobacterial | Back alignment and domain information |
|---|
Probab=96.31 E-value=0.0059 Score=57.18 Aligned_cols=55 Identities=20% Similarity=0.239 Sum_probs=44.4
Q ss_pred HHHHHHHHcc-CCHHHHHHHHHHhcccC---CCCCCHHHHHHHhCCCHHHHHHHHHHHHH
Q psy15215 1357 RSVVKDILNS-LTPRESKVLRMRFGIEM---SSDHTLEEVGKQFDVTRERIRQIEAKALR 1412 (1432)
Q Consensus 1357 ~~~l~~~L~~-L~~rer~Vl~lr~~~~~---~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~ 1412 (1432)
.+.+...|.. |||+|+.++.+||++-. ..++|++|||+.+|||+.+|.+. +++++
T Consensus 22 ~~~l~~~l~~lLTp~E~~~l~~R~~i~~~Ll~~~~tQrEIa~~lGiS~atIsR~-sn~lk 80 (94)
T TIGR01321 22 EDDMQLLLELILTRSEREDLGDRIRIVNELLNGNMSQREIASKLGVSIATITRG-SNNLK 80 (94)
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHhCCChhhhhHH-Hhhcc
Confidence 4556667754 99999999999999875 57889999999999999999853 34433
|
This model represents TrpR, the repressor of the trp operon. It is found so far only in the gamma subdivision of the proteobacteria and in Chlamydia trachomatis. All members belong to species capable of tryptophan biosynthesis. |
| >PRK15201 fimbriae regulatory protein FimW; Provisional | Back alignment and domain information |
|---|
Probab=96.24 E-value=0.007 Score=62.63 Aligned_cols=46 Identities=20% Similarity=0.366 Sum_probs=41.6
Q ss_pred cCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
.|||||++||.+. ..|+|.+|||+.|++|+.+|+....++++||.-
T Consensus 133 ~LSpRErEVLrLL-----AqGkTnKEIAe~L~IS~rTVkth~srImkKLgV 178 (198)
T PRK15201 133 HFSVTERHLLKLI-----ASGYHLSETAALLSLSEEQTKSLRRSIMRKLHV 178 (198)
T ss_pred CCCHHHHHHHHHH-----HCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhCC
Confidence 4999999999986 456699999999999999999999999999963
|
|
| >TIGR03020 EpsA transcriptional regulator EpsA | Back alignment and domain information |
|---|
Probab=96.14 E-value=0.01 Score=66.99 Aligned_cols=54 Identities=19% Similarity=0.188 Sum_probs=48.4
Q ss_pred HccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhh
Q psy15215 1364 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422 (1432)
Q Consensus 1364 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~ 1422 (1432)
+..||++|++|+.+.. .|+ |..|||+.||||..||+..+.++++||.-..+...
T Consensus 188 ~~~LT~RE~evl~l~a-~G~----s~~eIA~~L~IS~~TVk~hl~~i~~KL~v~nr~qA 241 (247)
T TIGR03020 188 AGLITAREAEILAWVR-DGK----TNEEIAAILGISSLTVKNHLQHIFKKLDVRNRAQA 241 (247)
T ss_pred ccCCCHHHHHHHHHHH-CCC----CHHHHHHHHCcCHHHHHHHHHHHHHHhCCCCHHHH
Confidence 4579999999999954 555 99999999999999999999999999998877764
|
Proteins in this family include a C-terminal LuxR transcriptional regulator domain (pfam00196). These proteins are positioned proximal to either EpsH-containing exopolysaccharide biosynthesis operons of the Methylobacillus type, or the associated PEP-CTERM-containing genes. |
| >PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional | Back alignment and domain information |
|---|
Probab=96.13 E-value=0.0085 Score=66.33 Aligned_cols=51 Identities=20% Similarity=0.318 Sum_probs=45.0
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhh
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYY 1421 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~ 1421 (1432)
.|||||++||.+. . +|+|.+|||++||+|..||+...++.++||.-..|..
T Consensus 137 ~LT~RE~eVL~ll-a----~G~snkeIA~~L~iS~~TVk~h~~~I~~KL~v~nr~~ 187 (207)
T PRK15411 137 SLSRTESSMLRMW-M----AGQGTIQISDQMNIKAKTVSSHKGNIKRKIKTHNKQV 187 (207)
T ss_pred cCCHHHHHHHHHH-H----cCCCHHHHHHHcCCCHHHHHHHHHHHHHHhCCCcHHH
Confidence 4999999999885 3 4559999999999999999999999999998766643
|
|
| >PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A | Back alignment and domain information |
|---|
Probab=96.10 E-value=0.0081 Score=48.60 Aligned_cols=41 Identities=20% Similarity=0.367 Sum_probs=24.5
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHH
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 1409 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~r 1409 (1432)
.+|++.||..|...+-.|+ |..+||+.||+|++||...+.|
T Consensus 3 ~~Lt~~eR~~I~~l~~~G~----s~~~IA~~lg~s~sTV~relkR 43 (44)
T PF13936_consen 3 KHLTPEERNQIEALLEQGM----SIREIAKRLGRSRSTVSRELKR 43 (44)
T ss_dssp ---------HHHHHHCS-------HHHHHHHTT--HHHHHHHHHH
T ss_pred cchhhhHHHHHHHHHHcCC----CHHHHHHHHCcCcHHHHHHHhc
Confidence 4699999999988886666 9999999999999999998876
|
|
| >TIGR03541 reg_near_HchA LuxR family transcriptional regulatory, chaperone HchA-associated | Back alignment and domain information |
|---|
Probab=96.07 E-value=0.01 Score=66.92 Aligned_cols=54 Identities=17% Similarity=0.209 Sum_probs=48.1
Q ss_pred HccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhh
Q psy15215 1364 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422 (1432)
Q Consensus 1364 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~ 1422 (1432)
...||++|++||.+. ..|+ |..|||+.||+|..||+..+.++++||+-..+...
T Consensus 169 ~~~Lt~re~evl~~~-a~G~----t~~eIa~~l~is~~Tv~~~l~~~~~kl~~~~~~~a 222 (232)
T TIGR03541 169 AGVLSEREREVLAWT-ALGR----RQADIAAILGISERTVENHLRSARRKLGVATTAQA 222 (232)
T ss_pred hccCCHHHHHHHHHH-HCCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHCCCCHHHH
Confidence 357999999999995 4565 99999999999999999999999999998777664
|
Members of this protein family belong to the LuxR transcriptional regulator family, and contain both autoinducer binding (pfam03472) and transcriptional regulator (pfam00196) domains. Members, however, occur only in a few members of the Gammaproteobacteria that have the chaperone/aminopeptidase HchA, and are always encoded by the adjacent gene. |
| >PRK11475 DNA-binding transcriptional activator BglJ; Provisional | Back alignment and domain information |
|---|
Probab=95.98 E-value=0.013 Score=64.77 Aligned_cols=55 Identities=22% Similarity=0.271 Sum_probs=47.1
Q ss_pred HccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhH
Q psy15215 1364 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKL 1423 (1432)
Q Consensus 1364 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l 1423 (1432)
...||+||++||.+-- . |+|.+|||++|++|..||+...++.++||--..+....
T Consensus 132 ~~~LT~RE~eVL~ll~-~----G~snkeIA~~L~iS~~TV~~h~~~I~~KLgv~n~~eLv 186 (207)
T PRK11475 132 SRMLSPTEREILRFMS-R----GYSMPQIAEQLERNIKTIRAHKFNVMSKLGVSSDAGLL 186 (207)
T ss_pred cCCCCHHHHHHHHHHH-C----CCCHHHHHHHHCCCHHHHHHHHHHHHHHcCCCCHHHHH
Confidence 3469999999998853 4 45999999999999999999999999999876666543
|
|
| >PRK10100 DNA-binding transcriptional regulator CsgD; Provisional | Back alignment and domain information |
|---|
Probab=95.97 E-value=0.014 Score=64.88 Aligned_cols=55 Identities=15% Similarity=0.165 Sum_probs=48.8
Q ss_pred HccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhH
Q psy15215 1364 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKL 1423 (1432)
Q Consensus 1364 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l 1423 (1432)
+..||++|++|+.+... |. |.+|||+.|++|..||+...+++++||.-..|.+..
T Consensus 153 ~~~Lt~rE~~Vl~l~~~-G~----s~~eIA~~L~iS~~TVk~~~~~i~~Kl~v~nr~elv 207 (216)
T PRK10100 153 SALLTHREKEILNKLRI-GA----SNNEIARSLFISENTVKTHLYNLFKKIAVKNRTQAV 207 (216)
T ss_pred cCCCCHHHHHHHHHHHc-CC----CHHHHHHHhCCCHHHHHHHHHHHHHHhCCCCHHHHH
Confidence 34699999999999874 55 999999999999999999999999999987777754
|
|
| >PF02001 DUF134: Protein of unknown function DUF134; InterPro: IPR002852 The bacterial and archaeal proteins in this family have no known function | Back alignment and domain information |
|---|
Probab=95.97 E-value=0.014 Score=56.27 Aligned_cols=49 Identities=22% Similarity=0.264 Sum_probs=45.6
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCch
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 1418 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~ 1418 (1432)
.|+..|-+.|+|.++.|+ |++|-|+++||||.|+..++..|++|+-...
T Consensus 41 ~L~~dElEAiRL~D~egl----~QeeaA~~MgVSR~T~~ril~~ARkKiA~AL 89 (106)
T PF02001_consen 41 VLTVDELEAIRLVDYEGL----SQEEAAERMGVSRPTFQRILESARKKIADAL 89 (106)
T ss_pred EeeHHHHHHHHHHHHcCC----CHHHHHHHcCCcHHHHHHHHHHHHHHHHHHH
Confidence 388999999999999999 9999999999999999999999999997644
|
|
| >COG2739 Uncharacterized protein conserved in bacteria [Function unknown] | Back alignment and domain information |
|---|
Probab=95.95 E-value=0.013 Score=54.75 Aligned_cols=46 Identities=22% Similarity=0.394 Sum_probs=42.0
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhh
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr 1415 (1432)
-||.+|+..+.++|..+. |+.|||+.++|||++|...+.|+-..|-
T Consensus 17 LLT~KQ~~Y~~lyy~dDl----Sl~EIAee~~VSRqAIyDnIKr~~~~L~ 62 (105)
T COG2739 17 LLTKKQKNYLELYYLDDL----SLSEIAEEFNVSRQAIYDNIKRTEKILE 62 (105)
T ss_pred HHhHHHHHHHHHHHHhhc----cHHHHHHHhCccHHHHHHHHHHHHHHHH
Confidence 489999999999998888 9999999999999999999999876653
|
|
| >PRK13719 conjugal transfer transcriptional regulator TraJ; Provisional | Back alignment and domain information |
|---|
Probab=95.95 E-value=0.01 Score=64.42 Aligned_cols=50 Identities=14% Similarity=0.159 Sum_probs=44.6
Q ss_pred HHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 571 KDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 571 ~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
..+...|||||++||+|. ..|+|.+|||+.|++|+.||+.+..+.++||.
T Consensus 138 ~~~~~~LS~RE~eVL~Li-----a~G~SnkEIA~~L~IS~~TVk~hvs~I~~KLg 187 (217)
T PRK13719 138 LEAKNKVTKYQNDVFILY-----SFGFSHEYIAQLLNITVGSSKNKISEILKFFG 187 (217)
T ss_pred hhccCCCCHHHHHHHHHH-----HCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhC
Confidence 456788999999999985 34559999999999999999999999999995
|
|
| >COG4566 TtrR Response regulator [Signal transduction mechanisms] | Back alignment and domain information |
|---|
Probab=95.94 E-value=0.024 Score=59.64 Aligned_cols=59 Identities=19% Similarity=0.351 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHH
Q psy15215 564 ASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPL 627 (1432)
Q Consensus 564 ~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~ 627 (1432)
......+...+++||||||+||..-- .|+..++||..||+|+-||..+.++.++|++..
T Consensus 130 ~~~~~~~~~~l~tLT~RERqVl~~vV-----~G~~NKqIA~dLgiS~rTVe~HRanvM~Km~a~ 188 (202)
T COG4566 130 ADRQAAIRARLATLTPRERQVLDLVV-----RGLMNKQIAFDLGISERTVELHRANVMEKMQAR 188 (202)
T ss_pred HHHHHHHHHHHHhcCHHHHHHHHHHH-----cCcccHHHHHHcCCchhhHHHHHHHHHHHHhhc
Confidence 34567888999999999999998764 455999999999999999999999999998743
|
|
| >cd06170 LuxR_C_like C-terminal DNA-binding domain of LuxR-like proteins | Back alignment and domain information |
|---|
Probab=95.91 E-value=0.015 Score=49.44 Aligned_cols=45 Identities=29% Similarity=0.434 Sum_probs=39.1
Q ss_pred CCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 577 LTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 577 L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
||++++.++.+. ..|+ |.++||+.+|+|+.+|+.+.+++++++..
T Consensus 1 l~~~e~~i~~~~-~~~~----s~~eia~~l~~s~~tv~~~~~~~~~~l~~ 45 (57)
T cd06170 1 LTPREREVLRLL-AEGK----TNKEIADILGISEKTVKTHLRNIMRKLGV 45 (57)
T ss_pred CCHHHHHHHHHH-HcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHhCC
Confidence 689999999874 4555 99999999999999999999999888764
|
This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many are active as homodimers. Many are two domain proteins in which the DNA binding property of the C-terminal DNA binding domain is modulated by modifications of the N-terminal domain. For example in the case of Lux R which participates in the regulation of gene expression in response to fluctuations in cell-population density (quorum-sensing), a signaling molecule, the pheromone Acyl HSL (N-acyl derivatives of homoserine lactone), binds to the N-terminal domain and leads to LuxR dimerization. For others phophorylation of the N-terminal domain leads to multimerization, for example Escherichia coli NarL and Sinorhizobium melilot FixJ. NarL controls gene expression of many respiratory-related operons when environmental |
| >COG2771 CsgD DNA-binding HTH domain-containing proteins [Transcription] | Back alignment and domain information |
|---|
Probab=95.89 E-value=0.025 Score=49.64 Aligned_cols=57 Identities=23% Similarity=0.370 Sum_probs=48.7
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHhh
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIF 1426 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~~ 1426 (1432)
..|+++|.+|+.+.- .++|..|||..+++|+.+|+....++.+||.-..+...+..+
T Consensus 3 ~~Lt~rE~~v~~l~~-----~G~s~~eia~~l~is~~tV~~h~~~i~~Kl~~~~r~~~~~~~ 59 (65)
T COG2771 3 ADLTPREREILRLVA-----QGKSNKEIARILGISEETVKTHLRNIYRKLGVKNRVELVALA 59 (65)
T ss_pred ccCCHHHHHHHHHHH-----CCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHH
Confidence 469999999997753 335999999999999999999999999999998887765544
|
|
| >COG3413 Predicted DNA binding protein [General function prediction only] | Back alignment and domain information |
|---|
Probab=95.85 E-value=0.015 Score=64.65 Aligned_cols=51 Identities=24% Similarity=0.414 Sum_probs=46.4
Q ss_pred cCCHHHHHHHHHHhcccCC---CCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhC
Q psy15215 1366 SLTPRESKVLRMRFGIEMS---SDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 1416 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~---~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~ 1416 (1432)
.||++|++||+.-|-.|.. ...|++|||+.||||.+++.++++||.+||=.
T Consensus 155 ~LTdrQ~~vL~~A~~~GYFd~PR~~~l~dLA~~lGISkst~~ehLRrAe~Kl~~ 208 (215)
T COG3413 155 DLTDRQLEVLRLAYKMGYFDYPRRVSLKDLAKELGISKSTLSEHLRRAERKLIE 208 (215)
T ss_pred cCCHHHHHHHHHHHHcCCCCCCccCCHHHHHHHhCCCHHHHHHHHHHHHHHHHH
Confidence 6999999999999987753 67899999999999999999999999999844
|
|
| >PRK15411 rcsA colanic acid capsular biosynthesis activation protein A; Provisional | Back alignment and domain information |
|---|
Probab=95.81 E-value=0.012 Score=65.15 Aligned_cols=45 Identities=22% Similarity=0.380 Sum_probs=41.6
Q ss_pred cCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
.|||||++||.|. ..|+|.+|||++||+|..||+.+..+.++||.
T Consensus 137 ~LT~RE~eVL~ll-----a~G~snkeIA~~L~iS~~TVk~h~~~I~~KL~ 181 (207)
T PRK15411 137 SLSRTESSMLRMW-----MAGQGTIQISDQMNIKAKTVSSHKGNIKRKIK 181 (207)
T ss_pred cCCHHHHHHHHHH-----HcCCCHHHHHHHcCCCHHHHHHHHHHHHHHhC
Confidence 4999999999986 46669999999999999999999999999997
|
|
| >COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription] | Back alignment and domain information |
|---|
Probab=95.79 E-value=0.017 Score=64.03 Aligned_cols=56 Identities=25% Similarity=0.360 Sum_probs=48.5
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHh
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKI 1425 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~ 1425 (1432)
..||+||++||++- . .|+|.+|||++|++|..||+...++.++||.-..|......
T Consensus 147 ~~LT~RE~eVL~ll-a----~G~snkeIA~~L~iS~~TVk~h~~~i~~KL~v~~Rtea~~~ 202 (211)
T COG2197 147 ELLTPRELEVLRLL-A----EGLSNKEIAEELNLSEKTVKTHVSNILRKLGVRNRTEAAIR 202 (211)
T ss_pred CCCCHHHHHHHHHH-H----CCCCHHHHHHHHCCCHhHHHHHHHHHHHHcCCCCHHHHHHH
Confidence 56999999999884 3 44599999999999999999999999999998887765443
|
|
| >PRK01381 Trp operon repressor; Provisional | Back alignment and domain information |
|---|
Probab=95.74 E-value=0.017 Score=54.47 Aligned_cols=61 Identities=21% Similarity=0.255 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHHHcc-CCHHHHHHHHHHhcccC---CCCCCHHHHHHHhCCCHHHHHHHHHHHHHH
Q psy15215 1352 LNASMRSVVKDILNS-LTPRESKVLRMRFGIEM---SSDHTLEEVGKQFDVTRERIRQIEAKALRK 1413 (1432)
Q Consensus 1352 ~~~~~~~~l~~~L~~-L~~rer~Vl~lr~~~~~---~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~k 1413 (1432)
......+.+...|.. |||+|+..|..||++-. ..++|+.|||+.+|||+.+|. +-+++|+.
T Consensus 17 ~~a~~~~~~~~~l~~llTp~Er~al~~R~~I~~~L~~g~~sQREIa~~lGvSiaTIT-Rgsn~Lk~ 81 (99)
T PRK01381 17 KQAFEEDLHLPLLTLLLTPDEREALGTRVRIVEELLRGELSQREIKQELGVGIATIT-RGSNSLKT 81 (99)
T ss_pred HHhccHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHcCCcCHHHHHHHhCCceeeeh-hhHHHhcc
Confidence 334445666677776 99999999999998764 456899999999999999987 23444443
|
|
| >COG4941 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription] | Back alignment and domain information |
|---|
Probab=95.69 E-value=0.22 Score=56.82 Aligned_cols=187 Identities=13% Similarity=0.113 Sum_probs=119.1
Q ss_pred HHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHH
Q psy15215 404 EMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMI 483 (1432)
Q Consensus 404 ~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~ 483 (1432)
..+..-.+.++.---+|+..-.-.++..|+.|+...+.-.+=-+- -.-..|++..-|+.-.+.+|++.+.-+.|.+
T Consensus 9 ~~~r~~~~r~~a~L~r~~rd~dlAEEa~~dA~~~Ale~WPr~G~P--~~PaAWL~~v~R~~aiD~~Rr~~~~~~~~~e-- 84 (415)
T COG4941 9 AAARIERPRAMAALARYLRDLDLAEEALQDAFAAALERWPRAGPP--RNPAAWLIAVGRNRAIDRVRRRARRDAAPPE-- 84 (415)
T ss_pred HHHHHhhhHHHHHHHHHhcccchHHHHHHHHHHHHHHhCcccCCC--CChHHHHHHHHhhhHHHHHHHHHHhccCChh--
Confidence 344444455555555677776779999999998644433322222 2457899999999999999988763222221
Q ss_pred HHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHH
Q psy15215 484 ETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALN 563 (1432)
Q Consensus 484 ~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~ 563 (1432)
+ .+|. +++.....+-..|. .+.+
T Consensus 85 -------------------------l--------------------~~~~-----e~~e~~~a~~~~d~-------~i~D 107 (415)
T COG4941 85 -------------------------L--------------------LLSD-----EDEEMEEAEALDDE-------HIRD 107 (415)
T ss_pred -------------------------h--------------------cccc-----cchhhhcccccccc-------ccch
Confidence 0 0111 01111111101111 1111
Q ss_pred HHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH-------HHHHhh
Q psy15215 564 ASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD-------WLEQRT 636 (1432)
Q Consensus 564 ~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~-------~~~~~l 636 (1432)
..++-..-.+=--|||.+|--|.||...|. |..|||.-|=++..+..|+..||..+++..--. -+.+++
T Consensus 108 d~LRLiFvccHPal~~~~riALtLR~v~GL----s~~eIArAFLv~e~am~QRivRAK~ri~~agiPfevP~~~e~~ERl 183 (415)
T COG4941 108 DRLRLIFVCCHPALPPEQRIALTLRLVGGL----STAEIARAFLVPEAAMAQRIVRAKARIREAGIPFEVPGPQELPERL 183 (415)
T ss_pred hhHHhhhhhcCCCCChhhHHHHHHHHHcCC----cHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCCCCcCCChhhHHHHH
Confidence 122222233334599999999999999999 999999999999999999999999999875432 355667
Q ss_pred hhhhhhHhhcCCCcccccccccCCCCCc
Q psy15215 637 HQNEKIIACSSDSSNHNEHVTNNNFPPG 664 (1432)
Q Consensus 637 ~~~~~~~~l~~l~~~~~~~f~~Gyap~~ 664 (1432)
...-+++|| -|.=||+..+
T Consensus 184 aaVl~~iYl---------iFneGysa~~ 202 (415)
T COG4941 184 AAVLQVIYL---------IFNEGYSATA 202 (415)
T ss_pred HHHHHHHHH---------HHhccccccC
Confidence 667777785 5777887663
|
|
| >TIGR01637 phage_arpU phage transcriptional regulator, ArpU family | Back alignment and domain information |
|---|
Probab=95.67 E-value=0.087 Score=53.82 Aligned_cols=63 Identities=11% Similarity=0.129 Sum_probs=52.9
Q ss_pred HHHHHHHHHH-hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHH
Q psy15215 565 SMRSVVKDIL-NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 565 ~~~~~l~~~L-~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~ 629 (1432)
.....+..++ ..|++.+|.||.++|.... .++..+|+..+|+|..+......+|+.++...+.
T Consensus 67 ~~~~~i~~ai~~~l~~~~r~Il~~~Yl~~~--~~~~~~I~~~l~~s~~~~y~~k~~Al~~fA~~l~ 130 (132)
T TIGR01637 67 QEARAIVNAIVNQLDEISRQILYDKYLEPD--QKYDYQIMMELGYSHRQYYRIKKRALLRFATLYG 130 (132)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHcCcc--ccchHHHHHHhCCcHHHHHHHHHHHHHHHHHHhC
Confidence 3455677777 9999999999999998721 3489999999999999999999999999876653
|
This model represents a family of phage proteins, including ArpU, called a putative autolysin regulatory protein. ArpU was described as a regulator of cellular muramidase-2 of Enterococcus hirae but appears to have been cloned from a prophage. This family appears related to the RinA family of bacteriophage transcriptional activators and to some sporulation-specific sigma factors. We propose that this is a phage transcriptional activator family. |
| >PRK10840 transcriptional regulator RcsB; Provisional | Back alignment and domain information |
|---|
Probab=95.67 E-value=0.019 Score=63.82 Aligned_cols=54 Identities=26% Similarity=0.356 Sum_probs=46.7
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhH
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKL 1423 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l 1423 (1432)
..||+||++||.+-- .|+|.+|||+.|++|..||+.+.++.++||--..+...+
T Consensus 149 ~~Lt~rE~evl~~~~-----~G~s~~eIA~~l~iS~~TV~~h~~~i~~Kl~v~~~~~l~ 202 (216)
T PRK10840 149 KRLSPKESEVLRLFA-----EGFLVTEIAKKLNRSIKTISSQKKSAMMKLGVENDIALL 202 (216)
T ss_pred ccCCHHHHHHHHHHH-----CCCCHHHHHHHHCCCHHHHHHHHHHHHHHcCCCCHHHHH
Confidence 359999999998863 445999999999999999999999999999876666543
|
|
| >PF02001 DUF134: Protein of unknown function DUF134; InterPro: IPR002852 The bacterial and archaeal proteins in this family have no known function | Back alignment and domain information |
|---|
Probab=95.66 E-value=0.025 Score=54.54 Aligned_cols=48 Identities=23% Similarity=0.264 Sum_probs=45.6
Q ss_pred CCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 577 LTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 577 L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
|+..|-+.|+|.+.+|+ |++|.|+.||||+.|+..+...|.+|+...+
T Consensus 42 L~~dElEAiRL~D~egl----~QeeaA~~MgVSR~T~~ril~~ARkKiA~AL 89 (106)
T PF02001_consen 42 LTVDELEAIRLVDYEGL----SQEEAAERMGVSRPTFQRILESARKKIADAL 89 (106)
T ss_pred eeHHHHHHHHHHHHcCC----CHHHHHHHcCCcHHHHHHHHHHHHHHHHHHH
Confidence 89999999999999999 9999999999999999999999999998776
|
|
| >PRK11475 DNA-binding transcriptional activator BglJ; Provisional | Back alignment and domain information |
|---|
Probab=95.58 E-value=0.016 Score=64.09 Aligned_cols=47 Identities=23% Similarity=0.396 Sum_probs=42.0
Q ss_pred HhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 574 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 574 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
...||+||++||.+. ..|+|.+|||+.|++|..||+.+..+.++||.
T Consensus 132 ~~~LT~RE~eVL~ll-----~~G~snkeIA~~L~iS~~TV~~h~~~I~~KLg 178 (207)
T PRK11475 132 SRMLSPTEREILRFM-----SRGYSMPQIAEQLERNIKTIRAHKFNVMSKLG 178 (207)
T ss_pred cCCCCHHHHHHHHHH-----HCCCCHHHHHHHHCCCHHHHHHHHHHHHHHcC
Confidence 346999999999986 35569999999999999999999999999995
|
|
| >TIGR01637 phage_arpU phage transcriptional regulator, ArpU family | Back alignment and domain information |
|---|
Probab=95.55 E-value=0.095 Score=53.55 Aligned_cols=61 Identities=10% Similarity=0.116 Sum_probs=51.2
Q ss_pred HHHHHHHHHH-ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1355 SMRSVVKDIL-NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1355 ~~~~~l~~~L-~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
.....+..++ +.|++.+|.||.++|.... ..+..+|+..+|+|+.+...+..+|+.++-..
T Consensus 67 ~~~~~i~~ai~~~l~~~~r~Il~~~Yl~~~--~~~~~~I~~~l~~s~~~~y~~k~~Al~~fA~~ 128 (132)
T TIGR01637 67 QEARAIVNAIVNQLDEISRQILYDKYLEPD--QKYDYQIMMELGYSHRQYYRIKKRALLRFATL 128 (132)
T ss_pred HHHHHHHHHHHHhCCHHHHHHHHHHHcCcc--ccchHHHHHHhCCcHHHHHHHHHHHHHHHHHH
Confidence 3445667777 8999999999999998721 34899999999999999999999999988653
|
This model represents a family of phage proteins, including ArpU, called a putative autolysin regulatory protein. ArpU was described as a regulator of cellular muramidase-2 of Enterococcus hirae but appears to have been cloned from a prophage. This family appears related to the RinA family of bacteriophage transcriptional activators and to some sporulation-specific sigma factors. We propose that this is a phage transcriptional activator family. |
| >PRK13870 transcriptional regulator TraR; Provisional | Back alignment and domain information |
|---|
Probab=95.50 E-value=0.024 Score=63.93 Aligned_cols=52 Identities=23% Similarity=0.286 Sum_probs=46.5
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhh
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~ 1422 (1432)
.||+||++||.+- ..|+|..|||.+||||..||...+..|++||--..|...
T Consensus 173 ~LT~RE~E~L~W~-----A~GKT~~EIa~ILgISe~TV~~Hl~na~~KLga~nr~qA 224 (234)
T PRK13870 173 WLDPKEATYLRWI-----AVGKTMEEIADVEGVKYNSVRVKLREAMKRFDVRSKAHL 224 (234)
T ss_pred CCCHHHHHHHHHH-----HcCCCHHHHHHHHCCCHHHHHHHHHHHHHHcCCCCHHHH
Confidence 5999999999886 356699999999999999999999999999988777664
|
|
| >PRK10188 DNA-binding transcriptional activator SdiA; Provisional | Back alignment and domain information |
|---|
Probab=95.30 E-value=0.032 Score=63.16 Aligned_cols=52 Identities=13% Similarity=0.280 Sum_probs=46.6
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhh
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~ 1422 (1432)
.||+||++||.+- ..| +|..|||.+||||..||+..+.++++||--..+...
T Consensus 179 ~LT~rE~evl~~~-a~G----~t~~eIa~~l~is~~TV~~h~~~~~~KL~~~nr~q~ 230 (240)
T PRK10188 179 NFSKREKEILKWT-AEG----KTSAEIAMILSISENTVNFHQKNMQKKFNAPNKTQI 230 (240)
T ss_pred CCCHHHHHHHHHH-HcC----CCHHHHHHHhCCCHHHHHHHHHHHHHHhCCCCHHHH
Confidence 5999999999997 344 499999999999999999999999999987777665
|
|
| >COG2197 CitB Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription] | Back alignment and domain information |
|---|
Probab=95.24 E-value=0.023 Score=63.09 Aligned_cols=46 Identities=28% Similarity=0.500 Sum_probs=41.9
Q ss_pred hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 575 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 575 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
..||+||+.||+|- ..|+|.+|||..|++|..||+.+.++.++||.
T Consensus 147 ~~LT~RE~eVL~ll-----a~G~snkeIA~~L~iS~~TVk~h~~~i~~KL~ 192 (211)
T COG2197 147 ELLTPRELEVLRLL-----AEGLSNKEIAEELNLSEKTVKTHVSNILRKLG 192 (211)
T ss_pred CCCCHHHHHHHHHH-----HCCCCHHHHHHHHCCCHhHHHHHHHHHHHHcC
Confidence 56999999999985 45669999999999999999999999999995
|
|
| >PRK10840 transcriptional regulator RcsB; Provisional | Back alignment and domain information |
|---|
Probab=95.19 E-value=0.025 Score=62.95 Aligned_cols=46 Identities=28% Similarity=0.463 Sum_probs=41.6
Q ss_pred hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 575 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 575 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
..||+||++||.+. ..|+|.+|||+.+++|..||+.+..+.++||.
T Consensus 149 ~~Lt~rE~evl~~~-----~~G~s~~eIA~~l~iS~~TV~~h~~~i~~Kl~ 194 (216)
T PRK10840 149 KRLSPKESEVLRLF-----AEGFLVTEIAKKLNRSIKTISSQKKSAMMKLG 194 (216)
T ss_pred ccCCHHHHHHHHHH-----HCCCCHHHHHHHHCCCHHHHHHHHHHHHHHcC
Confidence 35999999999986 35669999999999999999999999999994
|
|
| >PF13936 HTH_38: Helix-turn-helix domain; PDB: 2W48_A | Back alignment and domain information |
|---|
Probab=95.11 E-value=0.026 Score=45.71 Aligned_cols=41 Identities=20% Similarity=0.367 Sum_probs=23.6
Q ss_pred hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHH
Q psy15215 575 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 619 (1432)
Q Consensus 575 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~r 619 (1432)
..|++.|+..|...+-.|+ |..+||..||+++++|....+|
T Consensus 3 ~~Lt~~eR~~I~~l~~~G~----s~~~IA~~lg~s~sTV~relkR 43 (44)
T PF13936_consen 3 KHLTPEERNQIEALLEQGM----SIREIAKRLGRSRSTVSRELKR 43 (44)
T ss_dssp ---------HHHHHHCS-------HHHHHHHTT--HHHHHHHHHH
T ss_pred cchhhhHHHHHHHHHHcCC----CHHHHHHHHCcCcHHHHHHHhc
Confidence 4699999999988876565 9999999999999999977665
|
|
| >COG1356 tfx Transcriptional regulator [DNA replication, recombination and repair] | Back alignment and domain information |
|---|
Probab=95.11 E-value=0.014 Score=56.39 Aligned_cols=49 Identities=29% Similarity=0.406 Sum_probs=43.8
Q ss_pred CCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhh
Q psy15215 1367 LTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRY 1420 (1432)
Q Consensus 1367 L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~ 1420 (1432)
|+++|-+||.||- +|.|.+|||+.||-|+..|+-++.+|+.++.+....
T Consensus 9 lte~qikvl~lRe-----kG~tQ~eIA~~L~TTraNvSaIEkrA~enIekarnT 57 (143)
T COG1356 9 LTEQQIKVLVLRE-----KGLTQSEIARILKTTRANVSAIEKRALENIEKARNT 57 (143)
T ss_pred eehhheeeeehhh-----ccccHHHHHHHHccchhhHHHHHHHHHHHHHHHHHH
Confidence 8999999999994 566999999999999999999999999999875443
|
|
| >PRK15369 two component system sensor kinase SsrB; Provisional | Back alignment and domain information |
|---|
Probab=95.05 E-value=0.048 Score=59.22 Aligned_cols=55 Identities=22% Similarity=0.323 Sum_probs=47.6
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHH
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~ 1424 (1432)
..||++|++||.+ +..|. |.+|||+.+++|..||+.+..++++||.-..+...+.
T Consensus 148 ~~lt~~e~~vl~l-~~~g~----~~~~Ia~~l~~s~~tv~~~~~~~~~kl~~~~~~~l~~ 202 (211)
T PRK15369 148 PLLTPRERQILKL-ITEGY----TNRDIAEQLSISIKTVETHRLNMMRKLDVHKVAELLN 202 (211)
T ss_pred cCCCHHHHHHHHH-HHCCC----CHHHHHHHhCCCHHHHHHHHHHHHHHhCCCCHHHHHH
Confidence 4599999999998 55555 9999999999999999999999999998777655444
|
|
| >PRK13870 transcriptional regulator TraR; Provisional | Back alignment and domain information |
|---|
Probab=94.88 E-value=0.035 Score=62.59 Aligned_cols=46 Identities=24% Similarity=0.342 Sum_probs=42.2
Q ss_pred cCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
.||+||++||++- ..|+|..|||.+||||..||..+...|.+||--
T Consensus 173 ~LT~RE~E~L~W~-----A~GKT~~EIa~ILgISe~TV~~Hl~na~~KLga 218 (234)
T PRK13870 173 WLDPKEATYLRWI-----AVGKTMEEIADVEGVKYNSVRVKLREAMKRFDV 218 (234)
T ss_pred CCCHHHHHHHHHH-----HcCCCHHHHHHHHCCCHHHHHHHHHHHHHHcCC
Confidence 5999999999986 567799999999999999999999999999953
|
|
| >TIGR03020 EpsA transcriptional regulator EpsA | Back alignment and domain information |
|---|
Probab=94.80 E-value=0.042 Score=62.09 Aligned_cols=47 Identities=19% Similarity=0.227 Sum_probs=42.4
Q ss_pred HhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 574 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 574 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
+..||++|++|+.+.. .|+ |..|||+.||+|+.+|+.+..++++||.
T Consensus 188 ~~~LT~RE~evl~l~a-~G~----s~~eIA~~L~IS~~TVk~hl~~i~~KL~ 234 (247)
T TIGR03020 188 AGLITAREAEILAWVR-DGK----TNEEIAAILGISSLTVKNHLQHIFKKLD 234 (247)
T ss_pred ccCCCHHHHHHHHHHH-CCC----CHHHHHHHHCcCHHHHHHHHHHHHHHhC
Confidence 4579999999999853 555 9999999999999999999999999986
|
Proteins in this family include a C-terminal LuxR transcriptional regulator domain (pfam00196). These proteins are positioned proximal to either EpsH-containing exopolysaccharide biosynthesis operons of the Methylobacillus type, or the associated PEP-CTERM-containing genes. |
| >PRK10100 DNA-binding transcriptional regulator CsgD; Provisional | Back alignment and domain information |
|---|
Probab=94.80 E-value=0.041 Score=61.23 Aligned_cols=47 Identities=15% Similarity=0.187 Sum_probs=42.2
Q ss_pred HhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 574 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 574 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
+..||+||++||.+... |+ |.+|||+.|++|..+|+.+..++++||.
T Consensus 153 ~~~Lt~rE~~Vl~l~~~-G~----s~~eIA~~L~iS~~TVk~~~~~i~~Kl~ 199 (216)
T PRK10100 153 SALLTHREKEILNKLRI-GA----SNNEIARSLFISENTVKTHLYNLFKKIA 199 (216)
T ss_pred cCCCCHHHHHHHHHHHc-CC----CHHHHHHHhCCCHHHHHHHHHHHHHHhC
Confidence 34599999999999863 44 9999999999999999999999999995
|
|
| >COG2771 CsgD DNA-binding HTH domain-containing proteins [Transcription] | Back alignment and domain information |
|---|
Probab=94.62 E-value=0.069 Score=46.86 Aligned_cols=48 Identities=25% Similarity=0.443 Sum_probs=41.6
Q ss_pred hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHH
Q psy15215 575 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPL 627 (1432)
Q Consensus 575 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~ 627 (1432)
..|+++|.+|+.+. ..|+|..|||..+++|+.+|+....++..|+.-.
T Consensus 3 ~~Lt~rE~~v~~l~-----~~G~s~~eia~~l~is~~tV~~h~~~i~~Kl~~~ 50 (65)
T COG2771 3 ADLTPREREILRLV-----AQGKSNKEIARILGISEETVKTHLRNIYRKLGVK 50 (65)
T ss_pred ccCCHHHHHHHHHH-----HCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHCCC
Confidence 45999999999875 3456999999999999999999999999998643
|
|
| >TIGR03541 reg_near_HchA LuxR family transcriptional regulatory, chaperone HchA-associated | Back alignment and domain information |
|---|
Probab=94.57 E-value=0.048 Score=61.49 Aligned_cols=48 Identities=19% Similarity=0.255 Sum_probs=42.9
Q ss_pred HhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 574 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 574 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
...||++|++||.+. ..|+ |..|||+.||+|..+|+.+..++++||.-
T Consensus 169 ~~~Lt~re~evl~~~-a~G~----t~~eIa~~l~is~~Tv~~~l~~~~~kl~~ 216 (232)
T TIGR03541 169 AGVLSEREREVLAWT-ALGR----RQADIAAILGISERTVENHLRSARRKLGV 216 (232)
T ss_pred hccCCHHHHHHHHHH-HCCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHCC
Confidence 347999999999995 4555 99999999999999999999999999973
|
Members of this protein family belong to the LuxR transcriptional regulator family, and contain both autoinducer binding (pfam03472) and transcriptional regulator (pfam00196) domains. Members, however, occur only in a few members of the Gammaproteobacteria that have the chaperone/aminopeptidase HchA, and are always encoded by the adjacent gene. |
| >PRK09390 fixJ response regulator FixJ; Provisional | Back alignment and domain information |
|---|
Probab=94.52 E-value=0.091 Score=56.69 Aligned_cols=61 Identities=15% Similarity=0.263 Sum_probs=52.1
Q ss_pred HHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHH
Q psy15215 1359 VVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1359 ~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~ 1424 (1432)
.+...+..|++++++|+.+ +..|. +.++||+.+|+|..+|+...+++++||+...+....+
T Consensus 134 ~~~~~~~~l~~~e~~vl~~-~~~~~----~~~~ia~~l~~s~~tv~~~~~~~~~kl~~~~~~~~~~ 194 (202)
T PRK09390 134 DIRARIASLSERERQVMDG-LVAGL----SNKVIARDLDISPRTVEVYRANVMTKMQAGSLSELVR 194 (202)
T ss_pred HHHHHHHhhhhhHHHHHHH-HHccC----chHHHHHHcCCCHHHHHHHHHHHHHHHccccHHHHHH
Confidence 3455678899999999986 54555 9999999999999999999999999999888877544
|
|
| >COG1342 Predicted DNA-binding proteins [General function prediction only] | Back alignment and domain information |
|---|
Probab=94.42 E-value=0.091 Score=48.73 Aligned_cols=48 Identities=23% Similarity=0.237 Sum_probs=44.9
Q ss_pred CCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 577 LTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 577 L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
|+..|-+.|+|...+++ |++|-|.+||||+.++.+....|+.|+-.++
T Consensus 34 lt~eElEAlRLvD~~~l----~QeeAA~rMgISr~Tfwr~l~sAR~KvA~aL 81 (99)
T COG1342 34 LTIEELEALRLVDYEGL----TQEEAALRMGISRQTFWRLLTSARKKVADAL 81 (99)
T ss_pred ecHHHHHHHHHHhHhhc----cHHHHHHHhcccHHHHHHHHHHHHHHHHHHH
Confidence 88899999999999999 9999999999999999999999999987766
|
|
| >COG3413 Predicted DNA binding protein [General function prediction only] | Back alignment and domain information |
|---|
Probab=94.39 E-value=0.081 Score=58.93 Aligned_cols=53 Identities=23% Similarity=0.392 Sum_probs=47.8
Q ss_pred cCCHHHHHHHHHHhhccc---CCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEM---SSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~---~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
.||++|++||+.-|-.|. .+..|++|+|+.||||.+++.+++++|.+||-..+
T Consensus 155 ~LTdrQ~~vL~~A~~~GYFd~PR~~~l~dLA~~lGISkst~~ehLRrAe~Kl~~~~ 210 (215)
T COG3413 155 DLTDRQLEVLRLAYKMGYFDYPRRVSLKDLAKELGISKSTLSEHLRRAERKLIEAY 210 (215)
T ss_pred cCCHHHHHHHHHHHHcCCCCCCccCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHHh
Confidence 599999999999998875 35689999999999999999999999999997654
|
|
| >PRK04017 hypothetical protein; Provisional | Back alignment and domain information |
|---|
Probab=94.38 E-value=0.078 Score=53.25 Aligned_cols=53 Identities=26% Similarity=0.309 Sum_probs=44.3
Q ss_pred cCCeEEEEecchhHHHHhhhCC---------------------CCCeEEEEecCcHHHHHHHHHHHHHhhhhcC
Q psy15215 728 KSGYVLITEGYMDVIGLSQFGF---------------------FANSSYTCFDGDQAGRRAARRALEVCLLYAT 780 (1432)
Q Consensus 728 ~~~~~~~vEG~~D~ia~~~~g~---------------------~~~~i~~~~D~D~aG~~a~~~~~~~~~~~~~ 780 (1432)
..+.+|||||=-|.-++.++|+ ....||+..|.|.+|.+-+.+..+.+...|.
T Consensus 21 ~~g~vIVVEGk~D~~~L~~lGv~~~iI~t~g~~~~~~~e~ia~~~r~VIILTD~D~~GekIr~~l~~~l~~~G~ 94 (132)
T PRK04017 21 EAGAPIIVEGKRDVESLRKLGVEGEIIKVSRTPLAEIAELIASRGKEVIILTDFDRKGEELAKKLSEYLQGYGI 94 (132)
T ss_pred CCCCEEEEeCccHHHHHHHcCCCccEEEECCeecchHHHHHHhcCCeEEEEECCCcchHHHHHHHHHHHHhCCC
Confidence 3468999999999999999988 4577999999999999888888777665554
|
|
| >COG1342 Predicted DNA-binding proteins [General function prediction only] | Back alignment and domain information |
|---|
Probab=94.36 E-value=0.082 Score=49.00 Aligned_cols=48 Identities=23% Similarity=0.248 Sum_probs=44.7
Q ss_pred CCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCch
Q psy15215 1367 LTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 1418 (1432)
Q Consensus 1367 L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~ 1418 (1432)
|+..|-+.|+|..+.++ |++|-|.++|||+.|+-+.+..|++|.-.+.
T Consensus 34 lt~eElEAlRLvD~~~l----~QeeAA~rMgISr~Tfwr~l~sAR~KvA~aL 81 (99)
T COG1342 34 LTIEELEALRLVDYEGL----TQEEAALRMGISRQTFWRLLTSARKKVADAL 81 (99)
T ss_pred ecHHHHHHHHHHhHhhc----cHHHHHHHhcccHHHHHHHHHHHHHHHHHHH
Confidence 78889999999999999 9999999999999999999999999987644
|
|
| >COG1356 tfx Transcriptional regulator [DNA replication, recombination and repair] | Back alignment and domain information |
|---|
Probab=94.34 E-value=0.029 Score=54.28 Aligned_cols=49 Identities=29% Similarity=0.432 Sum_probs=44.8
Q ss_pred CCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 577 LTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 577 L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
|+++|-+||.|| .+|.|++|||++||-|+..|+-++++|+.++.+.-+.
T Consensus 9 lte~qikvl~lR-----ekG~tQ~eIA~~L~TTraNvSaIEkrA~enIekarnT 57 (143)
T COG1356 9 LTEQQIKVLVLR-----EKGLTQSEIARILKTTRANVSAIEKRALENIEKARNT 57 (143)
T ss_pred eehhheeeeehh-----hccccHHHHHHHHccchhhHHHHHHHHHHHHHHHHHH
Confidence 899999999999 4777999999999999999999999999999876654
|
|
| >COG2739 Uncharacterized protein conserved in bacteria [Function unknown] | Back alignment and domain information |
|---|
Probab=94.26 E-value=0.09 Score=49.28 Aligned_cols=47 Identities=21% Similarity=0.381 Sum_probs=41.8
Q ss_pred cCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
-||.+|+..+.++|..+. |+.|||+.++||+..|.....|.-..|-.
T Consensus 17 LLT~KQ~~Y~~lyy~dDl----Sl~EIAee~~VSRqAIyDnIKr~~~~L~~ 63 (105)
T COG2739 17 LLTKKQKNYLELYYLDDL----SLSEIAEEFNVSRQAIYDNIKRTEKILED 63 (105)
T ss_pred HHhHHHHHHHHHHHHhhc----cHHHHHHHhCccHHHHHHHHHHHHHHHHH
Confidence 389999999999998888 99999999999999999888887666543
|
|
| >PRK10651 transcriptional regulator NarL; Provisional | Back alignment and domain information |
|---|
Probab=94.23 E-value=0.09 Score=57.63 Aligned_cols=55 Identities=24% Similarity=0.405 Sum_probs=47.1
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHH
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~ 1424 (1432)
..||++|++|+.+. ..|. |.++||+.+++|..||+...++.++||.-..+.+...
T Consensus 154 ~~Lt~rE~~vl~~l-~~g~----~~~~ia~~l~is~~tV~~~~~~l~~Kl~~~~~~~~~~ 208 (216)
T PRK10651 154 NQLTPRERDILKLI-AQGL----PNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAV 208 (216)
T ss_pred ccCCHHHHHHHHHH-HcCC----CHHHHHHHcCCCHHHHHHHHHHHHHHcCCCCHHHHHH
Confidence 45999999999984 3454 9999999999999999999999999998777666533
|
|
| >PF12645 HTH_16: Helix-turn-helix domain; InterPro: IPR024760 This domain appears to be a helix-turn-helix domain, suggesting a transcriptional regulatory protein | Back alignment and domain information |
|---|
Probab=94.22 E-value=0.13 Score=45.33 Aligned_cols=58 Identities=22% Similarity=0.272 Sum_probs=49.2
Q ss_pred HHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcc-----c-CCCChhhHHHHHHHHHHHHHhhcc
Q psy15215 386 DINRKMIAGEMKARKAKREMTEANLRLVISIAKKYT-----D-RGLQFLDLIQEGNIGLMKAVDKFE 446 (1432)
Q Consensus 386 ~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~-----~-~~~~~~DLiQEg~igL~kav~~fd 446 (1432)
+++.++++||.. |.++++..|.|++.+.+.+-+ + .+.--+|+-|+-...|++++-+|+
T Consensus 2 ~vI~~A~~GD~~---A~~~IL~~y~~yI~kls~r~~~d~~g~~~~~vDedl~q~l~~kLi~~I~~F~ 65 (65)
T PF12645_consen 2 EVIKAAKQGDPE---AMEEILKHYEPYISKLSTRTLYDEYGNVYGYVDEDLKQRLEIKLIEAILKFE 65 (65)
T ss_pred HHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHhhcccccCCcCceeCHHHHHHHHHHHHHHHHccC
Confidence 467889999999 999999999999999987621 1 134459999999999999999985
|
Some proteins with this domain are annotated as conjugative transposon proteins. |
| >PRK09483 response regulator; Provisional | Back alignment and domain information |
|---|
Probab=94.17 E-value=0.079 Score=58.47 Aligned_cols=53 Identities=17% Similarity=0.276 Sum_probs=45.3
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhh
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~ 1422 (1432)
..||++|++||.+. ..| +|.+|||+.|++|..||+...++.++||--..+...
T Consensus 147 ~~Lt~rE~~vl~~~-~~G----~~~~~Ia~~l~is~~TV~~~~~~i~~Kl~v~~~~~l 199 (217)
T PRK09483 147 ASLSERELQIMLMI-TKG----QKVNEISEQLNLSPKTVNSYRYRMFSKLNISGDVEL 199 (217)
T ss_pred cccCHHHHHHHHHH-HCC----CCHHHHHHHhCCCHHHHHHHHHHHHHHcCCCCHHHH
Confidence 46999999999874 344 499999999999999999999999999976665553
|
|
| >PRK10188 DNA-binding transcriptional activator SdiA; Provisional | Back alignment and domain information |
|---|
Probab=94.03 E-value=0.077 Score=60.11 Aligned_cols=46 Identities=13% Similarity=0.312 Sum_probs=41.6
Q ss_pred cCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
.||+||++||++- . .|+|..|||++||+|..+|+.+..++++||.-
T Consensus 179 ~LT~rE~evl~~~-a----~G~t~~eIa~~l~is~~TV~~h~~~~~~KL~~ 224 (240)
T PRK10188 179 NFSKREKEILKWT-A----EGKTSAEIAMILSISENTVNFHQKNMQKKFNA 224 (240)
T ss_pred CCCHHHHHHHHHH-H----cCCCHHHHHHHhCCCHHHHHHHHHHHHHHhCC
Confidence 5999999999997 3 45599999999999999999999999999963
|
|
| >PRK15320 transcriptional activator SprB; Provisional | Back alignment and domain information |
|---|
Probab=93.92 E-value=0.098 Score=55.05 Aligned_cols=50 Identities=20% Similarity=0.272 Sum_probs=43.3
Q ss_pred HHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1363 ILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1363 ~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
+--.||.+|.+|+.+- .+|+|.+|||++|++|.+||+...++.+.||.-.
T Consensus 161 ~~~~LSdREIEVL~LL-----AkG~SNKEIAekL~LS~KTVSTYKnRLLeKLgAk 210 (251)
T PRK15320 161 LPPGVTQAKYALLILL-----SSGHPAIELAKKFGLGTKTVSIYRKKVMYRLGMD 210 (251)
T ss_pred CCCCCCHHHHHHHHHH-----HcCCCHHHHHHHhccchhhHHHHHHHHHHHcCCC
Confidence 3357999999999885 3556999999999999999999999999999753
|
|
| >PRK10360 DNA-binding transcriptional activator UhpA; Provisional | Back alignment and domain information |
|---|
Probab=93.91 E-value=0.13 Score=55.76 Aligned_cols=60 Identities=17% Similarity=0.253 Sum_probs=52.3
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHhhhcc
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~~~~~ 1429 (1432)
..|+++|.+|+.+-. .| +|.++||+.+++|..||+.+..+.++||.-..+.....-|+++
T Consensus 136 ~~Lt~~E~~il~~l~-~g----~~~~~Ia~~l~~s~~tv~~~~~~l~~Kl~~~~~~~l~~~~~~~ 195 (196)
T PRK10360 136 DPLTKRERQVAEKLA-QG----MAVKEIAAELGLSPKTVHVHRANLMEKLGVSNDVELARRMFDG 195 (196)
T ss_pred cCCCHHHHHHHHHHH-CC----CCHHHHHHHhCCCHHHHHHHHHHHHHHhCCCCHHHHHHHHHhc
Confidence 369999999998844 44 4999999999999999999999999999988888877777664
|
|
| >PF12645 HTH_16: Helix-turn-helix domain; InterPro: IPR024760 This domain appears to be a helix-turn-helix domain, suggesting a transcriptional regulatory protein | Back alignment and domain information |
|---|
Probab=93.52 E-value=0.23 Score=43.88 Aligned_cols=58 Identities=22% Similarity=0.260 Sum_probs=49.5
Q ss_pred HHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhcc----C--CCCChhHHHHHHHHHHHHHHHhcc
Q psy15215 1176 DINRKMIAGEMKARKAKREMTEANLRLVISIAKKYT----D--RGLQFLDLIQEGNIGLMKAVDKFE 1236 (1432)
Q Consensus 1176 ~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~----~--~~~~~~DLiQEg~igl~kav~kfd 1236 (1432)
+++.++++||.. |.++++..|.|++.+.+.+-. + .+.-=+|+-|+--..|++++-+|+
T Consensus 2 ~vI~~A~~GD~~---A~~~IL~~y~~yI~kls~r~~~d~~g~~~~~vDedl~q~l~~kLi~~I~~F~ 65 (65)
T PF12645_consen 2 EVIKAAKQGDPE---AMEEILKHYEPYISKLSTRTLYDEYGNVYGYVDEDLKQRLEIKLIEAILKFE 65 (65)
T ss_pred HHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHhhcccccCCcCceeCHHHHHHHHHHHHHHHHccC
Confidence 467889999999 999999999999999988722 1 244568999999999999999995
|
Some proteins with this domain are annotated as conjugative transposon proteins. |
| >PRK09483 response regulator; Provisional | Back alignment and domain information |
|---|
Probab=93.27 E-value=0.11 Score=57.29 Aligned_cols=46 Identities=20% Similarity=0.395 Sum_probs=40.6
Q ss_pred hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 575 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 575 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
..||++|++||.+. . .|+|.+|||+.+++|..+|+.+.++.++||.
T Consensus 147 ~~Lt~rE~~vl~~~-~----~G~~~~~Ia~~l~is~~TV~~~~~~i~~Kl~ 192 (217)
T PRK09483 147 ASLSERELQIMLMI-T----KGQKVNEISEQLNLSPKTVNSYRYRMFSKLN 192 (217)
T ss_pred cccCHHHHHHHHHH-H----CCCCHHHHHHHhCCCHHHHHHHHHHHHHHcC
Confidence 45999999999875 3 4559999999999999999999999999984
|
|
| >PF01751 Toprim: Toprim domain; InterPro: IPR006171 This is a conserved region from DNA primase | Back alignment and domain information |
|---|
Probab=93.06 E-value=0.24 Score=47.97 Aligned_cols=49 Identities=18% Similarity=0.067 Sum_probs=41.2
Q ss_pred eEEEEecchhHHHHhhhCC---------------------------------------CCCeEEEEecCcHHHHHHHHHH
Q psy15215 731 YVLITEGYMDVIGLSQFGF---------------------------------------FANSSYTCFDGDQAGRRAARRA 771 (1432)
Q Consensus 731 ~~~~vEG~~D~ia~~~~g~---------------------------------------~~~~i~~~~D~D~aG~~a~~~~ 771 (1432)
.+|||||..|+.++.++.. ...+||+|.|+|..|...+...
T Consensus 1 ~liIvE~ps~a~~i~~~l~~~~~~v~~~~Ghl~~~~~~~~~~~~~~~~~i~~l~~~~~~~~~iiiatD~D~EGe~Ia~~i 80 (100)
T PF01751_consen 1 ELIIVEKPSDAKAIAKALGGEEYIVIATSGHLLELAKPEDYDPKDKKKQIKNLKKLLKKADEIIIATDPDREGELIAWEI 80 (100)
T ss_dssp EEEEESSHHHHHHHHHHSSTTTEEEEEESSSSEESTTSSHHHCHTTHHHHHHHHHHHHSCSEEEEEC-SSHHHHHHHHHH
T ss_pred CEEEEeCHHHHHHHHHHcCCCCEEEEEeCCcccccccccccccccccccchhhHHHhhhccEeeecCCCChHHHHHHHHH
Confidence 4789999999999888744 2579999999999999999999
Q ss_pred HHHhhhhc
Q psy15215 772 LEVCLLYA 779 (1432)
Q Consensus 772 ~~~~~~~~ 779 (1432)
+..+...+
T Consensus 81 ~~~~~~~~ 88 (100)
T PF01751_consen 81 IELLGKNN 88 (100)
T ss_dssp HHHHHHHS
T ss_pred HHHHhHhC
Confidence 99887765
|
This corresponds to the Toprim (topoisomerase-primase) domain common to DnaG primases, topoisomerases, OLD family nucleases and RecR/M DNA repair proteins []. Both DnaG motifs IV and V are present in the alignment, the DxD (V) motif may be involved in Mg2+ binding and mutations to the conserved glutamate (IV) completely abolish DnaG type primase activity. DNA primase 2.7.7.6 from EC is a nucleotidyltransferase it synthesizes the oligoribonucleotide primers required for DNA replication on the lagging strand of the replication fork; it can also prime the leading stand and has been implicated in cell division []. This family also includes the atypical archaeal A subunit from type II DNA topoisomerases []. Type II DNA topoisomerases catalyse the relaxation of DNA supercoiling by causing transient double strand breaks.; PDB: 2ZJT_A 3IG0_A 3M4I_A 3NUH_B 1GKU_B 1GL9_C 3PWT_A 1CY4_A 1ECL_A 1CY7_A .... |
| >PRK15320 transcriptional activator SprB; Provisional | Back alignment and domain information |
|---|
Probab=93.00 E-value=0.15 Score=53.77 Aligned_cols=47 Identities=21% Similarity=0.284 Sum_probs=42.1
Q ss_pred HhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 574 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 574 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
--.|+++|..|+.+- ..|+|.+|||+.|++|.++|+.+..+.+.||.
T Consensus 162 ~~~LSdREIEVL~LL-----AkG~SNKEIAekL~LS~KTVSTYKnRLLeKLg 208 (251)
T PRK15320 162 PPGVTQAKYALLILL-----SSGHPAIELAKKFGLGTKTVSIYRKKVMYRLG 208 (251)
T ss_pred CCCCCHHHHHHHHHH-----HcCCCHHHHHHHhccchhhHHHHHHHHHHHcC
Confidence 356999999999885 56779999999999999999999999999986
|
|
| >PF05263 DUF722: Protein of unknown function (DUF722); InterPro: IPR007927 This entry is represented by Bacteriophage bIL285, Orf38 | Back alignment and domain information |
|---|
Probab=92.94 E-value=0.33 Score=48.85 Aligned_cols=58 Identities=12% Similarity=0.346 Sum_probs=48.5
Q ss_pred HHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhh
Q psy15215 1356 MRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415 (1432)
Q Consensus 1356 ~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr 1415 (1432)
....+...++.|++.++.||.|||+.. .+.|..+||..+++|..+++.+...-...++
T Consensus 71 ~k~~id~~~~~l~de~k~Ii~lry~~r--~~~TW~~IA~~l~i~erta~r~~~~fK~~i~ 128 (130)
T PF05263_consen 71 QKEAIDRWLETLIDEEKRIIKLRYDRR--SRRTWYQIAQKLHISERTARRWRDRFKNDIY 128 (130)
T ss_pred HHHHHHHHHHhhCHHHHHHHHHHHccc--ccchHHHHHHHhCccHHHHHHHHHHHHHHhc
Confidence 457788889999999999999999876 2459999999999999999988766554443
|
The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. |
| >PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins | Back alignment and domain information |
|---|
Probab=92.62 E-value=0.26 Score=48.10 Aligned_cols=50 Identities=18% Similarity=0.301 Sum_probs=44.6
Q ss_pred HHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhC
Q psy15215 1363 ILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 1416 (1432)
Q Consensus 1363 ~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~ 1416 (1432)
.+..|++.+..-+....-... +++|+++.+|||-.|||.++.+.+++|-.
T Consensus 30 ~~~~L~~E~~~Fi~~Fi~~rG----nlKe~e~~lgiSYPTvR~rLd~ii~~lg~ 79 (113)
T PF09862_consen 30 WFARLSPEQLEFIKLFIKNRG----NLKEMEKELGISYPTVRNRLDKIIEKLGY 79 (113)
T ss_pred hhhcCCHHHHHHHHHHHHhcC----CHHHHHHHHCCCcHHHHHHHHHHHHHhCC
Confidence 377899999998877665555 99999999999999999999999999987
|
|
| >PRK10403 transcriptional regulator NarP; Provisional | Back alignment and domain information |
|---|
Probab=92.60 E-value=0.25 Score=53.97 Aligned_cols=60 Identities=23% Similarity=0.278 Sum_probs=51.2
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHhhhcc
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~~~~~ 1429 (1432)
..||++|.+|+.+.. .| +|.++||+.+++|..||+...++.++||.-..+.....-|+..
T Consensus 152 ~~Lt~~e~~vl~~~~-~g----~s~~~ia~~l~~s~~tv~~~~~~i~~kl~~~~~~~~~~~~~~~ 211 (215)
T PRK10403 152 SVLTERELDVLHELA-QG----LSNKQIASVLNISEQTVKVHIRNLLRKLNVRSRVAATILFLQQ 211 (215)
T ss_pred ccCCHHHHHHHHHHH-CC----CCHHHHHHHcCCCHHHHHHHHHHHHHHcCCCCHHHHHHHHHHh
Confidence 359999999998753 44 5999999999999999999999999999988888876666543
|
|
| >PRK15369 two component system sensor kinase SsrB; Provisional | Back alignment and domain information |
|---|
Probab=92.48 E-value=0.19 Score=54.52 Aligned_cols=46 Identities=24% Similarity=0.438 Sum_probs=41.3
Q ss_pred hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 575 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 575 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
..||++|++||.+ +..|. |.+|||+.+++|..+|+.+..++++||.
T Consensus 148 ~~lt~~e~~vl~l-~~~g~----~~~~Ia~~l~~s~~tv~~~~~~~~~kl~ 193 (211)
T PRK15369 148 PLLTPRERQILKL-ITEGY----TNRDIAEQLSISIKTVETHRLNMMRKLD 193 (211)
T ss_pred cCCCHHHHHHHHH-HHCCC----CHHHHHHHhCCCHHHHHHHHHHHHHHhC
Confidence 4599999999998 55555 9999999999999999999999999995
|
|
| >PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria | Back alignment and domain information |
|---|
Probab=92.42 E-value=0.2 Score=44.24 Aligned_cols=45 Identities=18% Similarity=0.303 Sum_probs=30.7
Q ss_pred HccCCHHHHHHHHH--HhcccCCCCCCHHHHHHHhCCC-HHHHHHHHH
Q psy15215 1364 LNSLTPRESKVLRM--RFGIEMSSDHTLEEVGKQFDVT-RERIRQIEA 1408 (1432)
Q Consensus 1364 L~~L~~rer~Vl~l--r~~~~~~~~~t~~EIa~~l~vs-~~~Vrq~~~ 1408 (1432)
+..||++|++||.. .|....|.+-|..|||+.||++ .++|.+.+.
T Consensus 1 M~~LT~rQ~~vL~~I~~~~~~~G~~Pt~rEIa~~~g~~S~~tv~~~L~ 48 (65)
T PF01726_consen 1 MKELTERQKEVLEFIREYIEENGYPPTVREIAEALGLKSTSTVQRHLK 48 (65)
T ss_dssp -----HHHHHHHHHHHHHHHHHSS---HHHHHHHHTSSSHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHHHHcCCCCCHHHHHHHhCCCChHHHHHHHH
Confidence 35799999999876 5556667777999999999996 999987654
|
The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A. |
| >PRK13558 bacterio-opsin activator; Provisional | Back alignment and domain information |
|---|
Probab=91.80 E-value=0.27 Score=64.61 Aligned_cols=53 Identities=25% Similarity=0.234 Sum_probs=47.2
Q ss_pred HHccCCHHHHHHHHHHhcccCC---CCCCHHHHHHHhCCCHHHHHHHHHHHHHHhh
Q psy15215 1363 ILNSLTPRESKVLRMRFGIEMS---SDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415 (1432)
Q Consensus 1363 ~L~~L~~rer~Vl~lr~~~~~~---~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr 1415 (1432)
....||++|+++|..-|..|.. .+.|.+|||+.||||++|+.+++++|.+||=
T Consensus 604 ~~~~lt~~q~e~l~~a~~~gyf~~pr~~~~~e~a~~l~is~~t~~~~lr~a~~~l~ 659 (665)
T PRK13558 604 LENDLTDRQLTALQKAYVSGYFEWPRRVEGEELAESMGISRSTFHQHLRAAERKLV 659 (665)
T ss_pred hhhhCCHHHHHHHHHHHHcCCCCCCccCCHHHHHHHhCCCHHHHHHHHHHHHHHHH
Confidence 3567999999999999987763 5679999999999999999999999999984
|
|
| >TIGR02531 yecD_yerC TrpR-related protein YerC/YecD | Back alignment and domain information |
|---|
Probab=91.74 E-value=0.29 Score=45.93 Aligned_cols=42 Identities=19% Similarity=0.316 Sum_probs=32.2
Q ss_pred HccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHH
Q psy15215 1364 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALR 1412 (1432)
Q Consensus 1364 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~ 1412 (1432)
+++|++| ..|+.+. . .++|..+||+.+|+|+.||.. +.|+++
T Consensus 34 ~~~Ls~R-~~I~~ll-~----~G~S~~eIA~~LgISrsTIyR-i~R~~n 75 (88)
T TIGR02531 34 IQSLAQR-LQVAKML-K----QGKTYSDIEAETGASTATISR-VKRCLN 75 (88)
T ss_pred HHhhhHH-HHHHHHH-H----CCCCHHHHHHHHCcCHHHHHH-HHHhcc
Confidence 4568999 7777764 2 345999999999999999998 445433
|
This model represents a protein subfamily found mostly in the Firmicutes (Bacillus and allies). This family is similar in sequence to the trp operon repressor TrpR described by TIGR01321, and represents a distinct clade within the broader family described by pfam01371. At least one species, Xylella fastidiosa, in the Proteobacteria, has a member of both this family and TIGR01321. Several genomes with a member of this family do not synthesize tryptophan, and members of this family should not be considered trp operon repressors without new evidence. |
| >PRK10651 transcriptional regulator NarL; Provisional | Back alignment and domain information |
|---|
Probab=91.11 E-value=0.28 Score=53.69 Aligned_cols=46 Identities=24% Similarity=0.470 Sum_probs=40.6
Q ss_pred hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 575 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 575 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
..||++|++|+.+. ..| ++.++||+.+++|..+|+.+.++.++||.
T Consensus 154 ~~Lt~rE~~vl~~l-~~g----~~~~~ia~~l~is~~tV~~~~~~l~~Kl~ 199 (216)
T PRK10651 154 NQLTPRERDILKLI-AQG----LPNKMIARRLDITESTVKVHVKHMLKKMK 199 (216)
T ss_pred ccCCHHHHHHHHHH-HcC----CCHHHHHHHcCCCHHHHHHHHHHHHHHcC
Confidence 45999999999984 344 49999999999999999999999999985
|
|
| >PRK15418 transcriptional regulator LsrR; Provisional | Back alignment and domain information |
|---|
Probab=91.07 E-value=0.26 Score=58.20 Aligned_cols=37 Identities=16% Similarity=0.373 Sum_probs=34.2
Q ss_pred HHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHH
Q psy15215 1372 SKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALR 1412 (1432)
Q Consensus 1372 r~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~ 1412 (1432)
-+|-+|||..|+ |..|||++||+||.+|++.+++|++
T Consensus 19 ~~vA~lYY~~g~----tQ~eIA~~lgiSR~~VsRlL~~Ar~ 55 (318)
T PRK15418 19 ARIAWFYYHDGL----TQSEIGERLGLTRLKVSRLLEKGRQ 55 (318)
T ss_pred HHHHHHHHhcCC----CHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 357889999888 9999999999999999999999986
|
|
| >PF13613 HTH_Tnp_4: Helix-turn-helix of DDE superfamily endonuclease | Back alignment and domain information |
|---|
Probab=90.85 E-value=0.56 Score=39.62 Aligned_cols=47 Identities=13% Similarity=0.333 Sum_probs=39.6
Q ss_pred cCCHHHHHHHHHHhc-ccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhC
Q psy15215 1366 SLTPRESKVLRMRFG-IEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 1416 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~-~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~ 1416 (1432)
+||..++-++.+.|. .+. |.+.+|..||||+++|+++.+..+.-|..
T Consensus 2 kLs~~d~lll~L~~LR~~~----~~~~La~~FgIs~stvsri~~~~~~~L~~ 49 (53)
T PF13613_consen 2 KLSLEDQLLLTLMYLRLNL----TFQDLAYRFGISQSTVSRIFHEWIPLLYQ 49 (53)
T ss_pred CCCHHHHHHHHHHHHHcCC----cHhHHhhheeecHHHHHHHHHHHHHHHHH
Confidence 688889988777654 444 99999999999999999999998877754
|
|
| >PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C | Back alignment and domain information |
|---|
Probab=90.71 E-value=0.22 Score=41.30 Aligned_cols=32 Identities=16% Similarity=0.316 Sum_probs=22.2
Q ss_pred HHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHH
Q psy15215 1374 VLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 1410 (1432)
Q Consensus 1374 Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rA 1410 (1432)
++.++. .|. |..+||+.||||+.||+++.++-
T Consensus 10 ii~l~~-~G~----s~~~ia~~lgvs~~Tv~~w~kr~ 41 (50)
T PF13384_consen 10 IIRLLR-EGW----SIREIAKRLGVSRSTVYRWIKRY 41 (50)
T ss_dssp HHHHHH-HT------HHHHHHHHTS-HHHHHHHHT--
T ss_pred HHHHHH-CCC----CHHHHHHHHCcCHHHHHHHHHHc
Confidence 555544 355 99999999999999999997763
|
|
| >PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins | Back alignment and domain information |
|---|
Probab=90.54 E-value=0.54 Score=45.97 Aligned_cols=50 Identities=18% Similarity=0.295 Sum_probs=42.6
Q ss_pred HHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 573 ILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 573 ~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
.+..|++.+..-+....--.. +++|+++.+|||.+|||.+..+.+.+|--
T Consensus 30 ~~~~L~~E~~~Fi~~Fi~~rG----nlKe~e~~lgiSYPTvR~rLd~ii~~lg~ 79 (113)
T PF09862_consen 30 WFARLSPEQLEFIKLFIKNRG----NLKEMEKELGISYPTVRNRLDKIIEKLGY 79 (113)
T ss_pred hhhcCCHHHHHHHHHHHHhcC----CHHHHHHHHCCCcHHHHHHHHHHHHHhCC
Confidence 377899999988876555555 99999999999999999999998888864
|
|
| >PRK09935 transcriptional regulator FimZ; Provisional | Back alignment and domain information |
|---|
Probab=90.31 E-value=0.54 Score=51.26 Aligned_cols=53 Identities=19% Similarity=0.228 Sum_probs=44.6
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhH
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKL 1423 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l 1423 (1432)
.|+++|..|+.+ +..|. |.+|||+.+++|..||+....++++||.-..+....
T Consensus 149 ~lt~re~~vl~~-l~~g~----s~~eIa~~l~~s~~tv~~~~~~~~~kl~~~~~~~l~ 201 (210)
T PRK09935 149 VLSNREVTILRY-LVSGL----SNKEIADQLLLSNKTVSAHKSNIYGKLGLHSIVELI 201 (210)
T ss_pred cCCHHHHHHHHH-HHcCC----CHHHHHHHhCCCHHHHHHHHHHHHHHcCCCCHHHHH
Confidence 389999999875 43555 999999999999999999999999999876655543
|
|
| >PF05263 DUF722: Protein of unknown function (DUF722); InterPro: IPR007927 This entry is represented by Bacteriophage bIL285, Orf38 | Back alignment and domain information |
|---|
Probab=90.26 E-value=0.83 Score=46.03 Aligned_cols=51 Identities=14% Similarity=0.417 Sum_probs=43.3
Q ss_pred HHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHH
Q psy15215 567 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 619 (1432)
Q Consensus 567 ~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~r 619 (1432)
...+...++.|++.++.||.|||+.. .+.|..+||..+++|..+++.....
T Consensus 72 k~~id~~~~~l~de~k~Ii~lry~~r--~~~TW~~IA~~l~i~erta~r~~~~ 122 (130)
T PF05263_consen 72 KEAIDRWLETLIDEEKRIIKLRYDRR--SRRTWYQIAQKLHISERTARRWRDR 122 (130)
T ss_pred HHHHHHHHHhhCHHHHHHHHHHHccc--ccchHHHHHHHhCccHHHHHHHHHH
Confidence 46778889999999999999999876 2459999999999999998865443
|
The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. |
| >COG1658 Small primase-like proteins (Toprim domain) [DNA replication, recombination, and repair] | Back alignment and domain information |
|---|
Probab=90.24 E-value=0.5 Score=47.32 Aligned_cols=47 Identities=23% Similarity=0.246 Sum_probs=39.4
Q ss_pred CCeEEEEecchhHHHHhhhCC------------------------CCCeEEEEecCcHHHHHHHHHHHHHh
Q psy15215 729 SGYVLITEGYMDVIGLSQFGF------------------------FANSSYTCFDGDQAGRRAARRALEVC 775 (1432)
Q Consensus 729 ~~~~~~vEG~~D~ia~~~~g~------------------------~~~~i~~~~D~D~aG~~a~~~~~~~~ 775 (1432)
.+.+|||||=-|..++.+.|+ +.+.|++..|.|.+|.+-..+..+.+
T Consensus 9 ~~~vIVVEGK~D~~~l~~~~~~~~i~~~g~~i~~~~~ie~i~~~~~~k~VIILTD~D~~Ge~Irk~l~~~l 79 (127)
T COG1658 9 LKEVIVVEGKDDTASLKRLGDAGVIITNGSAINSLETIELIKKAQKYKGVIILTDPDRKGERIRKKLKEYL 79 (127)
T ss_pred cCceEEEeCCcHHHHHHHhcCCceEEEcCCccchHHHHHHHHHhhccCCEEEEeCCCcchHHHHHHHHHHh
Confidence 478999999999999999988 46779999999999987765555543
|
|
| >PRK09390 fixJ response regulator FixJ; Provisional | Back alignment and domain information |
|---|
Probab=90.18 E-value=0.59 Score=50.27 Aligned_cols=53 Identities=15% Similarity=0.333 Sum_probs=45.3
Q ss_pred HHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 569 VVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 569 ~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
.+...+..|+++++.|+.+ +..|. +.++||+.+|+|..+|+.+..+++.||..
T Consensus 134 ~~~~~~~~l~~~e~~vl~~-~~~~~----~~~~ia~~l~~s~~tv~~~~~~~~~kl~~ 186 (202)
T PRK09390 134 DIRARIASLSERERQVMDG-LVAGL----SNKVIARDLDISPRTVEVYRANVMTKMQA 186 (202)
T ss_pred HHHHHHHhhhhhHHHHHHH-HHccC----chHHHHHHcCCCHHHHHHHHHHHHHHHcc
Confidence 3455678899999999996 54455 99999999999999999999999999963
|
|
| >PHA00675 hypothetical protein | Back alignment and domain information |
|---|
Probab=90.05 E-value=0.57 Score=41.91 Aligned_cols=40 Identities=20% Similarity=0.238 Sum_probs=34.4
Q ss_pred ccCCHHHHHHHHHHh-cccCCCCCCHHHHHHHhCCCHHHHHHHHH
Q psy15215 1365 NSLTPRESKVLRMRF-GIEMSSDHTLEEVGKQFDVTRERIRQIEA 1408 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~-~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~ 1408 (1432)
.+|++.+-+.|+..+ -.|. |+.+||..||||+++|.+|.+
T Consensus 21 AKLt~~qV~~IR~l~~r~G~----s~~~IA~~fGVsrstV~~I~~ 61 (78)
T PHA00675 21 AKLTDAEVERIRELHEVEGM----SYAVLAEKFEQSKGAIAKICR 61 (78)
T ss_pred cccCHHHHHHHHHHHHhcCc----cHHHHHHHhCCCHHHHHHHHc
Confidence 568888888787777 6676 999999999999999999865
|
|
| >PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif | Back alignment and domain information |
|---|
Probab=89.87 E-value=0.37 Score=35.97 Aligned_cols=23 Identities=26% Similarity=0.417 Sum_probs=17.0
Q ss_pred CCHHHHHHHhCCCHHHHHHHHHH
Q psy15215 1387 HTLEEVGKQFDVTRERIRQIEAK 1409 (1432)
Q Consensus 1387 ~t~~EIa~~l~vs~~~Vrq~~~r 1409 (1432)
.|.+|||..+|+|+++|+..+.+
T Consensus 3 mtr~diA~~lG~t~ETVSR~l~~ 25 (32)
T PF00325_consen 3 MTRQDIADYLGLTRETVSRILKK 25 (32)
T ss_dssp --HHHHHHHHTS-HHHHHHHHHH
T ss_pred cCHHHHHHHhCCcHHHHHHHHHH
Confidence 48999999999999999854443
|
These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B .... |
| >PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional | Back alignment and domain information |
|---|
Probab=89.87 E-value=0.33 Score=58.03 Aligned_cols=54 Identities=22% Similarity=0.264 Sum_probs=47.7
Q ss_pred cCCeEEEEecchhHHHHhhhCC----------------------CCCeEEEEecCcHHHHHHHHHHHHHhhhhcCC
Q psy15215 728 KSGYVLITEGYMDVIGLSQFGF----------------------FANSSYTCFDGDQAGRRAARRALEVCLLYATD 781 (1432)
Q Consensus 728 ~~~~~~~vEG~~D~ia~~~~g~----------------------~~~~i~~~~D~D~aG~~a~~~~~~~~~~~~~~ 781 (1432)
+.+.+|||||--|+.||...|| +.++||+++|.|.+|+..+.+.++.|...|+.
T Consensus 22 ~~~~~ilveg~~d~~~l~~lgi~g~~i~~s~~p~~~cad~ii~~gi~rVVi~~D~d~~G~~~~~~~~~~L~~aGi~ 97 (360)
T PRK14719 22 EKGIPILVEGPNDILSLKNLKINANFITVSNTPVFQIADDLIAENISEVILLTDFDRAGRVYAKNIMEEFQSRGIK 97 (360)
T ss_pred hCCCEEEEEcchHHHHHHHcCCCCcEEEEeCCchHHHHHHHHHcCCCEEEEEECCCCCCCccchHHHHHHHHCCCE
Confidence 4468999999999999999999 45788888899999999888889999888875
|
|
| >PRK09958 DNA-binding transcriptional activator EvgA; Provisional | Back alignment and domain information |
|---|
Probab=89.44 E-value=0.77 Score=49.94 Aligned_cols=54 Identities=17% Similarity=0.271 Sum_probs=45.3
Q ss_pred HccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhh
Q psy15215 1364 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422 (1432)
Q Consensus 1364 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~ 1422 (1432)
+..|+++|.+|+.+-. . ++|.++||+.+++|..||+...++.++||.-..+...
T Consensus 141 ~~~lt~~E~~vl~~l~-~----g~~~~~I~~~l~~s~~tv~~~~~~l~~Kl~~~~~~~l 194 (204)
T PRK09958 141 LDSLSKQEISVMRYIL-D----GKDNNDIAEKMFISNKTVSTYKSRLMEKLECKSLMDL 194 (204)
T ss_pred cccCCHHHHHHHHHHH-c----CCCHHHHHHHhCCCHHHHHHHHHHHHHHcCCCCHHHH
Confidence 3569999999998854 3 4499999999999999999999999999976555543
|
|
| >PRK04841 transcriptional regulator MalT; Provisional | Back alignment and domain information |
|---|
Probab=89.01 E-value=0.6 Score=63.80 Aligned_cols=55 Identities=24% Similarity=0.253 Sum_probs=47.7
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHH
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~ 1424 (1432)
..||++|.+|+.+. ..|. |++|||..|+||..||+..+++..+||.-..|.....
T Consensus 837 ~~lt~~e~~v~~~~-~~g~----~~~~ia~~l~~s~~tv~~h~~~~~~kl~v~~r~~~~~ 891 (903)
T PRK04841 837 SPLTQREWQVLGLI-YSGY----SNEQIAGELDVAATTIKTHIRNLYQKLGIAHRQEAVQ 891 (903)
T ss_pred CCCCHHHHHHHHHH-HcCC----CHHHHHHHhCCCHHHHHHHHHHHHHHhCCCCHHHHHH
Confidence 45999999999994 3555 9999999999999999999999999999877766543
|
|
| >PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms | Back alignment and domain information |
|---|
Probab=88.51 E-value=0.52 Score=38.32 Aligned_cols=33 Identities=18% Similarity=0.303 Sum_probs=22.9
Q ss_pred HHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHH
Q psy15215 1371 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEA 1408 (1432)
Q Consensus 1371 er~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~ 1408 (1432)
...|+.|+ -.| +|..+||+.||||+.||..++.
T Consensus 11 ~~~i~~l~-~~G----~si~~IA~~~gvsr~TvyR~l~ 43 (45)
T PF02796_consen 11 IEEIKELY-AEG----MSIAEIAKQFGVSRSTVYRYLN 43 (45)
T ss_dssp HHHHHHHH-HTT------HHHHHHHTTS-HHHHHHHHC
T ss_pred HHHHHHHH-HCC----CCHHHHHHHHCcCHHHHHHHHh
Confidence 44566664 333 4999999999999999998763
|
Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C .... |
| >PF04218 CENP-B_N: CENP-B N-terminal DNA-binding domain; InterPro: IPR006695 Centromere Protein B (CENP-B) is a DNA-binding protein localized to the centromere | Back alignment and domain information |
|---|
Probab=88.11 E-value=0.55 Score=39.70 Aligned_cols=40 Identities=23% Similarity=0.315 Sum_probs=28.8
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHH
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 1409 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~r 1409 (1432)
.||..++.=+.-+|-.|. +..+||..|||+++||++|+..
T Consensus 6 ~LTl~eK~~iI~~~e~g~----s~~~ia~~fgv~~sTv~~I~K~ 45 (53)
T PF04218_consen 6 SLTLEEKLEIIKRLEEGE----SKRDIAREFGVSRSTVSTILKN 45 (53)
T ss_dssp S--HHHHHHHHHHHHCTT-----HHHHHHHHT--CCHHHHHHHC
T ss_pred cCCHHHHHHHHHHHHcCC----CHHHHHHHhCCCHHHHHHHHHh
Confidence 578788776656676666 9999999999999999999876
|
Within the N-terminal 125 residues, there is a DNA-binding region, which binds to a corresponding 17bp CENP-B box sequence. CENP-B dimers either bind two separate DNA molecules or alternatively, they may bind two CENP-B boxes on one DNA molecule, with the intervening stretch of DNA forming a loop structure. The CENP-B DNA-binding domain consists of two repeating domains, RP1 and RP2. This family corresponds to RP1 has been shown to consist of four helices in a helix-turn-helix structure [].; GO: 0003677 DNA binding, 0000775 chromosome, centromeric region; PDB: 1BW6_A 1HLV_A 2ELH_A. |
| >TIGR02531 yecD_yerC TrpR-related protein YerC/YecD | Back alignment and domain information |
|---|
Probab=87.64 E-value=0.77 Score=43.15 Aligned_cols=36 Identities=19% Similarity=0.331 Sum_probs=29.5
Q ss_pred HhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHH
Q psy15215 574 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQ 615 (1432)
Q Consensus 574 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~ 615 (1432)
+++|++| ..|+.+. ..|+|..+||+.+|+|+.+|..
T Consensus 34 ~~~Ls~R-~~I~~ll-----~~G~S~~eIA~~LgISrsTIyR 69 (88)
T TIGR02531 34 IQSLAQR-LQVAKML-----KQGKTYSDIEAETGASTATISR 69 (88)
T ss_pred HHhhhHH-HHHHHHH-----HCCCCHHHHHHHHCcCHHHHHH
Confidence 4568999 7777764 3456999999999999999987
|
This model represents a protein subfamily found mostly in the Firmicutes (Bacillus and allies). This family is similar in sequence to the trp operon repressor TrpR described by TIGR01321, and represents a distinct clade within the broader family described by pfam01371. At least one species, Xylella fastidiosa, in the Proteobacteria, has a member of both this family and TIGR01321. Several genomes with a member of this family do not synthesize tryptophan, and members of this family should not be considered trp operon repressors without new evidence. |
| >cd00569 HTH_Hin_like Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella | Back alignment and domain information |
|---|
Probab=87.54 E-value=1 Score=33.91 Aligned_cols=36 Identities=19% Similarity=0.375 Sum_probs=27.9
Q ss_pred CCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHH
Q psy15215 1367 LTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQI 1406 (1432)
Q Consensus 1367 L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~ 1406 (1432)
+++.++..+...|..+. |..+||+.+|+|+.+|..+
T Consensus 6 ~~~~~~~~i~~~~~~~~----s~~~ia~~~~is~~tv~~~ 41 (42)
T cd00569 6 LTPEQIEEARRLLAAGE----SVAEIARRLGVSRSTLYRY 41 (42)
T ss_pred CCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHh
Confidence 56666666655565454 9999999999999999875
|
The basic HTH domain is a simple fold comprised of three core helices that form a right-handed helical bundle. The principal DNA-protein interface is formed by the third helix, the recognition helix, inserting itself into the major groove of the DNA. A diverse array of HTH domains participate in a variety of functions that depend on their DNA-binding properties. HTH_Hin represents one of the simplest versions of the HTH domains; the characterization of homologous relationships between various sequence-diverse HTH domain families remains difficult. The Hin recombinase induces the site-specific inversion of a chromosomal DNA segment containing a promoter, which controls the alternate expression of two genes by reversibly switching orientation. The Hin recombinase consists of a single polypeptide chain containing a D |
| >PF13412 HTH_24: Winged helix-turn-helix DNA-binding; PDB: 1I1G_B 2IA0_B 3I4P_A 2GQQ_A 2L4A_A 2CFX_B 2DBB_B 2EFO_A 2EFQ_A 2PN6_A | Back alignment and domain information |
|---|
Probab=87.31 E-value=1.4 Score=36.15 Aligned_cols=41 Identities=17% Similarity=0.269 Sum_probs=29.3
Q ss_pred CCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHH
Q psy15215 1367 LTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 1410 (1432)
Q Consensus 1367 L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rA 1410 (1432)
|++.++.||..-+- ..+.|..|||+.+|+|+.+|++++.+-
T Consensus 1 l~~~~~~Il~~l~~---~~~~t~~ela~~~~is~~tv~~~l~~L 41 (48)
T PF13412_consen 1 LDETQRKILNYLRE---NPRITQKELAEKLGISRSTVNRYLKKL 41 (48)
T ss_dssp --HHHHHHHHHHHH---CTTS-HHHHHHHHTS-HHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHH---cCCCCHHHHHHHhCCCHHHHHHHHHHH
Confidence 56788888866554 234699999999999999999877654
|
... |
| >PRK13558 bacterio-opsin activator; Provisional | Back alignment and domain information |
|---|
Probab=86.53 E-value=1.2 Score=58.49 Aligned_cols=56 Identities=23% Similarity=0.211 Sum_probs=48.6
Q ss_pred HHhcCCHHHHHHHHHHhhccc---CCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 573 ILNSLTPRESKVLRMRFGIEM---SSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 573 ~L~~L~~rer~Vl~lr~~~~~---~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
....||++|+++|..-|..|. ..+.|.+|||..||||++++.+++++|.+||-..+
T Consensus 604 ~~~~lt~~q~e~l~~a~~~gyf~~pr~~~~~e~a~~l~is~~t~~~~lr~a~~~l~~~~ 662 (665)
T PRK13558 604 LENDLTDRQLTALQKAYVSGYFEWPRRVEGEELAESMGISRSTFHQHLRAAERKLVGAF 662 (665)
T ss_pred hhhhCCHHHHHHHHHHHHcCCCCCCccCCHHHHHHHhCCCHHHHHHHHHHHHHHHHHHH
Confidence 346799999999999998776 34579999999999999999999999999996543
|
|
| >PF13613 HTH_Tnp_4: Helix-turn-helix of DDE superfamily endonuclease | Back alignment and domain information |
|---|
Probab=86.47 E-value=1.5 Score=37.02 Aligned_cols=48 Identities=13% Similarity=0.242 Sum_probs=38.5
Q ss_pred cCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
+||..++-++.|.|.- .+.|++.+|..||||+++|.++.+....-|..
T Consensus 2 kLs~~d~lll~L~~LR---~~~~~~~La~~FgIs~stvsri~~~~~~~L~~ 49 (53)
T PF13613_consen 2 KLSLEDQLLLTLMYLR---LNLTFQDLAYRFGISQSTVSRIFHEWIPLLYQ 49 (53)
T ss_pred CCCHHHHHHHHHHHHH---cCCcHhHHhhheeecHHHHHHHHHHHHHHHHH
Confidence 5888999888777652 23499999999999999999888877666654
|
|
| >PF10668 Phage_terminase: Phage terminase small subunit; InterPro: IPR018925 This entry describes the terminase small subunit from Enterococcus phage phiFL1A, related proteins in other bacteriophage, and prophage regions of bacterial genomes | Back alignment and domain information |
|---|
Probab=86.41 E-value=1.1 Score=38.70 Aligned_cols=24 Identities=17% Similarity=0.465 Sum_probs=21.5
Q ss_pred CCCHHHHHHHhCCCHHHHHHHHHH
Q psy15215 1386 DHTLEEVGKQFDVTRERIRQIEAK 1409 (1432)
Q Consensus 1386 ~~t~~EIa~~l~vs~~~Vrq~~~r 1409 (1432)
..++.+||++||||..+||.+.++
T Consensus 22 ~i~lkdIA~~Lgvs~~tIr~WK~~ 45 (60)
T PF10668_consen 22 KIKLKDIAEKLGVSESTIRKWKSR 45 (60)
T ss_pred CccHHHHHHHHCCCHHHHHHHhhh
Confidence 459999999999999999998765
|
Packaging of double-stranded viral DNA concatemers requires interaction of the prohead with virus DNA. This process is mediated by a phage-encoded DNA recognition and terminase protein. The terminase enzymes described so far, which are hetero-oligomers composed of a small and a large subunit, do not have a significant level of sequence homology. The small terminase subunit is thought to form a nucleoprotein structure that helps to position the terminase large subunit at the packaging initiation site []. |
| >PHA02547 55 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=86.24 E-value=3.6 Score=42.71 Aligned_cols=70 Identities=16% Similarity=0.208 Sum_probs=57.4
Q ss_pred HHHHHHHHHHHHHHhccCCCCC---hhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcc
Q psy15215 1195 MTEANLRLVISIAKKYTDRGLQ---FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 1264 (1432)
Q Consensus 1195 Li~~~~~lV~~ia~~y~~~~~~---~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r 1264 (1432)
+=.+-+..+..++++|.-++.. -+|+|.+|.-.+++.+.+||+.+...+-.|.|..+-++..+.|....+
T Consensus 42 ig~~imkIa~glS~r~nF~~Yt~~wKedMI~DgIe~~i~ylhNFD~~k~~Np~aYiT~~~~~AF~~RI~kEkk 114 (179)
T PHA02547 42 IGLAIMKIAEGLSRRPNFSGYTQTWKEDMIADGIEACIKGLHNFDETKYKNPHAYITQACFNAFVQRIKKEKK 114 (179)
T ss_pred HHHHHHHHHhccccCCccccchHHHHHHHHHHHHHHHHHHhhcCCcccccChHHHHHHHHHHHHHHHHHHHHH
Confidence 4445555566666777666666 689999999999999999999999889999999999999988887664
|
|
| >TIGR00334 5S_RNA_mat_M5 ribonuclease M5 | Back alignment and domain information |
|---|
Probab=85.74 E-value=1.4 Score=46.64 Aligned_cols=38 Identities=18% Similarity=0.100 Sum_probs=31.4
Q ss_pred CeEEEEecchhHHHHhhhCC-----------------------CCCeEEEEecCcHHHHHH
Q psy15215 730 GYVLITEGYMDVIGLSQFGF-----------------------FANSSYTCFDGDQAGRRA 767 (1432)
Q Consensus 730 ~~~~~vEG~~D~ia~~~~g~-----------------------~~~~i~~~~D~D~aG~~a 767 (1432)
+.||||||=.|+.++.++.- ...-||++.|+|.||.+=
T Consensus 3 kevIVVEGK~D~~~lk~~~d~~~I~T~Gs~i~~~~i~~i~~~~~~rgVIIfTDpD~~GekI 63 (174)
T TIGR00334 3 KEIIVVEGKDDQARIKQAFDVDVIETNGSALKDETINLIKKAQKKQGVIILTDPDFPGEKI 63 (174)
T ss_pred CeEEEEecchHHHHHHHhcCceEEEECCCccCHHHHHHHHHHhhcCCEEEEeCCCCchHHH
Confidence 57999999999999988742 467789999999999654
|
This family of orthologous proteins shows a weak but significant similarity to the central region of the DnaG-type DNA primase. The region of similarity is termed the Toprim (topoisomerase-primase) domain and is also shared by RecR, OLD family nucleases, and type IA and II topoisomerases. |
| >PRK10403 transcriptional regulator NarP; Provisional | Back alignment and domain information |
|---|
Probab=85.70 E-value=1.1 Score=48.72 Aligned_cols=46 Identities=22% Similarity=0.280 Sum_probs=40.3
Q ss_pred hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 575 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 575 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
..|+++|..|+.+.. .| +|.++||+.+++|+.+|+.+.++.++||.
T Consensus 152 ~~Lt~~e~~vl~~~~-~g----~s~~~ia~~l~~s~~tv~~~~~~i~~kl~ 197 (215)
T PRK10403 152 SVLTERELDVLHELA-QG----LSNKQIASVLNISEQTVKVHIRNLLRKLN 197 (215)
T ss_pred ccCCHHHHHHHHHHH-CC----CCHHHHHHHcCCCHHHHHHHHHHHHHHcC
Confidence 359999999998753 34 59999999999999999999999999985
|
|
| >PHA02547 55 RNA polymerase sigma factor; Provisional | Back alignment and domain information |
|---|
Probab=85.62 E-value=4.4 Score=42.11 Aligned_cols=67 Identities=16% Similarity=0.224 Sum_probs=52.4
Q ss_pred HHHHHHHHHHHhcccCCCC---hhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhcc
Q psy15215 408 ANLRLVISIAKKYTDRGLQ---FLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 474 (1432)
Q Consensus 408 ~~~~lV~~ia~ky~~~~~~---~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r 474 (1432)
+-+..+..++++|-=+|.. -+|.|.+|.-.+++.+..||+.+...+.+|+|..+-++..+.|....+
T Consensus 45 ~imkIa~glS~r~nF~~Yt~~wKedMI~DgIe~~i~ylhNFD~~k~~Np~aYiT~~~~~AF~~RI~kEkk 114 (179)
T PHA02547 45 AIMKIAEGLSRRPNFSGYTQTWKEDMIADGIEACIKGLHNFDETKYKNPHAYITQACFNAFVQRIKKEKK 114 (179)
T ss_pred HHHHHHhccccCCccccchHHHHHHHHHHHHHHHHHHhhcCCcccccChHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444444555444554 789999999999999999999999899999999999999888876654
|
|
| >PF13404 HTH_AsnC-type: AsnC-type helix-turn-helix domain; PDB: 2ZNY_E 2ZNZ_G 1RI7_A 2CYY_A 2E1C_A 2VC1_B 2QZ8_A 2W29_C 2IVM_B 2VBX_B | Back alignment and domain information |
|---|
Probab=85.33 E-value=2.1 Score=34.29 Aligned_cols=39 Identities=13% Similarity=0.269 Sum_probs=26.3
Q ss_pred CHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHH
Q psy15215 1368 TPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 1409 (1432)
Q Consensus 1368 ~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~r 1409 (1432)
.+-.+.||..--.. ...|+.+||+.+|+|.++|.+++.+
T Consensus 2 D~~D~~Il~~Lq~d---~r~s~~~la~~lglS~~~v~~Ri~r 40 (42)
T PF13404_consen 2 DELDRKILRLLQED---GRRSYAELAEELGLSESTVRRRIRR 40 (42)
T ss_dssp -HHHHHHHHHHHH----TTS-HHHHHHHHTS-HHHHHHHHHH
T ss_pred CHHHHHHHHHHHHc---CCccHHHHHHHHCcCHHHHHHHHHH
Confidence 34456666554332 3469999999999999999988764
|
... |
| >PF06530 Phage_antitermQ: Phage antitermination protein Q; InterPro: IPR010534 This entry is represented by Bacteriophage 933W, GpQ | Back alignment and domain information |
|---|
Probab=84.86 E-value=3.5 Score=41.68 Aligned_cols=52 Identities=13% Similarity=0.185 Sum_probs=46.3
Q ss_pred HHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCch
Q psy15215 1363 ILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 1418 (1432)
Q Consensus 1363 ~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~ 1418 (1432)
.|.+-.|.+-.+|.++|..+. |...||..+++|...|++.+.+|-.-+..+.
T Consensus 59 ~L~~~~~~~~~ll~~~Yv~g~----s~r~IA~~~~~s~~~ir~~l~~ae~~i~g~l 110 (125)
T PF06530_consen 59 RLKKRDPEEYDLLILYYVYGW----SKRQIARKLKCSEGKIRKRLQRAEGFIDGCL 110 (125)
T ss_pred HHHccCHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHhhhhHhhhh
Confidence 345578999999999999888 9999999999999999999999988887753
|
The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several phage antitermination protein Q and related bacterial sequences. Phage 993W gene Q encodes a phage-specific positive regulator of late gene expression, thought, by analogy to the corresponding gene of phage lambda, to be a transcription antiterminator. GpQ positively regulates expression of the phage late gene operons. Bacterial host RNA polymerase modified by antitermination proteins transcribes through termination sites that otherwise prevent expression of the regulated genes [, ].; GO: 0003677 DNA binding, 0060567 negative regulation of transcription termination, DNA-dependent |
| >PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif | Back alignment and domain information |
|---|
Probab=84.81 E-value=1.1 Score=33.50 Aligned_cols=26 Identities=27% Similarity=0.494 Sum_probs=19.0
Q ss_pred CcHHHHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 597 HTLEEVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 597 ~t~~EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
.|.+|||..+|+|+++|+ |++.+|++
T Consensus 3 mtr~diA~~lG~t~ETVS----R~l~~l~~ 28 (32)
T PF00325_consen 3 MTRQDIADYLGLTRETVS----RILKKLER 28 (32)
T ss_dssp --HHHHHHHHTS-HHHHH----HHHHHHHH
T ss_pred cCHHHHHHHhCCcHHHHH----HHHHHHHH
Confidence 389999999999999998 55555543
|
These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B .... |
| >PF01726 LexA_DNA_bind: LexA DNA binding domain; InterPro: IPR006199 This is the DNA binding domain of the LexA SOS regulon repressor which prevents expression of DNA repair proteins in bacteria | Back alignment and domain information |
|---|
Probab=84.79 E-value=2.2 Score=37.74 Aligned_cols=41 Identities=17% Similarity=0.340 Sum_probs=31.2
Q ss_pred HHHHHHHHHHHHHhCCCCCHHHHHHHcCCC-HHHHHHHHHHc
Q psy15215 1277 NKISRISRQILQETGSEPDPSVIAIKMEMP-EEKIRKIMKIA 1317 (1432)
Q Consensus 1277 ~k~~~~~~~~~~~~g~~pt~~eia~~~~~~-~~~v~~~~~~~ 1317 (1432)
.++..+..+...+.|.+||..|||+.+|++ +..|...++..
T Consensus 9 ~~vL~~I~~~~~~~G~~Pt~rEIa~~~g~~S~~tv~~~L~~L 50 (65)
T PF01726_consen 9 KEVLEFIREYIEENGYPPTVREIAEALGLKSTSTVQRHLKAL 50 (65)
T ss_dssp HHHHHHHHHHHHHHSS---HHHHHHHHTSSSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCCCHHHHHHHhCCCChHHHHHHHHHH
Confidence 455666677788999999999999999997 99988888643
|
The aligned region contains a variant form of the helix-turn-helix DNA binding motif []. This domain usually at the N terminus is found associated with IPR006198 from INTERPRO the auto-proteolytic domain of LexA 3.4.21.88 from EC.; GO: 0004252 serine-type endopeptidase activity, 0006508 proteolysis; PDB: 1LEA_A 1JHH_A 3JSP_A 1JHF_A 3JSO_B 1LEB_A 3K2Z_A. |
| >PF03444 HrcA_DNA-bdg: Winged helix-turn-helix transcription repressor, HrcA DNA-binding; InterPro: IPR005104 Prokaryotic cells have a defence mechanism against a sudden heat-shock stress | Back alignment and domain information |
|---|
Probab=84.70 E-value=2 Score=39.10 Aligned_cols=43 Identities=21% Similarity=0.264 Sum_probs=35.0
Q ss_pred cCCHHHHHHHHHH--hcccCCCCCCHHHHHHHhCCCHHHHHHHHH
Q psy15215 1366 SLTPRESKVLRMR--FGIEMSSDHTLEEVGKQFDVTRERIRQIEA 1408 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr--~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~ 1408 (1432)
.|++||++||..- -+...+.+..-++||+.+++|..|||+.+.
T Consensus 1 ~Lt~rq~~IL~alV~~Y~~~~~PVgSk~ia~~l~~s~aTIRN~M~ 45 (78)
T PF03444_consen 1 MLTERQREILKALVELYIETGEPVGSKTIAEELGRSPATIRNEMA 45 (78)
T ss_pred CCCHHHHHHHHHHHHHHHhcCCCcCHHHHHHHHCCChHHHHHHHH
Confidence 3899999988752 233446889999999999999999998764
|
Commonly, they induce a set of proteins that protect cellular proteins from being denatured by heat. Among such proteins are the GroE and DnaK chaperones whose transcription is regulated by a heat-shock repressor protein HrcA. HrcA is a winged helix-turn-helix repressor that negatively regulates the transcription of dnaK and groE operons by binding the upstream CIRCE (controlling inverted repeat of chaperone expression) element. In Bacillus subtilis this element is a perfect 9 base pair inverted repeat separated by a 9 base pair spacer. The crystal structure of a heat-inducible transcriptional repressor, HrcA, from Thermotoga maritima has been reported at 2.2A resolution. HrcA is composed of three domains: an N-terminal winged helix-turn-helix domain (WHTH), a GAF-like domain, and an inserted dimerizing domain (IDD). The IDD shows a unique structural fold with an anti-parallel beta-sheet composed of three beta-strands sided by four alpha-helices. HrcA crystallises as a dimer, which is formed through hydrophobic contact between the IDDs and a limited contact that involves conserved residues between the GAF-like domains []. The structural studies suggest that the inactive form of HrcA is the dimer and this is converted to its DNA-binding form by interaction with GroEL, which binds to a conserved C-terminal sequence region [, ]. Comparison of the HrcA-CIRCE complexes from B. subtilis and Bacillus thermoglucosidasius (Geobacillus thermoglucosidasius), which grow at vastly different ranges of temperature shows that the thermostability profiles were consistent with the difference in the growth temperatures suggesting that HrcA can function as a thermosensor to detect temperature changes in cells []. Any increase in temperature causes the dissociation of the HrcA from the CIRCE complex with the concomitant activation of transcription of the groE and dnaK operons. This domain represents the winged helix-turn-helix DNA-binding domain which is located close to the N terminus of HrcA. This domain is also found at the N terminus of a set of uncharacterised proteins that have two C-terminal CBS domains. ; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent |
| >PRK10360 DNA-binding transcriptional activator UhpA; Provisional | Back alignment and domain information |
|---|
Probab=84.67 E-value=1.5 Score=47.26 Aligned_cols=46 Identities=20% Similarity=0.293 Sum_probs=40.2
Q ss_pred hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 575 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 575 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
..|+++|..|+.+-. .| +|.++||+.+++|..+|+.+..+.++||.
T Consensus 136 ~~Lt~~E~~il~~l~-~g----~~~~~Ia~~l~~s~~tv~~~~~~l~~Kl~ 181 (196)
T PRK10360 136 DPLTKRERQVAEKLA-QG----MAVKEIAAELGLSPKTVHVHRANLMEKLG 181 (196)
T ss_pred cCCCHHHHHHHHHHH-CC----CCHHHHHHHhCCCHHHHHHHHHHHHHHhC
Confidence 359999999999843 34 49999999999999999999999988885
|
|
| >PRK09935 transcriptional regulator FimZ; Provisional | Back alignment and domain information |
|---|
Probab=84.66 E-value=1.4 Score=48.04 Aligned_cols=45 Identities=20% Similarity=0.314 Sum_probs=39.2
Q ss_pred cCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
.|+++|..|+.+ +..|. |.+|||+.+++|..+|+.+..++++||.
T Consensus 149 ~lt~re~~vl~~-l~~g~----s~~eIa~~l~~s~~tv~~~~~~~~~kl~ 193 (210)
T PRK09935 149 VLSNREVTILRY-LVSGL----SNKEIADQLLLSNKTVSAHKSNIYGKLG 193 (210)
T ss_pred cCCHHHHHHHHH-HHcCC----CHHHHHHHhCCCHHHHHHHHHHHHHHcC
Confidence 389999999975 43455 9999999999999999999999999985
|
|
| >COG2390 DeoR Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription] | Back alignment and domain information |
|---|
Probab=84.61 E-value=1.1 Score=52.56 Aligned_cols=36 Identities=17% Similarity=0.325 Sum_probs=32.8
Q ss_pred HHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHH
Q psy15215 1373 KVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALR 1412 (1432)
Q Consensus 1373 ~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~ 1412 (1432)
++-.+||..|+ |..|||++||+||.+|+..+.+|++
T Consensus 17 ~~A~lYY~~gl----tQ~eIA~~LgiSR~~v~rlL~~Ar~ 52 (321)
T COG2390 17 RAAWLYYVEGL----TQSEIAERLGISRATVSRLLAKARE 52 (321)
T ss_pred HHHHHHHhcCC----CHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 46678998888 9999999999999999999999975
|
|
| >PRK15418 transcriptional regulator LsrR; Provisional | Back alignment and domain information |
|---|
Probab=84.60 E-value=1 Score=53.15 Aligned_cols=37 Identities=16% Similarity=0.373 Sum_probs=32.2
Q ss_pred HHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHH
Q psy15215 582 SKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALR 622 (1432)
Q Consensus 582 r~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~ 622 (1432)
-+|-.|+|..|+ |+.|||++||+|+.+|.+.+.+|..
T Consensus 19 ~~vA~lYY~~g~----tQ~eIA~~lgiSR~~VsRlL~~Ar~ 55 (318)
T PRK15418 19 ARIAWFYYHDGL----TQSEIGERLGLTRLKVSRLLEKGRQ 55 (318)
T ss_pred HHHHHHHHhcCC----CHHHHHHHhCCCHHHHHHHHHHHHH
Confidence 357789999898 9999999999999999987777654
|
|
| >PRK09958 DNA-binding transcriptional activator EvgA; Provisional | Back alignment and domain information |
|---|
Probab=84.19 E-value=1.6 Score=47.44 Aligned_cols=47 Identities=17% Similarity=0.391 Sum_probs=40.9
Q ss_pred HhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 574 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 574 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
+..|+++|.+||.+-. .++|.++||+.+++|..+|+.+..+.++||.
T Consensus 141 ~~~lt~~E~~vl~~l~-----~g~~~~~I~~~l~~s~~tv~~~~~~l~~Kl~ 187 (204)
T PRK09958 141 LDSLSKQEISVMRYIL-----DGKDNNDIAEKMFISNKTVSTYKSRLMEKLE 187 (204)
T ss_pred cccCCHHHHHHHHHHH-----cCCCHHHHHHHhCCCHHHHHHHHHHHHHHcC
Confidence 3569999999998764 4459999999999999999999999999984
|
|
| >PF13518 HTH_28: Helix-turn-helix domain | Back alignment and domain information |
|---|
Probab=84.12 E-value=1.5 Score=36.42 Aligned_cols=33 Identities=9% Similarity=0.312 Sum_probs=26.0
Q ss_pred HHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHH
Q psy15215 1374 VLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKAL 1411 (1432)
Q Consensus 1374 Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl 1411 (1432)
|+.+.. .|. |+.+||..||||+.+|++++.+-.
T Consensus 5 iv~~~~-~g~----s~~~~a~~~gis~~tv~~w~~~y~ 37 (52)
T PF13518_consen 5 IVELYL-EGE----SVREIAREFGISRSTVYRWIKRYR 37 (52)
T ss_pred HHHHHH-cCC----CHHHHHHHHCCCHhHHHHHHHHHH
Confidence 454443 454 999999999999999999887654
|
|
| >PRK10430 DNA-binding transcriptional activator DcuR; Provisional | Back alignment and domain information |
|---|
Probab=83.74 E-value=1.8 Score=48.84 Aligned_cols=47 Identities=15% Similarity=0.241 Sum_probs=36.5
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHH
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALR 1412 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~ 1412 (1432)
.|++++.+++..........++|.+|||+.||+|..||+....++..
T Consensus 158 ~Lt~re~~~l~~~i~~~~~~g~s~~eIA~~l~iS~~Tv~~~~~~~~~ 204 (239)
T PRK10430 158 GLTPQTLRTLCQWIDAHQDYEFSTDELANAVNISRVSCRKYLIWLVN 204 (239)
T ss_pred CCCHHHHHHHHHHHHhCCCCCcCHHHHHHHhCchHHHHHHHHHHHHh
Confidence 48999987775443222345569999999999999999999988754
|
|
| >COG4026 Uncharacterized protein containing TOPRIM domain, potential nuclease [General function prediction only] | Back alignment and domain information |
|---|
Probab=83.09 E-value=4.8 Score=43.22 Aligned_cols=78 Identities=24% Similarity=0.213 Sum_probs=56.3
Q ss_pred CeEEEEecchhHHHHhhh------CC-----------------------CCCeEEEEecCcHHHHHHHHHHHHHhhhhcC
Q psy15215 730 GYVLITEGYMDVIGLSQF------GF-----------------------FANSSYTCFDGDQAGRRAARRALEVCLLYAT 780 (1432)
Q Consensus 730 ~~~~~vEG~~D~ia~~~~------g~-----------------------~~~~i~~~~D~D~aG~~a~~~~~~~~~~~~~ 780 (1432)
+.=|||||.-||=++.++ |- +++=|+++-|.|..|++-|.|..+-+....-
T Consensus 8 DVRIiVEGAsDvE~iSkalQr~aLG~eYnITisSIiPTT~~eIA~raaeGADlvlIATDaD~~GReLA~kf~eeLrg~VG 87 (290)
T COG4026 8 DVRIIVEGASDVEVISKALQRLALGSEYNITISSIIPTTNVEIAKRAAEGADLVLIATDADRVGRELAEKFFEELRGMVG 87 (290)
T ss_pred eEEEEeeccchHHHHHHHHHHhhhcccceeEEEeeccCchHHHHHHhhccCCEEEEeecCcchhHHHHHHHHHHHHHhhh
Confidence 345899999999877665 21 5777899999999999999999998775543
Q ss_pred CCceEEEecCCCCCCHH----HHHHHhChhhhhh
Q psy15215 781 DDKIIKFLFLPDKYDPD----SYIRKFGYKIFSK 810 (1432)
Q Consensus 781 ~~~~~~~~~lp~~~Dpd----e~~~~~g~~~~~~ 810 (1432)
. +.-+.+|-|.|.. +++++.-..++.+
T Consensus 88 h---iERmK~PiGHDvEhiD~elvrkEl~nAlvR 118 (290)
T COG4026 88 H---IERMKIPIGHDVEHIDVELVRKELKNALVR 118 (290)
T ss_pred h---hheeccCCCCCccccCHHHHHHHHHHHHHH
Confidence 3 5556789887542 3455544444433
|
|
| >PF01371 Trp_repressor: Trp repressor protein; InterPro: IPR000831 The Trp repressor (TrpR) binds to at least five operators in the Escherichia coli genome, repressing gene expression | Back alignment and domain information |
|---|
Probab=82.95 E-value=2.8 Score=39.29 Aligned_cols=58 Identities=17% Similarity=0.255 Sum_probs=40.2
Q ss_pred HHHHHHhc-CCHHHHHHHHHHhhcc---cCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHH
Q psy15215 569 VVKDILNS-LTPRESKVLRMRFGIE---MSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPL 627 (1432)
Q Consensus 569 ~l~~~L~~-L~~rer~Vl~lr~~~~---~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~ 627 (1432)
.+...+.. |||.|+.-+..|+-.- +..++|+.||++.+|+|..+|. +-+++|+..-..
T Consensus 18 e~~~f~~dL~T~~E~~~l~~R~~va~~lL~~g~syreIa~~tgvS~aTIt-Rvsr~Lk~~~~~ 79 (87)
T PF01371_consen 18 ECYDFFEDLCTPDELEALAQRWQVAKELLDEGKSYREIAEETGVSIATIT-RVSRCLKYGDDG 79 (87)
T ss_dssp CHHHHHHHHSSHHHHHHHHHHHHHHHHHHHTTSSHHHHHHHHTSTHHHHH-HHHHHHHHSHCH
T ss_pred HHHHHHHHhCCHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHhCCCHHHHH-HHHHHHHcCCHH
Confidence 34445543 8899988887776542 2356799999999999999987 444555544333
|
The operators at which it binds vary considerably in DNA sequence and location within the promoter; when bound to the Trp operon it recognises the sequence 5'-ACTAGT-3' and acts to prevent the initiation of transcription. The TrpR controls the trpEDCBA (trpO) operon and the genes for trpR, aroH, mtr and aroL, which are involved in the biosynthesis and uptake of the amino acid tryptophan []. The repressor binds to the operators only in the presence of L-tryptophan, thereby controlling the intracellular level of its effector; the complex also regulates Trp repressor biosynthesis by binding to its own regulatory region. TrpR acts as a dimer that is composed of identical 6-helical subunits, where four of the helices form the core of the protein and intertwine with the corresponding helices from the other subunit.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3FRW_H 3KOR_A 3SSW_N 1P6Z_N 1CO0_B 1JHG_A 1WRT_S 1WRS_R 1WRP_R 1RCS_B .... |
| >PRK04841 transcriptional regulator MalT; Provisional | Back alignment and domain information |
|---|
Probab=82.94 E-value=1.5 Score=60.03 Aligned_cols=46 Identities=26% Similarity=0.286 Sum_probs=41.0
Q ss_pred hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 575 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 575 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
..||++|.+|+++. .. |+|++|||..++||.+||+.+.++.+.||.
T Consensus 837 ~~lt~~e~~v~~~~-~~----g~~~~~ia~~l~~s~~tv~~h~~~~~~kl~ 882 (903)
T PRK04841 837 SPLTQREWQVLGLI-YS----GYSNEQIAGELDVAATTIKTHIRNLYQKLG 882 (903)
T ss_pred CCCCHHHHHHHHHH-Hc----CCCHHHHHHHhCCCHHHHHHHHHHHHHHhC
Confidence 34999999999985 34 459999999999999999999999999995
|
|
| >PHA00675 hypothetical protein | Back alignment and domain information |
|---|
Probab=82.63 E-value=2.1 Score=38.44 Aligned_cols=40 Identities=20% Similarity=0.238 Sum_probs=33.7
Q ss_pred hcCCHHHHHHHHHHh-hcccCCCCcHHHHHhhcccchhHHHHHHH
Q psy15215 575 NSLTPRESKVLRMRF-GIEMSSDHTLEEVGKQFDVTRERIRQIEA 618 (1432)
Q Consensus 575 ~~L~~rer~Vl~lr~-~~~~~~~~t~~EIa~~l~is~~~v~~~~~ 618 (1432)
++|++.+-+.|+.++ -.|. |+.+||+.||+|+++|.++..
T Consensus 21 AKLt~~qV~~IR~l~~r~G~----s~~~IA~~fGVsrstV~~I~~ 61 (78)
T PHA00675 21 AKLTDAEVERIRELHEVEGM----SYAVLAEKFEQSKGAIAKICR 61 (78)
T ss_pred cccCHHHHHHHHHHHHhcCc----cHHHHHHHhCCCHHHHHHHHc
Confidence 468888888888777 5666 999999999999999998754
|
|
| >smart00351 PAX Paired Box domain | Back alignment and domain information |
|---|
Probab=82.50 E-value=2.7 Score=42.45 Aligned_cols=42 Identities=12% Similarity=0.101 Sum_probs=32.9
Q ss_pred CCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHH
Q psy15215 1367 LTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALR 1412 (1432)
Q Consensus 1367 L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~ 1412 (1432)
+|..+|.=+...|-.|. |..+||++||||+.+|..++++...
T Consensus 18 ~s~~~R~riv~~~~~G~----s~~~iA~~~gvs~~tV~kwi~r~~~ 59 (125)
T smart00351 18 LPDEERQRIVELAQNGV----RPCDISRQLCVSHGCVSKILGRYYE 59 (125)
T ss_pred CCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHH
Confidence 56655554445554566 9999999999999999999998754
|
|
| >PF08279 HTH_11: HTH domain; InterPro: IPR013196 Winged helix DNA-binding proteins share a related winged helix-turn-helix DNA-binding motif, where the "wings", or loops, are small beta-sheets | Back alignment and domain information |
|---|
Probab=82.47 E-value=2.3 Score=35.99 Aligned_cols=39 Identities=21% Similarity=0.367 Sum_probs=27.5
Q ss_pred HHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHH
Q psy15215 1370 RESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 1410 (1432)
Q Consensus 1370 rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rA 1410 (1432)
|++.||.+-+-.+ .+.|.+|||+.||||+.||++.+..-
T Consensus 1 R~~~il~~L~~~~--~~it~~eLa~~l~vS~rTi~~~i~~L 39 (55)
T PF08279_consen 1 RQKQILKLLLESK--EPITAKELAEELGVSRRTIRRDIKEL 39 (55)
T ss_dssp HHHHHHHHHHHTT--TSBEHHHHHHHCTS-HHHHHHHHHHH
T ss_pred CHHHHHHHHHHcC--CCcCHHHHHHHhCCCHHHHHHHHHHH
Confidence 4566666533222 34899999999999999999876654
|
The winged helix motif consists of two wings (W1, W2), three alpha helices (H1, H2, H3) and three beta-sheets (S1, S2, S3) arranged in the order H1-S1-H2-H3-S2-W1-S3-W2 []. The DNA-recognition helix makes sequence-specific DNA contacts with the major groove of DNA, while the wings make different DNA contacts, often with the minor groove or the backbone of DNA. Several winged-helix proteins display an exposed patch of hydrophobic residues thought to mediate protein-protein interactions. This entry represents a subset of the winged helix domain superfamily which is predominantly found in bacterial proteins, though there are also some archaeal and eukaryotic examples. This domain is commonly found in the biotin (vitamin H) repressor protein BirA which regulates transcription of the biotin operon []. It is also found in other proteins including regulators of amino acid biosynthsis such as LysM [], and regulators of carbohydrate metabolisms such as LicR and FrvR [, ].; PDB: 1HXD_B 2EWN_B 1BIA_A 1BIB_A 1J5Y_A 3V7S_A 3V7C_A 3RKW_A 3RIR_A 3RKX_A .... |
| >PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C | Back alignment and domain information |
|---|
Probab=81.16 E-value=1.4 Score=36.57 Aligned_cols=31 Identities=16% Similarity=0.350 Sum_probs=21.4
Q ss_pred HHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHH
Q psy15215 584 VLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 619 (1432)
Q Consensus 584 Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~r 619 (1432)
++.+.. .|. |..+||+.+|+|+.+|.++..+
T Consensus 10 ii~l~~-~G~----s~~~ia~~lgvs~~Tv~~w~kr 40 (50)
T PF13384_consen 10 IIRLLR-EGW----SIREIAKRLGVSRSTVYRWIKR 40 (50)
T ss_dssp HHHHHH-HT------HHHHHHHHTS-HHHHHHHHT-
T ss_pred HHHHHH-CCC----CHHHHHHHHCcCHHHHHHHHHH
Confidence 555554 254 9999999999999999987654
|
|
| >PF06056 Terminase_5: Putative ATPase subunit of terminase (gpP-like); InterPro: IPR010332 This family of proteins are annotated as ATPase subunits of phage terminase after [] | Back alignment and domain information |
|---|
Probab=81.03 E-value=2.8 Score=36.19 Aligned_cols=26 Identities=12% Similarity=0.312 Sum_probs=22.9
Q ss_pred CCCHHHHHHHhCCCHHHHHHHHHHHH
Q psy15215 1386 DHTLEEVGKQFDVTRERIRQIEAKAL 1411 (1432)
Q Consensus 1386 ~~t~~EIa~~l~vs~~~Vrq~~~rAl 1411 (1432)
+++..|||+.||+++.||.++..+.-
T Consensus 13 G~~~~eIA~~Lg~~~~TV~~W~~r~~ 38 (58)
T PF06056_consen 13 GWSIKEIAEELGVPRSTVYSWKDRYK 38 (58)
T ss_pred CCCHHHHHHHHCCChHHHHHHHHhhC
Confidence 34999999999999999999988753
|
Terminases are viral proteins that are involved in packaging viral DNA into the capsid.; GO: 0005524 ATP binding, 0019069 viral capsid assembly |
| >PF13730 HTH_36: Helix-turn-helix domain | Back alignment and domain information |
|---|
Probab=80.46 E-value=4.7 Score=34.10 Aligned_cols=47 Identities=19% Similarity=0.374 Sum_probs=32.0
Q ss_pred cCCHHHHHHHHH--HhcccCCCC-CCHHHHHHHhCCCHHHHHHHHHHHHHHhhC
Q psy15215 1366 SLTPRESKVLRM--RFGIEMSSD-HTLEEVGKQFDVTRERIRQIEAKALRKLRH 1416 (1432)
Q Consensus 1366 ~L~~rer~Vl~l--r~~~~~~~~-~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~ 1416 (1432)
.|+|.++.|+.. +|..+.+.. .|.+.||+.+|+|+.||++ +++.|..
T Consensus 2 ~Ls~~~~~v~~~l~~~~~~~~~~~pS~~~la~~~g~s~~Tv~~----~i~~L~~ 51 (55)
T PF13730_consen 2 NLSPTAKLVYLYLASYANKNGGCFPSQETLAKDLGVSRRTVQR----AIKELEE 51 (55)
T ss_pred CCCHHHHHHHHHHHHhcCCCCCCCcCHHHHHHHHCcCHHHHHH----HHHHHHH
Confidence 588888887654 332222222 3899999999999999985 5555543
|
|
| >PF02796 HTH_7: Helix-turn-helix domain of resolvase; InterPro: IPR006120 Site-specific recombination plays an important role in DNA rearrangement in prokaryotic organisms | Back alignment and domain information |
|---|
Probab=80.10 E-value=2.1 Score=34.79 Aligned_cols=36 Identities=19% Similarity=0.375 Sum_probs=23.8
Q ss_pred CCH-HHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHH
Q psy15215 577 LTP-RESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIE 617 (1432)
Q Consensus 577 L~~-rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~ 617 (1432)
+++ ....|+.|+ - .|+|..+||+.+|||+.+|....
T Consensus 6 ~~~~~~~~i~~l~-~----~G~si~~IA~~~gvsr~TvyR~l 42 (45)
T PF02796_consen 6 LSKEQIEEIKELY-A----EGMSIAEIAKQFGVSRSTVYRYL 42 (45)
T ss_dssp SSHCCHHHHHHHH-H----TT--HHHHHHHTTS-HHHHHHHH
T ss_pred CCHHHHHHHHHHH-H----CCCCHHHHHHHHCcCHHHHHHHH
Confidence 444 345566665 3 34599999999999999998654
|
Two types of site-specific recombination are known to occur: Recombination between inverted repeats resulting in the reversal of a DNA segment. Recombination between repeat sequences on two DNA molecules resulting in their cointegration, or between repeats on one DNA molecule resulting in the excision of a DNA fragment. Site-specific recombination is characterised by a strand exchange mechanism that requires no DNA synthesis or high energy cofactor; the phosphodiester bond energy is conserved in a phospho-protein linkage during strand cleavage and re-ligation. Two unrelated families of recombinases are currently known []. The first, called the 'phage integrase' family, groups a number of bacterial phage and yeast plasmid enzymes. The second [], called the 'resolvase' family, groups enzymes which share the following structural characteristics: an N-terminal catalytic and dimerization domain that contains a conserved serine residue involved in the transient covalent attachment to DNA IPR006119 from INTERPRO, and a C-terminal helix-turn-helix DNA-binding domain. ; GO: 0000150 recombinase activity, 0003677 DNA binding, 0006310 DNA recombination; PDB: 1ZR2_A 2GM4_B 1RES_A 1ZR4_A 1RET_A 1GDT_B 2R0Q_C 1JKP_C 1IJW_C 1JJ6_C .... |
Homologous Structure Templates
Structure Templates Detected by BLAST
Original result of BLAST against Protein Data Bank
| ID | Alignment Graph | Length |
Definition |
E-value | |
| Query | 1432 | ||||
| 3iyd_F | 613 | Three-Dimensional Em Structure Of An Intact Activat | 1e-158 | ||
| 4igc_X | 613 | X-ray Crystal Structure Of Escherichia Coli Sigma70 | 1e-157 | ||
| 1l9u_H | 332 | Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A | 1e-77 | ||
| 1l9z_H | 438 | Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Jun | 3e-77 | ||
| 3dxj_F | 423 | Crystal Structure Of Thermus Thermophilus Rna Polym | 4e-77 | ||
| 1iw7_F | 423 | Crystal Structure Of The Rna Polymerase Holoenzyme | 4e-77 | ||
| 4g7h_F | 443 | Crystal Structure Of Thermus Thermophilus Transcrip | 4e-77 | ||
| 1sig_A | 339 | Crystal Structure Of A Sigma70 Subunit Fragment Fro | 5e-58 | ||
| 1sig_A | 339 | Crystal Structure Of A Sigma70 Subunit Fragment Fro | 5e-58 | ||
| 1ku2_A | 241 | Crystal Structure Of Thermus Aquaticus Rna Polymera | 2e-46 | ||
| 1ku2_A | 241 | Crystal Structure Of Thermus Aquaticus Rna Polymera | 2e-46 | ||
| 3ugo_A | 245 | Crystal Structure Of Rna-Polymerase Sigma Subunit D | 2e-46 | ||
| 3ugo_A | 245 | Crystal Structure Of Rna-Polymerase Sigma Subunit D | 2e-46 | ||
| 3les_A | 179 | 2f5 Epitope Scaffold Es2 Length = 179 | 1e-27 | ||
| 3les_A | 179 | 2f5 Epitope Scaffold Es2 Length = 179 | 1e-27 | ||
| 1tlh_B | 81 | T4 Asia Bound To Sigma70 Region 4 Length = 81 | 4e-26 | ||
| 3t72_q | 99 | Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna | 4e-25 | ||
| 2p7v_B | 68 | Crystal Structure Of The Escherichia Coli Regulator | 2e-23 | ||
| 4g6d_A | 73 | G1 Orf67 / Staphyloccus Aureus Sigmaa Domain 4 Comp | 7e-19 | ||
| 1tty_A | 87 | Solution Structure Of Sigma A Region 4 From Thermot | 2e-17 | ||
| 3b39_A | 322 | Structure Of The Dnag Primase Catalytic Domain Boun | 5e-17 | ||
| 1dd9_A | 338 | Structure Of The Dnag Catalytic Core Length = 338 | 5e-17 | ||
| 1eqn_A | 321 | E.Coli Primase Catalytic Core Length = 321 | 4e-16 | ||
| 1l0o_C | 243 | Crystal Structure Of The Bacillus Stearothermophilu | 2e-15 | ||
| 1l0o_C | 243 | Crystal Structure Of The Bacillus Stearothermophilu | 2e-15 | ||
| 3n97_A | 72 | Rna Polymerase Alpha C-Terminal Domain (E. Coli) An | 2e-15 | ||
| 4g94_A | 62 | G1 Orf67 / Staphyloccus Aureus Sigmaa Domain 4 Comp | 1e-14 | ||
| 1ku3_A | 73 | Crystal Structure Of Thermus Aquaticus Rna Polymera | 2e-12 | ||
| 1rio_H | 73 | Structure Of Bacteriophage Lambda Ci-Ntd In Complex | 4e-12 | ||
| 2au3_A | 407 | Crystal Structure Of The Aquifex Aeolicus Primase ( | 8e-07 | ||
| 1rp3_A | 239 | Cocrystal Structure Of The Flagellar SigmaANTI-Sigm | 2e-06 | ||
| 1rp3_A | 239 | Cocrystal Structure Of The Flagellar SigmaANTI-Sigm | 2e-06 |
| >pdb|3IYD|F Chain F, Three-Dimensional Em Structure Of An Intact Activator-Dependent Transcription Initiation Complex Length = 613 | Back alignment and structure |
|
| >pdb|4IGC|X Chain X, X-ray Crystal Structure Of Escherichia Coli Sigma70 Holoenzyme Length = 613 | Back alignment and structure |
|
| >pdb|1L9U|H Chain H, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A Resolution Length = 332 | Back alignment and structure |
|
| >pdb|1L9Z|H Chain H, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction Promoter Dna Complex At 6.5 A Resolution Length = 438 | Back alignment and structure |
|
| >pdb|3DXJ|F Chain F, Crystal Structure Of Thermus Thermophilus Rna Polymerase Holoenzyme In Complex With The Antibiotic Myxopyronin Length = 423 | Back alignment and structure |
|
| >pdb|1IW7|F Chain F, Crystal Structure Of The Rna Polymerase Holoenzyme From Thermus Thermophilus At 2.6a Resolution Length = 423 | Back alignment and structure |
|
| >pdb|4G7H|F Chain F, Crystal Structure Of Thermus Thermophilus Transcription Initiation Complex Length = 443 | Back alignment and structure |
|
| >pdb|1SIG|A Chain A, Crystal Structure Of A Sigma70 Subunit Fragment From Escherichia Coli Rna Polymerase Length = 339 | Back alignment and structure |
|
| >pdb|1SIG|A Chain A, Crystal Structure Of A Sigma70 Subunit Fragment From Escherichia Coli Rna Polymerase Length = 339 | Back alignment and structure |
|
| >pdb|1KU2|A Chain A, Crystal Structure Of Thermus Aquaticus Rna Polymerase Sigma Subunit Fragment Containing Regions 1.2 To 3.1 Length = 241 | Back alignment and structure |
|
| >pdb|1KU2|A Chain A, Crystal Structure Of Thermus Aquaticus Rna Polymerase Sigma Subunit Fragment Containing Regions 1.2 To 3.1 Length = 241 | Back alignment and structure |
|
| >pdb|3UGO|A Chain A, Crystal Structure Of Rna-Polymerase Sigma Subunit Domain 2 Complexed With -10 Promoter Element Ssdna Oligo (Tacaat) Length = 245 | Back alignment and structure |
|
| >pdb|3UGO|A Chain A, Crystal Structure Of Rna-Polymerase Sigma Subunit Domain 2 Complexed With -10 Promoter Element Ssdna Oligo (Tacaat) Length = 245 | Back alignment and structure |
|
| >pdb|3LES|A Chain A, 2f5 Epitope Scaffold Es2 Length = 179 | Back alignment and structure |
|
| >pdb|3LES|A Chain A, 2f5 Epitope Scaffold Es2 Length = 179 | Back alignment and structure |
|
| >pdb|1TLH|B Chain B, T4 Asia Bound To Sigma70 Region 4 Length = 81 | Back alignment and structure |
|
| >pdb|3T72|QQ Chain q, Phob(E)-Sigma70(4)-(Rnap-Betha-Flap-Tip-Helix)-Dna Transcription Activation Sub-Complex Length = 99 | Back alignment and structure |
|
| >pdb|2P7V|B Chain B, Crystal Structure Of The Escherichia Coli Regulator Of Sigma 70, Rsd, In Complex With Sigma 70 Domain 4 Length = 68 | Back alignment and structure |
|
| >pdb|4G6D|A Chain A, G1 Orf67 / Staphyloccus Aureus Sigmaa Domain 4 Complex Length = 73 | Back alignment and structure |
|
| >pdb|1TTY|A Chain A, Solution Structure Of Sigma A Region 4 From Thermotoga Maritima Length = 87 | Back alignment and structure |
|
| >pdb|3B39|A Chain A, Structure Of The Dnag Primase Catalytic Domain Bound To Ssdna Length = 322 | Back alignment and structure |
|
| >pdb|1DD9|A Chain A, Structure Of The Dnag Catalytic Core Length = 338 | Back alignment and structure |
|
| >pdb|1EQN|A Chain A, E.Coli Primase Catalytic Core Length = 321 | Back alignment and structure |
|
| >pdb|1L0O|C Chain C, Crystal Structure Of The Bacillus Stearothermophilus Anti- Sigma Factor Spoiiab With The Sporulation Sigma Factor Sigmaf Length = 243 | Back alignment and structure |
|
| >pdb|1L0O|C Chain C, Crystal Structure Of The Bacillus Stearothermophilus Anti- Sigma Factor Spoiiab With The Sporulation Sigma Factor Sigmaf Length = 243 | Back alignment and structure |
|
| >pdb|3N97|A Chain A, Rna Polymerase Alpha C-Terminal Domain (E. Coli) And Sigma Region 4 (T. Aq. Mutant) Bound To (Up,-35 Element) Dna Length = 72 | Back alignment and structure |
|
| >pdb|4G94|A Chain A, G1 Orf67 / Staphyloccus Aureus Sigmaa Domain 4 Complex Length = 62 | Back alignment and structure |
|
| >pdb|1KU3|A Chain A, Crystal Structure Of Thermus Aquaticus Rna Polymerase Sigma Subunit Fragment, Region 4 Length = 73 | Back alignment and structure |
|
| >pdb|1RIO|H Chain H, Structure Of Bacteriophage Lambda Ci-Ntd In Complex With Sigma-Region4 Of Thermus Aquaticus Bound To Dna Length = 73 | Back alignment and structure |
|
| >pdb|2AU3|A Chain A, Crystal Structure Of The Aquifex Aeolicus Primase (Zinc Binding And Rna Polymerase Domains) Length = 407 | Back alignment and structure |
|
| >pdb|1RP3|A Chain A, Cocrystal Structure Of The Flagellar SigmaANTI-Sigma Complex, Sigma-28FLGM Length = 239 | Back alignment and structure |
|
| >pdb|1RP3|A Chain A, Cocrystal Structure Of The Flagellar SigmaANTI-Sigma Complex, Sigma-28FLGM Length = 239 | Back alignment and structure |
|
Structure Templates Detected by RPS-BLAST
Original result of RPS-BLAST against PDB70 database
| >3iyd_F RNA polymerase sigma factor RPOD; transcription, initiation, class I, activator, RNA polymeras holoenzyme, sigma70, open complex, CAP, CRP; HET: DNA CMP; 19.80A {Escherichia coli k-12} Length = 613 | Back alignment and structure |
|---|
Score = 692 bits (1787), Expect = 0.0
Identities = 301/610 (49%), Positives = 411/610 (67%), Gaps = 8/610 (1%)
Query: 827 ENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDT 886
+N + + K+L+ GKE+GYLT++E+ND LPEDI+D + IE II+ M I V E D
Sbjct: 3 QNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDA 62
Query: 887 ETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKR 946
+ LML+ T+D+D EA LS+V+S+ GRT DP++MYMREMG+VELLTR+GEI+IAKR
Sbjct: 63 DDLMLAENTADEDAAEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKR 122
Query: 947 IEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGL--------IDKNFSSNN 998
IE+G+ + +++ P I +L +++ E ++ +++ G + +
Sbjct: 123 IEDGINQVQCSVAEYPEAITYLLEQYNRVEAEEARLSDLITGFVDPNAEEDLAPTATHVG 182
Query: 999 RVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNS 1058
+ +++E E D + + + KF+ + + R + +G +
Sbjct: 183 SELSQEDLDDDEDEDEEDGDDDSADDDNSIDPELAREKFAELRAQYVVTRDTIKAKGRSH 242
Query: 1059 ESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHF 1118
+ + +S R K + L +++R +++V E+ I+++ V +C MP+ +F
Sbjct: 243 ATAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNF 302
Query: 1119 IKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDIN 1178
I +F NE + W + + ++ L + QKL ++ + L + ++DIN
Sbjct: 303 ITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETGLTIEQVKDIN 362
Query: 1179 RKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYR 1238
R+M GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYR
Sbjct: 363 RRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYR 422
Query: 1239 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSV 1298
RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQE G EP P
Sbjct: 423 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEE 482
Query: 1299 IAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRS 1358
+A +M MPE+KIRK++KIAKEP+SME+P+GDDEDSHLGDFIED + P D+A S+R+
Sbjct: 483 LAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRA 542
Query: 1359 VVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 1418
D+L LT RE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS
Sbjct: 543 ATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 602
Query: 1419 RYYKLKIFLE 1428
R L+ FL+
Sbjct: 603 RSEVLRSFLD 612
|
| >3iyd_F RNA polymerase sigma factor RPOD; transcription, initiation, class I, activator, RNA polymeras holoenzyme, sigma70, open complex, CAP, CRP; HET: DNA CMP; 19.80A {Escherichia coli k-12} Length = 613 | Back alignment and structure |
|---|
Score = 674 bits (1741), Expect = 0.0
Identities = 294/597 (49%), Positives = 402/597 (67%), Gaps = 8/597 (1%)
Query: 37 ENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDT 96
+N + + K+L+ GKE+GYLT++E+ND LPEDI+D + IE II+ M I V E D
Sbjct: 3 QNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDA 62
Query: 97 ETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKR 156
+ LML+ T+D+D EA LS+V+S+ GRT DP++MYMREMG+VELLTR+GEI+IAKR
Sbjct: 63 DDLMLAENTADEDAAEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKR 122
Query: 157 IEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGL--------IDKNFSSNN 208
IE+G+ + +++ P I +L +++ E ++ +++ G + +
Sbjct: 123 IEDGINQVQCSVAEYPEAITYLLEQYNRVEAEEARLSDLITGFVDPNAEEDLAPTATHVG 182
Query: 209 RVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNS 268
+ +++E E D + + + KF+ + + R + +G +
Sbjct: 183 SELSQEDLDDDEDEDEEDGDDDSADDDNSIDPELAREKFAELRAQYVVTRDTIKAKGRSH 242
Query: 269 ESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHF 328
+ + +S R K + L +++R +++V E+ I+++ V +C MP+ +F
Sbjct: 243 ATAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNF 302
Query: 329 IKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDIN 388
I +F NE + W + + ++ L + QKL ++ + L + ++DIN
Sbjct: 303 ITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETGLTIEQVKDIN 362
Query: 389 RKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYR 448
R+M GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYR
Sbjct: 363 RRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYR 422
Query: 449 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSV 508
RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQE G EP P
Sbjct: 423 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEE 482
Query: 509 IAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRS 568
+A +M MPE+KIRK++KIAKEP+SME+P+GDDEDSHLGDFIED + P D+A S+R+
Sbjct: 483 LAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRA 542
Query: 569 VVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
D+L LT RE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLR
Sbjct: 543 ATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 599
|
| >2a6h_F RNA polymerase sigma factor RPOD; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1smy_F* 1zyr_F* 1iw7_F* 2a69_F* 2a6e_F 2a68_F* 2be5_F* 2cw0_F 3eql_F* 3dxj_F* 1l9u_H Length = 423 | Back alignment and structure |
|---|
Score = 492 bits (1267), Expect = e-161
Identities = 158/345 (45%), Positives = 217/345 (62%), Gaps = 3/345 (0%)
Query: 1087 DTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLIL 1146
D +R ++++ Q+ LE V + +EI D ++ L
Sbjct: 79 DPVRQYLHEIGQVPLLTLEEEVELARKVEEGMEAIKKLSEITGLDPDLIREVVRAKILGS 138
Query: 1147 CRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISI 1206
R + +I L L +++ + + A++ + EANLRLV+SI
Sbjct: 139 ARVRHIPGLKETLDPKTVEEIDQKLKSLPKEHKRYLHIAREGEAARQHLIEANLRLVVSI 198
Query: 1207 AKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTI 1266
AKKYT RGL FLDLIQEGN GL++AV+KFEY+R +KFSTYATWWIRQAI R+IADQARTI
Sbjct: 199 AKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATWWIRQAINRAIADQARTI 258
Query: 1267 RIPVHMIETINKISRISRQILQETGSEPDPSVIAIKM--EMPEEKIRKIMKIAKEPVSME 1324
RIPVHM+ETINK+SR +RQ+ QE G EP IA M +++ + +KIA+EPVS+E
Sbjct: 259 RIPVHMVETINKLSRTARQLQQELGREPTYEEIAEAMGPGWDAKRVEETLKIAQEPVSLE 318
Query: 1325 SPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMS 1384
+P+GD++DS GDFI DE++ +P DAA + + ++ L+ L+ RE+ VL++R G+
Sbjct: 319 TPIGDEKDSFYGDFIPDEHLPSPVDAATQSLLSEELEKALSKLSEREAMVLKLRKGLIDG 378
Query: 1385 SDHTLEEVGKQFDVTRERIRQIEAKALRKLR-HPSRYYKLKIFLE 1428
+HTLEEVG F VTRERIRQIE KALRKL+ H SR KL+ FL+
Sbjct: 379 REHTLEEVGAFFGVTRERIRQIENKALRKLKYHESRTRKLRDFLD 423
|
| >2a6h_F RNA polymerase sigma factor RPOD; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1smy_F* 1zyr_F* 1iw7_F* 2a69_F* 2a6e_F 2a68_F* 2be5_F* 2cw0_F 3eql_F* 3dxj_F* 1l9u_H Length = 423 | Back alignment and structure |
|---|
Score = 477 bits (1230), Expect = e-156
Identities = 151/332 (45%), Positives = 208/332 (62%), Gaps = 2/332 (0%)
Query: 297 DTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLIL 356
D +R ++++ Q+ LE V + +EI D ++ L
Sbjct: 79 DPVRQYLHEIGQVPLLTLEEEVELARKVEEGMEAIKKLSEITGLDPDLIREVVRAKILGS 138
Query: 357 CRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISI 416
R + +I L L +++ + + A++ + EANLRLV+SI
Sbjct: 139 ARVRHIPGLKETLDPKTVEEIDQKLKSLPKEHKRYLHIAREGEAARQHLIEANLRLVVSI 198
Query: 417 AKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTI 476
AKKYT RGL FLDLIQEGN GL++AV+KFEY+R +KFSTYATWWIRQAI R+IADQARTI
Sbjct: 199 AKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATWWIRQAINRAIADQARTI 258
Query: 477 RIPVHMIETINKISRISRQILQETGSEPDPSVIAIKM--EMPEEKIRKIMKIAKEPVSME 534
RIPVHM+ETINK+SR +RQ+ QE G EP IA M +++ + +KIA+EPVS+E
Sbjct: 259 RIPVHMVETINKLSRTARQLQQELGREPTYEEIAEAMGPGWDAKRVEETLKIAQEPVSLE 318
Query: 535 SPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMS 594
+P+GD++DS GDFI DE++ +P DAA + + ++ L+ L+ RE+ VL++R G+
Sbjct: 319 TPIGDEKDSFYGDFIPDEHLPSPVDAATQSLLSEELEKALSKLSEREAMVLKLRKGLIDG 378
Query: 595 SDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626
+HTLEEVG F VTRERIRQIE KALRKL+
Sbjct: 379 REHTLEEVGAFFGVTRERIRQIENKALRKLKY 410
|
| >2a6h_F RNA polymerase sigma factor RPOD; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1smy_F* 1zyr_F* 1iw7_F* 2a69_F* 2a6e_F 2a68_F* 2be5_F* 2cw0_F 3eql_F* 3dxj_F* 1l9u_H Length = 423 | Back alignment and structure |
|---|
Score = 97.3 bits (242), Expect = 3e-21
Identities = 31/181 (17%), Positives = 65/181 (35%), Gaps = 4/181 (2%)
Query: 50 GKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNITSDDD 109
+R E + + E + + D+ + L+ + L L D
Sbjct: 3 KSKRKNAQAQEAQETEVLVQEEAEELPEFPEGEPDPDLEDPDLALEDDLLDLPEEGEGLD 62
Query: 110 VEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAIS 169
+EE E + T DP++ Y+ E+G V LLT + E+E+A+++EEG++ +
Sbjct: 63 LEEEEED----LPIPKISTSDPVRQYLHEIGQVPLLTLEEEVELARKVEEGMEAIKKLSE 118
Query: 170 SCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEKILIESSSA 229
I ++ I + + + + K+ +E +
Sbjct: 119 ITGLDPDLIREVVRAKILGSARVRHIPGLKETLDPKTVEEIDQKLKSLPKEHKRYLHIAR 178
Query: 230 D 230
+
Sbjct: 179 E 179
|
| >2a6h_F RNA polymerase sigma factor RPOD; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1smy_F* 1zyr_F* 1iw7_F* 2a69_F* 2a6e_F 2a68_F* 2be5_F* 2cw0_F 3eql_F* 3dxj_F* 1l9u_H Length = 423 | Back alignment and structure |
|---|
Score = 97.3 bits (242), Expect = 3e-21
Identities = 31/181 (17%), Positives = 65/181 (35%), Gaps = 4/181 (2%)
Query: 840 GKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNITSDDD 899
+R E + + E + + D+ + L+ + L L D
Sbjct: 3 KSKRKNAQAQEAQETEVLVQEEAEELPEFPEGEPDPDLEDPDLALEDDLLDLPEEGEGLD 62
Query: 900 VEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAIS 959
+EE E + T DP++ Y+ E+G V LLT + E+E+A+++EEG++ +
Sbjct: 63 LEEEEED----LPIPKISTSDPVRQYLHEIGQVPLLTLEEEVELARKVEEGMEAIKKLSE 118
Query: 960 SCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEKILIESSSA 1019
I ++ I + + + + K+ +E +
Sbjct: 119 ITGLDPDLIREVVRAKILGSARVRHIPGLKETLDPKTVEEIDQKLKSLPKEHKRYLHIAR 178
Query: 1020 D 1020
+
Sbjct: 179 E 179
|
| >1l9z_H Sigma factor SIGA; helix-turn-helix, coiled-coil, transcription/DNA complex; 6.50A {Thermus aquaticus} SCOP: i.8.1.1 Length = 438 | Back alignment and structure |
|---|
Score = 486 bits (1253), Expect = e-159
Identities = 165/440 (37%), Positives = 241/440 (54%), Gaps = 6/440 (1%)
Query: 992 KNFSSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAF 1051
K S + K + +E + +L + + E + + +
Sbjct: 2 KKSKSKKKAAKAQEVEVKEPVKEPEPLPELEAAEDLQDLPEPDPELLASEPELEDLADPL 61
Query: 1052 EKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKC 1111
+ EG + + E + S D +R ++++ Q+ LE ++
Sbjct: 62 DLEGPLEADLLPEEGLLEEEEEELSLPKVSTS---DPVRQYLHEIGQVPLLTLEEEIDLA 118
Query: 1112 GMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPL 1171
+ +E + ++ L R ++ ++ L
Sbjct: 119 RKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQKIPGLKEKPDPKTVEEVDGKL 178
Query: 1172 NDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKA 1231
L ++ + + A++ + EANLRLV+SIAKKYT RGL FLDLIQEGN GL++A
Sbjct: 179 KSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRA 238
Query: 1232 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETG 1291
V+KFEY+R +KFSTYATWWIRQAI R+IADQARTIRIPVHM+ETINK+SR +RQ+ QE G
Sbjct: 239 VEKFEYKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELG 298
Query: 1292 SEPDPSVIAIKM--EMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 1349
EP IA M +++ + +KIA+EPVS+E+P+GD++DS GDFI DEN+ +P +
Sbjct: 299 REPSYEEIAEAMGPGWDAKRVEETLKIAQEPVSLETPIGDEKDSFYGDFIPDENLPSPVE 358
Query: 1350 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 1409
AA + + ++ L+ L+ RE+ VL++R G+ +HTLEEVG F VTRERIRQIE K
Sbjct: 359 AAAQSLLSEELEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENK 418
Query: 1410 ALRKLR-HPSRYYKLKIFLE 1428
ALRKL+ H SR KL+ FLE
Sbjct: 419 ALRKLKYHESRTRKLRDFLE 438
|
| >1l9z_H Sigma factor SIGA; helix-turn-helix, coiled-coil, transcription/DNA complex; 6.50A {Thermus aquaticus} SCOP: i.8.1.1 Length = 438 | Back alignment and structure |
|---|
Score = 473 bits (1218), Expect = e-154
Identities = 157/427 (36%), Positives = 232/427 (54%), Gaps = 5/427 (1%)
Query: 202 KNFSSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAF 261
K S + K + +E + +L + + E + + +
Sbjct: 2 KKSKSKKKAAKAQEVEVKEPVKEPEPLPELEAAEDLQDLPEPDPELLASEPELEDLADPL 61
Query: 262 EKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKC 321
+ EG + + E + S D +R ++++ Q+ LE ++
Sbjct: 62 DLEGPLEADLLPEEGLLEEEEEELSLPKVSTS---DPVRQYLHEIGQVPLLTLEEEIDLA 118
Query: 322 GMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPL 381
+ +E + ++ L R ++ ++ L
Sbjct: 119 RKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQKIPGLKEKPDPKTVEEVDGKL 178
Query: 382 NDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKA 441
L ++ + + A++ + EANLRLV+SIAKKYT RGL FLDLIQEGN GL++A
Sbjct: 179 KSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRA 238
Query: 442 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETG 501
V+KFEY+R +KFSTYATWWIRQAI R+IADQARTIRIPVHM+ETINK+SR +RQ+ QE G
Sbjct: 239 VEKFEYKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELG 298
Query: 502 SEPDPSVIAIKM--EMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 559
EP IA M +++ + +KIA+EPVS+E+P+GD++DS GDFI DEN+ +P +
Sbjct: 299 REPSYEEIAEAMGPGWDAKRVEETLKIAQEPVSLETPIGDEKDSFYGDFIPDENLPSPVE 358
Query: 560 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 619
AA + + ++ L+ L+ RE+ VL++R G+ +HTLEEVG F VTRERIRQIE K
Sbjct: 359 AAAQSLLSEELEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENK 418
Query: 620 ALRKLRP 626
ALRKL+
Sbjct: 419 ALRKLKY 425
|
| >1l9z_H Sigma factor SIGA; helix-turn-helix, coiled-coil, transcription/DNA complex; 6.50A {Thermus aquaticus} SCOP: i.8.1.1 Length = 438 | Back alignment and structure |
|---|
Score = 73.1 bits (179), Expect = 2e-13
Identities = 30/202 (14%), Positives = 70/202 (34%), Gaps = 15/202 (7%)
Query: 29 KSNSREEIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDIS 88
K ++ + +++ K L + ++ + PE + +E +
Sbjct: 8 KKAAKAQEVEVKEPVKEPEPLPELEAAEDLQDLPEPDPELLASEPELEDLADPLDLEGPL 67
Query: 89 VSEHVLDTETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRD 148
++ + + E E + T DP++ Y+ E+G V LLT +
Sbjct: 68 EADLLPE---------------EGLLEEEEEELSLPKVSTSDPVRQYLHEIGQVPLLTLE 112
Query: 149 GEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNN 208
EI++A+++EEG++ + + I +I +I + +
Sbjct: 113 EEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQKIPGLKEKPDPKTVE 172
Query: 209 RVIKGNKNNNEEKILIESSSAD 230
V K+ +E + +
Sbjct: 173 EVDGKLKSLPKELKRYLHIARE 194
|
| >1l9z_H Sigma factor SIGA; helix-turn-helix, coiled-coil, transcription/DNA complex; 6.50A {Thermus aquaticus} SCOP: i.8.1.1 Length = 438 | Back alignment and structure |
|---|
Score = 73.1 bits (179), Expect = 2e-13
Identities = 30/202 (14%), Positives = 70/202 (34%), Gaps = 15/202 (7%)
Query: 819 KSNSREEIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDIS 878
K ++ + +++ K L + ++ + PE + +E +
Sbjct: 8 KKAAKAQEVEVKEPVKEPEPLPELEAAEDLQDLPEPDPELLASEPELEDLADPLDLEGPL 67
Query: 879 VSEHVLDTETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRD 938
++ + + E E + T DP++ Y+ E+G V LLT +
Sbjct: 68 EADLLPE---------------EGLLEEEEEELSLPKVSTSDPVRQYLHEIGQVPLLTLE 112
Query: 939 GEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNN 998
EI++A+++EEG++ + + I +I +I + +
Sbjct: 113 EEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQKIPGLKEKPDPKTVE 172
Query: 999 RVIKGNKNNNEEKILIESSSAD 1020
V K+ +E + +
Sbjct: 173 EVDGKLKSLPKELKRYLHIARE 194
|
| >1sig_A Sigma70, RNA polymerase primary sigma factor; RNA polymerase sigma factor, transcription regulation; 2.60A {Escherichia coli} SCOP: a.177.1.1 Length = 339 | Back alignment and structure |
|---|
Score = 368 bits (945), Expect = e-116
Identities = 128/336 (38%), Positives = 194/336 (57%), Gaps = 8/336 (2%)
Query: 147 RDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSS 206
+GEI+IAKRIE+G+ + +++ P I +L +++ E ++ +++ G +D N
Sbjct: 4 MEGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYNRVEAEEARLSDLITGFVDPNAEE 63
Query: 207 N--------NRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMR 258
+ + +++E E D + + + KF+ + + R
Sbjct: 64 DLAPTATHVGSELSQEDLDDDEDEDEEDGDDDSADDDNSIDPELAREKFAELRAQYVVTR 123
Query: 259 KAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVV 318
+ +G + + + +S R K + L +++R +++V E+ I+++ V
Sbjct: 124 DTIKAKGRSHATAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCV 183
Query: 319 NKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIV 378
+C MP+ +FI +F NE + W + + ++ L + QKL ++ +
Sbjct: 184 EQCKMPKKNFITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETG 243
Query: 379 LPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGL 438
L + ++DINR+M GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGL
Sbjct: 244 LTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGL 303
Query: 439 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 474
MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR
Sbjct: 304 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 339
|
| >1sig_A Sigma70, RNA polymerase primary sigma factor; RNA polymerase sigma factor, transcription regulation; 2.60A {Escherichia coli} SCOP: a.177.1.1 Length = 339 | Back alignment and structure |
|---|
Score = 368 bits (945), Expect = e-116
Identities = 128/336 (38%), Positives = 194/336 (57%), Gaps = 8/336 (2%)
Query: 937 RDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSS 996
+GEI+IAKRIE+G+ + +++ P I +L +++ E ++ +++ G +D N
Sbjct: 4 MEGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYNRVEAEEARLSDLITGFVDPNAEE 63
Query: 997 N--------NRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMR 1048
+ + +++E E D + + + KF+ + + R
Sbjct: 64 DLAPTATHVGSELSQEDLDDDEDEDEEDGDDDSADDDNSIDPELAREKFAELRAQYVVTR 123
Query: 1049 KAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVV 1108
+ +G + + + +S R K + L +++R +++V E+ I+++ V
Sbjct: 124 DTIKAKGRSHATAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCV 183
Query: 1109 NKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIV 1168
+C MP+ +FI +F NE + W + + ++ L + QKL ++ +
Sbjct: 184 EQCKMPKKNFITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETG 243
Query: 1169 LPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGL 1228
L + ++DINR+M GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGL
Sbjct: 244 LTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGL 303
Query: 1229 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 1264
MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR
Sbjct: 304 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 339
|
| >1l0o_C Sigma factor; bergerat fold, helix-turn-helix, protein binding; HET: ADP; 2.90A {Geobacillus stearothermophilus} SCOP: a.4.13.2 Length = 243 | Back alignment and structure |
|---|
Score = 314 bits (808), Expect = 1e-98
Identities = 65/256 (25%), Positives = 127/256 (49%), Gaps = 17/256 (6%)
Query: 372 NLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLI 431
++Q + +++++ R+ G+ +AR E+ E N+RLV S+ +++ +RG + DL
Sbjct: 3 HMQGQSPIKDQEMKELIRRSQEGDQEARD---EIIEKNMRLVWSVVQRFLNRGYEADDLF 59
Query: 432 QEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISR 491
Q G IGL+K+VDKF+ KFSTYA I I R + D T+++ + E NKI +
Sbjct: 60 QIGCIGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSLKEMGNKIRK 118
Query: 492 ISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS--HLGDFI 549
++ + G P + IA + + E + + + P S+ V +++ L D I
Sbjct: 119 AKDELSKTRGRAPTVTEIADHLGISPEDVVLAQEAVRLPTSIHETVYENDGDPITLLDQI 178
Query: 550 EDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVT 609
D + + D + +K + L RE ++ +R+ + T EV + ++
Sbjct: 179 ADADEASWFD-------KIALKKAIEELDERERLIVYLRYYKDQ----TQSEVASRLGIS 227
Query: 610 RERIRQIEAKALRKLR 625
+ ++ ++E K L+ ++
Sbjct: 228 QVQMSRLEKKILQHIK 243
|
| >1l0o_C Sigma factor; bergerat fold, helix-turn-helix, protein binding; HET: ADP; 2.90A {Geobacillus stearothermophilus} SCOP: a.4.13.2 Length = 243 | Back alignment and structure |
|---|
Score = 314 bits (808), Expect = 1e-98
Identities = 65/256 (25%), Positives = 127/256 (49%), Gaps = 17/256 (6%)
Query: 1162 NLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLI 1221
++Q + +++++ R+ G+ +AR E+ E N+RLV S+ +++ +RG + DL
Sbjct: 3 HMQGQSPIKDQEMKELIRRSQEGDQEARD---EIIEKNMRLVWSVVQRFLNRGYEADDLF 59
Query: 1222 QEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISR 1281
Q G IGL+K+VDKF+ KFSTYA I I R + D T+++ + E NKI +
Sbjct: 60 QIGCIGLLKSVDKFDLSYDVKFSTYAVPMIIGEIQRFLRDDG-TVKVSRSLKEMGNKIRK 118
Query: 1282 ISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS--HLGDFI 1339
++ + G P + IA + + E + + + P S+ V +++ L D I
Sbjct: 119 AKDELSKTRGRAPTVTEIADHLGISPEDVVLAQEAVRLPTSIHETVYENDGDPITLLDQI 178
Query: 1340 EDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVT 1399
D + + D + +K + L RE ++ +R+ + T EV + ++
Sbjct: 179 ADADEASWFD-------KIALKKAIEELDERERLIVYLRYYKDQ----TQSEVASRLGIS 227
Query: 1400 RERIRQIEAKALRKLR 1415
+ ++ ++E K L+ ++
Sbjct: 228 QVQMSRLEKKILQHIK 243
|
| >3ugo_A RNA polymerase sigma factor; protein-DNA complex, bacterial promoter opening, G-quartet, quadruplex, DNA binding; 2.10A {Thermus aquaticus} PDB: 3ugp_A 1ku2_A 3lev_A* 3les_A* Length = 245 | Back alignment and structure |
|---|
Score = 302 bits (774), Expect = 6e-94
Identities = 96/243 (39%), Positives = 143/243 (58%), Gaps = 10/243 (4%)
Query: 297 DTLRNQINQVTQIE----KQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDY 352
D +R ++++ Q+ ++ +++ K K+ ++ + + +
Sbjct: 7 DPVRQYLHEIGQVPLLTLEEEIDLA-RKVEEGMEAIKKLSEATGLDQELIREVVRAKILG 65
Query: 353 NLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRL 412
+ ++ ++ L L ++ + + A++ + EANLRL
Sbjct: 66 TARI---QKIPGLKEKPDPKTVEEVDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRL 122
Query: 413 VISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 472
V+SIAKKYT RGL FLDLIQEGN GL++AV+KFEY+R +KFSTYATWWIRQAI R+IADQ
Sbjct: 123 VVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATWWIRQAINRAIADQ 182
Query: 473 ARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKM--EMPEEKIRKIMKIAKEP 530
ARTIRIPVHM+ETINK+SR +RQ+ QE G EP IA M +++ + +KIA+EP
Sbjct: 183 ARTIRIPVHMVETINKLSRTARQLQQELGREPSYEEIAEAMGPGWDAKRVEETLKIAQEP 242
Query: 531 VSM 533
VS+
Sbjct: 243 VSL 245
|
| >3ugo_A RNA polymerase sigma factor; protein-DNA complex, bacterial promoter opening, G-quartet, quadruplex, DNA binding; 2.10A {Thermus aquaticus} PDB: 3ugp_A 1ku2_A 3lev_A* 3les_A* Length = 245 | Back alignment and structure |
|---|
Score = 302 bits (774), Expect = 6e-94
Identities = 96/243 (39%), Positives = 143/243 (58%), Gaps = 10/243 (4%)
Query: 1087 DTLRNQINQVTQIE----KQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDY 1142
D +R ++++ Q+ ++ +++ K K+ ++ + + +
Sbjct: 7 DPVRQYLHEIGQVPLLTLEEEIDLA-RKVEEGMEAIKKLSEATGLDQELIREVVRAKILG 65
Query: 1143 NLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRL 1202
+ ++ ++ L L ++ + + A++ + EANLRL
Sbjct: 66 TARI---QKIPGLKEKPDPKTVEEVDGKLKSLPKELKRYLHIAREGEAARQHLIEANLRL 122
Query: 1203 VISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 1262
V+SIAKKYT RGL FLDLIQEGN GL++AV+KFEY+R +KFSTYATWWIRQAI R+IADQ
Sbjct: 123 VVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATWWIRQAINRAIADQ 182
Query: 1263 ARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKM--EMPEEKIRKIMKIAKEP 1320
ARTIRIPVHM+ETINK+SR +RQ+ QE G EP IA M +++ + +KIA+EP
Sbjct: 183 ARTIRIPVHMVETINKLSRTARQLQQELGREPSYEEIAEAMGPGWDAKRVEETLKIAQEP 242
Query: 1321 VSM 1323
VS+
Sbjct: 243 VSL 245
|
| >3ugo_A RNA polymerase sigma factor; protein-DNA complex, bacterial promoter opening, G-quartet, quadruplex, DNA binding; 2.10A {Thermus aquaticus} PDB: 3ugp_A 1ku2_A 3lev_A* 3les_A* Length = 245 | Back alignment and structure |
|---|
Score = 61.4 bits (149), Expect = 3e-10
Identities = 22/105 (20%), Positives = 44/105 (41%)
Query: 126 GRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKI 185
T DP++ Y+ E+G V LLT + EI++A+++EEG++ + + I
Sbjct: 3 HMTSDPVRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAK 62
Query: 186 SKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEKILIESSSAD 230
+I +I + + V K+ +E + +
Sbjct: 63 ILGTARIQKIPGLKEKPDPKTVEEVDGKLKSLPKELKRYLHIARE 107
|
| >3ugo_A RNA polymerase sigma factor; protein-DNA complex, bacterial promoter opening, G-quartet, quadruplex, DNA binding; 2.10A {Thermus aquaticus} PDB: 3ugp_A 1ku2_A 3lev_A* 3les_A* Length = 245 | Back alignment and structure |
|---|
Score = 61.4 bits (149), Expect = 3e-10
Identities = 22/105 (20%), Positives = 44/105 (41%)
Query: 916 GRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKI 975
T DP++ Y+ E+G V LLT + EI++A+++EEG++ + + I
Sbjct: 3 HMTSDPVRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAK 62
Query: 976 SKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEKILIESSSAD 1020
+I +I + + V K+ +E + +
Sbjct: 63 ILGTARIQKIPGLKEKPDPKTVEEVDGKLKSLPKELKRYLHIARE 107
|
| >1rp3_A RNA polymerase sigma factor sigma-28 (FLIA); transcription; 2.30A {Aquifex aeolicus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1sc5_A Length = 239 | Back alignment and structure |
|---|
Score = 210 bits (537), Expect = 7e-62
Identities = 57/240 (23%), Positives = 104/240 (43%), Gaps = 17/240 (7%)
Query: 399 RKAKREMTEANLRLVISIA---KKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 455
+ + E+ L LV +IA KK+ + DLI G IGL+KAVD +
Sbjct: 11 QIEREELILKYLPLVKAIATNIKKHLPEDVDIRDLISYGVIGLIKAVDNLSTENPKRAEA 70
Query: 456 YATWWIRQAITRSIADQARTI-RIPVHMIETINKISRISRQILQETGSEPDPSVIAIKME 514
Y I+ A I D R++ + E +I + ++ ++ G EP +A ++
Sbjct: 71 YIKLRIKGA----IYDYLRSLDFGSRQVREKERRIKEVVEKLKEKLGREPTDEEVAKELG 126
Query: 515 MPEEKIRKIMKIAKEP--VSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKD 572
+ E++ K + +S+E D + N + + + VK+
Sbjct: 127 ISTEELFKTLDKINFSYILSLEEVFRDFARDYSELIPSSTN---VEEEVIKRELTEKVKE 183
Query: 573 ILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHDWL 632
++ L RE V+++ F E+ +EV K + + R+ Q++AKAL +LR + + L
Sbjct: 184 AVSKLPEREKLVIQLIFYEEL----PAKEVAKILETSVSRVSQLKAKALERLREMLSNPL 239
|
| >1rp3_A RNA polymerase sigma factor sigma-28 (FLIA); transcription; 2.30A {Aquifex aeolicus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1sc5_A Length = 239 | Back alignment and structure |
|---|
Score = 208 bits (532), Expect = 3e-61
Identities = 56/233 (24%), Positives = 101/233 (43%), Gaps = 17/233 (7%)
Query: 1189 RKAKREMTEANLRLVISIA---KKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 1245
+ + E+ L LV +IA KK+ + DLI G IGL+KAVD +
Sbjct: 11 QIEREELILKYLPLVKAIATNIKKHLPEDVDIRDLISYGVIGLIKAVDNLSTENPKRAEA 70
Query: 1246 YATWWIRQAITRSIADQARTI-RIPVHMIETINKISRISRQILQETGSEPDPSVIAIKME 1304
Y I+ A I D R++ + E +I + ++ ++ G EP +A ++
Sbjct: 71 YIKLRIKGA----IYDYLRSLDFGSRQVREKERRIKEVVEKLKEKLGREPTDEEVAKELG 126
Query: 1305 MPEEKIRKIMKIAKEP--VSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKD 1362
+ E++ K + +S+E D + N + + + VK+
Sbjct: 127 ISTEELFKTLDKINFSYILSLEEVFRDFARDYSELIPSSTN---VEEEVIKRELTEKVKE 183
Query: 1363 ILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415
++ L RE V+++ F E+ +EV K + + R+ Q++AKAL +LR
Sbjct: 184 AVSKLPEREKLVIQLIFYEEL----PAKEVAKILETSVSRVSQLKAKALERLR 232
|
| >3t72_q RNA polymerase sigma factor RPOD, DNA-directed RN polymerase subunit beta; winged-helix motif, transcription activation, DNA-binding; 4.33A {Escherichia coli} PDB: 1tlh_B Length = 99 | Back alignment and structure |
|---|
Score = 147 bits (372), Expect = 1e-41
Identities = 55/84 (65%), Positives = 65/84 (77%)
Query: 1349 DAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEA 1408
D+A S+R+ D+L LT RE+KVLRMRFGI+M++D+TLEEVGKQFDVTRERIRQIEA
Sbjct: 2 DSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEA 61
Query: 1409 KALRKLRHPSRYYKLKIFLEGKKN 1432
KALRKLRHPSR L+ G
Sbjct: 62 KALRKLRHPSRSEVLRSGSSGSGT 85
|
| >3t72_q RNA polymerase sigma factor RPOD, DNA-directed RN polymerase subunit beta; winged-helix motif, transcription activation, DNA-binding; 4.33A {Escherichia coli} PDB: 1tlh_B Length = 99 | Back alignment and structure |
|---|
Score = 126 bits (318), Expect = 2e-34
Identities = 49/67 (73%), Positives = 58/67 (86%)
Query: 559 DAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEA 618
D+A S+R+ D+L LT RE+KVLRMRFGI+M++D+TLEEVGKQFDVTRERIRQIEA
Sbjct: 2 DSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEA 61
Query: 619 KALRKLR 625
KALRKLR
Sbjct: 62 KALRKLR 68
|
| >1dd9_A DNA primase, DNAG; toprim, 3-helix bundle, DNA-binding protein, RNA polymerase, replication protein, transferase; HET: DNA; 1.60A {Escherichia coli} SCOP: e.13.1.1 PDB: 1dde_A* 1eqn_A* 3b39_A* Length = 338 | Back alignment and structure |
|---|
Score = 152 bits (387), Expect = 1e-40
Identities = 51/126 (40%), Positives = 71/126 (56%), Gaps = 21/126 (16%)
Query: 706 ETPLFHKSNELYGLFEAKNAIGKSGYVLITEGYMDVIGLSQFGF---------------- 749
ET +FHK +LYGL+EA+ + +L+ EGYMDV+ L+Q+G
Sbjct: 140 ETDIFHKGRQLYGLYEAQQDNAEPNRLLVVEGYMDVVALAQYGINYAVASLGTSTTADHI 199
Query: 750 -----FANSSYTCFDGDQAGRRAARRALEVCLLYATDDKIIKFLFLPDKYDPDSYIRKFG 804
N+ C+DGD+AGR AA RALE L Y TD + ++F+FLPD DPD+ +RK G
Sbjct: 200 QLLFRATNNVICCYDGDRAGRDAAWRALETALPYMTDGRQLRFMFLPDGEDPDTLVRKEG 259
Query: 805 YKIFSK 810
+ F
Sbjct: 260 KEAFEA 265
|
| >1tty_A Sigma-A, RNA polymerase sigma factor RPOD; helix-turn-helix, transcription; NMR {Thermotoga maritima} SCOP: a.4.13.2 Length = 87 | Back alignment and structure |
|---|
Score = 141 bits (357), Expect = 8e-40
Identities = 45/84 (53%), Positives = 56/84 (66%)
Query: 1349 DAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEA 1408
A+ MR ++ +L +L+PRE+ VLRMR+G+ TLEEVG+ F+VTRERIRQIE
Sbjct: 1 KEAMRMLMREELEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEV 60
Query: 1409 KALRKLRHPSRYYKLKIFLEGKKN 1432
KALRKLRHPSR LK L
Sbjct: 61 KALRKLRHPSRSKYLKSLLSLMDE 84
|
| >1tty_A Sigma-A, RNA polymerase sigma factor RPOD; helix-turn-helix, transcription; NMR {Thermotoga maritima} SCOP: a.4.13.2 Length = 87 | Back alignment and structure |
|---|
Score = 121 bits (305), Expect = 8e-33
Identities = 38/67 (56%), Positives = 49/67 (73%)
Query: 559 DAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEA 618
A+ MR ++ +L +L+PRE+ VLRMR+G+ TLEEVG+ F+VTRERIRQIE
Sbjct: 1 KEAMRMLMREELEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEV 60
Query: 619 KALRKLR 625
KALRKLR
Sbjct: 61 KALRKLR 67
|
| >2au3_A DNA primase; zinc ribbon, toprim, RNA polymerase, DNA replication, transf; HET: DNA; 2.00A {Aquifex aeolicus} Length = 407 | Back alignment and structure |
|---|
Score = 148 bits (376), Expect = 2e-38
Identities = 42/160 (26%), Positives = 71/160 (44%), Gaps = 29/160 (18%)
Query: 706 ETPLFHKSNELYGLFEAKNAIGKSGYVLITEGYMDVIGLSQFGF---------------- 749
++ +F K L+GL+EAK I + G+ ++ EGY D++ L G
Sbjct: 221 DSRVFKKGENLFGLYEAKEYIKEEGFAILVEGYFDLLRLFSEGIRNVVAPLGTALTQNQA 280
Query: 750 -----FANSSYTCFDGDQAGRRAARRALEVCLLYATDDKIIKFLFLPDKYDPDSYIRKFG 804
F Y +DGD AGR+A + A+ + L + + ++LP+ YDPD +I++FG
Sbjct: 281 NLLSKFTKKVYILYDGDDAGRKAMKSAIPLLL---SAGVEVYPVYLPEGYDPDEFIKEFG 337
Query: 805 YKIFSK-----KNAFSFDIKSNSREEIENLRKKFKILIKL 839
+ + F IK+ E R+ L +
Sbjct: 338 KEELRRLINSSGELFETLIKTARENLEEKTREFRYYLGFI 377
|
| >2p7v_B Sigma-70, RNA polymerase sigma factor RPOD; RSD, regulator of sigma 70, sigma 70 domain 4, transcription, regulation, helix-turn-helix; 2.60A {Escherichia coli} SCOP: a.4.13.2 Length = 68 | Back alignment and structure |
|---|
Score = 133 bits (338), Expect = 2e-37
Identities = 52/67 (77%), Positives = 60/67 (89%)
Query: 1362 DILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYY 1421
D+L LT RE+KVLRMRFGI+M++D+TLEEVGKQFDVTRERIRQIEAKALRKLRHPSR
Sbjct: 1 DVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSE 60
Query: 1422 KLKIFLE 1428
L+ FL+
Sbjct: 61 VLRSFLD 67
|
| >2p7v_B Sigma-70, RNA polymerase sigma factor RPOD; RSD, regulator of sigma 70, sigma 70 domain 4, transcription, regulation, helix-turn-helix; 2.60A {Escherichia coli} SCOP: a.4.13.2 Length = 68 | Back alignment and structure |
|---|
Score = 115 bits (289), Expect = 9e-31
Identities = 45/54 (83%), Positives = 51/54 (94%)
Query: 572 DILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
D+L LT RE+KVLRMRFGI+M++D+TLEEVGKQFDVTRERIRQIEAKALRKLR
Sbjct: 1 DVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLR 54
|
| >4edg_A DNA primase; catalytic domain, nucleoside triphosphate, nucleoside polyph protein-ligand complex, transferase; HET: DNA ATP; 2.00A {Staphylococcus aureus} PDB: 4edk_A* 4edr_A* 4edt_A* 4edv_A* 4ee1_A* Length = 329 | Back alignment and structure |
|---|
Score = 139 bits (352), Expect = 4e-36
Identities = 36/126 (28%), Positives = 52/126 (41%), Gaps = 24/126 (19%)
Query: 706 ETPLFHKSNELYGLFEAKNAIGKSGYVLITEGYMDVIGLSQFGF---------------- 749
ETP+F K LY L +A+ +I K +++ EG+MDVI G
Sbjct: 129 ETPIFQKRKLLYNLDKARKSIRKLDEIVLLEGFMDVIKSDTAGLKNVVATMGTQLSDEHI 188
Query: 750 -----FANSSYTCFDGDQAGRRAARRALEVCLLYATDDKIIKFLFLPDKYDPDSYIRKFG 804
++ FDGD AG A + + L + + LP DPD YI K+G
Sbjct: 189 TFIRKLTSNITLMFDGDFAGSEATLKTGQHLL---QQGLNVFVIQLPSGMDPDEYIGKYG 245
Query: 805 YKIFSK 810
F+
Sbjct: 246 NDAFTT 251
|
| >1ku3_A Sigma factor SIGA; helix-turn-helix, transcription; 1.80A {Thermus aquaticus} SCOP: a.4.13.2 PDB: 1ku7_A 1rio_H 3n97_A* Length = 73 | Back alignment and structure |
|---|
Score = 126 bits (318), Expect = 1e-34
Identities = 41/70 (58%), Positives = 51/70 (72%), Gaps = 1/70 (1%)
Query: 1360 VKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR-HPS 1418
++ L+ L+ RE+ VL+MR G+ +HTLEEVG F VTRERIRQIE KALRKL+ H S
Sbjct: 4 LEKALSKLSEREAMVLKMRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRKLKYHES 63
Query: 1419 RYYKLKIFLE 1428
R KL+ FLE
Sbjct: 64 RTRKLRDFLE 73
|
| >1ku3_A Sigma factor SIGA; helix-turn-helix, transcription; 1.80A {Thermus aquaticus} SCOP: a.4.13.2 PDB: 1ku7_A 1rio_H 3n97_A* Length = 73 | Back alignment and structure |
|---|
Score = 112 bits (282), Expect = 8e-30
Identities = 33/57 (57%), Positives = 42/57 (73%)
Query: 570 VKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626
++ L+ L+ RE+ VL+MR G+ +HTLEEVG F VTRERIRQIE KALRKL+
Sbjct: 4 LEKALSKLSEREAMVLKMRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRKLKY 60
|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
Score = 92.6 bits (229), Expect = 5e-19
Identities = 108/706 (15%), Positives = 207/706 (29%), Gaps = 191/706 (27%)
Query: 138 EMGSVELLTRDGEIEIAKRIEEGL-KDMIHAISSCPTTIMEILIAADKISKNEIKIDEIV 196
E G + +D I E+ + C + ++ + +SK EI D I
Sbjct: 10 ETGEHQYQYKD----ILSVFEDAFVDNF-----DC-KDVQDMPKSI--LSKEEI--DHI- 54
Query: 197 DGLIDKNFSSNNRVIKG---NKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFH 253
++ K+ S + +K + +E E L N F
Sbjct: 55 --IMSKDAVSGTLRLFWTLLSKQEEMVQKFVE--------EVLRI----------NYKFL 94
Query: 254 FDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSI--EKLCDTLRNQINQVTQIEK 311
++ + + YI+ + + N+ F ++ + LR + ++ +
Sbjct: 95 MSPIKTEQRQPSMMTRMYIEQRDRLYND--NQVFAKYNVSRLQPYLKLRQALLELRPAKN 152
Query: 312 QILEIVVNKCGMP------------RLHFIKVFPENEINLNWVDNETKIQHDYNLILCRN 359
+++ G+ + ++ + +I W+ NL C +
Sbjct: 153 ----VLI--DGVLGSGKTWVALDVCLSYKVQCKMDFKIF--WL----------NLKNCNS 194
Query: 360 IPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKK 419
++ E+ Q L I D + + + R RL+ S K
Sbjct: 195 PETVLEMLQ---KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELR-------RLLKS--KP 242
Query: 420 YTDRGLQFLDLIQEGNIGLMKAVDKFEYR-RGYKFSTYATWWIRQAITR--SIADQ---A 473
Y L L +Q + F + T TR + D A
Sbjct: 243 YE-NCLLVLLNVQNAKA-----WNAFNLSCK-----ILLT-------TRFKQVTDFLSAA 284
Query: 474 RTIRIPV-HMIETINKISRISRQILQETGSEPDPSVIAIKM-EMPEEKIRKIMKIAKEPV 531
T I + H T+ + +L + + ++P E + +
Sbjct: 285 TTTHISLDHHSMTLTP--DEVKSLLL--------KYLDCRPQDLPRE-VLTTNPRR---L 330
Query: 532 SMESPVGDDEDSHLGDFIEDE-NMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFG 590
S+ + + I D + ++++ LN L P E + + R
Sbjct: 331 SI-----------IAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLS 379
Query: 591 IEMSSD-----HTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHDWLEQRTH----QNEK 641
+ L + FDV + + + K L K + E E
Sbjct: 380 V-FPPSAHIPTILLSLI--WFDVIKSDVMVVVNK-LHKYSLVEKQPKESTISIPSIYLEL 435
Query: 642 IIACSSDSSNHNEHVTNNNFPPGFNIFHKLLRILQEYLESFLISFFLRNHGISGFLLTTP 701
+ ++ + H V + N P F+ + L +Y S + G L
Sbjct: 436 KVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHI-----------GHHLKNI 484
Query: 702 DPVHETPLFHKSNELY---GLFEAKNAIGKSGYVLITEGYM-DVIGLSQFGFFANSSYTC 757
+ LF ++ E K I G + + L Q F+ Y C
Sbjct: 485 EHPERMTLF---RMVFLDFRFLEQK--IRHDSTAWNASGSILNT--LQQLKFY--KPYIC 535
Query: 758 FDGDQAGRRAARRALEVCLLYATDDKIIKFLFLPDKYDPDSYIRKF 803
D D R L+ A I+ FL K + + K+
Sbjct: 536 -DNDPKYER---------LVNA----ILDFLP---KIEENLICSKY 564
|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
Score = 88.4 bits (218), Expect = 1e-17
Identities = 107/809 (13%), Positives = 228/809 (28%), Gaps = 287/809 (35%)
Query: 547 DFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQF 606
F+++ + D + + + I+ S S LR+ F +S EE+ ++F
Sbjct: 28 AFVDNFDCKDVQDMPKSILSKEEIDHIIMS-KDAVSGTLRL-FWTLLSKQ---EEMVQKF 82
Query: 607 DVTRERIRQIEAKALRKLRPLAHDWLEQRTHQNEKIIACSSDSSNHNEHVT---NNN--F 661
+E + LR + +L ++ S + + E N+N F
Sbjct: 83 ---------VE-EVLRI----NYKFLMSPIKTEQR--QPSMMTRMYIEQRDRLYNDNQVF 126
Query: 662 PPGFNIFHKLLRILQEYLESFLISFFLRN------HGISGFLLTTPDPVHETPLFHKSNE 715
+ L++ L LR G+ G
Sbjct: 127 AKYNVSRLQPYLKLRQALLE------LRPAKNVLIDGVLGS------------------- 161
Query: 716 LYGLFEAKNAIGKSGYVLITEGYMDVIGLSQFGF------FANSSYTCFDGDQAGRRAAR 769
GK+ + + + + F N +
Sbjct: 162 -----------GKT--WVALDVCLSYKVQCKMDFKIFWLNLKNCN--------------- 193
Query: 770 RALEVCLLYATDDKIIKFLFLPDKYDPDSYIRKFGYKIFSKKNAFSFDIKSNSREEIENL 829
+ + +++ L +K Y+I + S D SN + I ++
Sbjct: 194 ----------SPETVLEML------------QKLLYQIDPNWTSRS-DHSSNIKLRIHSI 230
Query: 830 RKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETL 889
+ + + L+K + Y N L ++ + F ++S + L
Sbjct: 231 QAELRRLLK---SKPY-----ENCLL---VLLNVQNAKAWNAF---NLSC-------KIL 269
Query: 890 MLSNITSD----DDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAK 945
+ T D + AT +S T D E LL K
Sbjct: 270 L---TTRFKQVTDFLSAATTTHISLDHHSMTLTPD-------E--VKSLL--------LK 309
Query: 946 RIEEGLKDMIHAISSC-PTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGN 1004
++ +D+ + + P + +IA I D N+
Sbjct: 310 YLDCRPQDLPREVLTTNPRRLS--IIAE-SIRDGLATWD---------NW---------- 347
Query: 1005 KNNNEEKI--LIESSSADLSTEQLEKLKYESL-IKFSNISFHFDKMRKAFEKEGYNSESY 1061
K+ N +K+ +IESS L + K+ ++ L + F
Sbjct: 348 KHVNCDKLTTIIESSLNVLEPAEYRKM-FDRLSV---------------FPP-------- 383
Query: 1062 IKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKV 1121
+I +L + + + K + +VVNK L
Sbjct: 384 ---SAHIPTILLSLIWF-------------------DVIKSDVMVVVNKLHKYSL----- 416
Query: 1122 FPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLIN-LQTDIVLPLNDLRDINRK 1180
+ ++ I L L + + L + +++ +DL
Sbjct: 417 -----VEKQPKESTISI-PSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD 470
Query: 1181 M-----IAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLD--LIQEG-----NIGL 1228
I +K E E + + D +FL+ + + + +
Sbjct: 471 QYFYSHIGHHLK----NIEHPE----RMTLFRMVFLD--FRFLEQKIRHDSTAWNASGSI 520
Query: 1229 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQ--I 1286
+ + + ++ + Y I + R + + + I + S+ +
Sbjct: 521 LNTLQQLKFYKPY-------------ICDNDPKYERLVNAILDFLPKIEENLICSKYTDL 567
Query: 1287 LQETGSEPDPSVIAIKMEMPEEKIRKIMK 1315
L+ D ++ EE +++ +
Sbjct: 568 LRIALMAEDEAIF-------EEAHKQVQR 589
|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
Score = 73.0 bits (178), Expect = 6e-13
Identities = 79/542 (14%), Positives = 160/542 (29%), Gaps = 150/542 (27%)
Query: 928 EMGSVELLTRDGEIEIAKRIEEGL-KDMIHAISSCPTTIMEILIAADKISKNEIKIDEIV 986
E G + +D I E+ + C + ++ + +SK EI D I
Sbjct: 10 ETGEHQYQYKD----ILSVFEDAFVDNF-----DC-KDVQDMPKSI--LSKEEI--DHI- 54
Query: 987 DGLIDKNFSSNNRVIKG---NKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFH 1043
++ K+ S + +K + +E E L N F
Sbjct: 55 --IMSKDAVSGTLRLFWTLLSKQEEMVQKFVE--------EVLRI----------NYKFL 94
Query: 1044 FDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSI--EKLCDTLRNQINQVTQIEK 1101
++ + + YI+ + + N+ F ++ + LR + ++ +
Sbjct: 95 MSPIKTEQRQPSMMTRMYIEQRDRLYND--NQVFAKYNVSRLQPYLKLRQALLELRPAKN 152
Query: 1102 QILEIVVNKCGMP------------RLHFIKVFPENEINLNWVDNETKIQHDYNLILCRN 1149
+++ G+ + ++ + +I W+ NL C +
Sbjct: 153 ----VLI--DGVLGSGKTWVALDVCLSYKVQCKMDFKIF--WL----------NLKNCNS 194
Query: 1150 IPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKK 1209
++ E+ Q L I D + + + R RL+ S K
Sbjct: 195 PETVLEMLQ---KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELR-------RLLKS--KP 242
Query: 1210 YTDRGLQFLDLIQEGNIGLMKAVDKFEYR-RGYKFSTYATWWIRQAITR--SIADQ---A 1263
Y L L +Q + F + T TR + D A
Sbjct: 243 YE-NCLLVLLNVQNAKA-----WNAFNLSCK-----ILLT-------TRFKQVTDFLSAA 284
Query: 1264 RTIRIPV-HMIETINKISRISRQILQETGSEPDPSVIAIKM-EMPEEKIRKIMKIAKEPV 1321
T I + H T+ + +L + + ++P E + +
Sbjct: 285 TTTHISLDHHSMTLTP--DEVKSLLL--------KYLDCRPQDLPRE-VLTTNPRR---L 330
Query: 1322 SMESPVGDDEDSHLGDFIEDE-NMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFG 1380
S+ + + I D + ++++ LN L P E + + R
Sbjct: 331 SI-----------IAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLS 379
Query: 1381 IEMSSD-----HTLEEVGKQFDVTRERIRQIEAKALRKL---RHP--SRYYKLKIFLEGK 1430
+ L + FDV + + + K + + P S I+LE K
Sbjct: 380 V-FPPSAHIPTILLSLI--WFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELK 436
Query: 1431 KN 1432
Sbjct: 437 VK 438
|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
Score = 69.9 bits (170), Expect = 5e-12
Identities = 87/632 (13%), Positives = 188/632 (29%), Gaps = 157/632 (24%)
Query: 874 YMDISVSEHVL---DTETLMLSNITSD---DDVEEATEAALSTVDSDFGRTKDPIKMYMR 927
+MD EH D ++ + DV++ ++ LS + D I
Sbjct: 6 HMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEID-----HIIMSKDA 60
Query: 928 EMGSVELLT--RDGEIEIAKR-IEEGLK-------DMIHAISSCPTTIMEILIAADKISK 977
G++ L + E+ ++ +EE L+ I P+ + + I
Sbjct: 61 VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQ----- 115
Query: 978 NEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKF 1037
D+ ++ N K N + + + + + L +L+
Sbjct: 116 ------------RDRLYNDNQVFAKYNVSRLQPYLKL--------RQALLELRPA----- 150
Query: 1038 SNISFHFDKMRKAFEK-----EGYNSESYIKAHNN----ISNEMLGIRFTAKSI----EK 1084
N+ + K + S + ++ L + +++ +K
Sbjct: 151 KNVLID--GV-LGSGKTWVALDVCLSYKVQCKMDFKIFWLN---LKNCNSPETVLEMLQK 204
Query: 1085 LCDTLR-NQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQH-DY 1142
L + N ++ L I + + RL K + + L V N +
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNL 264
Query: 1143 N---LILCRNIP---SIKELQQKLINL-QTDIVLPLNDLRDINRKMIAGEMKARKAKREM 1195
+ L+ R + I+L + L ++++ + K + + + + RE+
Sbjct: 265 SCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYL--DCRPQDLPREV 322
Query: 1196 TEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKF-------EYRRGYK----F- 1243
N R + IA+ D + + L ++ EYR+ + F
Sbjct: 323 LTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFP 382
Query: 1244 -------STYATWW-----------IRQAITRSIADQ---ARTIRIP---VHMIETINKI 1279
+ W + + S+ ++ TI IP + + +
Sbjct: 383 PSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENE 442
Query: 1280 SRISRQILQ--------ETGSEPDPSV-------IA---IKMEMPEEK--IRKIM----- 1314
+ R I+ ++ P + I +E PE R +
Sbjct: 443 YALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRF 502
Query: 1315 ---KIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRE 1371
KI + + + L + + +D +V IL+ L E
Sbjct: 503 LEQKIRHDSTAWNASGSILNT--LQQLKFYKPYICDNDPKYER----LVNAILDFLPKIE 556
Query: 1372 SKVLR------MRFGIEMSSDHTLEEVGKQFD 1397
++ +R + + EE KQ
Sbjct: 557 ENLICSKYTDLLRIALMAEDEAIFEEAHKQVQ 588
|
| >1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 | Back alignment and structure |
|---|
Score = 57.2 bits (137), Expect = 4e-08
Identities = 76/479 (15%), Positives = 146/479 (30%), Gaps = 159/479 (33%)
Query: 6 KKTKIKNKKTKETLL-------KNAF-SFDIKSNSREEIENLRKKFKILIKLGKERGYLT 57
+ +K+K + LL A+ +F++ KIL+ T
Sbjct: 234 LRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSC-------------KILL--------TT 272
Query: 58 -FSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLS--NITSDDDVEEAT 114
F ++ DFL H ++ T + + ++L+L + D E
Sbjct: 273 RFKQVTDFLSAATTTHISLDHHSMTL-------TPD--EVKSLLLKYLDCRPQDLPREVL 323
Query: 115 EA---ALSTV---DSDFGRTKDPIKMY-------MREMGSVELLTRDGEIEIAKRIEEGL 161
LS + D T D K + E S+ +L E K
Sbjct: 324 TTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES-SLNVLEPA---EYRKM----F 375
Query: 162 KDMIHAI----SSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNN 217
+ ++ + PT ++ ++ + + +V+ L ++ K
Sbjct: 376 DRL--SVFPPSAHIPTILLSLIWFDVI----KSDVMVVVNKLHKY------SLV--EKQP 421
Query: 218 NEEKILIESSSADLSTEQLEKLK-YESLIKFSNI--SFHFDKMRKAFEKEGYNSESYIKA 274
E I I S +L + + + S++ NI +F D + + + Y S+I
Sbjct: 422 KESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYL-DQY-FYSHIGH 479
Query: 275 HNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPE 334
H K+IE E+ L F VF
Sbjct: 480 H-------------LKNIE--------------HPERMTL-------------FRMVF-- 497
Query: 335 NEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAG 394
++ +++ KI+HD ++N L L+ + I
Sbjct: 498 --LDFRFLEQ--KIRHDSTAWNASG---------SILNT-------LQQLK-FYKPYIC- 535
Query: 395 EMKARKAKREMTEANLRLVISIAKK-YTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 452
+ A L + I + + + DL++ I LM D+ + +K
Sbjct: 536 --DNDPKYERLVNAILDFLPKIEENLICSK---YTDLLR---IALMAE-DEAIFEEAHK 585
|
| >2k6x_A Sigma-A, RNA polymerase sigma factor RPOD; DNA-binding, transcription, transcription regulation; NMR {Thermotoga maritima} Length = 72 | Back alignment and structure |
|---|
Score = 66.7 bits (163), Expect = 1e-13
Identities = 19/67 (28%), Positives = 36/67 (53%), Gaps = 2/67 (2%)
Query: 36 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDI--IDHEIIESIIKTFRYMDISVSEHV 93
+ + ++ K LI LGK++GY+T+ +I+ P D D +IE I + I++ E+
Sbjct: 4 MPQIERRIKKLISLGKKKGYITYEDIDKAFPPDFEGFDTNLIERIHEELEKHGINIVENE 63
Query: 94 LDTETLM 100
+ E +
Sbjct: 64 PEEEEIS 70
|
| >2k6x_A Sigma-A, RNA polymerase sigma factor RPOD; DNA-binding, transcription, transcription regulation; NMR {Thermotoga maritima} Length = 72 | Back alignment and structure |
|---|
Score = 66.7 bits (163), Expect = 1e-13
Identities = 19/67 (28%), Positives = 36/67 (53%), Gaps = 2/67 (2%)
Query: 826 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDI--IDHEIIESIIKTFRYMDISVSEHV 883
+ + ++ K LI LGK++GY+T+ +I+ P D D +IE I + I++ E+
Sbjct: 4 MPQIERRIKKLISLGKKKGYITYEDIDKAFPPDFEGFDTNLIERIHEELEKHGINIVENE 63
Query: 884 LDTETLM 890
+ E +
Sbjct: 64 PEEEEIS 70
|
| >3mzy_A RNA polymerase sigma-H factor; PSI, MCSG, structural genomics, midwest center for structura genomics, protein structure initiative; 2.50A {Fusobacterium nucleatum subsp} Length = 164 | Back alignment and structure |
|---|
Score = 50.6 bits (121), Expect = 3e-07
Identities = 31/207 (14%), Positives = 61/207 (29%), Gaps = 49/207 (23%)
Query: 429 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK 488
DL+QEG +GL+KA+ ++ + FS++A IR+ + I I K
Sbjct: 6 DLVQEGILGLLKAIKFYDETKS-SFSSFAFLCIRREM-----------------ISAIRK 47
Query: 489 ISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDF 548
+ +L E +E D++ H +
Sbjct: 48 ANTQKHMVLNEALKTNAI--------------------------LEDSAYFDDEGHNINN 81
Query: 549 IEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDV 608
+ L + K N+ + E +VL ++ E+
Sbjct: 82 YKSSESNPEEAYLLKEEIEEFKKFSENNFSKFEKEVLTYLI-----RGYSYREIATILSK 136
Query: 609 TRERIRQIEAKALRKLRPLAHDWLEQR 635
+ I + +K + +
Sbjct: 137 NLKSIDNTIQRIRKKSEEWIKEEENIK 163
|
| >3mzy_A RNA polymerase sigma-H factor; PSI, MCSG, structural genomics, midwest center for structura genomics, protein structure initiative; 2.50A {Fusobacterium nucleatum subsp} Length = 164 | Back alignment and structure |
|---|
Score = 50.6 bits (121), Expect = 4e-07
Identities = 31/197 (15%), Positives = 59/197 (29%), Gaps = 49/197 (24%)
Query: 1219 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK 1278
DL+QEG +GL+KA+ ++ + FS++A IR+ + I I K
Sbjct: 6 DLVQEGILGLLKAIKFYDETKS-SFSSFAFLCIRREM-----------------ISAIRK 47
Query: 1279 ISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDF 1338
+ +L E +E D++ H +
Sbjct: 48 ANTQKHMVLNEALKTNAI--------------------------LEDSAYFDDEGHNINN 81
Query: 1339 IEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDV 1398
+ L + K N+ + E +VL ++ E+
Sbjct: 82 YKSSESNPEEAYLLKEEIEEFKKFSENNFSKFEKEVLTYLI-----RGYSYREIATILSK 136
Query: 1399 TRERIRQIEAKALRKLR 1415
+ I + +K
Sbjct: 137 NLKSIDNTIQRIRKKSE 153
|
Structure Templates Detected by HHsearch
Original result of HHsearch against PDB70 database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 1432 | |||
| 3iyd_F | 613 | RNA polymerase sigma factor RPOD; transcription, i | 100.0 | |
| 3iyd_F | 613 | RNA polymerase sigma factor RPOD; transcription, i | 100.0 | |
| 1sig_A | 339 | Sigma70, RNA polymerase primary sigma factor; RNA | 100.0 | |
| 1sig_A | 339 | Sigma70, RNA polymerase primary sigma factor; RNA | 100.0 | |
| 2a6h_F | 423 | RNA polymerase sigma factor RPOD; RNA polymerase h | 100.0 | |
| 2a6h_F | 423 | RNA polymerase sigma factor RPOD; RNA polymerase h | 100.0 | |
| 1l9z_H | 438 | Sigma factor SIGA; helix-turn-helix, coiled-coil, | 100.0 | |
| 1l9z_H | 438 | Sigma factor SIGA; helix-turn-helix, coiled-coil, | 100.0 | |
| 4edg_A | 329 | DNA primase; catalytic domain, nucleoside triphosp | 100.0 | |
| 3ugo_A | 245 | RNA polymerase sigma factor; protein-DNA complex, | 100.0 | |
| 3ugo_A | 245 | RNA polymerase sigma factor; protein-DNA complex, | 100.0 | |
| 1dd9_A | 338 | DNA primase, DNAG; toprim, 3-helix bundle, DNA-bin | 100.0 | |
| 2au3_A | 407 | DNA primase; zinc ribbon, toprim, RNA polymerase, | 100.0 | |
| 1rp3_A | 239 | RNA polymerase sigma factor sigma-28 (FLIA); trans | 99.94 | |
| 1l0o_C | 243 | Sigma factor; bergerat fold, helix-turn-helix, pro | 99.94 | |
| 1rp3_A | 239 | RNA polymerase sigma factor sigma-28 (FLIA); trans | 99.94 | |
| 1l0o_C | 243 | Sigma factor; bergerat fold, helix-turn-helix, pro | 99.93 | |
| 2q1z_A | 184 | RPOE, ECF SIGE; ECF sigma factor, cupin fold, zinc | 99.8 | |
| 1or7_A | 194 | Sigma-24, RNA polymerase sigma-E factor; regulatio | 99.8 | |
| 1nui_A | 255 | DNA primase/helicase; zinc-biding domain, toprim f | 99.79 | |
| 1or7_A | 194 | Sigma-24, RNA polymerase sigma-E factor; regulatio | 99.78 | |
| 2q1z_A | 184 | RPOE, ECF SIGE; ECF sigma factor, cupin fold, zinc | 99.78 | |
| 3mzy_A | 164 | RNA polymerase sigma-H factor; PSI, MCSG, structur | 99.75 | |
| 1q57_A | 503 | DNA primase/helicase; dntpase, DNA replication, tr | 99.74 | |
| 3mzy_A | 164 | RNA polymerase sigma-H factor; PSI, MCSG, structur | 99.72 | |
| 2lfw_A | 157 | PHYR sigma-like domain; signal transduction, respo | 99.56 | |
| 2lfw_A | 157 | PHYR sigma-like domain; signal transduction, respo | 99.47 | |
| 3n0r_A | 286 | Response regulator; sigma factor, receiver, two-co | 99.43 | |
| 3t72_q | 99 | RNA polymerase sigma factor RPOD, DNA-directed RN | 99.33 | |
| 3n0r_A | 286 | Response regulator; sigma factor, receiver, two-co | 99.32 | |
| 2k6x_A | 72 | Sigma-A, RNA polymerase sigma factor RPOD; DNA-bin | 99.21 | |
| 1tty_A | 87 | Sigma-A, RNA polymerase sigma factor RPOD; helix-t | 99.02 | |
| 2p7v_B | 68 | Sigma-70, RNA polymerase sigma factor RPOD; RSD, r | 98.99 | |
| 3hug_A | 92 | RNA polymerase sigma factor; ECF sigma factor, zin | 98.99 | |
| 1ku3_A | 73 | Sigma factor SIGA; helix-turn-helix, transcription | 98.98 | |
| 3t72_q | 99 | RNA polymerase sigma factor RPOD, DNA-directed RN | 98.97 | |
| 3hug_A | 92 | RNA polymerase sigma factor; ECF sigma factor, zin | 98.86 | |
| 2o7g_A | 112 | Probable RNA polymerase sigma-C factor; sigma fact | 98.8 | |
| 2o7g_A | 112 | Probable RNA polymerase sigma-C factor; sigma fact | 98.76 | |
| 2k6x_A | 72 | Sigma-A, RNA polymerase sigma factor RPOD; DNA-bin | 98.74 | |
| 1h3l_A | 87 | RNA polymerase sigma factor; transcription, DNA-bi | 98.7 | |
| 2o8x_A | 70 | Probable RNA polymerase sigma-C factor; promoter r | 98.64 | |
| 1h3l_A | 87 | RNA polymerase sigma factor; transcription, DNA-bi | 98.63 | |
| 3clo_A | 258 | Transcriptional regulator; NP_811094.1, bacterial | 98.6 | |
| 1tty_A | 87 | Sigma-A, RNA polymerase sigma factor RPOD; helix-t | 98.54 | |
| 1t6t_1 | 118 | Putative protein; structural genomics, PSI, protei | 98.49 | |
| 1ku3_A | 73 | Sigma factor SIGA; helix-turn-helix, transcription | 98.49 | |
| 1xsv_A | 113 | Hypothetical UPF0122 protein SAV1236; helix-turn-h | 98.43 | |
| 2p7v_B | 68 | Sigma-70, RNA polymerase sigma factor RPOD; RSD, r | 98.4 | |
| 2o8x_A | 70 | Probable RNA polymerase sigma-C factor; promoter r | 98.38 | |
| 1xsv_A | 113 | Hypothetical UPF0122 protein SAV1236; helix-turn-h | 98.28 | |
| 1s7o_A | 113 | Hypothetical UPF0122 protein SPY1201/SPYM3_0842/SP | 98.27 | |
| 2rnj_A | 91 | Response regulator protein VRAR; HTH LUXR-type dom | 98.26 | |
| 3clo_A | 258 | Transcriptional regulator; NP_811094.1, bacterial | 98.25 | |
| 1x3u_A | 79 | Transcriptional regulatory protein FIXJ; helix-tur | 98.21 | |
| 3c57_A | 95 | Two component transcriptional regulatory protein; | 98.2 | |
| 1je8_A | 82 | Nitrate/nitrite response regulator protein NARL; p | 98.16 | |
| 1jhg_A | 101 | Trp operon repressor; complex (regulatory protein- | 98.11 | |
| 1s7o_A | 113 | Hypothetical UPF0122 protein SPY1201/SPYM3_0842/SP | 98.09 | |
| 1jhg_A | 101 | Trp operon repressor; complex (regulatory protein- | 98.06 | |
| 1fse_A | 74 | GERE; helix-turn-helix DNA-binding protein transcr | 97.94 | |
| 2rnj_A | 91 | Response regulator protein VRAR; HTH LUXR-type dom | 97.86 | |
| 3c57_A | 95 | Two component transcriptional regulatory protein; | 97.8 | |
| 1x3u_A | 79 | Transcriptional regulatory protein FIXJ; helix-tur | 97.74 | |
| 1je8_A | 82 | Nitrate/nitrite response regulator protein NARL; p | 97.63 | |
| 3ulq_B | 90 | Transcriptional regulatory protein COMA; tetratric | 97.61 | |
| 2jpc_A | 61 | SSRB; DNA binding protein, structural genomics, PS | 97.56 | |
| 1p4w_A | 99 | RCSB; solution structure, DNA binding domain, DNA | 97.42 | |
| 1fse_A | 74 | GERE; helix-turn-helix DNA-binding protein transcr | 97.34 | |
| 3ulq_B | 90 | Transcriptional regulatory protein COMA; tetratric | 97.13 | |
| 2jpc_A | 61 | SSRB; DNA binding protein, structural genomics, PS | 96.84 | |
| 1p4w_A | 99 | RCSB; solution structure, DNA binding domain, DNA | 96.83 | |
| 2q0o_A | 236 | Probable transcriptional activator protein TRAR; h | 96.4 | |
| 1l3l_A | 234 | Transcriptional activator protein TRAR; helix-turn | 96.33 | |
| 3szt_A | 237 | QCSR, quorum-sensing control repressor; quorum sen | 96.03 | |
| 2w7n_A | 101 | TRFB transcriptional repressor protein; INCP, plas | 95.97 | |
| 3qp6_A | 265 | CVIR transcriptional regulator; quorum sensing, ag | 95.75 | |
| 1tc3_C | 51 | Protein (TC3 transposase); DNA binding, helix-turn | 95.68 | |
| 2q0o_A | 236 | Probable transcriptional activator protein TRAR; h | 95.37 | |
| 1l3l_A | 234 | Transcriptional activator protein TRAR; helix-turn | 95.35 | |
| 2x48_A | 55 | CAG38821; archeal virus, viral protein; 2.60A {Sul | 95.02 | |
| 3szt_A | 237 | QCSR, quorum-sensing control repressor; quorum sen | 94.74 | |
| 2fcj_A | 119 | Small toprim domain protein; structural genomics, | 94.42 | |
| 3qp6_A | 265 | CVIR transcriptional regulator; quorum sensing, ag | 94.22 | |
| 2w7n_A | 101 | TRFB transcriptional repressor protein; INCP, plas | 94.19 | |
| 1yio_A | 208 | Response regulatory protein; transcription regulat | 94.02 | |
| 1tc3_C | 51 | Protein (TC3 transposase); DNA binding, helix-turn | 94.01 | |
| 1a04_A | 215 | Nitrate/nitrite response regulator protein NARL; s | 92.79 | |
| 3c3w_A | 225 | Two component transcriptional regulatory protein; | 91.82 | |
| 2x48_A | 55 | CAG38821; archeal virus, viral protein; 2.60A {Sul | 91.81 | |
| 3klo_A | 225 | Transcriptional regulator VPST; REC domain, HTH do | 91.34 | |
| 1yio_A | 208 | Response regulatory protein; transcription regulat | 89.37 | |
| 3p7n_A | 258 | Sensor histidine kinase; LOV domain, light-activat | 89.31 | |
| 1a04_A | 215 | Nitrate/nitrite response regulator protein NARL; s | 87.96 | |
| 1p2f_A | 220 | Response regulator; DRRB, OMPR/PHOB, transcription | 87.5 | |
| 1jko_C | 52 | HIN recombinase, DNA-invertase HIN; water-mediated | 87.25 | |
| 2gwr_A | 238 | DNA-binding response regulator MTRA; two-component | 86.96 | |
| 1qgp_A | 77 | Protein (double stranded RNA adenosine deaminase); | 86.43 | |
| 1qbj_A | 81 | Protein (double-stranded RNA specific adenosine D | 86.15 | |
| 2oqr_A | 230 | Sensory transduction protein REGX3; response regul | 86.09 | |
| 3c3w_A | 225 | Two component transcriptional regulatory protein; | 85.94 | |
| 1kgs_A | 225 | DRRD, DNA binding response regulator D; DNA-bindin | 84.97 | |
| 3klo_A | 225 | Transcriptional regulator VPST; REC domain, HTH do | 83.68 | |
| 1zx4_A | 192 | P1 PARB, plasmid partition PAR B protein, PARB; tr | 83.67 | |
| 1ys7_A | 233 | Transcriptional regulatory protein PRRA; response | 82.94 | |
| 1p2f_A | 220 | Response regulator; DRRB, OMPR/PHOB, transcription | 82.05 | |
| 3q9s_A | 249 | DNA-binding response regulator; DNA binding protei | 81.93 | |
| 2oqr_A | 230 | Sensory transduction protein REGX3; response regul | 80.46 | |
| 2gwr_A | 238 | DNA-binding response regulator MTRA; two-component | 80.29 |
| >3iyd_F RNA polymerase sigma factor RPOD; transcription, initiation, class I, activator, RNA polymeras holoenzyme, sigma70, open complex, CAP, CRP; HET: DNA CMP; 19.80A {Escherichia coli k-12} | Back alignment and structure |
|---|
Probab=100.00 E-value=2.9e-103 Score=992.21 Aligned_cols=583 Identities=50% Similarity=0.809 Sum_probs=435.3
Q ss_pred HHHHHHHHHHhccccCcccHHHHHhhCCCCCCCHHHHHHHHHHHhhCCCcccccCCchhhhhccCCCCCchhhHHHHhhh
Q psy15215 39 LRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNITSDDDVEEATEAAL 118 (1432)
Q Consensus 39 ~~~~l~~Li~~Gke~G~lTy~EInd~LP~~~~~~d~id~ii~~L~~~gI~v~d~~~~~~~~~~~~~~~de~~~~~~~~~l 118 (1432)
.++.++.||++||++|||||+||||+||++.+++|+||+|+.+|++|||+|+|.+++.+.+.+++...++++.++++.++
T Consensus 5 ~~~~~~~li~~~k~~g~lt~~ei~~~l~~~~~~~~~~~~~~~~l~~~gi~v~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 84 (613)
T 3iyd_F 5 PQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAENTADEDAAEAAAQVL 84 (613)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHHHHHhhhcCcccHHHHHHhCcccCCCHHHHHHHHHHHHHCCCeeeecCCchhhhhcccccchhhhhhHHHHhh
Confidence 45689999999999999999999999999999999999999999999999999887766554443322333333445566
Q ss_pred ccCCCCCCCCCChHHHHHHhcCCccCCCchHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHhhhcccchhhhhcc
Q psy15215 119 STVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDG 198 (1432)
Q Consensus 119 ~~~~~~~grt~DPVRmYLREMG~V~LLTREgEIeIAKRIE~G~~~v~~al~~~P~~v~~il~~~e~l~~ge~rl~dii~g 198 (1432)
+.+++++|+|+|||||||||||+||||||||||+||||||+|.++|+.+||.||++|.+|++|+++|.+|+++|+|||+|
T Consensus 85 ~~~~~~~~~~~dpvrmyl~emg~~~ll~~~~e~~~ak~ie~g~~~~~~~~~~~P~ti~~il~~~~~l~~ge~rl~dii~g 164 (613)
T 3iyd_F 85 SSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYNRVEAEEARLSDLITG 164 (613)
T ss_dssp --------------------C--------CSSSTTTHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHTTSSCGGGTBCC
T ss_pred ccccccccCCCCcHHHHHHHhcccccCCchhHHHHHHHHHHhHHHHHHHHccCHHHHHHHHHHHHHHHcCCCcHHHHHcc
Confidence 76777789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCcc--h---h-----ccCCCCCChh-hh----hhhcCCCCCCHHHHHHhHHHHHHHHHhHHHHHHHHHHHHHH
Q psy15215 199 LIDKNFSSNN--R---V-----IKGNKNNNEE-KI----LIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEK 263 (1432)
Q Consensus 199 ~~d~~~~~~~--~---~-----~~~~~~~~e~-~d----~~~~~~~~~~~~~~~~l~~~~~~~f~~l~~~~~~~~~~~~~ 263 (1432)
|.||+..+.. . . +++.++++++ ++ ++...+.++ .++.+.++|..|++.|.++++++++
T Consensus 165 ~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~e~~~~~f~~l~~~~~~~~~~~~k 237 (613)
T 3iyd_F 165 FVDPNAEEDLAPTATHVGSELSQEDLDDDEDEDEEDGDDDSADDDNSI-------DPELAREKFAELRAQYVVTRDTIKA 237 (613)
T ss_dssp CCSCSSSCCSCCSCCTTSCSSCGGGCC--------------------C-------CHHHHHHHHHHHTTTHHHHTTTTTT
T ss_pred cCCCccccccccccccccccccccccccccccccccccchhhhhhcCC-------CHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 9998632210 0 0 0000000000 00 001112222 2456689999999999999998888
Q ss_pred cCCCcHHHHHHHHHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCChHHHHHhcCCCccchhhhh
Q psy15215 264 EGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVD 343 (1432)
Q Consensus 264 ~g~~~~~~~k~~~~i~~~l~~ikl~~k~ie~l~~~l~~~~~~ir~~Er~i~~~~v~~~gmpr~~fi~~f~~~e~~~~wl~ 343 (1432)
+|..++.+.+++..|++.|++|+|+|++|++||+.|+..+++|+.+||.|+++|++.|||||++|++.|+||++|+.|++
T Consensus 238 ~g~~~~~~~~~~~~l~~~~~~lkL~~k~id~Lv~~lr~~~~~ir~~Er~i~~l~v~~~~mpr~~Fi~~f~g~e~~~~w~~ 317 (613)
T 3iyd_F 238 KGRSHATAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNETSDTWFN 317 (613)
T ss_dssp CCSCSHHHHHHHHHHHHHHTTSCBCHHHHHHHTHHHHTTTHHHHHHHHHHHHTTTTTTTCCGGGTTTTTTTCCSSTTTTH
T ss_pred cccchHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHcccccCCHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHhhhcCchHHHHhhchHHHHHHHHHHHhhhhccCCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccC
Q psy15215 344 NETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDR 423 (1432)
Q Consensus 344 ~~~~~~~~~~~~L~~~~~~i~~~q~~L~~iE~~~~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~ 423 (1432)
++++.+++|++.|.+..++|+.+|++|.+++..++|+..+...|+.+++.||..++.|+..||..|+++|+++|++|+++
T Consensus 318 ~~~~~~~~~~~~l~~~~~~I~~~q~kL~~ie~~~~~~~~~~~~Li~~~~~Gd~~A~~A~~~L~~~y~~~v~~ia~r~~~~ 397 (613)
T 3iyd_F 318 AAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNR 397 (613)
T ss_dssp HHHTTCCTTGGGGGGTHHHHHHHHHHHHHHHHHHTSCTTTHHHHHHTHHHHHHHHHHHHTTTTTTTTHHHHHGGGSSSTT
T ss_pred HHHHhhccHHHHHHHhHHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 99999999999999999999999999999999999999999999999999999977779999999999999999999999
Q ss_pred CCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCC
Q psy15215 424 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSE 503 (1432)
Q Consensus 424 ~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~ 503 (1432)
+.+++||+||||||||+++++|++.+|++|+||++|||||+|+++++++.+++|+|+|+++++|+++++++++.+++|++
T Consensus 398 ~~~aeDlvQE~fi~l~~a~~~fd~~~g~~Fstyl~~~irn~i~~~lr~~~r~~rip~~~~~~~~k~~r~~~~l~~~~gr~ 477 (613)
T 3iyd_F 398 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGRE 477 (613)
T ss_dssp SSCSTTTTHHHHHHHHHHTTSCCTTSSSCSTTTHHHHHHHHHHHHTTTSCSSSCCCSHHHHTTTTTTTTTTTTTTTTCSC
T ss_pred CCCHHHHHHHHHHHHHHHHHHcCccccCcHHHHHHHHHHHHHHHHHHhcCcceeCcHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHH
Q psy15215 504 PDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESK 583 (1432)
Q Consensus 504 pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~ 583 (1432)
||++|||+.||||+++|+.+++.+..++|++.|+++++++.+.+++++....+|.+.+...++...|..+|++|||++|.
T Consensus 478 pt~eela~~l~~~~~~v~~~~~~~~~~~sld~~~~~~~~~~l~d~i~d~~~~~p~~~~~~~e~~~~l~~aL~~Lp~~er~ 557 (613)
T 3iyd_F 478 PTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAK 557 (613)
T ss_dssp CCTTTTTTTSSCCSSHHHHHHHHSCCCCCSSCCCSSSSSCCGGGSCCCSSSCCHHHHHHHHTTSSSHHHHTTSSCHHHHH
T ss_pred CCHHHHHHHhCCCHHHHHHHHHhccCCcccCCCCCCCCCccHHHHhcCCCCCCHHHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence 99999999999999999999999999999999999888888999999988889999999988899999999999999999
Q ss_pred HHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 584 VLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 584 Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
||.|||+++++.++|++|||+.||+|+++|+++.++|+++||+++
T Consensus 558 Vl~Lr~~~~~~e~~s~~EIA~~lgis~~tVk~~~~rAl~kLR~~~ 602 (613)
T 3iyd_F 558 VLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 602 (613)
T ss_dssp HHHHHHTSSSCCCCSTTGGGTTTSSCSSHHHHHHHHHHTTTTSCS
T ss_pred HHHHHhccCCCCCcCHHHHHHHhCCCHHHHHHHHHHHHHHhhCcc
Confidence 999999988878889999999999999999999999999999765
|
| >3iyd_F RNA polymerase sigma factor RPOD; transcription, initiation, class I, activator, RNA polymeras holoenzyme, sigma70, open complex, CAP, CRP; HET: DNA CMP; 19.80A {Escherichia coli k-12} | Back alignment and structure |
|---|
Probab=100.00 E-value=3.4e-103 Score=991.49 Aligned_cols=594 Identities=51% Similarity=0.815 Sum_probs=445.2
Q ss_pred HHHHHHHHHHhccccCccchHHHhhhCCCCCCCHHHHHHHHHHHHhcCccccccccchhhhhccCCCCCchhHHHHHhhh
Q psy15215 829 LRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNITSDDDVEEATEAAL 908 (1432)
Q Consensus 829 ~~~~~~~Li~~gk~~g~lT~~ei~~~lp~~~~~~e~ie~i~~~l~~~gI~v~e~~~~~e~~~~~~~~~de~~~e~~~~~~ 908 (1432)
.+..++.||..||++|||||+|||++||++.+++|++++|+.+|+++||+|++.+++.+++.+++...++++.++++.++
T Consensus 5 ~~~~~~~li~~~k~~g~lt~~ei~~~l~~~~~~~~~~~~~~~~l~~~gi~v~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ 84 (613)
T 3iyd_F 5 PQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAPDADDLMLAENTADEDAAEAAAQVL 84 (613)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHHHHHhhhcCcccHHHHHHhCcccCCCHHHHHHHHHHHHHCCCeeeecCCchhhhhcccccchhhhhhHHHHhh
Confidence 35678999999999999999999999999999999999999999999999999887766554433222333333445566
Q ss_pred ccCCCCCCCCCChHHHHHHccCCccCCCchHHHHHHHHHHHhHHHHHHHHhhChHHHHHHHHHHHHhhhcccchhhhhcc
Q psy15215 909 STVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDG 988 (1432)
Q Consensus 909 ~~~~~~~grt~DPVRmYLREMG~v~LLTREgEIeIAKRIE~G~~~v~~al~~~P~~v~~il~~~e~l~~ge~~l~dii~g 988 (1432)
+.+++++|+|+|||||||||||+||||||||||+||||||+|.++|+.+||.||++|.+|++|+++|.+|+++|+|||+|
T Consensus 85 ~~~~~~~~~~~dpvrmyl~emg~~~ll~~~~e~~~ak~ie~g~~~~~~~~~~~P~ti~~il~~~~~l~~ge~rl~dii~g 164 (613)
T 3iyd_F 85 SSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYNRVEAEEARLSDLITG 164 (613)
T ss_dssp --------------------C--------CSSSTTTHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHTTSSCGGGTBCC
T ss_pred ccccccccCCCCcHHHHHHHhcccccCCchhHHHHHHHHHHhHHHHHHHHccCHHHHHHHHHHHHHHHcCCCcHHHHHcc
Confidence 66777789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCch--h---hc----c-CCCCCchh-hh----hhhccCCCCCHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH
Q psy15215 989 LIDKNFSSNN--R---VI----K-GNKNNNEE-KI----LIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEK 1053 (1432)
Q Consensus 989 ~~d~~~~~~~--~---~~----~-~~~~~e~~-~d----~~~~~~~~~~~~~l~~l~~~~~~~f~~l~~~~~~~~~~~~~ 1053 (1432)
|.||+..+.. . .. + +.++++++ ++ ++...+.+++ ++.+.++|..|+++|+++++++.+
T Consensus 165 ~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~e~~~~~f~~l~~~~~~~~~~~~k 237 (613)
T 3iyd_F 165 FVDPNAEEDLAPTATHVGSELSQEDLDDDEDEDEEDGDDDSADDDNSID-------PELAREKFAELRAQYVVTRDTIKA 237 (613)
T ss_dssp CCSCSSSCCSCCSCCTTSCSSCGGGCC--------------------CC-------HHHHHHHHHHHTTTHHHHTTTTTT
T ss_pred cCCCccccccccccccccccccccccccccccccccccchhhhhhcCCC-------HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 9998632210 0 00 0 00000000 00 0011122222 356689999999999999999888
Q ss_pred hCCCcHHHHHHHHHHHHHhhccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHhcCCCccchhhHH
Q psy15215 1054 EGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVD 1133 (1432)
Q Consensus 1054 ~~~~~~~~~k~~~~i~~~l~~irl~~k~i~~l~~~l~~~~~~ir~~Er~i~~~~~~~~~m~r~~fl~~f~~~e~~~~wl~ 1133 (1432)
+|..++.+.+++..|++.|++|+|+|++|++||+.|+..+++|+.+||.|+++|++.|||||++|++.|+||++|+.|+.
T Consensus 238 ~g~~~~~~~~~~~~l~~~~~~lkL~~k~id~Lv~~lr~~~~~ir~~Er~i~~l~v~~~~mpr~~Fi~~f~g~e~~~~w~~ 317 (613)
T 3iyd_F 238 KGRSHATAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNETSDTWFN 317 (613)
T ss_dssp CCSCSHHHHHHHHHHHHHHTTSCBCHHHHHHHTHHHHTTTHHHHHHHHHHHHTTTTTTTCCGGGTTTTTTTCCSSTTTTH
T ss_pred cccchHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHcccccCCHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhhcCchhHHHhhchHHHHHHHHHHHHhhhhcCCChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCC
Q psy15215 1134 NETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDR 1213 (1432)
Q Consensus 1134 ~~~~~~~~~~~~L~~~~~~I~~~q~~L~~ie~~~~l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~ 1213 (1432)
++++.+++|++.|.+..++|..+|++|.+++..++|+..+...|+.+++.|+..++.||+.||++|+++|+++|++|+++
T Consensus 318 ~~~~~~~~~~~~l~~~~~~I~~~q~kL~~ie~~~~~~~~~~~~Li~~~~~Gd~~A~~A~~~L~~~y~~~v~~ia~r~~~~ 397 (613)
T 3iyd_F 318 AAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNR 397 (613)
T ss_dssp HHHTTCCTTGGGGGGTHHHHHHHHHHHHHHHHHHTSCTTTHHHHHHTHHHHHHHHHHHHTTTTTTTTHHHHHGGGSSSTT
T ss_pred HHHHhhccHHHHHHHhHHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 99999999999999999999999999999999999999999999999999999977779999999999999999999999
Q ss_pred CCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCC
Q psy15215 1214 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSE 1293 (1432)
Q Consensus 1214 ~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~ 1293 (1432)
+.+++||+||||+|||+++++|++.+|++|+||++|||||+|+++++++.+++|+|+|+++++|+++++.+++.+++||+
T Consensus 398 ~~~aeDlvQE~fi~l~~a~~~fd~~~g~~Fstyl~~~irn~i~~~lr~~~r~~rip~~~~~~~~k~~r~~~~l~~~~gr~ 477 (613)
T 3iyd_F 398 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGRE 477 (613)
T ss_dssp SSCSTTTTHHHHHHHHHHTTSCCTTSSSCSTTTHHHHHHHHHHHHTTTSCSSSCCCSHHHHTTTTTTTTTTTTTTTTCSC
T ss_pred CCCHHHHHHHHHHHHHHHHHHcCccccCcHHHHHHHHHHHHHHHHHHhcCcceeCcHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHH
Q psy15215 1294 PDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESK 1373 (1432)
Q Consensus 1294 pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~ 1373 (1432)
||++|||+.||+|+++|+.+++.+..++|++.|++++++..+.+++++....+|++.+...++...|..+|++|||++|.
T Consensus 478 pt~eela~~l~~~~~~v~~~~~~~~~~~sld~~~~~~~~~~l~d~i~d~~~~~p~~~~~~~e~~~~l~~aL~~Lp~~er~ 557 (613)
T 3iyd_F 478 PTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESLRAATHDVLAGLTAREAK 557 (613)
T ss_dssp CCTTTTTTTSSCCSSHHHHHHHHSCCCCCSSCCCSSSSSCCGGGSCCCSSSCCHHHHHHHHTTSSSHHHHTTSSCHHHHH
T ss_pred CCHHHHHHHhCCCHHHHHHHHHhccCCcccCCCCCCCCCccHHHHhcCCCCCCHHHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence 99999999999999999999999999999999999988889999999988889999999989999999999999999999
Q ss_pred HHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHhhhcc
Q psy15215 1374 VLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429 (1432)
Q Consensus 1374 Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~~~~~ 1429 (1432)
||.|||+++++.++|++|||+.||||++||+++++||+++||++.++..|+.|+++
T Consensus 558 Vl~Lr~~~~~~e~~s~~EIA~~lgis~~tVk~~~~rAl~kLR~~~~~~~l~~~l~~ 613 (613)
T 3iyd_F 558 VLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDD 613 (613)
T ss_dssp HHHHHHTSSSCCCCSTTGGGTTTSSCSSHHHHHHHHHHTTTTSCSSSCSSTTCC--
T ss_pred HHHHHhccCCCCCcCHHHHHHHhCCCHHHHHHHHHHHHHHhhCcchhhHHHHHhcC
Confidence 99999998887888999999999999999999999999999999999999999874
|
| >1sig_A Sigma70, RNA polymerase primary sigma factor; RNA polymerase sigma factor, transcription regulation; 2.60A {Escherichia coli} SCOP: a.177.1.1 | Back alignment and structure |
|---|
Probab=100.00 E-value=1.1e-56 Score=530.73 Aligned_cols=329 Identities=39% Similarity=0.629 Sum_probs=277.7
Q ss_pred CCCchHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHhhhcccchhhhhccccCCCCCCcc----h-hccC----C
Q psy15215 144 LLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNN----R-VIKG----N 214 (1432)
Q Consensus 144 LLTREgEIeIAKRIE~G~~~v~~al~~~P~~v~~il~~~e~l~~ge~rl~dii~g~~d~~~~~~~----~-~~~~----~ 214 (1432)
||||||||+||||||+|+++|+++||.||++|.+||+|+++|.+|+++|+|||+||+||+.++.. . ..++ +
T Consensus 1 LLTREgEI~IAKRIE~G~~~v~~ai~~~P~~i~~il~~~~~l~~ge~rl~dii~g~~d~~~~~~~~~~~~~~~~~~~~~~ 80 (339)
T 1sig_A 1 GSHMEGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYNRVEAEEARLSDLITGFVDPNAEEDLAPTATHVGSELSQED 80 (339)
T ss_dssp ---CCTHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTTTSSCGGGTEEEECC-----CCCCSCTTTTCCSCTTT
T ss_pred CCChHHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHcCCccHHHHHhcccCCCcccccccccccccccccccc
Confidence 89999999999999999999999999999999999999999999999999999999998622110 0 0000 0
Q ss_pred -CCCChhhhhhhcCCCCCCHHHHHHhHHHHHHHHHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhcccCCHHHHH
Q psy15215 215 -KNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIE 293 (1432)
Q Consensus 215 -~~~~e~~d~~~~~~~~~~~~~~~~l~~~~~~~f~~l~~~~~~~~~~~~~~g~~~~~~~k~~~~i~~~l~~ikl~~k~ie 293 (1432)
++++++++++++.+.. .......++.+.++|..|++.|+++++++.++|..++.+.+.+..|++.|++|+|+|++|+
T Consensus 81 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~f~~i~~~~~~~~~~~~~~g~~~~~~~~~~~~l~~~~~~ikl~~k~id 158 (339)
T 1sig_A 81 LDDDEDEDEEDGDDDSA--DDDNSIDPELAREKFAELRAQYVVTRDTIKAKGRSHATAQEEILKLSEVFKQFRLVPKQFD 158 (339)
T ss_dssp TC----------------------CCHHHHHHHHHHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHTTEEECHHHHH
T ss_pred ccccccccccccccccc--ccccCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcCcHHHHHHHHHHHHHHHhcCCCHHHHH
Confidence 0000000000000000 0000122566779999999999999999988888889999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCChHHHHHhcCCCccchhhhhhHhhhcCchHHHHhhchHHHHHHHHHHHhh
Q psy15215 294 KLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINL 373 (1432)
Q Consensus 294 ~l~~~l~~~~~~ir~~Er~i~~~~v~~~gmpr~~fi~~f~~~e~~~~wl~~~~~~~~~~~~~L~~~~~~i~~~q~~L~~i 373 (1432)
+||+.|+..+++|+.+||.||++|++.+||||++|++.||||++|+.|++++++.+++|+..+.+..+.|..+|++|.++
T Consensus 159 ~Lv~~lr~~~~~ir~~Er~i~~l~v~~~~mpr~~fi~~f~g~e~~~~w~~~~~~~~~~~~~~l~~~~~~i~~~q~kl~~i 238 (339)
T 1sig_A 159 YLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQKLQQI 238 (339)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTTSCCCHHHHHHHHTTTCSSGGGTHHHHTTCSHHHHHGGGTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHcccccCcHHHHHHHhhccchHHHHHHHhHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhccCCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCcc
Q psy15215 374 QTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 453 (1432)
Q Consensus 374 E~~~~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~F 453 (1432)
+..+++++.+...|+.+++.|+..+..|+..|+..|+++|+++|++|++++.+++||+||||||||+++++|++.+|++|
T Consensus 239 e~~~~l~~~~~~~l~~~~~~gd~~~~~A~~~L~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~~f~~~~g~~f 318 (339)
T 1sig_A 239 EEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 318 (339)
T ss_dssp HHHHTSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHTTSTTSSSCHHHHHHHHHHHHHHHHHHCCGGGCCCH
T ss_pred HHHcCCChHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHHHHHHhcCCCCHhHHHHHHHHHHHHHHHHhCCccCCCH
Confidence 99999999999999999999999445599999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcc
Q psy15215 454 STYATWWIRQAITRSIADQAR 474 (1432)
Q Consensus 454 stya~~~ir~~i~~~i~~~~r 474 (1432)
+||++|||+|+|++++++++|
T Consensus 319 ~twl~~iirn~~~~~lr~~~r 339 (339)
T 1sig_A 319 STYATWWIRQAITRSIADQAR 339 (339)
T ss_dssp HHHHHHHHHHHHHHHHHHC--
T ss_pred HHHHHHHHHHHHHHHHHHhcC
Confidence 999999999999999998764
|
| >1sig_A Sigma70, RNA polymerase primary sigma factor; RNA polymerase sigma factor, transcription regulation; 2.60A {Escherichia coli} SCOP: a.177.1.1 | Back alignment and structure |
|---|
Probab=100.00 E-value=1.6e-56 Score=529.32 Aligned_cols=329 Identities=39% Similarity=0.627 Sum_probs=277.7
Q ss_pred CCCchHHHHHHHHHHHhHHHHHHHHhhChHHHHHHHHHHHHhhhcccchhhhhccccCCCCCCch----h-hccC----C
Q psy15215 934 LLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNN----R-VIKG----N 1004 (1432)
Q Consensus 934 LLTREgEIeIAKRIE~G~~~v~~al~~~P~~v~~il~~~e~l~~ge~~l~dii~g~~d~~~~~~~----~-~~~~----~ 1004 (1432)
||||||||+||||||+|+++|+.|||.||++|++||+|+++|.+|+++|+|||+||+||+.++.. + ..++ +
T Consensus 1 LLTREgEI~IAKRIE~G~~~v~~ai~~~P~~i~~il~~~~~l~~ge~rl~dii~g~~d~~~~~~~~~~~~~~~~~~~~~~ 80 (339)
T 1sig_A 1 GSHMEGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYNRVEAEEARLSDLITGFVDPNAEEDLAPTATHVGSELSQED 80 (339)
T ss_dssp ---CCTHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTTTSSCGGGTEEEECC-----CCCCSCTTTTCCSCTTT
T ss_pred CCChHHHHHHHHHHHHHHHHHHHHHHhChHHHHHHHHHHHHHHcCCccHHHHHhcccCCCcccccccccccccccccccc
Confidence 89999999999999999999999999999999999999999999999999999999998622110 0 0000 0
Q ss_pred CCCchhhhh-hhccCCCCCHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhhccccCHHHHH
Q psy15215 1005 KNNNEEKIL-IESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIE 1083 (1432)
Q Consensus 1005 ~~~e~~~d~-~~~~~~~~~~~~l~~l~~~~~~~f~~l~~~~~~~~~~~~~~~~~~~~~~k~~~~i~~~l~~irl~~k~i~ 1083 (1432)
+++++++++ +++.+.. .......++.+.++|..|++.|+++.+++.++|..++.+.+.+..|++.|++|+|+|++|+
T Consensus 81 ~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~f~~i~~~~~~~~~~~~~~g~~~~~~~~~~~~l~~~~~~ikl~~k~id 158 (339)
T 1sig_A 81 LDDDEDEDEEDGDDDSA--DDDNSIDPELAREKFAELRAQYVVTRDTIKAKGRSHATAQEEILKLSEVFKQFRLVPKQFD 158 (339)
T ss_dssp TC----------------------CCHHHHHHHHHHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHTTEEECHHHHH
T ss_pred ccccccccccccccccc--ccccCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcCcHHHHHHHHHHHHHHHhcCCCHHHHH
Confidence 000000000 0000000 0000112466779999999999999999988888889999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHhcCCCccchhhHHHHhhhcCchhHHHhhchHHHHHHHHHHHHh
Q psy15215 1084 KLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINL 1163 (1432)
Q Consensus 1084 ~l~~~l~~~~~~ir~~Er~i~~~~~~~~~m~r~~fl~~f~~~e~~~~wl~~~~~~~~~~~~~L~~~~~~I~~~q~~L~~i 1163 (1432)
+||+.|+..+++|+.+||.|+++|++.+||||++|++.|+||++|+.|+.++++.+++|++.+.+..+.|..+|++|.++
T Consensus 159 ~Lv~~lr~~~~~ir~~Er~i~~l~v~~~~mpr~~fi~~f~g~e~~~~w~~~~~~~~~~~~~~l~~~~~~i~~~q~kl~~i 238 (339)
T 1sig_A 159 YLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQKLQQI 238 (339)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHTTSCCCHHHHHHHHTTTCSSGGGTHHHHTTCSHHHHHGGGTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHcccccCcHHHHHHHhhccchHHHHHHHhHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhcCCChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcc
Q psy15215 1164 QTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 1243 (1432)
Q Consensus 1164 e~~~~l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~F 1243 (1432)
+..+++++.+...|+.+++.|+..++.|+..||..|+++|+++|++|++++.+++||+||||+|||+++++|++.+|++|
T Consensus 239 e~~~~l~~~~~~~l~~~~~~gd~~~~~A~~~L~~~~~~~v~~~a~~~~~~~~~aeDlvQe~~i~l~~a~~~f~~~~g~~f 318 (339)
T 1sig_A 239 EEETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 318 (339)
T ss_dssp HHHHTSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHTTSTTSSSCHHHHHHHHHHHHHHHHHHCCGGGCCCH
T ss_pred HHHcCCChHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHHHHHHhcCCCCHhHHHHHHHHHHHHHHHHhCCccCCCH
Confidence 99999999999999999999999555699999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHHHHHHHHHHHHHHhcc
Q psy15215 1244 STYATWWIRQAITRSIADQAR 1264 (1432)
Q Consensus 1244 stya~~~ir~~i~~~i~~~~r 1264 (1432)
+||++||+||+|++++|++++
T Consensus 319 ~twl~~iirn~~~~~lr~~~r 339 (339)
T 1sig_A 319 STYATWWIRQAITRSIADQAR 339 (339)
T ss_dssp HHHHHHHHHHHHHHHHHHC--
T ss_pred HHHHHHHHHHHHHHHHHHhcC
Confidence 999999999999999998763
|
| >2a6h_F RNA polymerase sigma factor RPOD; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1smy_F* 1zyr_F* 1iw7_F* 2a69_F* 2a6e_F 2a68_F* 2be5_F* 2cw0_F 3eql_F* 3dxj_F* 1l9u_H | Back alignment and structure |
|---|
Probab=100.00 E-value=7.5e-56 Score=533.70 Aligned_cols=413 Identities=44% Similarity=0.661 Sum_probs=274.1
Q ss_pred HHHHHHHHHhccccCccchHHHhhhCCCCCCCHHHHHHHH---HH-HHhcCccccccccchhhhhccCCCCCchhHHHHH
Q psy15215 830 RKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESII---KT-FRYMDISVSEHVLDTETLMLSNITSDDDVEEATE 905 (1432)
Q Consensus 830 ~~~~~~Li~~gk~~g~lT~~ei~~~lp~~~~~~e~ie~i~---~~-l~~~gI~v~e~~~~~e~~~~~~~~~de~~~e~~~ 905 (1432)
.+.++.|+..||++||+||+|||++ | .+++++++.++ .. |.++||+|++..++++ . ++ ++
T Consensus 4 ~~~~~~l~~~~k~~g~lt~~ei~~~-~--~~~~~~~~~~~~~~~~~l~~~gi~v~~~~~~~~-~--------~~--~~-- 67 (423)
T 2a6h_F 4 SKRKNAQAQEAQETEVLVQEEAEEL-P--EFPEGEPDPDLEDPDLALEDDLLDLPEEGEGLD-L--------EE--EE-- 67 (423)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHHHHhhhcCCCCHHHHhcc-c--cCChhhhhHHHHHHHhhhccCCCcccCCCcccc-c--------hh--hh--
Confidence 4568889999999999999999999 6 57999999999 99 9999999987543321 0 00 11
Q ss_pred hhhccCCCCCCCCCChHHHHHHccCCccCCCchHHHHHHHHHHHhHHHHHHHHhhChHHHHHHHHHHHHhhhcccchhhh
Q psy15215 906 AALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEI 985 (1432)
Q Consensus 906 ~~~~~~~~~~grt~DPVRmYLREMG~v~LLTREgEIeIAKRIE~G~~~v~~al~~~P~~v~~il~~~e~l~~ge~~l~di 985 (1432)
+.. ..+.+.++|||+|||+|||++||||+|+|+++|+||+.|..... .+. . .
T Consensus 68 -~~~--~~~~~~~~d~~~~Yl~ei~~~plLt~eEE~~La~ri~~g~~~~~------------~l~--~-----------~ 119 (423)
T 2a6h_F 68 -EDL--PIPKISTSDPVRQYLHEIGQVPLLTLEEEVELARKVEEGMEAIK------------KLS--E-----------I 119 (423)
T ss_dssp ---------CCTTHHHHHHHHHHHHHCCCCTTHHHHHHHHHHHHHHHHHH------------HHH--H-----------H
T ss_pred -hcc--cccccCCCcHHHHHHHHhcccCCCCHHHHHHHHHHHHhchhHHH------------HHH--H-----------h
Confidence 111 11235688999999999999999999999999999999974211 000 0 0
Q ss_pred hccccCCCCCCchhhccCCCCCchhhhhhhccCCCCCHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHH
Q psy15215 986 VDGLIDKNFSSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAH 1065 (1432)
Q Consensus 986 i~g~~d~~~~~~~~~~~~~~~~e~~~d~~~~~~~~~~~~~l~~l~~~~~~~f~~l~~~~~~~~~~~~~~~~~~~~~~k~~ 1065 (1432)
.. ..+.. +.. +.......
T Consensus 120 ~~---------------------------------~~~~~--------~~~----------~~~~~~~~----------- 137 (423)
T 2a6h_F 120 TG---------------------------------LDPDL--------IRE----------VVRAKILG----------- 137 (423)
T ss_dssp HC---------------------------------CCHHH--------HHH----------HHHHHHHC-----------
T ss_pred hc---------------------------------cchhh--------hhh----------hHhhhhhh-----------
Confidence 00 00000 000 00000000
Q ss_pred HHHHHHhhccccCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHhcCCCccchhhHHHHhhhcCchhHH
Q psy15215 1066 NNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLI 1145 (1432)
Q Consensus 1066 ~~i~~~l~~irl~~k~i~~l~~~l~~~~~~ir~~Er~i~~~~~~~~~m~r~~fl~~f~~~e~~~~wl~~~~~~~~~~~~~ 1145 (1432)
..++ ..-|+ ...|.....
T Consensus 138 ----------------------------------~~~~----------------~~~~~---~~~~~~~~~--------- 155 (423)
T 2a6h_F 138 ----------------------------------SARV----------------RHIPG---LKETLDPKT--------- 155 (423)
T ss_dssp ----------------------------------CHHH----------------HHTTS---CSSSCTTHH---------
T ss_pred ----------------------------------hhhc----------------ccccc---hhhhhhhhh---------
Confidence 0000 00111 112222100
Q ss_pred HhhchHHHHHHHHHHHHhhhhcCCChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHH
Q psy15215 1146 LCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGN 1225 (1432)
Q Consensus 1146 L~~~~~~I~~~q~~L~~ie~~~~l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~ 1225 (1432)
.......+.. .+ .....|+..++.| .. |++.||.+|+++|++||++|+++|.+++|||||||
T Consensus 156 -------~~~~~~~~~~----~~---~~~~~L~~~~~~d-~~---A~~~Li~~~lrlV~~iA~~y~~~~~~~eDLiQEg~ 217 (423)
T 2a6h_F 156 -------VEEIDQKLKS----LP---KEHKRYLHIAREG-EA---ARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGN 217 (423)
T ss_dssp -------HHHHHHHHHH----SC---HHHHHHHHHHHHH-HH---HHHHHHHHTHHHHHHHHTTTCTTTSCHHHHHHHHH
T ss_pred -------hhhhhhhhhc----cc---ccHHHHHHHHhcC-HH---HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence 0001111111 11 1344566666654 44 99999999999999999999999999999999999
Q ss_pred HHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcC-
Q psy15215 1226 IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKME- 1304 (1432)
Q Consensus 1226 igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~- 1304 (1432)
+|||+|+++|+|.+|++|+|||+||||++|.+++++++|++|+|+|+.+.++++++..+++.+.+||+||+++||+.+|
T Consensus 218 igL~kav~kFd~~~g~~FstYa~~wIr~~i~~~i~~~~r~ir~p~~~~~~~~~lrr~~~~l~~~~~r~p~~~eiA~~l~~ 297 (423)
T 2a6h_F 218 QGLIRAVEKFEYKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGREPTYEEIAEAMGP 297 (423)
T ss_dssp HHHHHHHHHCCTTSCCCHHHHHHHHHHHHHHHHHHHHSSSSCCCHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHCT
T ss_pred HHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHHHHHccceeeccHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCC
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred -CCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccC
Q psy15215 1305 -MPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEM 1383 (1432)
Q Consensus 1305 -~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~ 1383 (1432)
+++++|..+++....++|++.|+++++++.+.+++++....+|++.+....+...|..+|++||+++|.||.||||++.
T Consensus 298 ~~~~~~v~~~~~~~~~~~Sld~~~~~~~~~~l~d~l~d~~~~~pe~~~~~~~~~~~L~~aL~~L~~rer~Vl~lr~~L~~ 377 (423)
T 2a6h_F 298 GWDAKRVEETLKIAQEPVSLETPIGDEKDSFYGDFIPDEHLPSPVDAATQSLLSEELEKALSKLSEREAMVLKLRKGLID 377 (423)
T ss_dssp TCCHHHHHHHHHHHSCCEESSCBCSSSSSCBGGGSSCCSSSCCHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHTTC
T ss_pred CCCHHHHHHHHHhccCCcccccccCCCCccchhhhhccccCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHhccCC
Confidence 9999999999999999999999998888888999988777789999998899999999999999999999999999877
Q ss_pred CCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhh-CchhhhhHHhhhc
Q psy15215 1384 SSDHTLEEVGKQFDVTRERIRQIEAKALRKLR-HPSRYYKLKIFLE 1428 (1432)
Q Consensus 1384 ~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr-~~~~~~~l~~~~~ 1428 (1432)
+.++|++|||+.||||++||||++++|++||| ++.++..|++|++
T Consensus 378 ~e~~Tl~EIA~~lgiS~erVrqi~~rAl~kLR~~~~~~~~l~~~l~ 423 (423)
T 2a6h_F 378 GREHTLEEVGAFFGVTRERIRQIENKALRKLKYHESRTRKLRDFLD 423 (423)
T ss_dssp C-----CHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHTTSSSSCCC
T ss_pred CCCCCHHHHHHHHCcCHHHHHHHHHHHHHHHHhhhhhhHHHHHhhC
Confidence 78889999999999999999999999999999 9999999999974
|
| >2a6h_F RNA polymerase sigma factor RPOD; RNA polymerase holoenzyme, streptolydigin, antibiotic, transcription regulation; HET: STD; 2.40A {Thermus thermophilus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1smy_F* 1zyr_F* 1iw7_F* 2a69_F* 2a6e_F 2a68_F* 2be5_F* 2cw0_F 3eql_F* 3dxj_F* 1l9u_H | Back alignment and structure |
|---|
Probab=100.00 E-value=1.6e-54 Score=522.12 Aligned_cols=404 Identities=43% Similarity=0.637 Sum_probs=265.3
Q ss_pred HHHHHHHHHhccccCcccHHHHHhhCCCCCCCHHHHHHHH---HH-HhhCCCcccccCCchhhhhccCCCCCchhhHHHH
Q psy15215 40 RKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESII---KT-FRYMDISVSEHVLDTETLMLSNITSDDDVEEATE 115 (1432)
Q Consensus 40 ~~~l~~Li~~Gke~G~lTy~EInd~LP~~~~~~d~id~ii---~~-L~~~gI~v~d~~~~~~~~~~~~~~~de~~~~~~~ 115 (1432)
++.++.||++||++|||||+|||++ | .+++|++|.++ .+ |.++||+|++..++.+ . + + ++
T Consensus 4 ~~~~~~l~~~~k~~g~lt~~ei~~~-~--~~~~~~~~~~~~~~~~~l~~~gi~v~~~~~~~~-~-------~-~--~~-- 67 (423)
T 2a6h_F 4 SKRKNAQAQEAQETEVLVQEEAEEL-P--EFPEGEPDPDLEDPDLALEDDLLDLPEEGEGLD-L-------E-E--EE-- 67 (423)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHHHHhhhcCCCCHHHHhcc-c--cCChhhhhHHHHHHHhhhccCCCcccCCCcccc-c-------h-h--hh--
Confidence 4579999999999999999999999 6 47999999999 99 9999999997643311 0 0 0 11
Q ss_pred hhhccCCCCCCCCCChHHHHHHhcCCccCCCchHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHhhhcccchhhh
Q psy15215 116 AALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEI 195 (1432)
Q Consensus 116 ~~l~~~~~~~grt~DPVRmYLREMG~V~LLTREgEIeIAKRIE~G~~~v~~al~~~P~~v~~il~~~e~l~~ge~rl~di 195 (1432)
+.. ..+.+.++|||+|||+|||++||||+|+|+++|+||+.|..... .+. ..
T Consensus 68 -~~~--~~~~~~~~d~~~~Yl~ei~~~plLt~eEE~~La~ri~~g~~~~~------------~l~-------------~~ 119 (423)
T 2a6h_F 68 -EDL--PIPKISTSDPVRQYLHEIGQVPLLTLEEEVELARKVEEGMEAIK------------KLS-------------EI 119 (423)
T ss_dssp ---------CCTTHHHHHHHHHHHHHCCCCTTHHHHHHHHHHHHHHHHHH------------HHH-------------HH
T ss_pred -hcc--cccccCCCcHHHHHHHHhcccCCCCHHHHHHHHHHHHhchhHHH------------HHH-------------Hh
Confidence 111 11235688999999999999999999999999999999963211 000 00
Q ss_pred hccccCCCCCCcchhccCCCCCChhhhhhhcCCCCCCHHHHHHhHHHHHHHHHhHHHHHHHHHHHHHHcCCCcHHHHHHH
Q psy15215 196 VDGLIDKNFSSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAH 275 (1432)
Q Consensus 196 i~g~~d~~~~~~~~~~~~~~~~~e~~d~~~~~~~~~~~~~~~~l~~~~~~~f~~l~~~~~~~~~~~~~~g~~~~~~~k~~ 275 (1432)
.. ..+.. ... +.+....
T Consensus 120 ~~---------------------------------~~~~~--------~~~----------~~~~~~~------------ 136 (423)
T 2a6h_F 120 TG---------------------------------LDPDL--------IRE----------VVRAKIL------------ 136 (423)
T ss_dssp HC---------------------------------CCHHH--------HHH----------HHHHHHH------------
T ss_pred hc---------------------------------cchhh--------hhh----------hHhhhhh------------
Confidence 00 00000 000 0000000
Q ss_pred HHHHHHhhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCChHHHHHhcCCCccchhhhhhHhhhcCchHHH
Q psy15215 276 NNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLI 355 (1432)
Q Consensus 276 ~~i~~~l~~ikl~~k~ie~l~~~l~~~~~~ir~~Er~i~~~~v~~~gmpr~~fi~~f~~~e~~~~wl~~~~~~~~~~~~~ 355 (1432)
....+ ..-|+ ...|...... ..|..
T Consensus 137 ---------------------------------~~~~~----------------~~~~~---~~~~~~~~~~--~~~~~- 161 (423)
T 2a6h_F 137 ---------------------------------GSARV----------------RHIPG---LKETLDPKTV--EEIDQ- 161 (423)
T ss_dssp ---------------------------------CCHHH----------------HHTTS---CSSSCTTHHH--HHHHH-
T ss_pred ---------------------------------hhhhc----------------ccccc---hhhhhhhhhh--hhhhh-
Confidence 00000 00111 1123321100 00111
Q ss_pred HhhchHHHHHHHHHHHhhhhccCCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHH
Q psy15215 356 LCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGN 435 (1432)
Q Consensus 356 L~~~~~~i~~~q~~L~~iE~~~~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~ 435 (1432)
.+.. . ......|+..++.| .. |++.||.+|+++|+++|++|+++|.+++|||||||
T Consensus 162 -------------~~~~----~---~~~~~~L~~~~~~d-~~---A~~~Li~~~lrlV~~iA~~y~~~~~~~eDLiQEg~ 217 (423)
T 2a6h_F 162 -------------KLKS----L---PKEHKRYLHIAREG-EA---ARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGN 217 (423)
T ss_dssp -------------HHHH----S---CHHHHHHHHHHHHH-HH---HHHHHHHHTHHHHHHHHTTTCTTTSCHHHHHHHHH
T ss_pred -------------hhhc----c---cccHHHHHHHHhcC-HH---HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence 1111 1 12345567777654 55 99999999999999999999999999999999999
Q ss_pred HHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcC-
Q psy15215 436 IGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKME- 514 (1432)
Q Consensus 436 igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~- 514 (1432)
||||+|+++|+|.+|++|+|||+|||||+|.++|++++|++|+|+|+.+.+++++++.+++.+.+|++|++++||+.+|
T Consensus 218 igL~kav~kFd~~~g~~FstYa~~wIr~~i~~~i~~~~r~ir~p~~~~~~~~~lrr~~~~l~~~~~r~p~~~eiA~~l~~ 297 (423)
T 2a6h_F 218 QGLIRAVEKFEYKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGREPTYEEIAEAMGP 297 (423)
T ss_dssp HHHHHHHHHCCTTSCCCHHHHHHHHHHHHHHHHHHHHSSSSCCCHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHCT
T ss_pred HHHHHHHHhcCcccCCCHHHHHHHHHHHHHHHHHHHccceeeccHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCC
Confidence 9999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred -CCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhccc
Q psy15215 515 -MPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEM 593 (1432)
Q Consensus 515 -~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~ 593 (1432)
+++++|..+++.+..++|++.|+++++++.+.+++++....+|++.+....+...|..+|++||+++|.||.||||++.
T Consensus 298 ~~~~~~v~~~~~~~~~~~Sld~~~~~~~~~~l~d~l~d~~~~~pe~~~~~~~~~~~L~~aL~~L~~rer~Vl~lr~~L~~ 377 (423)
T 2a6h_F 298 GWDAKRVEETLKIAQEPVSLETPIGDEKDSFYGDFIPDEHLPSPVDAATQSLLSEELEKALSKLSEREAMVLKLRKGLID 377 (423)
T ss_dssp TCCHHHHHHHHHHHSCCEESSCBCSSSSSCBGGGSSCCSSSCCHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHTTC
T ss_pred CCCHHHHHHHHHhccCCcccccccCCCCccchhhhhccccCCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHhccCC
Confidence 9999999999999999999999988877888999988777789999998899999999999999999999999999877
Q ss_pred CCCCcHHHHHhhcccchhHHHHHHHHHHHHHH-HHHH
Q psy15215 594 SSDHTLEEVGKQFDVTRERIRQIEAKALRKLR-PLAH 629 (1432)
Q Consensus 594 ~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr-~~l~ 629 (1432)
+.++|++|||+.||+|+++|++++++|+++|| +++.
T Consensus 378 ~e~~Tl~EIA~~lgiS~erVrqi~~rAl~kLR~~~~~ 414 (423)
T 2a6h_F 378 GREHTLEEVGAFFGVTRERIRQIENKALRKLKYHESR 414 (423)
T ss_dssp C-----CHHHHSSSSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHCcCHHHHHHHHHHHHHHHHhhhhh
Confidence 78889999999999999999999999999999 5543
|
| >1l9z_H Sigma factor SIGA; helix-turn-helix, coiled-coil, transcription/DNA complex; 6.50A {Thermus aquaticus} SCOP: i.8.1.1 | Back alignment and structure |
|---|
Probab=100.00 E-value=1.8e-47 Score=456.00 Aligned_cols=251 Identities=58% Similarity=0.882 Sum_probs=235.4
Q ss_pred HHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHH
Q psy15215 1174 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 1253 (1432)
Q Consensus 1174 ~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~ 1253 (1432)
...|+..++ ++.. |++.||.+|+++|++||++|.++|.+++|||||||+|||+|+++||+.+|++|+|||+|||||
T Consensus 185 ~~eLi~~~~-~d~~---A~~~Li~~nlrlVv~iA~ry~~~g~~aeDLIQEg~IgL~kAvekFDp~kG~rFsTYA~~wIR~ 260 (438)
T 1l9z_H 185 LKRYLHIAR-EGEA---ARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATWWIRQ 260 (438)
T ss_pred HHHHHHHHh-cCHH---HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcCcccCCChHHHHHHHHHH
Confidence 344555554 3455 999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcC--CCHHHHHHHHHHccCCCCCCCCCCCCC
Q psy15215 1254 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKME--MPEEKIRKIMKIAKEPVSMESPVGDDE 1331 (1432)
Q Consensus 1254 ~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~--~~~~~v~~~~~~~~~~~Sl~~~~~~~~ 1331 (1432)
+|.+++++++|++|+|+|+.+.++++++..+++.+.+||+||.++||+.+| +++++|..+++....++|++.|+++++
T Consensus 261 ~I~~~i~~~~R~irlp~~~~~~l~~lrr~~r~l~~~lgr~pt~eeiA~~l~~~v~~e~V~~~~~~~~~~~SLd~~~~~d~ 340 (438)
T 1l9z_H 261 AINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGREPSYEEIAEAMGPGWDAKRVEETLKIAQEPVSLETPIGDEK 340 (438)
T ss_pred HHHHHHHHhcchhccchHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCCCHHHHHHHHHhccccccccccccccc
Confidence 999999999999999999999999999999999999999999999999999 999999999999999999999998887
Q ss_pred CCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHH
Q psy15215 1332 DSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKAL 1411 (1432)
Q Consensus 1332 ~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl 1411 (1432)
+..+.+++++....+|++.+....+...|..+|++||+++|.||.||||++.+.++|++|||+.||||++||||+++||+
T Consensus 341 d~~l~d~l~d~~~~~pee~~~~~~~~~~L~~aL~~L~ereR~VI~LRygL~~~e~~TleEIAe~LgIS~erVRqi~~RAl 420 (438)
T 1l9z_H 341 DSFYGDFIPDENLPSPVEAAAQSLLSEELEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENKAL 420 (438)
T ss_pred chhhhhhhcccccCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCCCCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 77888888887777899999888999999999999999999999999997777788999999999999999999999999
Q ss_pred HHhh-CchhhhhHHhhhc
Q psy15215 1412 RKLR-HPSRYYKLKIFLE 1428 (1432)
Q Consensus 1412 ~kLr-~~~~~~~l~~~~~ 1428 (1432)
+||| ++.++..|++|++
T Consensus 421 kKLR~~~~~~~~l~~yl~ 438 (438)
T 1l9z_H 421 RKLKYHESRTRKLRDFLE 438 (438)
T ss_pred HHHHHhHhhHHHHHHhhC
Confidence 9999 9999999999984
|
| >1l9z_H Sigma factor SIGA; helix-turn-helix, coiled-coil, transcription/DNA complex; 6.50A {Thermus aquaticus} SCOP: i.8.1.1 | Back alignment and structure |
|---|
Probab=100.00 E-value=1.9e-44 Score=429.86 Aligned_cols=242 Identities=57% Similarity=0.872 Sum_probs=225.8
Q ss_pred HHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHH
Q psy15215 384 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 463 (1432)
Q Consensus 384 ~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~ 463 (1432)
...|+..++ |+.. |++.||.+|+++|++||++|.++|.+++|||||||||||+|+++|++.+|++|+|||+|||||
T Consensus 185 ~~eLi~~~~-~d~~---A~~~Li~~nlrlVv~iA~ry~~~g~~aeDLIQEg~IgL~kAvekFDp~kG~rFsTYA~~wIR~ 260 (438)
T 1l9z_H 185 LKRYLHIAR-EGEA---ARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATWWIRQ 260 (438)
T ss_pred HHHHHHHHh-cCHH---HHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHhcCcccCCChHHHHHHHHHH
Confidence 345566664 4455 999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcC--CCHHHHHHHHHHccCCCCCCCCCCCCC
Q psy15215 464 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKME--MPEEKIRKIMKIAKEPVSMESPVGDDE 541 (1432)
Q Consensus 464 ~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~--~~~~~v~~~~~~~~~~~sl~~~~~~~~ 541 (1432)
+|.++|++++|++|+|+|+.+.+++++++.+++.+.+|++|+.++||+.+| +++++|..+++.+..++|++.|+++++
T Consensus 261 ~I~~~i~~~~R~irlp~~~~~~l~~lrr~~r~l~~~lgr~pt~eeiA~~l~~~v~~e~V~~~~~~~~~~~SLd~~~~~d~ 340 (438)
T 1l9z_H 261 AINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGREPSYEEIAEAMGPGWDAKRVEETLKIAQEPVSLETPIGDEK 340 (438)
T ss_pred HHHHHHHHhcchhccchHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCCCCCHHHHHHHHHhccccccccccccccc
Confidence 999999999999999999999999999999999999999999999999999 999999999999999999999998877
Q ss_pred CCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHH
Q psy15215 542 DSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKAL 621 (1432)
Q Consensus 542 ~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl 621 (1432)
+..+.+++++....+|++.+....+...|..+|++||+++|.||.||||++.+.++|++|||+.||||+++|++++++|+
T Consensus 341 d~~l~d~l~d~~~~~pee~~~~~~~~~~L~~aL~~L~ereR~VI~LRygL~~~e~~TleEIAe~LgIS~erVRqi~~RAl 420 (438)
T 1l9z_H 341 DSFYGDFIPDENLPSPVEAAAQSLLSEELEKALSKLSEREAMVLKLRKGLIDGREHTLEEVGAYFGVTRERIRQIENKAL 420 (438)
T ss_pred chhhhhhhcccccCCHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCCCCHHHHHHHHCcCHHHHHHHHHHHH
Confidence 77788888887667899999888999999999999999999999999997777788999999999999999999999999
Q ss_pred HHHH-HHHH
Q psy15215 622 RKLR-PLAH 629 (1432)
Q Consensus 622 ~kLr-~~l~ 629 (1432)
++|| +.+.
T Consensus 421 kKLR~~~~~ 429 (438)
T 1l9z_H 421 RKLKYHESR 429 (438)
T ss_pred HHHHHhHhh
Confidence 9999 5543
|
| >4edg_A DNA primase; catalytic domain, nucleoside triphosphate, nucleoside polyph protein-ligand complex, transferase; HET: DNA ATP; 2.00A {Staphylococcus aureus} PDB: 4e2k_A* 4edk_A* 4edr_A* 4edt_A* 4edv_A* 4ee1_A* | Back alignment and structure |
|---|
Probab=100.00 E-value=2.5e-39 Score=372.63 Aligned_cols=193 Identities=27% Similarity=0.401 Sum_probs=171.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhhhh---hhhhH-hhcC--CCcccccccccCCCCCchhhHHHHHHH---------------
Q psy15215 616 IEAKALRKLRPLAHDWLEQRTHQ---NEKII-ACSS--DSSNHNEHVTNNNFPPGFNIFHKLLRI--------------- 674 (1432)
Q Consensus 616 ~~~rAl~kLr~~l~~~~~~~l~~---~~~~~-~l~~--l~~~~~~~f~~Gyap~~~~~l~~~~~~--------------- 674 (1432)
.++..+..+.+.+..||+++|.. +..|+ ||+. ||+++|++|+|||||.+|+.|.+++..
T Consensus 3 ~~~~~l~~~~~~a~~~y~~~L~~~~~g~~a~~YL~~Rgl~~e~i~~f~lGyap~~~~~l~~~l~~~g~~~~~l~~~GL~~ 82 (329)
T 4edg_A 3 ADDLQMIEMHELIQEFYYYALTKTVEGEQALTYLQERGFTDALIKERGIGFAPDSSHFCHDFLQKKGYDIELAYEAGLLS 82 (329)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHSSTTHHHHHHHHHTTCCHHHHHHHTCEEECSSSCHHHHHHHHTTCCHHHHHHTTSEE
T ss_pred HHHHHHHHHHHHHHHHHHHHHccCcccHHHHHHHHHcCCCHHHHHhCCeeeccCcHHHHHHHHHHCCCCHHHHHHCCCeE
Confidence 34567888889999999999854 34567 9877 999999999999999999999887641
Q ss_pred ---HH-Hhhhcc--EEEEee-----eeeeeeeeeeCCCCC----CCCCCCcccCccccCchHhHHhhccCCeEEEEecch
Q psy15215 675 ---LQ-EYLESF--LISFFL-----RNHGISGFLLTTPDP----VHETPLFHKSNELYGLFEAKNAIGKSGYVLITEGYM 739 (1432)
Q Consensus 675 ---~~-~~~~~f--ri~fpi-----r~igf~gR~~~~~~~----s~et~~f~K~~~Ly~~~~a~~~~~~~~~~~~vEG~~ 739 (1432)
.. .+++|| |||||| +||||+||.++++.| ||||++|+|+++|||+|.|+++|++.+.+|||||||
T Consensus 83 ~~~~g~~~yd~Fr~Ri~fPI~d~~G~vigF~gR~l~~~~pKYlNspet~~f~K~~~Lygl~~a~~~i~~~~~vivvEG~~ 162 (329)
T 4edg_A 83 RNEENFSYYDRFRNRIMFPLKNAQGRIVGYSGRTYTGQEPKYLNSPETPIFQKRKLLYNLDKARKSIRKLDEIVLLEGFM 162 (329)
T ss_dssp EETTTTEEEESCCSEEEEEEECTTSCEEEEEEECSSSCSSSEEECCCCSSCCTTTCCBTHHHHHHHHHHHTCEEEESCHH
T ss_pred ECCCCCccccccCCEEEEEEECCCCCEEEEEeEECCCCCCeEeCCCCcccccccchhccHHHHHHHhccCCcEEEEecHH
Confidence 11 345666 799999 699999999998777 999999999999999999999999999999999999
Q ss_pred hHHHHhhhCC---------------------CCCeEEEEecCcHHHHHHHHHHHHHhhhhcCCCceEEEecCCCCCCHHH
Q psy15215 740 DVIGLSQFGF---------------------FANSSYTCFDGDQAGRRAARRALEVCLLYATDDKIIKFLFLPDKYDPDS 798 (1432)
Q Consensus 740 D~ia~~~~g~---------------------~~~~i~~~~D~D~aG~~a~~~~~~~~~~~~~~~~~~~~~~lp~~~Dpde 798 (1432)
||||+||+|+ ++.+||+|||||.||++||.|+++.+...|.. ++|+.+|+|+||||
T Consensus 163 Dvial~q~Gi~naVA~lGTalt~~~~~~L~r~~~~Vil~~D~D~AG~~Aa~r~~~~l~~~g~~---v~v~~lP~gkDpdd 239 (329)
T 4edg_A 163 DVIKSDTAGLKNVVATMGTQLSDEHITFIRKLTSNITLMFDGDFAGSEATLKTGQHLLQQGLN---VFVIQLPSGMDPDE 239 (329)
T ss_dssp HHHHHHHHTCCSEEECSSSCCCHHHHHHHHHHCSEEEECCCSSHHHHHHHHHHHHHHHHTTCE---EEECCCCTTCCHHH
T ss_pred HHHHHHHcCCCeEEECCccCCCHHHHHHHHhcCCeEEEEeCCCHHHHHHHHHHHHHHHhcCCe---EEEEECCCCCCHHH
Confidence 9999999999 36899999999999999999999999987765 99999999999999
Q ss_pred HHHHhChhhhhhc
Q psy15215 799 YIRKFGYKIFSKK 811 (1432)
Q Consensus 799 ~~~~~g~~~~~~~ 811 (1432)
|++++|+++|.+.
T Consensus 240 ~l~~~G~~~~~~~ 252 (329)
T 4edg_A 240 YIGKYGNDAFTTF 252 (329)
T ss_dssp HHHHHCHHHHHHH
T ss_pred HHHHhCHHHHHHH
Confidence 9999999999774
|
| >3ugo_A RNA polymerase sigma factor; protein-DNA complex, bacterial promoter opening, G-quartet, quadruplex, DNA binding; 2.10A {Thermus aquaticus} PDB: 3ugp_A 4gor_A 1ku2_A 3lev_A* 3les_A* | Back alignment and structure |
|---|
Probab=100.00 E-value=2.5e-38 Score=353.57 Aligned_cols=239 Identities=48% Similarity=0.740 Sum_probs=148.8
Q ss_pred CCCChHHHHHHccCCccCCCchHHHHHHHHHHHhHHHHHHHHhhChHHHHHHHHHHHHhhhcccchhhhhccccCCCCCC
Q psy15215 917 RTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSS 996 (1432)
Q Consensus 917 rt~DPVRmYLREMG~v~LLTREgEIeIAKRIE~G~~~v~~al~~~P~~v~~il~~~e~l~~ge~~l~dii~g~~d~~~~~ 996 (1432)
.|+|||||||||||.|||||+++||+||||||.|...+..++..+|.+...+++.++.+..|+.++.+ +.||....
T Consensus 4 ~~~d~~~~yl~~i~~~~llt~~~e~~la~~i~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~-~~g~~~~~--- 79 (245)
T 3ugo_A 4 MTSDPVRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQK-IPGLKEKP--- 79 (245)
T ss_dssp -CCHHHHHHHHHHTTSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHTTGGGCSCCC-CTTCCCCC---
T ss_pred CCCCcHHHHHHHcccccCCCHHHHHHHHHHHHHHHHHHHHHHhccCCcHHHHHHhhhhhhhccchhcc-cccccccc---
Confidence 47999999999999999999999999999999999999999999999999999999999999999999 88886321
Q ss_pred chhhccCCCCCchhhhhhhccCCCCCHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhhccc
Q psy15215 997 NNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIR 1076 (1432)
Q Consensus 997 ~~~~~~~~~~~e~~~d~~~~~~~~~~~~~l~~l~~~~~~~f~~l~~~~~~~~~~~~~~~~~~~~~~k~~~~i~~~l~~ir 1076 (1432)
++.. .
T Consensus 80 -------------------------~~~~-~------------------------------------------------- 84 (245)
T 3ugo_A 80 -------------------------DPKT-V------------------------------------------------- 84 (245)
T ss_dssp -------------------------CHHH-H-------------------------------------------------
T ss_pred -------------------------cchh-H-------------------------------------------------
Confidence 0000 0
Q ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHhcCCCccchhhHHHHhhhcCchhHHHhhchHHHHHH
Q psy15215 1077 FTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKEL 1156 (1432)
Q Consensus 1077 l~~k~i~~l~~~l~~~~~~ir~~Er~i~~~~~~~~~m~r~~fl~~f~~~e~~~~wl~~~~~~~~~~~~~L~~~~~~I~~~ 1156 (1432)
.|.+...
T Consensus 85 -----------------------------------------------------~~~~~~~-------------------- 91 (245)
T 3ugo_A 85 -----------------------------------------------------EEVDGKL-------------------- 91 (245)
T ss_dssp -----------------------------------------------------HHHHHHH--------------------
T ss_pred -----------------------------------------------------HHHHHhh--------------------
Confidence 0000000
Q ss_pred HHHHHHhhhhcCCCh-hhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhc
Q psy15215 1157 QQKLINLQTDIVLPL-NDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKF 1235 (1432)
Q Consensus 1157 q~~L~~ie~~~~l~~-~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kf 1235 (1432)
++. .+...+.. +..|+.. |++.|++.|.++|+++|++|++++.+++||+||||+|||+|+++|
T Consensus 92 ------------~~~~~~~~~L~~-~~~~d~~---A~~~L~~~y~~lV~~ia~r~~~~~~~aeDLvQegfi~L~~a~~~f 155 (245)
T 3ugo_A 92 ------------KSLPKELKRYLH-IAREGEA---ARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKF 155 (245)
T ss_dssp ------------HTSCHHHHHHHH-HHHHHHH---HHHHHHHTTHHHHHHHHGGGTTSSSCHHHHHHHHHHHHHHHHHHC
T ss_pred ------------ccchHHHHHHHH-HHhCCHH---HHHHHHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHHHHHHc
Confidence 000 00111222 2334445 999999999999999999999999999999999999999999999
Q ss_pred cccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcC--CCHHHHHHH
Q psy15215 1236 EYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKME--MPEEKIRKI 1313 (1432)
Q Consensus 1236 d~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~--~~~~~v~~~ 1313 (1432)
|+.+|++|+||++||||++|.++++++.+.+|+|.++.+.++++.++.+.+.+.+|+.||.+|||+.|| +|+.+|+..
T Consensus 156 d~~~g~~F~tya~~~ir~~i~~~ir~~~r~~r~p~~l~e~i~~l~~~~~~L~~~~~~~ps~~EIAe~Lg~~is~~tVk~~ 235 (245)
T 3ugo_A 156 EYKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGREPSYEEIAEAMGPGWDAKRVEET 235 (245)
T ss_dssp CGGGCCCHHHHHHHHHHHHHHHHHHHHTC---------------------------------------------------
T ss_pred CcccCCcHHHHHHHHHHHHHHHHHHHhcccccccHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHCCCCCHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999999999999999999 999999999
Q ss_pred HHHccCCCCC
Q psy15215 1314 MKIAKEPVSM 1323 (1432)
Q Consensus 1314 ~~~~~~~~Sl 1323 (1432)
+..+..++||
T Consensus 236 l~~ar~~lsl 245 (245)
T 3ugo_A 236 LKIAQEPVSL 245 (245)
T ss_dssp ----------
T ss_pred HHHHhhccCC
Confidence 9999888886
|
| >3ugo_A RNA polymerase sigma factor; protein-DNA complex, bacterial promoter opening, G-quartet, quadruplex, DNA binding; 2.10A {Thermus aquaticus} PDB: 3ugp_A 4gor_A 1ku2_A 3lev_A* 3les_A* | Back alignment and structure |
|---|
Probab=100.00 E-value=3.5e-38 Score=352.31 Aligned_cols=240 Identities=47% Similarity=0.726 Sum_probs=149.2
Q ss_pred CCCChHHHHHHhcCCccCCCchHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHhhhcccchhhhhccccCCCCCC
Q psy15215 127 RTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSS 206 (1432)
Q Consensus 127 rt~DPVRmYLREMG~V~LLTREgEIeIAKRIE~G~~~v~~al~~~P~~v~~il~~~e~l~~ge~rl~dii~g~~d~~~~~ 206 (1432)
.|+|||||||||||.|||||+++||+||||||.|...+..++..+|.....+++.++.+..|+.++.+ ++||....
T Consensus 4 ~~~d~~~~yl~~i~~~~llt~~~e~~la~~i~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~-~~g~~~~~--- 79 (245)
T 3ugo_A 4 MTSDPVRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKKLSEATGLDQELIREVVRAKILGTARIQK-IPGLKEKP--- 79 (245)
T ss_dssp -CCHHHHHHHHHHTTSCCCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHTTGGGCSCCC-CTTCCCCC---
T ss_pred CCCCcHHHHHHHcccccCCCHHHHHHHHHHHHHHHHHHHHHHhccCCcHHHHHHhhhhhhhccchhcc-cccccccc---
Confidence 47999999999999999999999999999999999999999999999999999999999999999999 88886321
Q ss_pred cchhccCCCCCChhhhhhhcCCCCCCHHHHHHhHHHHHHHHHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhccc
Q psy15215 207 NNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIR 286 (1432)
Q Consensus 207 ~~~~~~~~~~~~e~~d~~~~~~~~~~~~~~~~l~~~~~~~f~~l~~~~~~~~~~~~~~g~~~~~~~k~~~~i~~~l~~ik 286 (1432)
.+.. .
T Consensus 80 -------------------------~~~~-----~--------------------------------------------- 84 (245)
T 3ugo_A 80 -------------------------DPKT-----V--------------------------------------------- 84 (245)
T ss_dssp -------------------------CHHH-----H---------------------------------------------
T ss_pred -------------------------cchh-----H---------------------------------------------
Confidence 0100 0
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCChHHHHHhcCCCccchhhhhhHhhhcCchHHHHhhchHHHHHH
Q psy15215 287 FTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKEL 366 (1432)
Q Consensus 287 l~~k~ie~l~~~l~~~~~~ir~~Er~i~~~~v~~~gmpr~~fi~~f~~~e~~~~wl~~~~~~~~~~~~~L~~~~~~i~~~ 366 (1432)
.|.+... + .
T Consensus 85 -----------------------------------------------------~~~~~~~---------~--~------- 93 (245)
T 3ugo_A 85 -----------------------------------------------------EEVDGKL---------K--S------- 93 (245)
T ss_dssp -----------------------------------------------------HHHHHHH---------H--T-------
T ss_pred -----------------------------------------------------HHHHHhh---------c--c-------
Confidence 0000000 0 0
Q ss_pred HHHHHhhhhccCCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhcc
Q psy15215 367 QQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFE 446 (1432)
Q Consensus 367 q~~L~~iE~~~~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd 446 (1432)
...+...|. ++..|+.. |++.|+..|+++|+++|++|++++.+++||+||||+|||+|+++|+
T Consensus 94 -------------~~~~~~~L~-~~~~~d~~---A~~~L~~~y~~lV~~ia~r~~~~~~~aeDLvQegfi~L~~a~~~fd 156 (245)
T 3ugo_A 94 -------------LPKELKRYL-HIAREGEA---ARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFE 156 (245)
T ss_dssp -------------SCHHHHHHH-HHHHHHHH---HHHHHHHTTHHHHHHHHGGGTTSSSCHHHHHHHHHHHHHHHHHHCC
T ss_pred -------------chHHHHHHH-HHHhCCHH---HHHHHHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHHHHHHHHHcC
Confidence 000011122 23345556 9999999999999999999999999999999999999999999999
Q ss_pred ccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcC--CCHHHHHHHH
Q psy15215 447 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKME--MPEEKIRKIM 524 (1432)
Q Consensus 447 ~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~--~~~~~v~~~~ 524 (1432)
+.+|++|+||++||||++|.++++++.+.+++|.++.+.++++.++.+.+.+.+|++||.+|||+.|| +|+.+|+..+
T Consensus 157 ~~~g~~F~tya~~~ir~~i~~~ir~~~r~~r~p~~l~e~i~~l~~~~~~L~~~~~~~ps~~EIAe~Lg~~is~~tVk~~l 236 (245)
T 3ugo_A 157 YKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGREPSYEEIAEAMGPGWDAKRVEETL 236 (245)
T ss_dssp GGGCCCHHHHHHHHHHHHHHHHHHHHTC----------------------------------------------------
T ss_pred cccCCcHHHHHHHHHHHHHHHHHHHhcccccccHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHCCCCCHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999 9999999999
Q ss_pred HHccCCCCC
Q psy15215 525 KIAKEPVSM 533 (1432)
Q Consensus 525 ~~~~~~~sl 533 (1432)
..+..++||
T Consensus 237 ~~ar~~lsl 245 (245)
T 3ugo_A 237 KIAQEPVSL 245 (245)
T ss_dssp ---------
T ss_pred HHHhhccCC
Confidence 999888875
|
| >1dd9_A DNA primase, DNAG; toprim, 3-helix bundle, DNA-binding protein, RNA polymerase, replication protein, transferase; HET: DNA; 1.60A {Escherichia coli} SCOP: e.13.1.1 PDB: 1dde_A* 1eqn_A* 3b39_A* | Back alignment and structure |
|---|
Probab=100.00 E-value=4.1e-37 Score=357.13 Aligned_cols=195 Identities=34% Similarity=0.561 Sum_probs=167.5
Q ss_pred HHHHHHHHHHHHHHHHHHhhh--hhhhhH-hhcC--CCcccccccccCCCCCchhhHHHHHH---H--------------
Q psy15215 617 EAKALRKLRPLAHDWLEQRTH--QNEKII-ACSS--DSSNHNEHVTNNNFPPGFNIFHKLLR---I-------------- 674 (1432)
Q Consensus 617 ~~rAl~kLr~~l~~~~~~~l~--~~~~~~-~l~~--l~~~~~~~f~~Gyap~~~~~l~~~~~---~-------------- 674 (1432)
.+..+..+.+.+..||+.++. .+..++ ||+. ||+++|+.|+|||||.+|+.|.+++. .
T Consensus 17 ~~~~l~~~~~~a~~~y~~~L~~~~~~~a~~YL~~RGls~e~i~~f~lGyap~~~~~L~~~l~~~g~~~~~l~~~GL~~~~ 96 (338)
T 1dd9_A 17 QRQTLYQLMDGLNTFYQQSLQQPVATSARQYLEKRGLSHEVIARFAIGFAPPGWDNVLKRFGGNPENRQSLIDAGMLVTN 96 (338)
T ss_dssp ---CHHHHHHHHHHHHHHHHTSGGGHHHHHHHHHTTCCHHHHHHHTCEEECSSSCHHHHHHCSSHHHHHHHHHTTSEEEC
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCccHHHHHHHHHcCCCHHHHHHcceeeccccHHHHHHHHHHcCCCHHHHHHCCCeeec
Confidence 345677788888999999987 466777 9877 99999999999999999999887763 1
Q ss_pred -HHHhhhcc--EEEEee-----eeeeeeeeeeCCCCC----CCCCCCcccCccccCchHhHHhhccCCeEEEEecchhHH
Q psy15215 675 -LQEYLESF--LISFFL-----RNHGISGFLLTTPDP----VHETPLFHKSNELYGLFEAKNAIGKSGYVLITEGYMDVI 742 (1432)
Q Consensus 675 -~~~~~~~f--ri~fpi-----r~igf~gR~~~~~~~----s~et~~f~K~~~Ly~~~~a~~~~~~~~~~~~vEG~~D~i 742 (1432)
...+++|| |||||| +||||+||.++++.| ||+|++|+|+..|||++.|++.+++.+.+||||||||||
T Consensus 97 ~~g~~yd~Fr~Ri~fPI~d~~G~vigf~gR~l~~~~pKYlnspet~if~K~~~Lygl~~A~~~i~~~~~viIvEG~~Dvl 176 (338)
T 1dd9_A 97 DQGRSYDRFRERVMFPIRDKRGRVIGFGGRVLGNDTPKYLNSPETDIFHKGRQLYGLYEAQQDNAEPNRLLVVEGYMDVV 176 (338)
T ss_dssp ---CEEESCCSEEEEEEECTTSCEEEEEEEESSSCSCSEEECCCCSSCCTTTCCBTHHHHHHTCSSCSCEEEESSHHHHH
T ss_pred CCCccccccCCEEEEEEECCCCcEEEEEEEeCCCCCCceecCCCCcccccCccccCccHHHHhhccCCeEEEEechHhHH
Confidence 11234555 699999 699999999987766 999999999999999999999999999999999999999
Q ss_pred HHhhhCC---------------------CCCeEEEEecCcHHHHHHHHHHHHHhhhhcCCCceEEEecCCCCCCHHHHHH
Q psy15215 743 GLSQFGF---------------------FANSSYTCFDGDQAGRRAARRALEVCLLYATDDKIIKFLFLPDKYDPDSYIR 801 (1432)
Q Consensus 743 a~~~~g~---------------------~~~~i~~~~D~D~aG~~a~~~~~~~~~~~~~~~~~~~~~~lp~~~Dpde~~~ 801 (1432)
|+||+|+ ++.+||+|||||.||++||.|+++.+++....+..|+|+.+|+|+|||||++
T Consensus 177 sl~q~G~~~aVA~lGtalt~~~~~~L~r~~~~Vil~~D~D~AG~~Aa~r~~~~~~~l~~~g~~v~v~~lP~gkDpdd~l~ 256 (338)
T 1dd9_A 177 ALAQYGINYAVASLGTSTTADHIQLLFRATNNVICCYDGDRAGRDAAWRALETALPYMTDGRQLRFMFLPDGEDPDTLVR 256 (338)
T ss_dssp HHHHTTCCCEEECCC-CCCHHHHHHHHHHCSEEEEEEESSHHHHHHHHHHHHHHGGGCCTTCEEEEEEECTTCCHHHHHH
T ss_pred HHHHcCCCcEEEeCccccCHHHHHHHHhcCCeEEEEeCCCHHHHHHHHHHHHHHHHHHhCCCEEEEecCCCCCChHHHHH
Confidence 9999999 3688999999999999999999998554434456699999999999999999
Q ss_pred HhChhhhhhc
Q psy15215 802 KFGYKIFSKK 811 (1432)
Q Consensus 802 ~~g~~~~~~~ 811 (1432)
++|.++|.+.
T Consensus 257 ~~G~~~~~~~ 266 (338)
T 1dd9_A 257 KEGKEAFEAR 266 (338)
T ss_dssp HHHHHHHHHH
T ss_pred HhcHHHHHHH
Confidence 9999999774
|
| >2au3_A DNA primase; zinc ribbon, toprim, RNA polymerase, DNA replication, transf; HET: DNA; 2.00A {Aquifex aeolicus} | Back alignment and structure |
|---|
Probab=100.00 E-value=2.9e-33 Score=336.94 Aligned_cols=197 Identities=26% Similarity=0.478 Sum_probs=166.5
Q ss_pred HHHHHHHHHHHHHHhhhhhhhhH-hhcC--CCcccccccccCCCCCchhhHHHHHHHH-----------------HHhhh
Q psy15215 621 LRKLRPLAHDWLEQRTHQNEKII-ACSS--DSSNHNEHVTNNNFPPGFNIFHKLLRIL-----------------QEYLE 680 (1432)
Q Consensus 621 l~kLr~~l~~~~~~~l~~~~~~~-~l~~--l~~~~~~~f~~Gyap~~~~~l~~~~~~~-----------------~~~~~ 680 (1432)
+..+.+.+..||+..+..+..+. ||+. ||.++|+.|+|||+|. |+.|.+++... ..+++
T Consensus 105 l~~~~~~a~~~~~~~L~~~~~a~~YL~~RGi~~~~i~~f~lGyap~-~~~l~~~l~~~~~~~~~l~~~Gl~~~~~g~~~d 183 (407)
T 2au3_A 105 VYVALDRVCDFYRESLLKNREASEYVKSRGIDPKVARKFDLGYAPS-SEALVKVLKENDLLEAYLETKNLLSPTKGVYRD 183 (407)
T ss_dssp HHHHHHHHHHHHHHHHHHCHHHHHHHHHTTCCHHHHHHTTCEECCC-HHHHHHHHHHHTCHHHHHTTTCEECSSTTCCEE
T ss_pred HHHHHHHHHHHHHHHHhcChHHHHHHHHcCCCHHHHHHhCCCCCCc-hHHHHHHHHhcCCCHHHHHHCCceEecCCCccc
Confidence 44555667778888877777777 9977 9999999999999999 99998876421 11223
Q ss_pred cc--EEEEee-----eeeeeeee-eeCCCCC----CCCCCCcccCccccCchHhHHhhccCCeEEEEecchhHHHHhhhC
Q psy15215 681 SF--LISFFL-----RNHGISGF-LLTTPDP----VHETPLFHKSNELYGLFEAKNAIGKSGYVLITEGYMDVIGLSQFG 748 (1432)
Q Consensus 681 ~f--ri~fpi-----r~igf~gR-~~~~~~~----s~et~~f~K~~~Ly~~~~a~~~~~~~~~~~~vEG~~D~ia~~~~g 748 (1432)
+| |||||| +||||+|| .++++.| ||+|++|+|++.|||++.|++.+.+.+.+|||||||||||+||+|
T Consensus 184 ~f~~ri~fPi~d~~G~vigf~gRr~l~~~~pKylnspet~~f~k~~~lygl~~a~~~i~~~~~viivEG~~Dvlsl~q~G 263 (407)
T 2au3_A 184 LFLRRVVIPIKDPRGRVIGFGGRRIVEDKSPKYINSPDSRVFKKGENLFGLYEAKEYIKEEGFAILVEGYFDLLRLFSEG 263 (407)
T ss_dssp TTTTEEEEEEECTTSCEEEEEEEECSCCSSCSEEECCCCSSCCGGGCEETHHHHHHHHHHHTCEEECSSHHHHHHHHHTT
T ss_pred ccCCeEEEEEECCCCCEEEEEEEEecCCCCCeeecCCCCCCCCCCccccChHHHHHHhccCCeEEEEechHhHHHHHHCC
Confidence 44 599999 69999999 8987666 999999999999999999999888889999999999999999999
Q ss_pred C---------------------CCCeEEEEecCcHHHHHHHHHHHHHhhhhcCCCceEEEecCCCCCCHHHHHHHhChhh
Q psy15215 749 F---------------------FANSSYTCFDGDQAGRRAARRALEVCLLYATDDKIIKFLFLPDKYDPDSYIRKFGYKI 807 (1432)
Q Consensus 749 ~---------------------~~~~i~~~~D~D~aG~~a~~~~~~~~~~~~~~~~~~~~~~lp~~~Dpde~~~~~g~~~ 807 (1432)
+ ++.+||+|||||.||++||.|++..+...|.. ++|+.+|+|+|||||++++|.++
T Consensus 264 ~~n~VA~lGtalt~~~~~~L~r~~~~vil~~D~D~AG~~Aa~r~~~~l~~~g~~---~~v~~lP~gkDpdd~l~~~g~~~ 340 (407)
T 2au3_A 264 IRNVVAPLGTALTQNQANLLSKFTKKVYILYDGDDAGRKAMKSAIPLLLSAGVE---VYPVYLPEGYDPDEFIKEFGKEE 340 (407)
T ss_dssp CCSEEEESSSSCCHHHHHHHHTTCSEEEEECCSSHHHHHHHHHHHHHHHHTTCE---EEEECCCTTCCHHHHHHHHCHHH
T ss_pred CCcEEEcCcccCCHHHHHHHHhcCCeEEEEEcCCHHHHHHHHHHHHHHHhCCCe---EEEEECCCCCChHHHHHhcCHHH
Confidence 8 35899999999999999999999998877665 99999999999999999999999
Q ss_pred hhhc-----cccchhhccc
Q psy15215 808 FSKK-----NAFSFDIKSN 821 (1432)
Q Consensus 808 ~~~~-----~~~~f~~~~~ 821 (1432)
|.+. +.++|.+...
T Consensus 341 ~~~~l~~a~~~~~~~~~~~ 359 (407)
T 2au3_A 341 LRRLINSSGELFETLIKTA 359 (407)
T ss_dssp HHHHHHHCCCHHHHHHHHG
T ss_pred HHHHHHcCCCHHHHHHHHH
Confidence 9774 4444444433
|
| >1rp3_A RNA polymerase sigma factor sigma-28 (FLIA); transcription; 2.30A {Aquifex aeolicus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1sc5_A | Back alignment and structure |
|---|
Probab=99.94 E-value=3e-27 Score=265.58 Aligned_cols=219 Identities=23% Similarity=0.317 Sum_probs=191.3
Q ss_pred hHHHHHHHHHHHHHHHHHhcc---CCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccccc
Q psy15215 1191 AKREMTEANLRLVISIAKKYT---DRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIR 1267 (1432)
Q Consensus 1191 A~~~Li~~~~~lV~~ia~~y~---~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~ir 1267 (1432)
|++.|+..|.++|+++|++|+ +++.+++||+||||++||+++++|++.+|.+|+||+++|+++.+.++++++.+
T Consensus 13 a~~~l~~~~~~~v~~~a~~~~~~~~~~~~aeDl~Qe~~l~l~~~~~~~~~~~~~~f~~~l~~~~~~~~~d~~r~~~~--- 89 (239)
T 1rp3_A 13 EREELILKYLPLVKAIATNIKKHLPEDVDIRDLISYGVIGLIKAVDNLSTENPKRAEAYIKLRIKGAIYDYLRSLDF--- 89 (239)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTSCTTSCHHHHHHHHHHHHHHHHHTCCCCCTHHHHHHHHHHHHHHHHHHHHTSST---
T ss_pred HHHHHHHHhHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHHHHHHHHHhcCc---
Confidence 899999999999999999998 67899999999999999999999999988899999999999999999998764
Q ss_pred ccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHcc--CCCCCCCCCCCCCCCCcCcccccCCCC
Q psy15215 1268 IPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAK--EPVSMESPVGDDEDSHLGDFIEDENML 1345 (1432)
Q Consensus 1268 ip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~--~~~Sl~~~~~~~~~~~~~d~i~d~~~~ 1345 (1432)
.|.+.....++++++...+.+..|+.|+.+++|+.+|++++.+..++.... ..+|++.+..++++.. .+. .+. ..
T Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~~~-~~~-~~~-~~ 166 (239)
T 1rp3_A 90 GSRQVREKERRIKEVVEKLKEKLGREPTDEEVAKELGISTEELFKTLDKINFSYILSLEEVFRDFARDY-SEL-IPS-ST 166 (239)
T ss_dssp TCHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-TTT-GGG-SC
T ss_pred cchHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHHHHhccCCCccccccccCCCccc-ccc-cCC-CC
Confidence 688888889999999999999999999999999999999999999876543 2345555433222222 233 222 34
Q ss_pred ChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchh
Q psy15215 1346 APSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1346 ~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~ 1419 (1432)
+|++.+...+....|..+|++|||++|.||.|+|+.|+ |++|||+.||+|+++|++++++|+++||+...
T Consensus 167 ~~~~~~~~~e~~~~l~~~l~~L~~~~r~vl~l~~~~g~----s~~EIA~~lgis~~~V~~~~~ra~~~Lr~~l~ 236 (239)
T 1rp3_A 167 NVEEEVIKRELTEKVKEAVSKLPEREKLVIQLIFYEEL----PAKEVAKILETSVSRVSQLKAKALERLREMLS 236 (239)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHTSCC----CHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHh
Confidence 78888888888999999999999999999999998888 99999999999999999999999999998553
|
| >1l0o_C Sigma factor; bergerat fold, helix-turn-helix, protein binding; HET: ADP; 2.90A {Geobacillus stearothermophilus} SCOP: a.4.13.2 | Back alignment and structure |
|---|
Probab=99.94 E-value=9.9e-28 Score=269.91 Aligned_cols=237 Identities=26% Similarity=0.417 Sum_probs=54.2
Q ss_pred hhhcCCChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcc
Q psy15215 1164 QTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 1243 (1432)
Q Consensus 1164 e~~~~l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~F 1243 (1432)
+....|+..+...|+.++++|+.. |++.|+..|.++|+++|++|+++..+++||+||||++||+++++|++.+|.+|
T Consensus 5 ~~~~~~~~~~~~~l~~~~~~gd~~---a~~~l~~~~~~~v~~~~~~~~~~~~~aeDl~Qe~~l~l~~~~~~~~~~~~~~f 81 (243)
T 1l0o_C 5 QGQSPIKDQEMKELIRRSQEGDQE---ARDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGCIGLLKSVDKFDLSYDVKF 81 (243)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred cCCCCCCHHHHHHHHHHHHcCCHH---HHHHHHHHhHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHcCcccCCCH
Confidence 445567777888999999999988 99999999999999999999999999999999999999999999999988899
Q ss_pred hhHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCC
Q psy15215 1244 STYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSM 1323 (1432)
Q Consensus 1244 stya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl 1323 (1432)
+||+++|+++.+.++++++. .+++|.++.....+++++...+.+..|+.|+.++++..+|++++.+...+.....+.|+
T Consensus 82 ~~~l~~i~~~~~~d~~r~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~ 160 (243)
T 1l0o_C 82 STYAVPMIIGEIQRFLRDDG-TVKVSRSLKEMGNKIRKAKDELSKTRGRAPTVTEIADHLGISPEDVVLAQEAVRLPTSI 160 (243)
T ss_dssp ------------------CC-CCTTHHHHHHHHHHHHHHHHHHHHHHTSCCBHHHHHHHHTSCHHHHHHHHHHHHC----
T ss_pred HHHHHHHHHHHHHHHHHhcC-CccCcHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHCCCHHHHHHHHHHhccccCc
Confidence 99999999999999999988 78999999999999999999999999999999999999999999999999888788899
Q ss_pred CCCCCCCCC--CCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHH
Q psy15215 1324 ESPVGDDED--SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRE 1401 (1432)
Q Consensus 1324 ~~~~~~~~~--~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~ 1401 (1432)
+.|++++++ .++.+.+ |++.....+....|..+|++||+++|.||.|+|+.|+ |++|||+.||||++
T Consensus 161 ~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~g~----s~~EIA~~lgis~~ 229 (243)
T 1l0o_C 161 HETVYENDGDPITLLDQI-------ADADEASWFDKIALKKAIEELDERERLIVYLRYYKDQ----TQSEVASRLGISQV 229 (243)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred cccccccCCcccchhhcc-------CcchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHhcCC----CHHHHHHHHCcCHH
Confidence 888654432 2233322 2333444556778999999999999999999998888 99999999999999
Q ss_pred HHHHHHHHHHHHhh
Q psy15215 1402 RIRQIEAKALRKLR 1415 (1432)
Q Consensus 1402 ~Vrq~~~rAl~kLr 1415 (1432)
+|++++++|+++||
T Consensus 230 tV~~~~~ra~~~Lr 243 (243)
T 1l0o_C 230 QMSRLEKKILQHIK 243 (243)
T ss_dssp --------------
T ss_pred HHHHHHHHHHHHcC
Confidence 99999999999997
|
| >1rp3_A RNA polymerase sigma factor sigma-28 (FLIA); transcription; 2.30A {Aquifex aeolicus} SCOP: a.4.13.1 a.4.13.2 a.177.1.1 PDB: 1sc5_A | Back alignment and structure |
|---|
Probab=99.94 E-value=2.9e-26 Score=257.50 Aligned_cols=220 Identities=23% Similarity=0.326 Sum_probs=191.8
Q ss_pred hHHHHHHHHHHHHHHHHHhcc---cCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccc
Q psy15215 401 AKREMTEANLRLVISIAKKYT---DRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIR 477 (1432)
Q Consensus 401 A~~~li~~~~~lV~~ia~ky~---~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~ir 477 (1432)
|++.|+..|.++|+++|++|+ +.+.+++||+|||+++||+++++|++.+|.+|+||+++|+++.+.++++++.+
T Consensus 13 a~~~l~~~~~~~v~~~a~~~~~~~~~~~~aeDl~Qe~~l~l~~~~~~~~~~~~~~f~~~l~~~~~~~~~d~~r~~~~--- 89 (239)
T 1rp3_A 13 EREELILKYLPLVKAIATNIKKHLPEDVDIRDLISYGVIGLIKAVDNLSTENPKRAEAYIKLRIKGAIYDYLRSLDF--- 89 (239)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTSCTTSCHHHHHHHHHHHHHHHHHTCCCCCTHHHHHHHHHHHHHHHHHHHHTSST---
T ss_pred HHHHHHHHhHHHHHHHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCcccCCCHHHHHHHHHHHHHHHHHHhcCc---
Confidence 899999999999999999998 67899999999999999999999999988899999999999999999998764
Q ss_pred cchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHcc--CCCCCCCCCCCCCCCCcCcccccCCCC
Q psy15215 478 IPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAK--EPVSMESPVGDDEDSHLGDFIEDENML 555 (1432)
Q Consensus 478 ip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~--~~~sl~~~~~~~~~~~~~~~i~d~~~~ 555 (1432)
.|.+.....+++.++...+.+..|+.|+.+++|..+|++++.+..++.... ..+|++.+..++++.. .+. ++. ..
T Consensus 90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~sl~~~~~~~~~~~-~~~-~~~-~~ 166 (239)
T 1rp3_A 90 GSRQVREKERRIKEVVEKLKEKLGREPTDEEVAKELGISTEELFKTLDKINFSYILSLEEVFRDFARDY-SEL-IPS-ST 166 (239)
T ss_dssp TCHHHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-TTT-GGG-SC
T ss_pred cchHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHhCcCHHHHHHHHHHhccCCCccccccccCCCccc-ccc-cCC-CC
Confidence 688888889999999999999999999999999999999999999876543 2345554432222112 233 222 35
Q ss_pred ChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 556 APSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 556 ~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
+|++.+...+....|..+|++||++++.||.|+|+.|+ |++|||+.||+|+++|+++.++|+++|++.+..
T Consensus 167 ~~~~~~~~~e~~~~l~~~l~~L~~~~r~vl~l~~~~g~----s~~EIA~~lgis~~~V~~~~~ra~~~Lr~~l~~ 237 (239)
T 1rp3_A 167 NVEEEVIKRELTEKVKEAVSKLPEREKLVIQLIFYEEL----PAKEVAKILETSVSRVSQLKAKALERLREMLSN 237 (239)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHTSCC----CHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHC
T ss_pred CHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHhc
Confidence 78888888888999999999999999999999998888 999999999999999999999999999988753
|
| >1l0o_C Sigma factor; bergerat fold, helix-turn-helix, protein binding; HET: ADP; 2.90A {Geobacillus stearothermophilus} SCOP: a.4.13.2 | Back alignment and structure |
|---|
Probab=99.93 E-value=7.4e-27 Score=262.79 Aligned_cols=238 Identities=26% Similarity=0.419 Sum_probs=54.1
Q ss_pred hhhccCCChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCc
Q psy15215 373 LQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 452 (1432)
Q Consensus 373 iE~~~~l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~ 452 (1432)
++....|+..+...|+.+++.||.. |++.|+..|.++|+++|++|+++..+++||+|||+++||+++++|++.+|.+
T Consensus 4 ~~~~~~~~~~~~~~l~~~~~~gd~~---a~~~l~~~~~~~v~~~~~~~~~~~~~aeDl~Qe~~l~l~~~~~~~~~~~~~~ 80 (243)
T 1l0o_C 4 MQGQSPIKDQEMKELIRRSQEGDQE---ARDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGCIGLLKSVDKFDLSYDVK 80 (243)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ccCCCCCCHHHHHHHHHHHHcCCHH---HHHHHHHHhHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHcCcccCCC
Confidence 3455677888889999999999988 9999999999999999999999999999999999999999999999988889
Q ss_pred cHHHHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCC
Q psy15215 453 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVS 532 (1432)
Q Consensus 453 Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~s 532 (1432)
|+||+++|++|.+.++++++. .+++|.++.....+++++...+.+..|+.|+.++++..+|++++.+...+.....+.|
T Consensus 81 f~~~l~~i~~~~~~d~~r~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s 159 (243)
T 1l0o_C 81 FSTYAVPMIIGEIQRFLRDDG-TVKVSRSLKEMGNKIRKAKDELSKTRGRAPTVTEIADHLGISPEDVVLAQEAVRLPTS 159 (243)
T ss_dssp -------------------CC-CCTTHHHHHHHHHHHHHHHHHHHHHHTSCCBHHHHHHHHTSCHHHHHHHHHHHHC---
T ss_pred HHHHHHHHHHHHHHHHHHhcC-CccCcHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHCCCHHHHHHHHHHhccccC
Confidence 999999999999999999987 7899999999999999999999999999999999999999999999999888878888
Q ss_pred CCCCCCCCCC--CCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccch
Q psy15215 533 MESPVGDDED--SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTR 610 (1432)
Q Consensus 533 l~~~~~~~~~--~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~ 610 (1432)
++.|++++++ .++.+.+ |.+.....+....|..+|++||++++.||.|+|+.|+ |++|||+.||+|+
T Consensus 160 ~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~g~----s~~EIA~~lgis~ 228 (243)
T 1l0o_C 160 IHETVYENDGDPITLLDQI-------ADADEASWFDKIALKKAIEELDERERLIVYLRYYKDQ----TQSEVASRLGISQ 228 (243)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ccccccccCCcccchhhcc-------CcchhHHHHHHHHHHHHHHhCCHHHHHHHHHHHhcCC----CHHHHHHHHCcCH
Confidence 9887654332 2233332 2233444556778999999999999999999998888 9999999999999
Q ss_pred hHHHHHHHHHHHHHH
Q psy15215 611 ERIRQIEAKALRKLR 625 (1432)
Q Consensus 611 ~~v~~~~~rAl~kLr 625 (1432)
++|+++.++|+++||
T Consensus 229 ~tV~~~~~ra~~~Lr 243 (243)
T 1l0o_C 229 VQMSRLEKKILQHIK 243 (243)
T ss_dssp ---------------
T ss_pred HHHHHHHHHHHHHcC
Confidence 999999999999986
|
| >1or7_A Sigma-24, RNA polymerase sigma-E factor; regulation, DNA-binding, transmembrane, transcription; 2.00A {Escherichia coli} SCOP: a.4.13.2 a.177.1.1 PDB: 2h27_A | Back alignment and structure |
|---|
Probab=99.80 E-value=1.4e-19 Score=196.29 Aligned_cols=179 Identities=18% Similarity=0.216 Sum_probs=140.1
Q ss_pred HHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHH
Q psy15215 1174 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 1253 (1432)
Q Consensus 1174 ~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~ 1253 (1432)
...|+.+++.|+.. |++.|+..|.+.|+++|++|++ ..+++|++||+|+++|+++++|++.. .|.+|++.+++|
T Consensus 10 ~~~l~~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~~~-~~~aeDl~Qe~~l~~~~~~~~~~~~~--~~~~~l~~i~~n 83 (194)
T 1or7_A 10 DQVLVERVQKGDQK---AFNLLVVRYQHKVASLVSRYVP-SGDVPDVVQEAFIKAYRALDSFRGDS--AFYTWLYRIAVN 83 (194)
T ss_dssp HHHHHHHHHTTCHH---HHHHHHHHHHHHHHHHHTTTSC-GGGHHHHHHHHHHHHHHHGGGCCSSS--CHHHHHHHHHHH
T ss_pred hHHHHHHHHccCHH---HHHHHHHHHHHHHHHHHHHHcC-HHhHHHHHHHHHHHHHHhHHhcCCcc--chHHHHHHHHHH
Confidence 45788999999988 9999999999999999999999 89999999999999999999999864 599999999999
Q ss_pred HHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCC
Q psy15215 1254 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS 1333 (1432)
Q Consensus 1254 ~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~ 1333 (1432)
.+.+++|++.+..+.. . +.. . . ...++.+
T Consensus 84 ~~~d~~R~~~~~~~~~----~------------------------~~~-----------~---~--~~~~~~~------- 112 (194)
T 1or7_A 84 TAKNYLVAQGRRPPSS----D------------------------VDA-----------I---E--AENFESG------- 112 (194)
T ss_dssp HHHHHHHHHTTCCTHH----H------------------------HHH-----------H---H--HHSCCSS-------
T ss_pred HHHHHHHHHhccCccc----c------------------------ccc-----------c---c--ccccccc-------
Confidence 9999999887632110 0 000 0 0 0001100
Q ss_pred CcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHH
Q psy15215 1334 HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRK 1413 (1432)
Q Consensus 1334 ~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~k 1413 (1432)
+.+.+ ..+|++.+...+....+..+|..||+++|.||.|+|+.|+ |++|||+.||+|+++|+++++||+++
T Consensus 113 ---~~~~~--~~~~~~~~~~~e~~~~l~~~l~~L~~~~r~vl~l~~~~g~----s~~EIA~~lgis~~tV~~~l~ra~~~ 183 (194)
T 1or7_A 113 ---GALKE--ISNPENLMLSEELRQIVFRTIESLPEDLRMAITLRELDGL----SYEEIAAIMDCPVGTVRSRIFRAREA 183 (194)
T ss_dssp ---CC----------CEEEHHHHHHHHHHHHHHSCHHHHHHHHHHHTTCC----CHHHHHHHTTSCHHHHHHHHHHHHHH
T ss_pred ---ccccC--CCChHHHHHHHHHHHHHHHHHHhCCHHHHHHhHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 00011 0134333334456678889999999999999999999888 99999999999999999999999999
Q ss_pred hhCch
Q psy15215 1414 LRHPS 1418 (1432)
Q Consensus 1414 Lr~~~ 1418 (1432)
||+..
T Consensus 184 Lr~~l 188 (194)
T 1or7_A 184 IDNKV 188 (194)
T ss_dssp HHHHH
T ss_pred HHHHH
Confidence 99844
|
| >1nui_A DNA primase/helicase; zinc-biding domain, toprim fold, DNA replication, DNA-direct polymerase, primosome, late protein, ATP-binding; HET: DNA; 2.90A {Enterobacteria phage T7} SCOP: e.13.1.2 g.41.3.2 | Back alignment and structure |
|---|
Probab=99.79 E-value=6.8e-20 Score=207.36 Aligned_cols=145 Identities=15% Similarity=0.077 Sum_probs=116.0
Q ss_pred hhhhhH-hhcC--CCcccccccccCCCCCchhhHHHHHHHHHHhhhccEEEEee-----eeeeeeeeeeCCCCC-CCCCC
Q psy15215 638 QNEKII-ACSS--DSSNHNEHVTNNNFPPGFNIFHKLLRILQEYLESFLISFFL-----RNHGISGFLLTTPDP-VHETP 708 (1432)
Q Consensus 638 ~~~~~~-~l~~--l~~~~~~~f~~Gyap~~~~~l~~~~~~~~~~~~~fri~fpi-----r~igf~gR~~~~~~~-s~et~ 708 (1432)
+...+. ||.. ||.++|+.|++||+..+. ...||||| ++|||.+|.++ ..| -..|+
T Consensus 73 ~~~~~~~YL~~RGi~~~~i~~f~~~~~~~~g---------------~~~i~fp~~d~~G~vvg~~~R~~~-~~~Ky~~s~ 136 (255)
T 1nui_A 73 ESNGRYSALTARGISKETCQKAGYWIAKVDG---------------VMYQVADYRDQNGNIVSQKVRDKD-KNFKTTGSH 136 (255)
T ss_dssp GTTCBCCCBGGGTBCHHHHHHHTEEEEEETT---------------EEEEEEEEECTTSCEEEEEEECTT-CCCEEEECC
T ss_pred ccHHHHHHHHHcCCCHHHHHHhCeEEEccCC---------------cEEEEEEEECCCCCEEEEEEECCC-CCceEecCC
Confidence 344455 8877 999999999999974311 11389999 69999999953 333 11122
Q ss_pred CcccCccccCchHhHHhhccCCeEEEEecchhHHHHhhh-CC--------------------------CCCeEEEEecCc
Q psy15215 709 LFHKSNELYGLFEAKNAIGKSGYVLITEGYMDVIGLSQF-GF--------------------------FANSSYTCFDGD 761 (1432)
Q Consensus 709 ~f~K~~~Ly~~~~a~~~~~~~~~~~~vEG~~D~ia~~~~-g~--------------------------~~~~i~~~~D~D 761 (1432)
|+..|||++.++ +.+.+|||||||||||++|+ |+ ...+||+|||||
T Consensus 137 ---k~~~lyg~~~~~----~~~~v~i~EG~~Dals~~~~~g~~~~v~slg~~~~~~~~~l~~~~~~l~~~~~iil~~D~D 209 (255)
T 1nui_A 137 ---KSDALFGKHLWN----GGKKIVVTEGEIDMLTVMELQDCKYPVVSLGHGASAAKKTCAANYEYFDQFEQIILMFDMD 209 (255)
T ss_dssp ---CTTCCTTGGGCC----CBSCCEEESSHHHHHHHHHHHTTCSCEECCTTTTTTHHHHHHHTHHHHTTBSCEEEECCSS
T ss_pred ---CCccccCccccC----CCCEEEEEeCHHHHHHHHHhhCCCcEEEECCCccchhHHHHHHHHHHhcCCCEEEEEeCCC
Confidence 888999999884 46789999999999999999 54 136899999999
Q ss_pred HHHHHHHHHHHHHhhhhcCCCceEEEecCCCCCCHHHHHHHhChhhhhhc
Q psy15215 762 QAGRRAARRALEVCLLYATDDKIIKFLFLPDKYDPDSYIRKFGYKIFSKK 811 (1432)
Q Consensus 762 ~aG~~a~~~~~~~~~~~~~~~~~~~~~~lp~~~Dpde~~~~~g~~~~~~~ 811 (1432)
.||++||.++...+.. + . |+++.+| ++|||||++++|.++|.+.
T Consensus 210 ~aG~~aa~~~~~~l~~-~-~---v~~~~~p-~kD~nd~l~~~g~~~~~~~ 253 (255)
T 1nui_A 210 EAGRKAVEEAAQVLPA-G-K---VRVAVLP-CKDANECHLNGHDREIMEQ 253 (255)
T ss_dssp HHHHHHHHHHHHHSCT-T-T---EEECCCS-SSSHHHHHTTTTHHHHHHH
T ss_pred HHHHHHHHHHHHhccC-C-C---EEEEeCC-CCCHHHHHHhcCHHHHHHH
Confidence 9999999999997753 3 3 8888899 9999999999999999764
|
| >1or7_A Sigma-24, RNA polymerase sigma-E factor; regulation, DNA-binding, transmembrane, transcription; 2.00A {Escherichia coli} SCOP: a.4.13.2 a.177.1.1 PDB: 2h27_A | Back alignment and structure |
|---|
Probab=99.78 E-value=8.6e-19 Score=190.06 Aligned_cols=183 Identities=18% Similarity=0.221 Sum_probs=142.5
Q ss_pred HHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHH
Q psy15215 384 LRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 463 (1432)
Q Consensus 384 ~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~ 463 (1432)
...|+.+++.||.. |+..|+..|.+.|+++|.+|++ ..+++|++||+++++|+++++|++.. +|.+|++.+++|
T Consensus 10 ~~~l~~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~~~-~~~aeDl~Qe~~l~~~~~~~~~~~~~--~~~~~l~~i~~n 83 (194)
T 1or7_A 10 DQVLVERVQKGDQK---AFNLLVVRYQHKVASLVSRYVP-SGDVPDVVQEAFIKAYRALDSFRGDS--AFYTWLYRIAVN 83 (194)
T ss_dssp HHHHHHHHHTTCHH---HHHHHHHHHHHHHHHHHTTTSC-GGGHHHHHHHHHHHHHHHGGGCCSSS--CHHHHHHHHHHH
T ss_pred hHHHHHHHHccCHH---HHHHHHHHHHHHHHHHHHHHcC-HHhHHHHHHHHHHHHHHhHHhcCCcc--chHHHHHHHHHH
Confidence 56789999999998 9999999999999999999999 89999999999999999999999764 699999999999
Q ss_pred HHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCC
Q psy15215 464 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDS 543 (1432)
Q Consensus 464 ~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~ 543 (1432)
.+.+++|++.+..+.. . .. +. ....++.+
T Consensus 84 ~~~d~~R~~~~~~~~~-~-~~-----------------------~~-------------------~~~~~~~~------- 112 (194)
T 1or7_A 84 TAKNYLVAQGRRPPSS-D-VD-----------------------AI-------------------EAENFESG------- 112 (194)
T ss_dssp HHHHHHHHHTTCCTHH-H-HH-----------------------HH-------------------HHHSCCSS-------
T ss_pred HHHHHHHHHhccCccc-c-cc-----------------------cc-------------------cccccccc-------
Confidence 9999999887632110 0 00 00 00001100
Q ss_pred CcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHH
Q psy15215 544 HLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRK 623 (1432)
Q Consensus 544 ~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~k 623 (1432)
+.+++ ..+|++.+...+....+..+|.+||++++.||.|+|+.|+ |++|||+.+|+|+++|+++.++|+++
T Consensus 113 ---~~~~~--~~~~~~~~~~~e~~~~l~~~l~~L~~~~r~vl~l~~~~g~----s~~EIA~~lgis~~tV~~~l~ra~~~ 183 (194)
T 1or7_A 113 ---GALKE--ISNPENLMLSEELRQIVFRTIESLPEDLRMAITLRELDGL----SYEEIAAIMDCPVGTVRSRIFRAREA 183 (194)
T ss_dssp ---CC----------CEEEHHHHHHHHHHHHHHSCHHHHHHHHHHHTTCC----CHHHHHHHTTSCHHHHHHHHHHHHHH
T ss_pred ---ccccC--CCChHHHHHHHHHHHHHHHHHHhCCHHHHHHhHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence 00011 0133333334456678899999999999999999998888 99999999999999999999999999
Q ss_pred HHHHHHHHH
Q psy15215 624 LRPLAHDWL 632 (1432)
Q Consensus 624 Lr~~l~~~~ 632 (1432)
|++.+..++
T Consensus 184 Lr~~l~~~~ 192 (194)
T 1or7_A 184 IDNKVQPLI 192 (194)
T ss_dssp HHHHHCC--
T ss_pred HHHHHHHHh
Confidence 999886554
|
| >3mzy_A RNA polymerase sigma-H factor; PSI, MCSG, structural genomics, midwest center for structura genomics, protein structure initiative; 2.50A {Fusobacterium nucleatum subsp} | Back alignment and structure |
|---|
Probab=99.75 E-value=3.7e-18 Score=179.38 Aligned_cols=154 Identities=18% Similarity=0.213 Sum_probs=107.9
Q ss_pred CCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCC
Q psy15215 1214 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSE 1293 (1432)
Q Consensus 1214 ~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~ 1293 (1432)
|.+++|++||||+++|+++.+|++.+ .+|+||++++++|.+.+++|++.+..+.|..
T Consensus 1 g~daeDl~Qe~~~~l~~~~~~~~~~~-~~f~~~l~~i~~n~~~d~~r~~~~~~~~~~~---------------------- 57 (164)
T 3mzy_A 1 GAEKEDLVQEGILGLLKAIKFYDETK-SSFSSFAFLCIRREMISAIRKANTQKHMVLN---------------------- 57 (164)
T ss_dssp ----CTTHHHHHHHHHHHHHHCCTTT-SCHHHHHHHHHHHHHHHHHHHHHHCC---------------------------
T ss_pred CCcHHHHHHHHHHHHHHHHHHhCccC-CChHHHhHHHHHHHHHHHHHHhhcccchhhH----------------------
Confidence 57899999999999999999999887 6899999999999999999998753332211
Q ss_pred CCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcC----cccccCCCCChHHHHHHHHHHHHHHHHHc-cCC
Q psy15215 1294 PDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLG----DFIEDENMLAPSDAALNASMRSVVKDILN-SLT 1368 (1432)
Q Consensus 1294 pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~----d~i~d~~~~~p~~~~~~~~~~~~l~~~L~-~L~ 1368 (1432)
.+++.+.+..++....+. +.+. ....+|++.+...+....+..+|. .||
T Consensus 58 -------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~e~~~~l~~~l~~~L~ 111 (164)
T 3mzy_A 58 -------------------------EALKTNAILEDSAYFDDEGHNINNYK-SSESNPEEAYLLKEEIEEFKKFSENNFS 111 (164)
T ss_dssp ----------------------------------------------------------CHHHHHHHHHHHHHHHHHHHSC
T ss_pred -------------------------HHhhhhhhhccCCCCCcccchhhhhc-ccCCCHHHHHHHHHHHHHHHHHHHhhCC
Confidence 112222222221111111 1111 223467788888888999999999 999
Q ss_pred HHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhh
Q psy15215 1369 PRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYY 1421 (1432)
Q Consensus 1369 ~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~ 1421 (1432)
|++|.||. +|+.|+ |++|||+.||+|+++|+++++||+++||+.....
T Consensus 112 ~~~r~v~~-~~~~g~----s~~EIA~~lgis~~tV~~~~~ra~~~Lr~~l~~~ 159 (164)
T 3mzy_A 112 KFEKEVLT-YLIRGY----SYREIATILSKNLKSIDNTIQRIRKKSEEWIKEE 159 (164)
T ss_dssp HHHHHHHH-HHTTTC----CHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHH-HHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHc
Confidence 99999999 788888 9999999999999999999999999999965543
|
| >1q57_A DNA primase/helicase; dntpase, DNA replication, transferase; HET: DNA; 3.45A {Enterobacteria phage T7} SCOP: c.37.1.11 e.13.1.2 | Back alignment and structure |
|---|
Probab=99.74 E-value=4.6e-19 Score=220.94 Aligned_cols=141 Identities=16% Similarity=0.072 Sum_probs=117.1
Q ss_pred hhhhH-hhcC--CCcccccccccCCCCCchhhHHHHHHHHHHhhhccEEEEee-----eeeeeeeeeeCCCCC----CCC
Q psy15215 639 NEKII-ACSS--DSSNHNEHVTNNNFPPGFNIFHKLLRILQEYLESFLISFFL-----RNHGISGFLLTTPDP----VHE 706 (1432)
Q Consensus 639 ~~~~~-~l~~--l~~~~~~~f~~Gyap~~~~~l~~~~~~~~~~~~~fri~fpi-----r~igf~gR~~~~~~~----s~e 706 (1432)
...++ ||.. ||.++|++|++||+|... +.+||||| ++|||++|.. +..| ||
T Consensus 11 ~~~~~~YL~~Rgi~~~~~~~~~~~~~~~~g---------------~~~i~fp~~d~~G~~~g~~~R~~-~~~~ky~~~~- 73 (503)
T 1q57_A 11 SNGRYSALTARGISKETCQKAGYWIAKVDG---------------VMYQVADYRDQNGNIVSQKVRDK-DKNFKTTGSH- 73 (503)
T ss_dssp BCCBCCCBTTTTBCHHHHHHHTEEECCBTT---------------BCEEEEEEECTTSCEEEEEEEET-TTEEEEEECC-
T ss_pred hhHHHHHHHHCCCCHHHHHHcCeEEECCCC---------------cEEEEEEEECCCCCEEEEEeECC-CCCceEecCC-
Confidence 34456 8877 899999999999999521 12499999 5999999993 3333 44
Q ss_pred CCCcccCccccCchHhHHhhccCCeEEEEecchhHHHHhhh-CC--------------------------CCCeEEEEec
Q psy15215 707 TPLFHKSNELYGLFEAKNAIGKSGYVLITEGYMDVIGLSQF-GF--------------------------FANSSYTCFD 759 (1432)
Q Consensus 707 t~~f~K~~~Ly~~~~a~~~~~~~~~~~~vEG~~D~ia~~~~-g~--------------------------~~~~i~~~~D 759 (1432)
|+..|||++.++ +.+.+|||||||||||++|+ |+ ...+|++|||
T Consensus 74 -----k~~~lyg~~~~~----~~~~v~i~EG~~D~ls~~~~~g~~~~v~slg~~~~~~~~~l~~~l~~l~~~~~ivl~~D 144 (503)
T 1q57_A 74 -----KSDALFGKHLWN----GGKKIVVTEGEIDMLTVMELQDCKYPVVSLGHGASAAKKTCAANYEYFDQFEQIILMFD 144 (503)
T ss_dssp -----CTTCEETGGGCS----SEEEEEEESSHHHHHHHTTTTTTCSCEEEESSTTTTHHHHHHTTHHHHHTEEEEEEECC
T ss_pred -----CCCceECccccC----CCCEEEEECCHHHHHHHHHhcCCCcEEEECCcccchhHHHHHHHHHhhcCCCEEEEEeC
Confidence 788999999885 46789999999999999999 85 1358999999
Q ss_pred CcHHHHHHHHHHHHHhhhhcCCCceEEEecCCCCCCHHHHHHHhChhhhhhc
Q psy15215 760 GDQAGRRAARRALEVCLLYATDDKIIKFLFLPDKYDPDSYIRKFGYKIFSKK 811 (1432)
Q Consensus 760 ~D~aG~~a~~~~~~~~~~~~~~~~~~~~~~lp~~~Dpde~~~~~g~~~~~~~ 811 (1432)
||.||++|+.++...+... .|+++.+| ++|||||++++|.++|.+.
T Consensus 145 ~D~aG~~aa~~~~~~l~~~-----~~~~~~~p-~kD~nd~l~~~g~~~~~~~ 190 (503)
T 1q57_A 145 MDEAGRKAVEEAAQVLPAG-----KVRVAVLP-CKDANECHLNGHDREIMEQ 190 (503)
T ss_dssp SSHHHHHHHHHHHHHSCGG-----GEEECCCS-SSSHHHHHTTSCHHHHHHH
T ss_pred CCHHHHHHHHHHHHhcccC-----cEEEEeCC-CCCHHHHHHhcCHHHHHHH
Confidence 9999999999999977643 38888899 9999999999999998764
|
| >3mzy_A RNA polymerase sigma-H factor; PSI, MCSG, structural genomics, midwest center for structura genomics, protein structure initiative; 2.50A {Fusobacterium nucleatum subsp} | Back alignment and structure |
|---|
Probab=99.72 E-value=2.4e-17 Score=173.14 Aligned_cols=153 Identities=18% Similarity=0.237 Sum_probs=108.1
Q ss_pred CCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCC
Q psy15215 424 GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSE 503 (1432)
Q Consensus 424 ~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~ 503 (1432)
|.+++|++|||+++||+++.+|++.+ .+|+||++++++|.+.++++++.+..+.|..
T Consensus 1 g~daeDl~Qe~~~~l~~~~~~~~~~~-~~f~~~l~~i~~n~~~d~~r~~~~~~~~~~~---------------------- 57 (164)
T 3mzy_A 1 GAEKEDLVQEGILGLLKAIKFYDETK-SSFSSFAFLCIRREMISAIRKANTQKHMVLN---------------------- 57 (164)
T ss_dssp ----CTTHHHHHHHHHHHHHHCCTTT-SCHHHHHHHHHHHHHHHHHHHHHHCC---------------------------
T ss_pred CCcHHHHHHHHHHHHHHHHHHhCccC-CChHHHhHHHHHHHHHHHHHHhhcccchhhH----------------------
Confidence 57899999999999999999999877 6999999999999999999998754333211
Q ss_pred CCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcC----cccccCCCCChHHHHHHHHHHHHHHHHHh-cCC
Q psy15215 504 PDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLG----DFIEDENMLAPSDAALNASMRSVVKDILN-SLT 578 (1432)
Q Consensus 504 pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~----~~i~d~~~~~p~~~~~~~~~~~~l~~~L~-~L~ 578 (1432)
.+++.+.+..++....+. +.+. ....+|++.+...+....+..+|. .||
T Consensus 58 -------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~e~~~~l~~~l~~~L~ 111 (164)
T 3mzy_A 58 -------------------------EALKTNAILEDSAYFDDEGHNINNYK-SSESNPEEAYLLKEEIEEFKKFSENNFS 111 (164)
T ss_dssp ----------------------------------------------------------CHHHHHHHHHHHHHHHHHHHSC
T ss_pred -------------------------HHhhhhhhhccCCCCCcccchhhhhc-ccCCCHHHHHHHHHHHHHHHHHHHhhCC
Confidence 111222221111111111 1111 123467888888888999999999 999
Q ss_pred HHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 579 PRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 579 ~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
++++.||. +|..|+ |++|||+.||+|+++|+++.++|+++|++.+..
T Consensus 112 ~~~r~v~~-~~~~g~----s~~EIA~~lgis~~tV~~~~~ra~~~Lr~~l~~ 158 (164)
T 3mzy_A 112 KFEKEVLT-YLIRGY----SYREIATILSKNLKSIDNTIQRIRKKSEEWIKE 158 (164)
T ss_dssp HHHHHHHH-HHTTTC----CHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHH-HHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999 788888 999999999999999999999999999998864
|
| >2lfw_A PHYR sigma-like domain; signal transduction, response regulator, sigma factor mimicr sigma factor, general stress response, signaling protein; NMR {Sphingomonas SP} | Back alignment and structure |
|---|
Probab=99.56 E-value=2.1e-16 Score=165.33 Aligned_cols=143 Identities=14% Similarity=0.125 Sum_probs=119.6
Q ss_pred hHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhcccccccc
Q psy15215 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 1270 (1432)
Q Consensus 1191 A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 1270 (1432)
+|+.|+..|.+.|+++|.+++++..+++|++||+|+++|++.++|++.. .|.+|++.+++|.+.+++|+...
T Consensus 2 ~f~~l~~~~~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~~--~~~~wl~~ia~n~~~d~~R~~~~------ 73 (157)
T 2lfw_A 2 SLGQQLAPHLPFLRRYGRALTGSQNQGDKYVRATLEAIVAAPDQFPRDV--DPRLGLYRMFQGIWASANADGEA------ 73 (157)
T ss_dssp TGGGGTGGGGGGGTTTGGGTTSCHHHHHHHHHHHHHTTTTCGGGCCCSS--CTTHHHHHHHHHHHHHHTTTTSC------
T ss_pred CHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHHcCCCC--cHHHHHHHHHHHHHHHHhhccCc------
Confidence 4678999999999999999999999999999999999999999998753 69999999999999999875320
Q ss_pred cHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 1271 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 1350 (1432)
Q Consensus 1271 ~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~~~~~p~~~ 1350 (1432)
+ +.+. + ..
T Consensus 74 -----------------------~-----------------------------~~~~---e---------~~-------- 81 (157)
T 2lfw_A 74 -----------------------Q-----------------------------TSQS---D---------AE-------- 81 (157)
T ss_dssp -----------------------C-----------------------------CCCC---S---------CS--------
T ss_pred -----------------------c-----------------------------cCCc---c---------hH--------
Confidence 0 0000 0 00
Q ss_pred HHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhh
Q psy15215 1351 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYY 1421 (1432)
Q Consensus 1351 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~ 1421 (1432)
+....+..+|..||+++|.||.|+|..|+ |++|||+.||+|.++|+++++||+++||......
T Consensus 82 ----~~~~~l~~~l~~Lp~~~r~vl~L~~~~g~----s~~EIA~~lgis~~tV~~~l~rar~~Lr~~l~~~ 144 (157)
T 2lfw_A 82 ----GTEAVARARLARMTPLSRQALLLTAMEGF----SPEDAAYLIEVDTSEVETLVTEALAEIEKQTRAL 144 (157)
T ss_dssp ----SSSSTTTTTTTTSCTTHHHHHTTTSSSCC----CHHHHHHTTTSCHHHHHHHHHHHHHHHHTTSSCC
T ss_pred ----HHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHhc
Confidence 00124566899999999999999999888 9999999999999999999999999999966543
|
| >2lfw_A PHYR sigma-like domain; signal transduction, response regulator, sigma factor mimicr sigma factor, general stress response, signaling protein; NMR {Sphingomonas SP} | Back alignment and structure |
|---|
Probab=99.47 E-value=8.1e-16 Score=160.81 Aligned_cols=140 Identities=14% Similarity=0.115 Sum_probs=117.3
Q ss_pred hHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhccccccch
Q psy15215 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 480 (1432)
Q Consensus 401 A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r~irip~ 480 (1432)
++..|+..|.+.|+++|.+++++..+++|++||+|+.+|++.++|++. .+|.+|++.+++|.+.+++|+...
T Consensus 2 ~f~~l~~~~~~~l~~~~~~~~~~~~~AeDlvQe~fl~~~~~~~~~~~~--~~~~~wl~~ia~n~~~d~~R~~~~------ 73 (157)
T 2lfw_A 2 SLGQQLAPHLPFLRRYGRALTGSQNQGDKYVRATLEAIVAAPDQFPRD--VDPRLGLYRMFQGIWASANADGEA------ 73 (157)
T ss_dssp TGGGGTGGGGGGGTTTGGGTTSCHHHHHHHHHHHHHTTTTCGGGCCCS--SCTTHHHHHHHHHHHHHHTTTTSC------
T ss_pred CHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhHHHcCCC--CcHHHHHHHHHHHHHHHHhhccCc------
Confidence 367899999999999999999998999999999999999999999875 379999999999999998875320
Q ss_pred hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccCCCCChHHH
Q psy15215 481 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 560 (1432)
Q Consensus 481 ~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~~~~~p~~~ 560 (1432)
+ +.+. + ..
T Consensus 74 -----------------------~-----------------------------~~~~---e---------~~-------- 81 (157)
T 2lfw_A 74 -----------------------Q-----------------------------TSQS---D---------AE-------- 81 (157)
T ss_dssp -----------------------C-----------------------------CCCC---S---------CS--------
T ss_pred -----------------------c-----------------------------cCCc---c---------hH--------
Confidence 0 0000 0 00
Q ss_pred HHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 561 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 561 ~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
+....+..+|.+||+++|.||.|+|..|+ |++|||+.+|+|.++|+++.++|+++|++.+
T Consensus 82 ----~~~~~l~~~l~~Lp~~~r~vl~L~~~~g~----s~~EIA~~lgis~~tV~~~l~rar~~Lr~~l 141 (157)
T 2lfw_A 82 ----GTEAVARARLARMTPLSRQALLLTAMEGF----SPEDAAYLIEVDTSEVETLVTEALAEIEKQT 141 (157)
T ss_dssp ----SSSSTTTTTTTTSCTTHHHHHTTTSSSCC----CHHHHHHTTTSCHHHHHHHHHHHHHHHHTTS
T ss_pred ----HHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHH
Confidence 00124667899999999999999999888 9999999999999999999999999998765
|
| >3n0r_A Response regulator; sigma factor, receiver, two-component SI transduction, signaling protein; HET: MSE GOL; 1.25A {Caulobacter vibrioides} PDB: 3t0y_A | Back alignment and structure |
|---|
Probab=99.43 E-value=5.7e-14 Score=161.62 Aligned_cols=144 Identities=10% Similarity=-0.004 Sum_probs=119.5
Q ss_pred hhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHh
Q psy15215 1183 AGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 1262 (1432)
Q Consensus 1183 ~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~ 1262 (1432)
+|+.. +|..|+..|.+.|+++|.+|+++..+++|++||+|+.+|+...+|++. .+|.||++.+++|.+.+++|+.
T Consensus 17 ~g~~~---~f~~l~~~~~~~l~~~a~~~~~~~~~AeD~vQe~fl~~~~~~~~~~~~--~~~~~wL~~ia~n~~~d~~r~~ 91 (286)
T 3n0r_A 17 RGSEM---HLLARLAPHLPYIRRYARALTGDQATGDHYVRVALEALAAGELVLDAN--LSPRVALYRVFHAIWLSSGAQL 91 (286)
T ss_dssp ---CC---CHHHHHGGGHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHTTSSCCCSS--SCHHHHHHHHHHHHHSCTTC--
T ss_pred CCCcC---CHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHhCchhcCCC--cChHHHHHHHHHHHHHhhcccc
Confidence 46666 999999999999999999999999999999999999999999999864 4799999999999998877632
Q ss_pred cccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccC
Q psy15215 1263 ARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDE 1342 (1432)
Q Consensus 1263 ~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~~~~~~~d~i~d~ 1342 (1432)
.. + .....
T Consensus 92 ~~-------------------------------------------------------------~--~~~~~--------- 99 (286)
T 3n0r_A 92 EV-------------------------------------------------------------G--HDQGL--------- 99 (286)
T ss_dssp ---------------------------------------------------------------C--CCCCC---------
T ss_pred cc-------------------------------------------------------------C--CCccc---------
Confidence 10 0 00000
Q ss_pred CCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchh
Q psy15215 1343 NMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1343 ~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~ 1419 (1432)
. ....+..+|++||+++|.||.|+|..|+ |++|||+.+|+|..+|+..+.+|+++|+....
T Consensus 100 ~------------~~~~l~~al~~Lp~~~R~v~~L~~~eg~----s~~EIA~~lgis~~tVks~l~rA~~~Lr~~l~ 160 (286)
T 3n0r_A 100 H------------AGDDAAQRLMRIAPRSRQAFLLTALEGF----TPTEAAQILDCDFGEVERLIGDAQAEIDAELA 160 (286)
T ss_dssp C------------TTSHHHHHHHHHSCHHHHHHHHHHTTCC----CHHHHHHHHTCCHHHHHHHHHHHHHHHHTSCC
T ss_pred c------------hHHHHHHHHHhCCHHHeeEEEEEeeCCC----CHHHHHHHhCcCHHHHHHHHHHHHhhhhccCC
Confidence 0 0124788999999999999999999888 99999999999999999999999999998654
|
| >3t72_q RNA polymerase sigma factor RPOD, DNA-directed RN polymerase subunit beta; winged-helix motif, transcription activation, DNA-binding; 4.33A {Escherichia coli} PDB: 1tlh_B | Back alignment and structure |
|---|
Probab=99.33 E-value=3.3e-12 Score=120.93 Aligned_cols=81 Identities=68% Similarity=0.934 Sum_probs=74.7
Q ss_pred HHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHhhhc
Q psy15215 1349 DAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428 (1432)
Q Consensus 1349 ~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~~~~ 1428 (1432)
+.+...++...|..+|+.|||++|.||.|||+.+.+.++|++|||+.||+|++||++++++|+++||+..++..|++|+.
T Consensus 2 ~~~~~~el~~~l~~aL~~Lp~reR~Vi~Lry~l~~~e~~s~~EIA~~lgiS~~tVr~~~~rAlkkLR~~~~~~~l~~~~~ 81 (99)
T 3t72_q 2 DSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSGSS 81 (99)
T ss_pred HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34566788899999999999999999999999776677899999999999999999999999999999999999999997
Q ss_pred c
Q psy15215 1429 G 1429 (1432)
Q Consensus 1429 ~ 1429 (1432)
.
T Consensus 82 ~ 82 (99)
T 3t72_q 82 G 82 (99)
T ss_pred h
Confidence 5
|
| >3n0r_A Response regulator; sigma factor, receiver, two-component SI transduction, signaling protein; HET: MSE GOL; 1.25A {Caulobacter vibrioides} PDB: 3t0y_A | Back alignment and structure |
|---|
Probab=99.32 E-value=7.8e-13 Score=152.13 Aligned_cols=141 Identities=11% Similarity=0.006 Sum_probs=116.1
Q ss_pred HhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHh
Q psy15215 393 AGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 472 (1432)
Q Consensus 393 ~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~ 472 (1432)
+|+.. +|..|+..|.+.|+.+|.+|+++..+++|++||.|+.+|+...+|++. .+|.+|++.+++|.+.+++|+.
T Consensus 17 ~g~~~---~f~~l~~~~~~~l~~~a~~~~~~~~~AeD~vQe~fl~~~~~~~~~~~~--~~~~~wL~~ia~n~~~d~~r~~ 91 (286)
T 3n0r_A 17 RGSEM---HLLARLAPHLPYIRRYARALTGDQATGDHYVRVALEALAAGELVLDAN--LSPRVALYRVFHAIWLSSGAQL 91 (286)
T ss_dssp ---CC---CHHHHHGGGHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHTTSSCCCSS--SCHHHHHHHHHHHHHSCTTC--
T ss_pred CCCcC---CHHHHHHHHHHHHHHHHHHHhCCHhhHHHHHHHHHHHHHhCchhcCCC--cChHHHHHHHHHHHHHhhcccc
Confidence 56666 999999999999999999999999999999999999999999999864 4799999999999998776531
Q ss_pred ccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCCCCCCcCcccccC
Q psy15215 473 ARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDE 552 (1432)
Q Consensus 473 ~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~~~~~~~~~i~d~ 552 (1432)
.. + .....
T Consensus 92 ~~-------------------------------------------------------------~--~~~~~--------- 99 (286)
T 3n0r_A 92 EV-------------------------------------------------------------G--HDQGL--------- 99 (286)
T ss_dssp ---------------------------------------------------------------C--CCCCC---------
T ss_pred cc-------------------------------------------------------------C--CCccc---------
Confidence 10 0 00000
Q ss_pred CCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 553 NMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 553 ~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
. ....+..+|++||+++|.||.|+|..|+ |++|||..+|+|.++|+.+..++...++.
T Consensus 100 ~------------~~~~l~~al~~Lp~~~R~v~~L~~~eg~----s~~EIA~~lgis~~tVks~l~rA~~~Lr~ 157 (286)
T 3n0r_A 100 H------------AGDDAAQRLMRIAPRSRQAFLLTALEGF----TPTEAAQILDCDFGEVERLIGDAQAEIDA 157 (286)
T ss_dssp C------------TTSHHHHHHHHHSCHHHHHHHHHHTTCC----CHHHHHHHHTCCHHHHHHHHHHHHHHHHT
T ss_pred c------------hHHHHHHHHHhCCHHHeeEEEEEeeCCC----CHHHHHHHhCcCHHHHHHHHHHHHhhhhc
Confidence 0 0124788999999999999999999998 99999999999999999999999887764
|
| >2k6x_A Sigma-A, RNA polymerase sigma factor RPOD; DNA-binding, transcription, transcription regulation; NMR {Thermotoga maritima} | Back alignment and structure |
|---|
Probab=99.21 E-value=9.8e-12 Score=110.49 Aligned_cols=59 Identities=32% Similarity=0.654 Sum_probs=54.0
Q ss_pred HHHHHHHHHHhccccCcccHHHHHhhCCCCC--CCHHHHHHHHHHHhhCCCcccccCCchh
Q psy15215 39 LRKKFKILIKLGKERGYLTFSEINDFLPEDI--IDHEIIESIIKTFRYMDISVSEHVLDTE 97 (1432)
Q Consensus 39 ~~~~l~~Li~~Gke~G~lTy~EInd~LP~~~--~~~d~id~ii~~L~~~gI~v~d~~~~~~ 97 (1432)
..+.++.||++||++|||||+|||++||++. ++++++|+++..|.++||+|++.+|+.+
T Consensus 7 ~~~~~k~Li~~gK~~G~lTy~EI~d~l~~~~~~ld~e~id~i~~~L~~~gI~Vvd~~~~~~ 67 (72)
T 2k6x_A 7 IERRIKKLISLGKKKGYITYEDIDKAFPPDFEGFDTNLIERIHEELEKHGINIVENEPEEE 67 (72)
T ss_dssp HHHHHHHHHHHHHHHSSCBHHHHHHHCSCSCSSCCHHHHHHHHHHHHHTCCCCBCCSCCSC
T ss_pred HHHHHHHHHHHHhHcCCccHHHHHHhCccccccCCHHHHHHHHHHHHHCCCccccCCcchh
Confidence 4567999999999999999999999999987 8999999999999999999998776543
|
| >1tty_A Sigma-A, RNA polymerase sigma factor RPOD; helix-turn-helix, transcription; NMR {Thermotoga maritima} SCOP: a.4.13.2 | Back alignment and structure |
|---|
Probab=99.02 E-value=5.5e-10 Score=103.91 Aligned_cols=72 Identities=58% Similarity=0.838 Sum_probs=65.3
Q ss_pred HHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHhhhcc
Q psy15215 1358 SVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429 (1432)
Q Consensus 1358 ~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~~~~~ 1429 (1432)
..|..+|+.|||++|.||.++|+++.+.++|++|||+.+|+|++||++++++|+++||.......+++|+..
T Consensus 10 ~~l~~~l~~L~~~er~vl~l~~~l~~~~~~s~~EIA~~lgis~~tV~~~~~ra~~kLr~~l~~~~~~~~~~~ 81 (87)
T 1tty_A 10 EELEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLRHPSRSKYLKSLLSL 81 (87)
T ss_dssp SHHHHHHTTSCHHHHHHHHHHHTTTTSSCCCHHHHHHHHTCCHHHHHHHHHHHHHHHBTTBSSHHHHHHHHH
T ss_pred HHHHHHHHhCCHHHHHHHHHHHccCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence 467889999999999999999985555566999999999999999999999999999999999999998864
|
| >2p7v_B Sigma-70, RNA polymerase sigma factor RPOD; RSD, regulator of sigma 70, sigma 70 domain 4, transcription, regulation, helix-turn-helix; 2.60A {Escherichia coli} SCOP: a.4.13.2 | Back alignment and structure |
|---|
Probab=98.99 E-value=4.6e-10 Score=99.23 Aligned_cols=66 Identities=77% Similarity=1.099 Sum_probs=59.8
Q ss_pred HHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHhhhc
Q psy15215 1363 ILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428 (1432)
Q Consensus 1363 ~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~~~~ 1428 (1432)
+|+.|||+++.||.++||.+...++|++|||+.+|+|+++|++++++|+++||...+...++.|++
T Consensus 2 ~l~~L~~~er~il~l~~~l~~~~g~s~~eIA~~lgis~~tV~~~~~ra~~kLr~~~~~~~~~~~~~ 67 (68)
T 2p7v_B 2 VLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 67 (68)
T ss_dssp CSCCCCHHHHHHHHHHTTTTSSSCCCHHHHHHHHTCCHHHHHHHHHHHHHGGGSCCGGGGGSCTTC
T ss_pred HHHcCCHHHHHHHHHHHccCCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 468899999999999997644456699999999999999999999999999999999999998875
|
| >3hug_A RNA polymerase sigma factor; ECF sigma factor, zinc binding anti-sigma factor, oxidative transcription regulation; 2.35A {Mycobacterium tuberculosis} | Back alignment and structure |
|---|
Probab=98.99 E-value=1.3e-09 Score=102.65 Aligned_cols=74 Identities=15% Similarity=0.192 Sum_probs=68.9
Q ss_pred CCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhh
Q psy15215 1344 MLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYY 1421 (1432)
Q Consensus 1344 ~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~ 1421 (1432)
..+|.+.+...+....|..+|..||+++|.||.|+|+.|+ |++|||+.||+|.++|++++++|+++||+.....
T Consensus 15 ~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~g~----s~~eIA~~lgis~~tV~~~l~ra~~~Lr~~l~~~ 88 (92)
T 3hug_A 15 EQSTPDEVNAALDRLLIADALAQLSAEHRAVIQRSYYRGW----STAQIATDLGIAEGTVKSRLHYAVRALRLTLQEL 88 (92)
T ss_dssp CCCHHHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHTSCC----CHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCchHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHh
Confidence 4579999999999999999999999999999999998888 9999999999999999999999999999866543
|
| >1ku3_A Sigma factor SIGA; helix-turn-helix, transcription; 1.80A {Thermus aquaticus} SCOP: a.4.13.2 PDB: 1ku7_A 1rio_H 3n97_A* | Back alignment and structure |
|---|
Probab=98.98 E-value=2.3e-10 Score=102.76 Aligned_cols=69 Identities=59% Similarity=0.816 Sum_probs=53.4
Q ss_pred HHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhh-CchhhhhHHhhhc
Q psy15215 1360 VKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR-HPSRYYKLKIFLE 1428 (1432)
Q Consensus 1360 l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr-~~~~~~~l~~~~~ 1428 (1432)
+..+|+.|||+++.||.++|+++.+.++|++|||+.+|+|+++|++++++|+++|| ++.+...|++|++
T Consensus 4 l~~~l~~L~~~er~il~l~~~l~~~~~~s~~eIA~~l~is~~tV~~~~~ra~~kLr~~~~~~~~~~~~~~ 73 (73)
T 1ku3_A 4 LEKALSKLSEREAMVLKMRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRKLKYHESRTRKLRDFLE 73 (73)
T ss_dssp CSSSTTTSCHHHHHHHHHHHTTTTSSCCCHHHHHHHHTCCHHHHHHHHHHHHHHHHHTTC----------
T ss_pred HHHHHHhCCHHHHHHHHHHHhcccCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHhhHhhHHHHHHhhC
Confidence 45678999999999999999855445669999999999999999999999999999 9999888988863
|
| >3t72_q RNA polymerase sigma factor RPOD, DNA-directed RN polymerase subunit beta; winged-helix motif, transcription activation, DNA-binding; 4.33A {Escherichia coli} PDB: 1tlh_B | Back alignment and structure |
|---|
Probab=98.97 E-value=1.6e-09 Score=102.46 Aligned_cols=72 Identities=68% Similarity=0.959 Sum_probs=65.1
Q ss_pred HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 559 DAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 559 ~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
+.+...++...|..+|+.|||++|.||.|||+.+.+.++|++|||+.+|+|+++|+++.++|+++||+.+..
T Consensus 2 ~~~~~~el~~~l~~aL~~Lp~reR~Vi~Lry~l~~~e~~s~~EIA~~lgiS~~tVr~~~~rAlkkLR~~~~~ 73 (99)
T 3t72_q 2 DSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRS 73 (99)
T ss_pred HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHH
Confidence 345677888999999999999999999999997766778999999999999999999999999999988753
|
| >3hug_A RNA polymerase sigma factor; ECF sigma factor, zinc binding anti-sigma factor, oxidative transcription regulation; 2.35A {Mycobacterium tuberculosis} | Back alignment and structure |
|---|
Probab=98.86 E-value=9.8e-09 Score=96.55 Aligned_cols=73 Identities=15% Similarity=0.213 Sum_probs=68.8
Q ss_pred CCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 554 MLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 554 ~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
..+|.+.+...+....|..+|.+||++++.||.|+|..|+ |++|||+.||+|..+|+++.++|+++|++.+..
T Consensus 15 ~~~~~~~~~~~~~~~~l~~~l~~L~~~~r~vl~l~~~~g~----s~~eIA~~lgis~~tV~~~l~ra~~~Lr~~l~~ 87 (92)
T 3hug_A 15 EQSTPDEVNAALDRLLIADALAQLSAEHRAVIQRSYYRGW----STAQIATDLGIAEGTVKSRLHYAVRALRLTLQE 87 (92)
T ss_dssp CCCHHHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHTSCC----CHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCchHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHH
Confidence 4589999999999999999999999999999999998888 999999999999999999999999999988754
|
| >2o7g_A Probable RNA polymerase sigma-C factor; sigma factor, transcription regulation, -10 element recognit domain, transcription; 2.70A {Mycobacterium tuberculosis} | Back alignment and structure |
|---|
Probab=98.80 E-value=5.5e-09 Score=102.14 Aligned_cols=87 Identities=16% Similarity=0.109 Sum_probs=75.9
Q ss_pred hHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHH
Q psy15215 1173 DLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 1252 (1432)
Q Consensus 1173 e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir 1252 (1432)
....|+..++.|+.. |++.|+..|.+.|+++|.++ ++..+++|++||+|+.+|+++.+|++. .+|.+|++.+++
T Consensus 10 ~~~~l~~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~-~~~~~aeD~vQe~fl~~~~~~~~~~~~--~~~~~wl~~i~~ 83 (112)
T 2o7g_A 10 AVTALALSAAKGNGR---ALEAFIKATQQDVWRFVAYL-SDVGSADDLTQETFLRAIGAIPRFSAR--SSARTWLLAIAR 83 (112)
T ss_dssp HHHHHHHHHHTTCHH---HHHHHHHHHHHHHHHHHHHH-SCHHHHHHHHHHHHHHHHHHGGGCCCS--SCHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHh-CCHHHHHHHHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHH
Confidence 355788899999888 99999999999999999999 888899999999999999999999864 379999999999
Q ss_pred HHHHHHHHHhccc
Q psy15215 1253 QAITRSIADQART 1265 (1432)
Q Consensus 1253 ~~i~~~i~~~~r~ 1265 (1432)
|.+.+++|++.+.
T Consensus 84 n~~~d~~R~~~~~ 96 (112)
T 2o7g_A 84 HVVADHIRHVRSR 96 (112)
T ss_dssp HHHHHHTC-----
T ss_pred HHHHHHHHHhhcc
Confidence 9999999987753
|
| >2o7g_A Probable RNA polymerase sigma-C factor; sigma factor, transcription regulation, -10 element recognit domain, transcription; 2.70A {Mycobacterium tuberculosis} | Back alignment and structure |
|---|
Probab=98.76 E-value=9.9e-09 Score=100.28 Aligned_cols=87 Identities=16% Similarity=0.109 Sum_probs=76.1
Q ss_pred hHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHH
Q psy15215 383 DLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIR 462 (1432)
Q Consensus 383 e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir 462 (1432)
+...|+..++.|+.. |+..|+..|.+.|+++|.++ +...+++|++||+++.+|+.+.+|++. .+|.+|++.+++
T Consensus 10 ~~~~l~~~~~~gd~~---a~~~l~~~~~~~l~~~~~~~-~~~~~aeD~vQe~fl~~~~~~~~~~~~--~~~~~wl~~i~~ 83 (112)
T 2o7g_A 10 AVTALALSAAKGNGR---ALEAFIKATQQDVWRFVAYL-SDVGSADDLTQETFLRAIGAIPRFSAR--SSARTWLLAIAR 83 (112)
T ss_dssp HHHHHHHHHHTTCHH---HHHHHHHHHHHHHHHHHHHH-SCHHHHHHHHHHHHHHHHHHGGGCCCS--SCHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHH---HHHHHHHHHHHHHHHHHHHh-CCHHHHHHHHHHHHHHHHHHHHhcCCC--CCHHHHHHHHHH
Confidence 355789999999998 99999999999999999999 888899999999999999999999863 379999999999
Q ss_pred HHHHHHHHHhccc
Q psy15215 463 QAITRSIADQART 475 (1432)
Q Consensus 463 ~~i~~~i~~~~r~ 475 (1432)
|.+.+++|++.+.
T Consensus 84 n~~~d~~R~~~~~ 96 (112)
T 2o7g_A 84 HVVADHIRHVRSR 96 (112)
T ss_dssp HHHHHHTC-----
T ss_pred HHHHHHHHHhhcc
Confidence 9999999987663
|
| >2k6x_A Sigma-A, RNA polymerase sigma factor RPOD; DNA-binding, transcription, transcription regulation; NMR {Thermotoga maritima} | Back alignment and structure |
|---|
Probab=98.74 E-value=7.9e-09 Score=91.76 Aligned_cols=59 Identities=32% Similarity=0.654 Sum_probs=53.7
Q ss_pred HHHHHHHHHHhccccCccchHHHhhhCCCCC--CCHHHHHHHHHHHHhcCccccccccchh
Q psy15215 829 LRKKFKILIKLGKERGYLTFSEINDFLPEDI--IDHEIIESIIKTFRYMDISVSEHVLDTE 887 (1432)
Q Consensus 829 ~~~~~~~Li~~gk~~g~lT~~ei~~~lp~~~--~~~e~ie~i~~~l~~~gI~v~e~~~~~e 887 (1432)
+...++.|++.||++|||||++||++||+.. +++++++.++..|.++||+|++.+|+.+
T Consensus 7 ~~~~~k~Li~~gK~~G~lTy~EI~d~l~~~~~~ld~e~id~i~~~L~~~gI~Vvd~~~~~~ 67 (72)
T 2k6x_A 7 IERRIKKLISLGKKKGYITYEDIDKAFPPDFEGFDTNLIERIHEELEKHGINIVENEPEEE 67 (72)
T ss_dssp HHHHHHHHHHHHHHHSSCBHHHHHHHCSCSCSSCCHHHHHHHHHHHHHTCCCCBCCSCCSC
T ss_pred HHHHHHHHHHHHhHcCCccHHHHHHhCccccccCCHHHHHHHHHHHHHCCCccccCCcchh
Confidence 5667899999999999999999999999987 8999999999999999999998776543
|
| >1h3l_A RNA polymerase sigma factor; transcription, DNA-binding, transcription regulation; 2.37A {Streptomyces coelicolor A3} SCOP: a.177.1.1 | Back alignment and structure |
|---|
Probab=98.70 E-value=8.5e-09 Score=95.81 Aligned_cols=80 Identities=15% Similarity=0.088 Sum_probs=70.1
Q ss_pred HHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHH
Q psy15215 1180 KMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSI 1259 (1432)
Q Consensus 1180 ~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i 1259 (1432)
++..|+.. |+..|+..|.+.|+++|.+++++..+++|++||+|+.+|+..++|++. .+|.+|++.+++|.+.+++
T Consensus 5 ~~~~g~~~---af~~l~~~~~~~l~~~~~~~~~~~~~aeD~vQe~fl~~~~~~~~~~~~--~~~~~wl~~i~~n~~~d~~ 79 (87)
T 1h3l_A 5 ESTAERSA---RFERDALEFLDQMYSAALRMTRNPADAEDLVQETYAKAYASFHQFREG--TNLKAWLYRILTNTFINSY 79 (87)
T ss_dssp -CHHHHHH---HHHHHHHHTHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHGGGCCSS--SCHHHHHHHHHHHHHHHTC
T ss_pred ccCcccHH---HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcCCC--ccHHHHHHHHHHHHHHHHH
Confidence 45677777 999999999999999999999999999999999999999999999865 4799999999999999999
Q ss_pred HHhcc
Q psy15215 1260 ADQAR 1264 (1432)
Q Consensus 1260 ~~~~r 1264 (1432)
|++.+
T Consensus 80 R~~~~ 84 (87)
T 1h3l_A 80 RKKQR 84 (87)
T ss_dssp C----
T ss_pred HHhcc
Confidence 87654
|
| >2o8x_A Probable RNA polymerase sigma-C factor; promoter recognition, transcription regulation, helix-turn-H motif, transcription; 3.00A {Mycobacterium tuberculosis} | Back alignment and structure |
|---|
Probab=98.64 E-value=4.3e-08 Score=86.87 Aligned_cols=64 Identities=14% Similarity=0.092 Sum_probs=54.4
Q ss_pred HHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhh
Q psy15215 1355 SMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422 (1432)
Q Consensus 1355 ~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~ 1422 (1432)
+....+..+|+.|||+++.||.++|+.|+ |++|||+.+|+|+++|++++++|+++||.......
T Consensus 4 e~~~~l~~~l~~L~~~~r~il~l~~~~g~----s~~eIA~~lgis~~tv~~~~~ra~~~l~~~l~~~~ 67 (70)
T 2o8x_A 4 EDLVEVTTMIADLTTDQREALLLTQLLGL----SYADAAAVCGCPVGTIRSRVARARDALLADAEPDD 67 (70)
T ss_dssp HHHHHHHTTTTSSCHHHHHHHHHHHTSCC----CHHHHHHHHTSCHHHHHHHHHHHHHHHHC------
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhhccc
Confidence 34567889999999999999999998888 99999999999999999999999999999776543
|
| >1h3l_A RNA polymerase sigma factor; transcription, DNA-binding, transcription regulation; 2.37A {Streptomyces coelicolor A3} SCOP: a.177.1.1 | Back alignment and structure |
|---|
Probab=98.63 E-value=1.8e-08 Score=93.50 Aligned_cols=80 Identities=15% Similarity=0.088 Sum_probs=70.3
Q ss_pred HHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHH
Q psy15215 390 KMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSI 469 (1432)
Q Consensus 390 ~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i 469 (1432)
++..|+.. |+..|+..|.+.|+++|.+++++..+++|++||+++.+|+..++|++. .+|.+|++.+++|.+.+++
T Consensus 5 ~~~~g~~~---af~~l~~~~~~~l~~~~~~~~~~~~~aeD~vQe~fl~~~~~~~~~~~~--~~~~~wl~~i~~n~~~d~~ 79 (87)
T 1h3l_A 5 ESTAERSA---RFERDALEFLDQMYSAALRMTRNPADAEDLVQETYAKAYASFHQFREG--TNLKAWLYRILTNTFINSY 79 (87)
T ss_dssp -CHHHHHH---HHHHHHHHTHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHGGGCCSS--SCHHHHHHHHHHHHHHHTC
T ss_pred ccCcccHH---HHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHhcCCC--ccHHHHHHHHHHHHHHHHH
Confidence 45678888 999999999999999999999998999999999999999999999864 4799999999999999999
Q ss_pred HHhcc
Q psy15215 470 ADQAR 474 (1432)
Q Consensus 470 ~~~~r 474 (1432)
+++.+
T Consensus 80 R~~~~ 84 (87)
T 1h3l_A 80 RKKQR 84 (87)
T ss_dssp C----
T ss_pred HHhcc
Confidence 87654
|
| >3clo_A Transcriptional regulator; NP_811094.1, bacterial regulatory proteins, LUXR family, structural genomics; 2.04A {Bacteroides thetaiotaomicron vpi-5482} | Back alignment and structure |
|---|
Probab=98.60 E-value=1.1e-10 Score=132.30 Aligned_cols=162 Identities=13% Similarity=0.096 Sum_probs=119.9
Q ss_pred HHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHH----HHHHHHHHHHHHhccccCCCcchhHHHHH
Q psy15215 1175 RDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLI----QEGNIGLMKAVDKFEYRRGYKFSTYATWW 1250 (1432)
Q Consensus 1175 ~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLi----QEg~igl~kav~kfd~~~g~~Fstya~~~ 1250 (1432)
..++.++..+|.. ++..+...+.++++.+............|+. ||+|+.+|+....|++.. +|.+|++.+
T Consensus 85 ~~ll~~i~p~D~~---~~~~~~~~~~~fi~~l~~~~~~~~~~~~dl~~~~~qe~fl~~~~~~~~~~~~~--~~~~WL~~i 159 (258)
T 3clo_A 85 DCIYRRIHPEDLV---EKRLMEYKFFQKTFSMSPGERLKYRGRCRLRMMNEKGVYQYIDNLVQIMQNTP--AGNVWLIFC 159 (258)
T ss_dssp HHHHTTBCHHHHH---HHHHHHHHHHHHHTTSCHHHHTTEEEEEEEEEECTTSCEEEEEEEEEEEEECT--TSCEEEEEE
T ss_pred HHHHHhCChHHHH---HHHHHHHHHHHHHHhcCHHhccCCeeeEEeecCCcCHHHHHHHHhHHhcCCCC--chHHHHHHH
Confidence 3466777666666 8999999999999999887766667778886 999999999999998654 799999888
Q ss_pred HHHHHHHHHHHhcccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCC
Q psy15215 1251 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDD 1330 (1432)
Q Consensus 1251 ir~~i~~~i~~~~r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~Sl~~~~~~~ 1330 (1432)
+++.+.++.+.... ...+...
T Consensus 160 a~n~~~d~~r~~~~-----------------------------------------------------------~~~~~~~ 180 (258)
T 3clo_A 160 LYSLSADQRPEQGI-----------------------------------------------------------YATITQM 180 (258)
T ss_dssp EEEECSCCCCCSSC-----------------------------------------------------------CCEEEET
T ss_pred HHHHHcchhhhhHH-----------------------------------------------------------HHHHHhh
Confidence 77766554321100 0000000
Q ss_pred CCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHH
Q psy15215 1331 EDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 1410 (1432)
Q Consensus 1331 ~~~~~~d~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rA 1410 (1432)
.. .+.... + .+..++..||+++|+||.|+ ..|+ |.+|||+.||+|.+||+.+++||
T Consensus 181 ~~---~~~~~~-----~-----------~~~~~~~~L~~~erevl~L~-~~G~----s~~EIA~~L~iS~~TVk~~l~ra 236 (258)
T 3clo_A 181 ER---GEVETL-----S-----------LSEEHRNILSEREKEILRCI-RKGL----SSKEIAATLYISVNTVNRHRQNI 236 (258)
T ss_dssp TT---TEEEEC-----C-----------CHHHHTTSSCHHHHHHHHHH-HTTC----CHHHHHHHHTCCHHHHHHHHHHH
T ss_pred cc---cccccc-----h-----------hhHHHHccCCHHHHHHHHHH-HcCC----CHHHHHHHHCcCHHHHHHHHHHH
Confidence 00 000000 0 14567899999999999998 5777 99999999999999999999999
Q ss_pred HHHhhCchhhhhHH
Q psy15215 1411 LRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1411 l~kLr~~~~~~~l~ 1424 (1432)
++|||...+.....
T Consensus 237 ~~kL~~~~~~~~~~ 250 (258)
T 3clo_A 237 LEKLSVGNSIEACR 250 (258)
T ss_dssp HHHTTCSSHHHHHH
T ss_pred HHHHcCCCHHHHHH
Confidence 99999988876544
|
| >1tty_A Sigma-A, RNA polymerase sigma factor RPOD; helix-turn-helix, transcription; NMR {Thermotoga maritima} SCOP: a.4.13.2 | Back alignment and structure |
|---|
Probab=98.54 E-value=1.1e-07 Score=88.28 Aligned_cols=61 Identities=57% Similarity=0.858 Sum_probs=55.1
Q ss_pred HHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 568 SVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 568 ~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
..|..+|+.||++++.||.++|+++.+.++|++|||+.+|+|+++|+++.++|+++|+..+
T Consensus 10 ~~l~~~l~~L~~~er~vl~l~~~l~~~~~~s~~EIA~~lgis~~tV~~~~~ra~~kLr~~l 70 (87)
T 1tty_A 10 EELEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLRHPS 70 (87)
T ss_dssp SHHHHHHTTSCHHHHHHHHHHHTTTTSSCCCHHHHHHHHTCCHHHHHHHHHHHHHHHBTTB
T ss_pred HHHHHHHHhCCHHHHHHHHHHHccCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
Confidence 4678899999999999999999965556669999999999999999999999999998765
|
| >1t6t_1 Putative protein; structural genomics, PSI, protein structur initiative, midwest center for structural genomics, MCSG, U function; 1.80A {Aquifex aeolicus} SCOP: c.136.1.1 | Back alignment and structure |
|---|
Probab=98.49 E-value=1.1e-07 Score=91.77 Aligned_cols=62 Identities=26% Similarity=0.254 Sum_probs=52.5
Q ss_pred CchHhHHhhccC--CeEEEEecchhHHHHhhhCC--------------------CCCeEEEEecCcHHHHHHHHHHHHHh
Q psy15215 718 GLFEAKNAIGKS--GYVLITEGYMDVIGLSQFGF--------------------FANSSYTCFDGDQAGRRAARRALEVC 775 (1432)
Q Consensus 718 ~~~~a~~~~~~~--~~~~~vEG~~D~ia~~~~g~--------------------~~~~i~~~~D~D~aG~~a~~~~~~~~ 775 (1432)
.+.+.+..+++. +.+|||||++|+++|+++|+ +...|++|+|+|.||.+++.++.+.+
T Consensus 7 ~l~e~~~~l~~~s~~~vIvVEGk~D~~~L~~~g~~~iI~t~Gtal~~~i~~l~~~~~~VIIltD~D~aGe~ir~~i~~~l 86 (118)
T 1t6t_1 7 NLSEWIKELKKASREAVILVEGKNDKKALSKFSIKNVIDLSGKRYADVVDMLEGKWEKVILLFDLDTHGERINQKMKELL 86 (118)
T ss_dssp SHHHHHHHHHHHTTTSEEEESSHHHHHHHHTTTCCCEEECTTSCHHHHHHHHTTTCSEEEECCCSSHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcCCcEEEEEChHHHHHHHHhCcCcEEEECCCcHHHHHHHHHhCCCEEEEEECCChhHHHHHHHHHHhc
Confidence 355667777766 88999999999999999998 33449999999999999999999988
Q ss_pred hhhc
Q psy15215 776 LLYA 779 (1432)
Q Consensus 776 ~~~~ 779 (1432)
...|
T Consensus 87 ~~~~ 90 (118)
T 1t6t_1 87 SSQG 90 (118)
T ss_dssp HHTT
T ss_pred CccC
Confidence 7644
|
| >1ku3_A Sigma factor SIGA; helix-turn-helix, transcription; 1.80A {Thermus aquaticus} SCOP: a.4.13.2 PDB: 1ku7_A 1rio_H 3n97_A* | Back alignment and structure |
|---|
Probab=98.49 E-value=5.9e-08 Score=86.88 Aligned_cols=59 Identities=56% Similarity=0.773 Sum_probs=52.1
Q ss_pred HHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH-HHH
Q psy15215 570 VKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR-PLA 628 (1432)
Q Consensus 570 l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr-~~l 628 (1432)
+..+|+.|||+++.||.++|+++.+.++|++|||+.+|+|+++|+++.++|+++|+ ..+
T Consensus 4 l~~~l~~L~~~er~il~l~~~l~~~~~~s~~eIA~~l~is~~tV~~~~~ra~~kLr~~~~ 63 (73)
T 1ku3_A 4 LEKALSKLSEREAMVLKMRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRKLKYHES 63 (73)
T ss_dssp CSSSTTTSCHHHHHHHHHHHTTTTSSCCCHHHHHHHHTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred HHHHHHhCCHHHHHHHHHHHhcccCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHhhHh
Confidence 45678999999999999999855445669999999999999999999999999999 544
|
| >1xsv_A Hypothetical UPF0122 protein SAV1236; helix-turn-helix, putative DNA-binding protein, signal recognition particle, unknown function; 1.70A {Staphylococcus aureus subsp} SCOP: a.4.13.3 | Back alignment and structure |
|---|
Probab=98.43 E-value=5e-07 Score=88.03 Aligned_cols=68 Identities=13% Similarity=0.201 Sum_probs=60.0
Q ss_pred HHHHHHHHHHHHHH-ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhh
Q psy15215 1351 ALNASMRSVVKDIL-NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422 (1432)
Q Consensus 1351 ~~~~~~~~~l~~~L-~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~ 1422 (1432)
+........+..++ ..|||+++.|+.++|..|+ |++|||+.+|+|+++|+++++||+++||.......
T Consensus 9 ~e~~~~~~~l~~~l~~~L~~~~r~vl~l~~~~g~----s~~EIA~~lgiS~~tV~~~l~ra~~kLr~~l~~~~ 77 (113)
T 1xsv_A 9 LVKTLRMNYLFDFYQSLLTNKQRNYLELFYLEDY----SLSEIADTFNVSRQAVYDNIRRTGDLVEDYEKKLE 77 (113)
T ss_dssp HHHHHHHHHHHHHHGGGSCHHHHHHHHHHHTSCC----CHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34445567788889 9999999999999998888 99999999999999999999999999998765544
|
| >2p7v_B Sigma-70, RNA polymerase sigma factor RPOD; RSD, regulator of sigma 70, sigma 70 domain 4, transcription, regulation, helix-turn-helix; 2.60A {Escherichia coli} SCOP: a.4.13.2 | Back alignment and structure |
|---|
Probab=98.40 E-value=1.9e-07 Score=82.27 Aligned_cols=56 Identities=79% Similarity=1.086 Sum_probs=49.6
Q ss_pred HHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 573 ILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 573 ~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
+|+.|||+++.||.++||.+...++|++|||+.+|+|+++|+++.++|+++|+..+
T Consensus 2 ~l~~L~~~er~il~l~~~l~~~~g~s~~eIA~~lgis~~tV~~~~~ra~~kLr~~~ 57 (68)
T 2p7v_B 2 VLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 57 (68)
T ss_dssp CSCCCCHHHHHHHHHHTTTTSSSCCCHHHHHHHHTCCHHHHHHHHHHHHHGGGSCC
T ss_pred HHHcCCHHHHHHHHHHHccCCCCCCCHHHHHHHHCcCHHHHHHHHHHHHHHHHHHH
Confidence 46789999999999999765445669999999999999999999999999998654
|
| >2o8x_A Probable RNA polymerase sigma-C factor; promoter recognition, transcription regulation, helix-turn-H motif, transcription; 3.00A {Mycobacterium tuberculosis} | Back alignment and structure |
|---|
Probab=98.38 E-value=3.8e-07 Score=80.70 Aligned_cols=61 Identities=16% Similarity=0.121 Sum_probs=54.1
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHH
Q psy15215 565 SMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 565 ~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~ 629 (1432)
+....+..+++.|||+++.||.++|..|+ |++|||+.+|+|+++|+++.++|+.+|+..+.
T Consensus 4 e~~~~l~~~l~~L~~~~r~il~l~~~~g~----s~~eIA~~lgis~~tv~~~~~ra~~~l~~~l~ 64 (70)
T 2o8x_A 4 EDLVEVTTMIADLTTDQREALLLTQLLGL----SYADAAAVCGCPVGTIRSRVARARDALLADAE 64 (70)
T ss_dssp HHHHHHHTTTTSSCHHHHHHHHHHHTSCC----CHHHHHHHHTSCHHHHHHHHHHHHHHHHC---
T ss_pred HHHHHHHHHHHhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhh
Confidence 34567889999999999999999998888 99999999999999999999999999997764
|
| >1xsv_A Hypothetical UPF0122 protein SAV1236; helix-turn-helix, putative DNA-binding protein, signal recognition particle, unknown function; 1.70A {Staphylococcus aureus subsp} SCOP: a.4.13.3 | Back alignment and structure |
|---|
Probab=98.28 E-value=2.3e-06 Score=83.31 Aligned_cols=67 Identities=13% Similarity=0.206 Sum_probs=59.8
Q ss_pred HHHHHHHHHHHHHH-hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHHH
Q psy15215 561 ALNASMRSVVKDIL-NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHDW 631 (1432)
Q Consensus 561 ~~~~~~~~~l~~~L-~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~~ 631 (1432)
+........+..++ ..|||+++.||.|+|..|+ |++|||+.+|+|+++|+.+.++|+.+|+..+..+
T Consensus 9 ~e~~~~~~~l~~~l~~~L~~~~r~vl~l~~~~g~----s~~EIA~~lgiS~~tV~~~l~ra~~kLr~~l~~~ 76 (113)
T 1xsv_A 9 LVKTLRMNYLFDFYQSLLTNKQRNYLELFYLEDY----SLSEIADTFNVSRQAVYDNIRRTGDLVEDYEKKL 76 (113)
T ss_dssp HHHHHHHHHHHHHHGGGSCHHHHHHHHHHHTSCC----CHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHH
Confidence 34445567788889 9999999999999998888 9999999999999999999999999999988653
|
| >1s7o_A Hypothetical UPF0122 protein SPY1201/SPYM3_0842/SPS1042/SPYM18_1152; putative DNA binding protein, structural genomics; 2.31A {Streptococcus pyogenes serotype M3} SCOP: a.4.13.3 | Back alignment and structure |
|---|
Probab=98.27 E-value=1.4e-06 Score=84.73 Aligned_cols=62 Identities=13% Similarity=0.239 Sum_probs=55.9
Q ss_pred HHHHHHHH-ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhh
Q psy15215 1357 RSVVKDIL-NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422 (1432)
Q Consensus 1357 ~~~l~~~L-~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~ 1422 (1432)
...+..++ ..|||+++.|+.++|..|+ |++|||+.+|+|+++|++++++|+++||.......
T Consensus 12 ~~~l~~~l~~~L~~~~r~vl~l~y~~g~----s~~EIA~~lgiS~~tV~~~l~ra~~kLr~~l~~~~ 74 (113)
T 1s7o_A 12 MNALFEFYAALLTDKQMNYIELYYADDY----SLAEIADEFGVSRQAVYDNIKRTEKILETYEMKLH 74 (113)
T ss_dssp HHHHHHHHGGGSCHHHHHHHHHHHHTCC----CHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHHhh
Confidence 45667778 8999999999999999888 99999999999999999999999999998765544
|
| >2rnj_A Response regulator protein VRAR; HTH LUXR-type domain, DNA binding domain, activator, antibiotic resistance, cytoplasm, DNA-binding; NMR {Staphylococcus aureus} | Back alignment and structure |
|---|
Probab=98.26 E-value=5e-07 Score=84.56 Aligned_cols=67 Identities=18% Similarity=0.217 Sum_probs=52.9
Q ss_pred HHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHH
Q psy15215 1353 NASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1353 ~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~ 1424 (1432)
.......+..++..||++|+.||.+ |..|+ |.+|||+.||+|..||+++++++++||+...+...+.
T Consensus 16 ~~~~~~~l~~~l~~Lt~~e~~vl~l-~~~g~----s~~eIA~~l~is~~tV~~~l~r~~~kL~~~~~~~l~~ 82 (91)
T 2rnj_A 16 RGSHMKKRAELYEMLTEREMEILLL-IAKGY----SNQEIASASHITIKTVKTHVSNILSKLEVQDRTQAVI 82 (91)
T ss_dssp ---------CTGGGCCSHHHHHHHH-HHTTC----CTTHHHHHHTCCHHHHHHHHHHHHHHTTCCSSHHHHH
T ss_pred cHHHHHHHHHHHhcCCHHHHHHHHH-HHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHCCCCHHHHHH
Confidence 3344667888999999999999999 56677 9999999999999999999999999999988776543
|
| >3clo_A Transcriptional regulator; NP_811094.1, bacterial regulatory proteins, LUXR family, structural genomics; 2.04A {Bacteroides thetaiotaomicron vpi-5482} | Back alignment and structure |
|---|
Probab=98.25 E-value=1.6e-09 Score=122.65 Aligned_cols=155 Identities=14% Similarity=0.104 Sum_probs=113.7
Q ss_pred HHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHH----HHHHHHHHHHHhhccccCCCccHHHHHHH
Q psy15215 385 RDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLI----QEGNIGLMKAVDKFEYRRGYKFSTYATWW 460 (1432)
Q Consensus 385 ~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLi----QEg~igL~kav~~fd~~~g~~Fstya~~~ 460 (1432)
..++.++..+|.. ++..+...|.+++..+............|+. ||.++.+|+.+..|++.. +|.+|++..
T Consensus 85 ~~ll~~i~p~D~~---~~~~~~~~~~~fi~~l~~~~~~~~~~~~dl~~~~~qe~fl~~~~~~~~~~~~~--~~~~WL~~i 159 (258)
T 3clo_A 85 DCIYRRIHPEDLV---EKRLMEYKFFQKTFSMSPGERLKYRGRCRLRMMNEKGVYQYIDNLVQIMQNTP--AGNVWLIFC 159 (258)
T ss_dssp HHHHTTBCHHHHH---HHHHHHHHHHHHHTTSCHHHHTTEEEEEEEEEECTTSCEEEEEEEEEEEEECT--TSCEEEEEE
T ss_pred HHHHHhCChHHHH---HHHHHHHHHHHHHHhcCHHhccCCeeeEEeecCCcCHHHHHHHHhHHhcCCCC--chHHHHHHH
Confidence 3466677667776 8999999999999999887766666788886 999999999999998643 688888887
Q ss_pred HHHHHHHHHHHhccccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHccCCCCCCCCCCCC
Q psy15215 461 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDD 540 (1432)
Q Consensus 461 ir~~i~~~i~~~~r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~~~~~sl~~~~~~~ 540 (1432)
+++.+.++.+.... ...+...
T Consensus 160 a~n~~~d~~r~~~~-----------------------------------------------------------~~~~~~~ 180 (258)
T 3clo_A 160 LYSLSADQRPEQGI-----------------------------------------------------------YATITQM 180 (258)
T ss_dssp EEEECSCCCCCSSC-----------------------------------------------------------CCEEEET
T ss_pred HHHHHcchhhhhHH-----------------------------------------------------------HHHHHhh
Confidence 77666544221100 0000000
Q ss_pred CCCCcCcccccCCCCChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHH
Q psy15215 541 EDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 620 (1432)
Q Consensus 541 ~~~~~~~~i~d~~~~~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rA 620 (1432)
.. ++... .+ .+..++..||+++++||.|+ ..|+ |.+|||+.||+|.++|+.+.++|
T Consensus 181 ~~---~~~~~-----~~-----------~~~~~~~~L~~~erevl~L~-~~G~----s~~EIA~~L~iS~~TVk~~l~ra 236 (258)
T 3clo_A 181 ER---GEVET-----LS-----------LSEEHRNILSEREKEILRCI-RKGL----SSKEIAATLYISVNTVNRHRQNI 236 (258)
T ss_dssp TT---TEEEE-----CC-----------CHHHHTTSSCHHHHHHHHHH-HTTC----CHHHHHHHHTCCHHHHHHHHHHH
T ss_pred cc---ccccc-----ch-----------hhHHHHccCCHHHHHHHHHH-HcCC----CHHHHHHHHCcCHHHHHHHHHHH
Confidence 00 00000 00 14567899999999999998 5777 99999999999999999999999
Q ss_pred HHHHHHH
Q psy15215 621 LRKLRPL 627 (1432)
Q Consensus 621 l~kLr~~ 627 (1432)
+++|+..
T Consensus 237 ~~kL~~~ 243 (258)
T 3clo_A 237 LEKLSVG 243 (258)
T ss_dssp HHHTTCS
T ss_pred HHHHcCC
Confidence 9999864
|
| >1x3u_A Transcriptional regulatory protein FIXJ; helix-turn-helix; NMR {Sinorhizobium meliloti} | Back alignment and structure |
|---|
Probab=98.21 E-value=2e-06 Score=78.02 Aligned_cols=64 Identities=16% Similarity=0.253 Sum_probs=56.5
Q ss_pred HHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHhh
Q psy15215 1358 SVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIF 1426 (1432)
Q Consensus 1358 ~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~~ 1426 (1432)
..+..++..||++|+.|+.+ |..|+ |.+|||+.+|+|..+|+++..++++||+...+...+.-+
T Consensus 8 ~~l~~~l~~L~~~e~~vl~l-~~~g~----s~~eIA~~l~is~~tV~~~~~r~~~kl~~~~~~~l~~~~ 71 (79)
T 1x3u_A 8 NDIRARLQTLSERERQVLSA-VVAGL----PNKSIAYDLDISPRTVEVHRANVMAKMKAKSLPHLVRMA 71 (79)
T ss_dssp HHHHHHHHHHCHHHHHHHHH-HTTTC----CHHHHHHHTTSCHHHHHHHHHHHHHHTTCCSHHHHHHHH
T ss_pred HHHHHHHHhCCHHHHHHHHH-HHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHcCCCHHHHHHHH
Confidence 46778899999999999999 56777 999999999999999999999999999998887755433
|
| >3c57_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 1.70A {Mycobacterium tuberculosis} PDB: 1zlk_A 1zlj_A | Back alignment and structure |
|---|
Probab=98.20 E-value=1.6e-06 Score=81.76 Aligned_cols=65 Identities=18% Similarity=0.233 Sum_probs=48.0
Q ss_pred HHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHH
Q psy15215 1355 SMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1355 ~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~ 1424 (1432)
+....+..++..||++|++||.++ ..|+ |++|||+.||+|..||+++++++++||+...+...+.
T Consensus 16 ~~~~~l~~~l~~Lt~~e~~vl~l~-~~g~----s~~eIA~~l~is~~tV~~~l~r~~~kL~~~~~~~l~~ 80 (95)
T 3c57_A 16 PRGSHMQDPLSGLTDQERTLLGLL-SEGL----TNKQIADRMFLAEKTVKNYVSRLLAKLGMERRTQAAV 80 (95)
T ss_dssp -----------CCCHHHHHHHHHH-HTTC----CHHHHHHHHTCCHHHHHHHHHHHHHHHTCCCCCC---
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHH-HcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHcCCCHHHHHH
Confidence 335667889999999999999996 6777 9999999999999999999999999999988776543
|
| >1je8_A Nitrate/nitrite response regulator protein NARL; protein-DNA complex, two-component response regulator, helix-turn-helix, DNA bending; 2.12A {Escherichia coli} SCOP: a.4.6.2 PDB: 1zg1_A 1zg5_A | Back alignment and structure |
|---|
Probab=98.16 E-value=2.1e-06 Score=78.54 Aligned_cols=60 Identities=22% Similarity=0.385 Sum_probs=52.7
Q ss_pred HHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHH
Q psy15215 1360 VKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1360 l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~ 1424 (1432)
+..++..||++|++||.+ |..|+ |.+|||+.||+|..+|+++++++++||+...+.....
T Consensus 15 ~~~~~~~Lt~~e~~vl~l-~~~g~----s~~eIA~~l~is~~tV~~~l~r~~~kL~~~~~~~l~~ 74 (82)
T 1je8_A 15 TERDVNQLTPRERDILKL-IAQGL----PNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAV 74 (82)
T ss_dssp --CCGGGSCHHHHHHHHH-HTTTC----CHHHHHHHHTSCHHHHHHHHHHHHHHTTCSSHHHHHH
T ss_pred HHHHHccCCHHHHHHHHH-HHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHcCCCHHHHHH
Confidence 456789999999999999 56666 9999999999999999999999999999988877554
|
| >1jhg_A Trp operon repressor; complex (regulatory protein-peptide), DNA-binding regulatory complex (regulatory protein-peptide) complex; HET: TRP; 1.30A {Escherichia coli} SCOP: a.4.12.1 PDB: 1co0_A* 1mi7_R 1p6z_R 1wrp_R* 1zt9_A* 2oz9_R* 3ssw_R 3wrp_A 1rcs_A* 1wrs_R* 1wrt_R 2xdi_A 3ssx_R* 1trr_A* 1tro_A* | Back alignment and structure |
|---|
Probab=98.11 E-value=3.3e-06 Score=79.06 Aligned_cols=76 Identities=21% Similarity=0.236 Sum_probs=64.0
Q ss_pred HHHHHHHHHHHHHH-hcCCHHHHHHHHHHhhccc---CCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHHHHHHhh
Q psy15215 561 ALNASMRSVVKDIL-NSLTPRESKVLRMRFGIEM---SSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHDWLEQRT 636 (1432)
Q Consensus 561 ~~~~~~~~~l~~~L-~~L~~rer~Vl~lr~~~~~---~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~~~~~~l 636 (1432)
+....-.+.+..++ .-|||+|+.+|.+||++.. +.++|+.|||+.+|+|+++|.+. +++|+++...+..|+.+.+
T Consensus 19 i~~~~~~~~l~~~l~~lLT~~Er~~l~~R~~l~~~L~~ge~TQREIA~~lGiS~stISRi-~r~L~~l~~~~k~~l~~~l 97 (101)
T 1jhg_A 19 LKNAYQNDLHLPLLNLMLTPDEREALGTRVRIIEELLRGEMSQRELKNELGAGIATITRG-SNSLKAAPVELRQWLEEVL 97 (101)
T ss_dssp HHHHHHTTCHHHHHHHHSCHHHHHHHHHHHHHHHHHHHCCSCHHHHHHHHCCCHHHHHHH-HHHHHHSCHHHHHHHHHHH
T ss_pred HHhcCCHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHcCCcCHHHHHHHHCCChhhhhHH-HHHHHHccHHHHHHHHHHh
Confidence 33444456677778 5699999999999999863 34589999999999999999988 8999999999999999886
Q ss_pred h
Q psy15215 637 H 637 (1432)
Q Consensus 637 ~ 637 (1432)
.
T Consensus 98 ~ 98 (101)
T 1jhg_A 98 L 98 (101)
T ss_dssp S
T ss_pred c
Confidence 4
|
| >1s7o_A Hypothetical UPF0122 protein SPY1201/SPYM3_0842/SPS1042/SPYM18_1152; putative DNA binding protein, structural genomics; 2.31A {Streptococcus pyogenes serotype M3} SCOP: a.4.13.3 | Back alignment and structure |
|---|
Probab=98.09 E-value=7.9e-06 Score=79.40 Aligned_cols=60 Identities=13% Similarity=0.279 Sum_probs=55.2
Q ss_pred HHHHHHHH-hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHHH
Q psy15215 567 RSVVKDIL-NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAHD 630 (1432)
Q Consensus 567 ~~~l~~~L-~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~~ 630 (1432)
...+..++ ..|||+++.|+.++|..|+ |++|||+.+|+|+++|+.+.++|+.+|+..+..
T Consensus 12 ~~~l~~~l~~~L~~~~r~vl~l~y~~g~----s~~EIA~~lgiS~~tV~~~l~ra~~kLr~~l~~ 72 (113)
T 1s7o_A 12 MNALFEFYAALLTDKQMNYIELYYADDY----SLAEIADEFGVSRQAVYDNIKRTEKILETYEMK 72 (113)
T ss_dssp HHHHHHHHGGGSCHHHHHHHHHHHHTCC----CHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHHH
Confidence 45677778 8999999999999999888 999999999999999999999999999998865
|
| >1jhg_A Trp operon repressor; complex (regulatory protein-peptide), DNA-binding regulatory complex (regulatory protein-peptide) complex; HET: TRP; 1.30A {Escherichia coli} SCOP: a.4.12.1 PDB: 1co0_A* 1mi7_R 1p6z_R 1wrp_R* 1zt9_A* 2oz9_R* 3ssw_R 3wrp_A 1rcs_A* 1wrs_R* 1wrt_R 2xdi_A 3ssx_R* 1trr_A* 1tro_A* | Back alignment and structure |
|---|
Probab=98.06 E-value=3.6e-06 Score=78.78 Aligned_cols=68 Identities=21% Similarity=0.196 Sum_probs=55.2
Q ss_pred HHHHHHHHHHHHHH-ccCCHHHHHHHHHHhcccC---CCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchh
Q psy15215 1351 ALNASMRSVVKDIL-NSLTPRESKVLRMRFGIEM---SSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR 1419 (1432)
Q Consensus 1351 ~~~~~~~~~l~~~L-~~L~~rer~Vl~lr~~~~~---~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~ 1419 (1432)
+......+.+...+ .-|||+|+.+|.+||+... +.++|+.|||+.+|+|+++|+.+ +|++++|.+..+
T Consensus 19 i~~~~~~~~l~~~l~~lLT~~Er~~l~~R~~l~~~L~~ge~TQREIA~~lGiS~stISRi-~r~L~~l~~~~k 90 (101)
T 1jhg_A 19 LKNAYQNDLHLPLLNLMLTPDEREALGTRVRIIEELLRGEMSQRELKNELGAGIATITRG-SNSLKAAPVELR 90 (101)
T ss_dssp HHHHHHTTCHHHHHHHHSCHHHHHHHHHHHHHHHHHHHCCSCHHHHHHHHCCCHHHHHHH-HHHHHHSCHHHH
T ss_pred HHhcCCHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHcCCcCHHHHHHHHCCChhhhhHH-HHHHHHccHHHH
Confidence 33344455666677 4699999999999999863 34589999999999999999999 999999988443
|
| >1fse_A GERE; helix-turn-helix DNA-binding protein transcriptional regulat transcription; 2.05A {Bacillus subtilis} SCOP: a.4.6.2 | Back alignment and structure |
|---|
Probab=97.94 E-value=1.2e-05 Score=71.67 Aligned_cols=62 Identities=19% Similarity=0.227 Sum_probs=52.5
Q ss_pred HHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHhh
Q psy15215 1360 VKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIF 1426 (1432)
Q Consensus 1360 l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~~ 1426 (1432)
....+..||++|+.|+.+ |..|+ |.+|||+.+|+|+.+|++++.+++++|+...+...+...
T Consensus 5 ~~~~~~~L~~~e~~il~~-~~~g~----s~~eIA~~l~is~~tV~~~~~~~~~kl~~~~~~~~~~~~ 66 (74)
T 1fse_A 5 EFQSKPLLTKREREVFEL-LVQDK----TTKEIASELFISEKTVRNHISNAMQKLGVKGRSQAVVEL 66 (74)
T ss_dssp ---CCCCCCHHHHHHHHH-HTTTC----CHHHHHHHHTSCHHHHHHHHHHHHHHHTCSSHHHHHHHH
T ss_pred cCCCCCCCCHHHHHHHHH-HHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCHHHHHHHH
Confidence 345678899999999999 56666 999999999999999999999999999998887765543
|
| >2rnj_A Response regulator protein VRAR; HTH LUXR-type domain, DNA binding domain, activator, antibiotic resistance, cytoplasm, DNA-binding; NMR {Staphylococcus aureus} | Back alignment and structure |
|---|
Probab=97.86 E-value=6e-06 Score=77.16 Aligned_cols=59 Identities=19% Similarity=0.243 Sum_probs=46.7
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 563 NASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 563 ~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
.......+..++..||++|+.||.| |..|+ |++|||+.||+|..+|+.+.++++++|+.
T Consensus 16 ~~~~~~~l~~~l~~Lt~~e~~vl~l-~~~g~----s~~eIA~~l~is~~tV~~~l~r~~~kL~~ 74 (91)
T 2rnj_A 16 RGSHMKKRAELYEMLTEREMEILLL-IAKGY----SNQEIASASHITIKTVKTHVSNILSKLEV 74 (91)
T ss_dssp ---------CTGGGCCSHHHHHHHH-HHTTC----CTTHHHHHHTCCHHHHHHHHHHHHHHTTC
T ss_pred cHHHHHHHHHHHhcCCHHHHHHHHH-HHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHCC
Confidence 3344667888999999999999999 56666 99999999999999999999999999974
|
| >3c57_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 1.70A {Mycobacterium tuberculosis} PDB: 1zlk_A 1zlj_A | Back alignment and structure |
|---|
Probab=97.80 E-value=2.1e-05 Score=74.11 Aligned_cols=57 Identities=19% Similarity=0.276 Sum_probs=43.2
Q ss_pred HHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 565 SMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 565 ~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
+....+..++..||++|++||.|+ ..|+ |++|||+.+|+|..+|+.+.++++++|+.
T Consensus 16 ~~~~~l~~~l~~Lt~~e~~vl~l~-~~g~----s~~eIA~~l~is~~tV~~~l~r~~~kL~~ 72 (95)
T 3c57_A 16 PRGSHMQDPLSGLTDQERTLLGLL-SEGL----TNKQIADRMFLAEKTVKNYVSRLLAKLGM 72 (95)
T ss_dssp -----------CCCHHHHHHHHHH-HTTC----CHHHHHHHHTCCHHHHHHHHHHHHHHHTC
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHH-HcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHcC
Confidence 345668889999999999999996 6777 99999999999999999999999999974
|
| >1x3u_A Transcriptional regulatory protein FIXJ; helix-turn-helix; NMR {Sinorhizobium meliloti} | Back alignment and structure |
|---|
Probab=97.74 E-value=3e-05 Score=70.20 Aligned_cols=54 Identities=17% Similarity=0.326 Sum_probs=49.3
Q ss_pred HHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 568 SVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 568 ~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
..+..++..||++|+.|+.+ |..|+ |++|||+.+|+|..+|+.+..+++++|+.
T Consensus 8 ~~l~~~l~~L~~~e~~vl~l-~~~g~----s~~eIA~~l~is~~tV~~~~~r~~~kl~~ 61 (79)
T 1x3u_A 8 NDIRARLQTLSERERQVLSA-VVAGL----PNKSIAYDLDISPRTVEVHRANVMAKMKA 61 (79)
T ss_dssp HHHHHHHHHHCHHHHHHHHH-HTTTC----CHHHHHHHTTSCHHHHHHHHHHHHHHTTC
T ss_pred HHHHHHHHhCCHHHHHHHHH-HHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHcC
Confidence 46778899999999999999 56676 99999999999999999999999999984
|
| >1je8_A Nitrate/nitrite response regulator protein NARL; protein-DNA complex, two-component response regulator, helix-turn-helix, DNA bending; 2.12A {Escherichia coli} SCOP: a.4.6.2 PDB: 1zg1_A 1zg5_A | Back alignment and structure |
|---|
Probab=97.63 E-value=3.4e-05 Score=70.45 Aligned_cols=55 Identities=20% Similarity=0.416 Sum_probs=47.1
Q ss_pred HHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 569 VVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 569 ~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
.+..++..||++|++||.+ |..|+ |++|||+.+|+|..+|+.+.++++++|+...
T Consensus 14 ~~~~~~~~Lt~~e~~vl~l-~~~g~----s~~eIA~~l~is~~tV~~~l~r~~~kL~~~~ 68 (82)
T 1je8_A 14 TTERDVNQLTPRERDILKL-IAQGL----PNKMIARRLDITESTVKVHVKHMLKKMKLKS 68 (82)
T ss_dssp ---CCGGGSCHHHHHHHHH-HTTTC----CHHHHHHHHTSCHHHHHHHHHHHHHHTTCSS
T ss_pred HHHHHHccCCHHHHHHHHH-HHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHcCCC
Confidence 3567889999999999999 56666 9999999999999999999999999997543
|
| >3ulq_B Transcriptional regulatory protein COMA; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis} PDB: 2krf_A | Back alignment and structure |
|---|
Probab=97.61 E-value=0.00011 Score=68.33 Aligned_cols=58 Identities=22% Similarity=0.233 Sum_probs=49.0
Q ss_pred HHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHH
Q psy15215 1362 DILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1362 ~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~ 1424 (1432)
.....||++|++||.+.+ .|+ |.+|||+.||+|..||+..+.++++||.-..+.....
T Consensus 25 ~~~~~Lt~rE~~Vl~l~~-~G~----s~~eIA~~L~iS~~TV~~~~~~i~~Klgv~~r~~lv~ 82 (90)
T 3ulq_B 25 KEQDVLTPRECLILQEVE-KGF----TNQEIADALHLSKRSIEYSLTSIFNKLNVGSRTEAVL 82 (90)
T ss_dssp ----CCCHHHHHHHHHHH-TTC----CHHHHHHHHTCCHHHHHHHHHHHHHHTTCSSHHHHHH
T ss_pred ccccCCCHHHHHHHHHHH-cCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHCCCCHHHHHH
Confidence 356789999999999987 676 9999999999999999999999999999877776544
|
| >2jpc_A SSRB; DNA binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium} | Back alignment and structure |
|---|
Probab=97.56 E-value=8.7e-05 Score=63.43 Aligned_cols=51 Identities=18% Similarity=0.256 Sum_probs=46.0
Q ss_pred HHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHH
Q psy15215 1369 PRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1369 ~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~ 1424 (1432)
|+|++|+.+ +..|+ |.+|||+.||+|..||++..+++++||+...+.....
T Consensus 1 ~re~~vl~l-~~~g~----s~~eIA~~l~is~~tV~~~~~~~~~kl~~~~~~~l~~ 51 (61)
T 2jpc_A 1 LRERQVLKL-IDEGY----TNHGISEKLHISIKTVETHRMNMMRKLQVHKVTELLN 51 (61)
T ss_dssp CHHHHHHHH-HHTSC----CSHHHHHHTCSCHHHHHHHHHHHHHHHTCSSHHHHHH
T ss_pred CHHHHHHHH-HHcCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHCCCCHHHHHH
Confidence 579999999 77777 9999999999999999999999999999988777544
|
| >1p4w_A RCSB; solution structure, DNA binding domain, DNA binding protein; NMR {Erwinia amylovora} SCOP: a.4.6.2 | Back alignment and structure |
|---|
Probab=97.42 E-value=0.00021 Score=67.59 Aligned_cols=56 Identities=25% Similarity=0.327 Sum_probs=49.4
Q ss_pred HccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHH
Q psy15215 1364 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1364 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~ 1424 (1432)
...||++|++||.+. ..|+ |.+|||+.||+|..||+..+.++++||.-..+.....
T Consensus 32 ~~~Lt~re~~Vl~l~-~~G~----s~~EIA~~L~iS~~TV~~~l~ri~~KLgv~~r~elv~ 87 (99)
T 1p4w_A 32 DKRLSPKESEVLRLF-AEGF----LVTEIAKKLNRSIKTISSQKKSAMMKLGVDNDIALLN 87 (99)
T ss_dssp SSSCCHHHHHHHHHH-HHTC----CHHHHHHHHTSCHHHHHHHHHHHHHHHTCSSHHHHHH
T ss_pred cCCCCHHHHHHHHHH-HcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHCCCCHHHHHH
Confidence 367999999999995 4677 9999999999999999999999999999887776543
|
| >1fse_A GERE; helix-turn-helix DNA-binding protein transcriptional regulat transcription; 2.05A {Bacillus subtilis} SCOP: a.4.6.2 | Back alignment and structure |
|---|
Probab=97.34 E-value=0.00017 Score=64.17 Aligned_cols=53 Identities=21% Similarity=0.254 Sum_probs=45.2
Q ss_pred HHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHH
Q psy15215 570 VKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPL 627 (1432)
Q Consensus 570 l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~ 627 (1432)
....+..||++|+.|+.+ |..|+ |.+|||+.+|+|+.+|+++..+++.+|+..
T Consensus 5 ~~~~~~~L~~~e~~il~~-~~~g~----s~~eIA~~l~is~~tV~~~~~~~~~kl~~~ 57 (74)
T 1fse_A 5 EFQSKPLLTKREREVFEL-LVQDK----TTKEIASELFISEKTVRNHISNAMQKLGVK 57 (74)
T ss_dssp ---CCCCCCHHHHHHHHH-HTTTC----CHHHHHHHHTSCHHHHHHHHHHHHHHHTCS
T ss_pred cCCCCCCCCHHHHHHHHH-HHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHCCC
Confidence 445678899999999999 56666 999999999999999999999999999743
|
| >3ulq_B Transcriptional regulatory protein COMA; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis} PDB: 2krf_A | Back alignment and structure |
|---|
Probab=97.13 E-value=0.00044 Score=64.18 Aligned_cols=49 Identities=22% Similarity=0.289 Sum_probs=42.1
Q ss_pred HHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 572 DILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 572 ~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
.....||++|++||.|.+ .|+ |.+|||+.||+|..+|+.+..++++||.
T Consensus 25 ~~~~~Lt~rE~~Vl~l~~-~G~----s~~eIA~~L~iS~~TV~~~~~~i~~Klg 73 (90)
T 3ulq_B 25 KEQDVLTPRECLILQEVE-KGF----TNQEIADALHLSKRSIEYSLTSIFNKLN 73 (90)
T ss_dssp ----CCCHHHHHHHHHHH-TTC----CHHHHHHHHTCCHHHHHHHHHHHHHHTT
T ss_pred ccccCCCHHHHHHHHHHH-cCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHC
Confidence 457789999999999987 666 9999999999999999999999999985
|
| >2jpc_A SSRB; DNA binding protein, structural genomics, PSI-2, protein structure initiative; NMR {Salmonella typhimurium} | Back alignment and structure |
|---|
Probab=96.84 E-value=0.00087 Score=57.07 Aligned_cols=43 Identities=19% Similarity=0.342 Sum_probs=39.4
Q ss_pred HHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 579 PRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 579 ~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
|+|++|+.+ +..|+ |.+|||+.+|+|+.+|+.+.++++++|+.
T Consensus 1 ~re~~vl~l-~~~g~----s~~eIA~~l~is~~tV~~~~~~~~~kl~~ 43 (61)
T 2jpc_A 1 LRERQVLKL-IDEGY----TNHGISEKLHISIKTVETHRMNMMRKLQV 43 (61)
T ss_dssp CHHHHHHHH-HHTSC----CSHHHHHHTCSCHHHHHHHHHHHHHHHTC
T ss_pred CHHHHHHHH-HHcCC----CHHHHHHHhCCCHHHHHHHHHHHHHHHCC
Confidence 579999999 77777 99999999999999999999999999974
|
| >1p4w_A RCSB; solution structure, DNA binding domain, DNA binding protein; NMR {Erwinia amylovora} SCOP: a.4.6.2 | Back alignment and structure |
|---|
Probab=96.83 E-value=0.0012 Score=62.41 Aligned_cols=47 Identities=28% Similarity=0.405 Sum_probs=42.6
Q ss_pred HhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 574 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 574 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
...||++|++||.+. ..|+ |.+|||+.||+|..+|+....+++++|.
T Consensus 32 ~~~Lt~re~~Vl~l~-~~G~----s~~EIA~~L~iS~~TV~~~l~ri~~KLg 78 (99)
T 1p4w_A 32 DKRLSPKESEVLRLF-AEGF----LVTEIAKKLNRSIKTISSQKKSAMMKLG 78 (99)
T ss_dssp SSSCCHHHHHHHHHH-HHTC----CHHHHHHHHTSCHHHHHHHHHHHHHHHT
T ss_pred cCCCCHHHHHHHHHH-HcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHC
Confidence 366999999999995 4666 9999999999999999999999999995
|
| >2q0o_A Probable transcriptional activator protein TRAR; helix-turn-helix, two-helix coiled coil; HET: LAE; 2.00A {Rhizobium SP} | Back alignment and structure |
|---|
Probab=96.40 E-value=0.0046 Score=68.35 Aligned_cols=55 Identities=20% Similarity=0.118 Sum_probs=48.6
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHH
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~ 1424 (1432)
..||++|++||.+. ..|. |.+|||++||+|..||+.++.++++||.-..+.....
T Consensus 174 ~~Lt~~e~~vl~~~-~~g~----s~~eIa~~l~is~~tV~~~~~~~~~kl~~~~~~~~~~ 228 (236)
T 2q0o_A 174 QMLSPREMLCLVWA-SKGK----TASVTANLTGINARTVQHYLDKARAKLDAESVPQLVA 228 (236)
T ss_dssp GSCCHHHHHHHHHH-HTTC----CHHHHHHHHCCCHHHHHHHHHHHHHHHTCSSHHHHHH
T ss_pred CCCCHHHHHHHHHH-HcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHhCCCCHHHHHH
Confidence 35999999999995 4666 9999999999999999999999999999888776543
|
| >1l3l_A Transcriptional activator protein TRAR; helix-turn-helix DNA binding motif, alpha/beta/alpha sandwich; HET: LAE; 1.66A {Agrobacterium tumefaciens} SCOP: a.4.6.2 d.110.5.1 PDB: 1h0m_A* | Back alignment and structure |
|---|
Probab=96.33 E-value=0.0052 Score=67.79 Aligned_cols=54 Identities=22% Similarity=0.268 Sum_probs=47.9
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHH
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~ 1424 (1432)
.||++|++||.+. ..|+ |.+|||+.||+|..||+..+.++++||.-..+.+...
T Consensus 173 ~Lt~~e~~vl~~~-~~g~----s~~eIa~~l~is~~tV~~~~~~~~~kl~~~~~~~~~~ 226 (234)
T 1l3l_A 173 WLDPKEATYLRWI-AVGK----TMEEIADVEGVKYNSVRVKLREAMKRFDVRSKAHLTA 226 (234)
T ss_dssp CCCHHHHHHHHHH-TTTC----CHHHHHHHHTCCHHHHHHHHHHHHHHHTCSSHHHHHH
T ss_pred CCCHHHHHHHHHH-HcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHhCCCCHHHHHH
Confidence 5999999999995 4666 9999999999999999999999999998877776543
|
| >3szt_A QCSR, quorum-sensing control repressor; quorum sensing acyl-homoserine lactone, helix-turn-helix, transcription factor, 3-OXO-C12 HSL; HET: OHN; 2.55A {Pseudomonas aeruginosa} | Back alignment and structure |
|---|
Probab=96.03 E-value=0.018 Score=63.57 Aligned_cols=54 Identities=22% Similarity=0.347 Sum_probs=48.1
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhH
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKL 1423 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l 1423 (1432)
..||++|++||.+. ..|+ |.+|||+.||+|..||+..+.++++||.-..+....
T Consensus 174 ~~Lt~re~~vl~~~-~~G~----s~~eIa~~l~is~~tV~~~~~~~~~kl~~~~~~~~~ 227 (237)
T 3szt_A 174 VRLTARETEMLKWT-AVGK----TYGEIGLILSIDQRTVKFHIVNAMRKLNSSNKAEAT 227 (237)
T ss_dssp CCCCHHHHHHHHHH-HTTC----CHHHHHHHHTSCHHHHHHHHHHHHHHTTCSSHHHHH
T ss_pred CCCCHHHHHHHHHH-HcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHhCCCCHHHHH
Confidence 46999999999996 4566 999999999999999999999999999887777654
|
| >2w7n_A TRFB transcriptional repressor protein; INCP, plasmid, repressor, DNA-binding, transcription/DNA; HET: BRU; 1.85A {Escherichia coli} | Back alignment and structure |
|---|
Probab=95.97 E-value=0.014 Score=54.82 Aligned_cols=46 Identities=9% Similarity=0.074 Sum_probs=42.9
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhh
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 1415 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr 1415 (1432)
++++.-..|-.++|..|+ |..|||+.||+||.+|++.+.+|...+-
T Consensus 18 ~~~~~~~~~A~lyYv~g~----tQ~eIA~~lGiSR~~VsrlL~~Ar~~~~ 63 (101)
T 2w7n_A 18 EVGQQTIEIARGVLVDGK----PQATFATSLGLTRGAVSQAVHRVWAAFE 63 (101)
T ss_dssp CCCHHHHHHHHHHHTTCC----CHHHHHHHHTCCHHHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHHh
Confidence 688999999999999998 9999999999999999999999998763
|
| >3qp6_A CVIR transcriptional regulator; quorum sensing, agonist, antagonist, LUXR, acylated homoseri lactone, transcription factor; HET: HL6; 2.00A {Chromobacterium violaceum} PDB: 3qp5_A* | Back alignment and structure |
|---|
Probab=95.75 E-value=0.012 Score=66.18 Aligned_cols=52 Identities=19% Similarity=0.226 Sum_probs=47.3
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhh
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~ 1422 (1432)
.||++|++||.+.. .|+ |.+|||+.||+|..||+..+.++++||.-..+...
T Consensus 197 ~Lt~re~~vl~~~~-~G~----s~~eIA~~l~is~~TV~~~~~~~~~kl~~~~~~~~ 248 (265)
T 3qp6_A 197 PLSQREYDIFHWMS-RGK----TNWEIATILNISERTVKFHVANVIRKLNANNRTHA 248 (265)
T ss_dssp CCCHHHHHHHHHHH-TTC----CHHHHHHHHTSCHHHHHHHHHHHHHHTTCSSHHHH
T ss_pred CCCHHHHHHHHHHH-cCC----CHHHHHHHHCcCHHHHHHHHHHHHHHhCCCCHHHH
Confidence 69999999999984 666 99999999999999999999999999998777654
|
| >1tc3_C Protein (TC3 transposase); DNA binding, helix-turn-helix, TC1/mariner family, complex (transposase/DNA), DNA binding protein/DNA complex; HET: DNA; 2.45A {Caenorhabditis elegans} SCOP: a.4.1.2 | Back alignment and structure |
|---|
Probab=95.68 E-value=0.012 Score=47.09 Aligned_cols=40 Identities=20% Similarity=0.267 Sum_probs=33.1
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHH
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 1409 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~r 1409 (1432)
.|++.++..+...|..|. |..+||+.||||+.||+.++.+
T Consensus 5 ~l~~~~~~~i~~~~~~g~----s~~~IA~~lgis~~Tv~~~~~~ 44 (51)
T 1tc3_C 5 ALSDTERAQLDVMKLLNV----SLHEMSRKISRSRHCIRVYLKD 44 (51)
T ss_dssp CCCHHHHHHHHHHHHTTC----CHHHHHHHHTCCHHHHHHHHHC
T ss_pred CCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHhh
Confidence 588888866666676666 9999999999999999988754
|
| >2q0o_A Probable transcriptional activator protein TRAR; helix-turn-helix, two-helix coiled coil; HET: LAE; 2.00A {Rhizobium SP} | Back alignment and structure |
|---|
Probab=95.37 E-value=0.015 Score=64.14 Aligned_cols=45 Identities=22% Similarity=0.188 Sum_probs=41.4
Q ss_pred cCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
.||++|++||.+. ..|+ |.+|||+.+|+|..+|+.+..++++||.
T Consensus 175 ~Lt~~e~~vl~~~-~~g~----s~~eIa~~l~is~~tV~~~~~~~~~kl~ 219 (236)
T 2q0o_A 175 MLSPREMLCLVWA-SKGK----TASVTANLTGINARTVQHYLDKARAKLD 219 (236)
T ss_dssp SCCHHHHHHHHHH-HTTC----CHHHHHHHHCCCHHHHHHHHHHHHHHHT
T ss_pred CCCHHHHHHHHHH-HcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHhC
Confidence 5999999999995 4666 9999999999999999999999999996
|
| >1l3l_A Transcriptional activator protein TRAR; helix-turn-helix DNA binding motif, alpha/beta/alpha sandwich; HET: LAE; 1.66A {Agrobacterium tumefaciens} SCOP: a.4.6.2 d.110.5.1 PDB: 1h0m_A* | Back alignment and structure |
|---|
Probab=95.35 E-value=0.015 Score=64.03 Aligned_cols=45 Identities=24% Similarity=0.367 Sum_probs=41.3
Q ss_pred cCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
.||++|++||.+. ..|+ |.+|||+.||+|..+|+.+.+++++||.
T Consensus 173 ~Lt~~e~~vl~~~-~~g~----s~~eIa~~l~is~~tV~~~~~~~~~kl~ 217 (234)
T 1l3l_A 173 WLDPKEATYLRWI-AVGK----TMEEIADVEGVKYNSVRVKLREAMKRFD 217 (234)
T ss_dssp CCCHHHHHHHHHH-TTTC----CHHHHHHHHTCCHHHHHHHHHHHHHHHT
T ss_pred CCCHHHHHHHHHH-HcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHhC
Confidence 5999999999995 4666 9999999999999999999999999995
|
| >2x48_A CAG38821; archeal virus, viral protein; 2.60A {Sulfolobus islandicus rod-shaped virusorganism_taxid} | Back alignment and structure |
|---|
Probab=95.02 E-value=0.011 Score=49.07 Aligned_cols=40 Identities=13% Similarity=0.197 Sum_probs=30.8
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHH
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 1410 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rA 1410 (1432)
.+++..+.|+.+ |..|. |..|||+.||+|+.||++++.+|
T Consensus 16 ~~~~~~~~i~~l-~~~g~----s~~eIA~~lgis~~TV~~~l~~a 55 (55)
T 2x48_A 16 SEDDLVSVAHEL-AKMGY----TVQQIANALGVSERKVRRYLESC 55 (55)
T ss_dssp SHHHHHHHHHHH-HHTTC----CHHHHHHHHTSCHHHHHHHHTC-
T ss_pred cCHHHHHHHHHH-HHcCC----CHHHHHHHHCcCHHHHHHHHHhC
Confidence 345556667666 55666 99999999999999999987654
|
| >3szt_A QCSR, quorum-sensing control repressor; quorum sensing acyl-homoserine lactone, helix-turn-helix, transcription factor, 3-OXO-C12 HSL; HET: OHN; 2.55A {Pseudomonas aeruginosa} | Back alignment and structure |
|---|
Probab=94.74 E-value=0.051 Score=59.91 Aligned_cols=46 Identities=26% Similarity=0.427 Sum_probs=41.6
Q ss_pred hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 575 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 575 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
..||++|++||.+. ..|+ |.+|||+.||+|..+|+.+..++++||.
T Consensus 174 ~~Lt~re~~vl~~~-~~G~----s~~eIa~~l~is~~tV~~~~~~~~~kl~ 219 (237)
T 3szt_A 174 VRLTARETEMLKWT-AVGK----TYGEIGLILSIDQRTVKFHIVNAMRKLN 219 (237)
T ss_dssp CCCCHHHHHHHHHH-HTTC----CHHHHHHHHTSCHHHHHHHHHHHHHHTT
T ss_pred CCCCHHHHHHHHHH-HcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHhC
Confidence 46999999999996 4555 9999999999999999999999999985
|
| >2fcj_A Small toprim domain protein; structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: MES; 1.30A {Geobacillus stearothermophilus} SCOP: c.136.1.1 PDB: 2i5r_A* | Back alignment and structure |
|---|
Probab=94.42 E-value=0.055 Score=52.27 Aligned_cols=58 Identities=21% Similarity=0.248 Sum_probs=43.8
Q ss_pred CCeEEEEecchhHHHHhhhC-C-----------------------CCCeEEEEecCcHHHHHHHHHHHHHhhhhcCCCce
Q psy15215 729 SGYVLITEGYMDVIGLSQFG-F-----------------------FANSSYTCFDGDQAGRRAARRALEVCLLYATDDKI 784 (1432)
Q Consensus 729 ~~~~~~vEG~~D~ia~~~~g-~-----------------------~~~~i~~~~D~D~aG~~a~~~~~~~~~~~~~~~~~ 784 (1432)
-+.+|||||=.|+.+|.++| + ....|+++.|+|.+|.+-..+..+.+ ++
T Consensus 4 i~~vIVVEGk~D~~~L~~~~~~~~~iI~t~Gsi~~~~l~~I~~~~~~r~VIi~TD~D~~GekIRk~i~~~l-----p~-- 76 (119)
T 2fcj_A 4 VEKVIIVEGRSDKQKVAAVLNEPVVIVCTNGTISDARLEELADELEGYDVYLLADADEAGEKLRRQFRRMF-----PE-- 76 (119)
T ss_dssp CCEEEEESSHHHHHHHHHHBSSCCEEEECCSCCCHHHHHHHHHHTTTSEEEEECCSSHHHHHHHHHHHHHC-----TT--
T ss_pred cCeEEEEechHHHHHHHHhcCCCCCEEEeCCccCHHHHHHHHHHhcCCCEEEEECCCccHHHHHHHHHHHC-----CC--
Confidence 46799999999999999998 3 35788999999999987665544433 22
Q ss_pred EEEecCCCC
Q psy15215 785 IKFLFLPDK 793 (1432)
Q Consensus 785 ~~~~~lp~~ 793 (1432)
+..+++|..
T Consensus 77 ~~hafi~r~ 85 (119)
T 2fcj_A 77 AEHLYIDRA 85 (119)
T ss_dssp SEEECCCTT
T ss_pred CcEEeccCC
Confidence 356667764
|
| >3qp6_A CVIR transcriptional regulator; quorum sensing, agonist, antagonist, LUXR, acylated homoseri lactone, transcription factor; HET: HL6; 2.00A {Chromobacterium violaceum} PDB: 3qp5_A* | Back alignment and structure |
|---|
Probab=94.22 E-value=0.038 Score=62.10 Aligned_cols=46 Identities=20% Similarity=0.262 Sum_probs=41.9
Q ss_pred cCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRP 626 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~ 626 (1432)
.||++|++||.+.. .|+ |.+|||+.||+|..+|+.+..++++||.-
T Consensus 197 ~Lt~re~~vl~~~~-~G~----s~~eIA~~l~is~~TV~~~~~~~~~kl~~ 242 (265)
T 3qp6_A 197 PLSQREYDIFHWMS-RGK----TNWEIATILNISERTVKFHVANVIRKLNA 242 (265)
T ss_dssp CCCHHHHHHHHHHH-TTC----CHHHHHHHHTSCHHHHHHHHHHHHHHTTC
T ss_pred CCCHHHHHHHHHHH-cCC----CHHHHHHHHCcCHHHHHHHHHHHHHHhCC
Confidence 69999999999984 566 99999999999999999999999999963
|
| >2w7n_A TRFB transcriptional repressor protein; INCP, plasmid, repressor, DNA-binding, transcription/DNA; HET: BRU; 1.85A {Escherichia coli} | Back alignment and structure |
|---|
Probab=94.19 E-value=0.11 Score=48.71 Aligned_cols=45 Identities=9% Similarity=0.073 Sum_probs=41.0
Q ss_pred cCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKL 624 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kL 624 (1432)
++++.-.+|-.++|..|+ |+.|||+.+|+|+.+|.+...+|...+
T Consensus 18 ~~~~~~~~~A~lyYv~g~----tQ~eIA~~lGiSR~~VsrlL~~Ar~~~ 62 (101)
T 2w7n_A 18 EVGQQTIEIARGVLVDGK----PQATFATSLGLTRGAVSQAVHRVWAAF 62 (101)
T ss_dssp CCCHHHHHHHHHHHTTCC----CHHHHHHHHTCCHHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHH
Confidence 588888999999999888 999999999999999998888887765
|
| >1yio_A Response regulatory protein; transcription regulation, DNA binding protein; 2.20A {Pseudomonas fluorescens} SCOP: a.4.6.2 c.23.1.1 PDB: 1zn2_A | Back alignment and structure |
|---|
Probab=94.02 E-value=0.11 Score=55.28 Aligned_cols=59 Identities=17% Similarity=0.237 Sum_probs=49.5
Q ss_pred HHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHH
Q psy15215 1361 KDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1361 ~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~ 1424 (1432)
...+..||++|++|+.+. ..| +|.++||+.+|+|..||+...++.++||.-..+.....
T Consensus 137 ~~~~~~Lt~rE~~vl~~l-~~g----~s~~~Ia~~l~is~~TV~~~~~~i~~Kl~~~~~~~~i~ 195 (208)
T 1yio_A 137 EQLFSSLTGREQQVLQLT-IRG----LMNKQIAGELGIAEVTVKVHRHNIMQKLNVRSLANLVH 195 (208)
T ss_dssp HHHHHTSCHHHHHHHHHH-TTT----CCHHHHHHHHTCCHHHHHHHHHHHHHHTTCSSHHHHHH
T ss_pred HHHHHhcCHHHHHHHHHH-HcC----CcHHHHHHHcCCCHHHHHHHHHHHHHHhCCCCHHHHHH
Confidence 344567999999999875 344 49999999999999999999999999998877666544
|
| >1tc3_C Protein (TC3 transposase); DNA binding, helix-turn-helix, TC1/mariner family, complex (transposase/DNA), DNA binding protein/DNA complex; HET: DNA; 2.45A {Caenorhabditis elegans} SCOP: a.4.1.2 | Back alignment and structure |
|---|
Probab=94.01 E-value=0.051 Score=43.38 Aligned_cols=39 Identities=21% Similarity=0.269 Sum_probs=31.8
Q ss_pred cCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEA 618 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~ 618 (1432)
.|++.++..+...+..|+ |..+||+.||+|+.+|..+..
T Consensus 5 ~l~~~~~~~i~~~~~~g~----s~~~IA~~lgis~~Tv~~~~~ 43 (51)
T 1tc3_C 5 ALSDTERAQLDVMKLLNV----SLHEMSRKISRSRHCIRVYLK 43 (51)
T ss_dssp CCCHHHHHHHHHHHHTTC----CHHHHHHHHTCCHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHh
Confidence 488888866666676666 999999999999999987654
|
| >1a04_A Nitrate/nitrite response regulator protein NARL; signal transduction protein, response regulators, two- component systems; 2.20A {Escherichia coli} SCOP: a.4.6.2 c.23.1.1 PDB: 1rnl_A | Back alignment and structure |
|---|
Probab=92.79 E-value=0.18 Score=54.12 Aligned_cols=55 Identities=24% Similarity=0.405 Sum_probs=47.5
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHH
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~ 1424 (1432)
..||++|++|+.+- ..|. |.+|||+.+++|..||+...++.++||.-..+.....
T Consensus 153 ~~Lt~rE~~vl~~l-~~g~----s~~~Ia~~l~is~~TV~~hi~~i~~Kl~~~~r~~l~~ 207 (215)
T 1a04_A 153 NQLTPRERDILKLI-AQGL----PNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAV 207 (215)
T ss_dssp GGSCHHHHHHHHHH-HTTC----CHHHHHHHHTCCHHHHHHHHHHHHHHHTCCSHHHHHH
T ss_pred cCCCHHHHHHHHHH-HcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHcCCCCHHHHHH
Confidence 45999999999874 3454 9999999999999999999999999998877776543
|
| >3c3w_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 2.20A {Mycobacterium tuberculosis} | Back alignment and structure |
|---|
Probab=91.82 E-value=0.21 Score=54.19 Aligned_cols=54 Identities=17% Similarity=0.247 Sum_probs=46.4
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhH
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKL 1423 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l 1423 (1432)
..||++|++||.+- ..|. |.+|||+.+++|..||+...++.++||.-..+....
T Consensus 148 ~~LT~rE~~vL~~l-~~g~----s~~eIa~~l~is~~TV~~hi~~l~~KL~~~~r~~l~ 201 (225)
T 3c3w_A 148 SGLTDQERTLLGLL-SEGL----TNKQIADRMFLAEKTVKNYVSRLLAKLGMERRTQAA 201 (225)
T ss_dssp TTSCHHHHHHHHHH-HTTC----CHHHHHHHHTCCHHHHHHHHHHHHHHTTCCSSCHHH
T ss_pred CCCCHHHHHHHHHH-HCCC----CHHHHHHHhCCCHHHHHHHHHHHHHHhCCCCHHHHH
Confidence 46999999999874 3444 999999999999999999999999999877766543
|
| >2x48_A CAG38821; archeal virus, viral protein; 2.60A {Sulfolobus islandicus rod-shaped virusorganism_taxid} | Back alignment and structure |
|---|
Probab=91.81 E-value=0.073 Score=43.90 Aligned_cols=38 Identities=11% Similarity=0.184 Sum_probs=29.3
Q ss_pred CCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHH
Q psy15215 577 LTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 619 (1432)
Q Consensus 577 L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~r 619 (1432)
+++..+.|+.+ +..|. |..|||+.+|+|+.+|+.+..+
T Consensus 17 ~~~~~~~i~~l-~~~g~----s~~eIA~~lgis~~TV~~~l~~ 54 (55)
T 2x48_A 17 EDDLVSVAHEL-AKMGY----TVQQIANALGVSERKVRRYLES 54 (55)
T ss_dssp HHHHHHHHHHH-HHTTC----CHHHHHHHHTSCHHHHHHHHTC
T ss_pred CHHHHHHHHHH-HHcCC----CHHHHHHHHCcCHHHHHHHHHh
Confidence 44555666666 55566 9999999999999999987654
|
| >3klo_A Transcriptional regulator VPST; REC domain, HTH domain, DNA-binding, transcription regulation; HET: C2E TAR; 2.80A {Vibrio cholerae} PDB: 3kln_A* | Back alignment and structure |
|---|
Probab=91.34 E-value=0.18 Score=54.64 Aligned_cols=56 Identities=18% Similarity=0.339 Sum_probs=47.8
Q ss_pred HccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHH
Q psy15215 1364 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1364 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~ 1424 (1432)
...||++|++||.+ +..| +|.++||+.+++|..||+...++.++||.-..+.....
T Consensus 157 ~~~Lt~rE~~vL~~-l~~g----~s~~~Ia~~l~~s~~Tv~~~i~~l~~KL~~~~~~~l~~ 212 (225)
T 3klo_A 157 YAKLTKREQQIIKL-LGSG----ASNIEIADKLFVSENTVKTHLHNVFKKINAKNRLQALI 212 (225)
T ss_dssp HHTSCHHHHHHHHH-HTTT----CCHHHHHHHTTCCHHHHHHHHHHHTTTSCCSSHHHHHH
T ss_pred cccCCHHHHHHHHH-HHcC----CCHHHHHHHhCCCHHHHHHHHHHHHHHhCCCCHHHHHH
Confidence 34699999999988 4444 49999999999999999999999999998877776544
|
| >1yio_A Response regulatory protein; transcription regulation, DNA binding protein; 2.20A {Pseudomonas fluorescens} SCOP: a.4.6.2 c.23.1.1 PDB: 1zn2_A | Back alignment and structure |
|---|
Probab=89.37 E-value=0.55 Score=49.84 Aligned_cols=50 Identities=18% Similarity=0.327 Sum_probs=43.0
Q ss_pred HHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 571 KDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 571 ~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
...+..||++|++|+.+. .. ++|.++||+.+|+|..+|+.+.++.++||.
T Consensus 137 ~~~~~~Lt~rE~~vl~~l-~~----g~s~~~Ia~~l~is~~TV~~~~~~i~~Kl~ 186 (208)
T 1yio_A 137 EQLFSSLTGREQQVLQLT-IR----GLMNKQIAGELGIAEVTVKVHRHNIMQKLN 186 (208)
T ss_dssp HHHHHTSCHHHHHHHHHH-TT----TCCHHHHHHHHTCCHHHHHHHHHHHHHHTT
T ss_pred HHHHHhcCHHHHHHHHHH-Hc----CCcHHHHHHHcCCCHHHHHHHHHHHHHHhC
Confidence 445667999999999875 33 459999999999999999999999999985
|
| >3p7n_A Sensor histidine kinase; LOV domain, light-activated transcription factor, DNA bindin; HET: FMN; 2.10A {Erythrobacter litoralis} | Back alignment and structure |
|---|
Probab=89.31 E-value=0.89 Score=49.94 Aligned_cols=65 Identities=15% Similarity=0.281 Sum_probs=55.6
Q ss_pred HHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHH
Q psy15215 1355 SMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1355 ~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~ 1424 (1432)
.........+..|+++++.++.+.. .+. +..+||..+|+|..+|+....++++||.-..+...+.
T Consensus 187 ~~~~~~~~~l~~L~~r~~~i~~~~~-~g~----~~~eia~~l~~s~~tv~~~l~~i~~kl~~~~~~elv~ 251 (258)
T 3p7n_A 187 ARRERAAEMLKTLSPRQLEVTTLVA-SGL----RNKEVAARLGLSEKTVKMHRGLVMEKLNLKTSADLVR 251 (258)
T ss_dssp HHHHHHHHHHTTSCHHHHHHHHHHH-TTC----CHHHHHHHHTCCHHHHHHHHHHHHHHTTCSCHHHHHH
T ss_pred HHHHHHHHHHhhcCHHHHHHHHHHH-cCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHCCCCHHHHHH
Confidence 3456677889999999999998865 444 9999999999999999999999999999888776554
|
| >1a04_A Nitrate/nitrite response regulator protein NARL; signal transduction protein, response regulators, two- component systems; 2.20A {Escherichia coli} SCOP: a.4.6.2 c.23.1.1 PDB: 1rnl_A | Back alignment and structure |
|---|
Probab=87.96 E-value=0.6 Score=49.84 Aligned_cols=46 Identities=24% Similarity=0.504 Sum_probs=40.5
Q ss_pred hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 575 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 575 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
..||++|++|+.+- ..|. |.+|||+.+++|..+|+.+.++.++||.
T Consensus 153 ~~Lt~rE~~vl~~l-~~g~----s~~~Ia~~l~is~~TV~~hi~~i~~Kl~ 198 (215)
T 1a04_A 153 NQLTPRERDILKLI-AQGL----PNKMIARRLDITESTVKVHVKHMLKKMK 198 (215)
T ss_dssp GGSCHHHHHHHHHH-HTTC----CHHHHHHHHTCCHHHHHHHHHHHHHHHT
T ss_pred cCCCHHHHHHHHHH-HcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHcC
Confidence 45999999999875 3444 9999999999999999999999999995
|
| >1p2f_A Response regulator; DRRB, OMPR/PHOB, transcription; HET: MSE; 1.80A {Thermotoga maritima} SCOP: a.4.6.1 c.23.1.1 PDB: 3nns_A* | Back alignment and structure |
|---|
Probab=87.50 E-value=0.49 Score=50.76 Aligned_cols=52 Identities=13% Similarity=0.169 Sum_probs=45.0
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhC---CCHHHHHHHHHHHHHHhhCch
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFD---VTRERIRQIEAKALRKLRHPS 1418 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~---vs~~~Vrq~~~rAl~kLr~~~ 1418 (1432)
.||++|.+||.+ +..|.+...|.++||+.++ +|..||+...++.++||....
T Consensus 145 ~Lt~rE~~vl~~-l~~~~~~~~s~~~Ia~~l~~~~~s~~tv~~~i~~l~~Kl~~~~ 199 (220)
T 1p2f_A 145 HLPKKEFEILLF-LAENAGKVVTREKLLETFWEDPVSPRVVDTVIKRIRKAIEDDP 199 (220)
T ss_dssp CCCHHHHHHHHH-HHHTTTSCEEHHHHHHHHCSSCCCTHHHHHHHHHHHHHHCSST
T ss_pred ecCHHHHHHHHH-HHHCCCceEcHHHHHHHHhCCCCCcchHHHHHHHHHHHHhccC
Confidence 599999999976 4456556789999999999 999999999999999997543
|
| >1jko_C HIN recombinase, DNA-invertase HIN; water-mediated recognition, protein-DNA complex, A10G mutant, DNA binding protein/DNA complex; 2.24A {Synthetic} SCOP: a.4.1.2 PDB: 1ijw_C* 1jj6_C* 1jj8_C* 1hcr_A 1jkp_C 1jkq_C 1jkr_C | Back alignment and structure |
|---|
Probab=87.25 E-value=0.29 Score=39.24 Aligned_cols=38 Identities=8% Similarity=0.165 Sum_probs=27.2
Q ss_pred CCHHH-HHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHH
Q psy15215 1367 LTPRE-SKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 1409 (1432)
Q Consensus 1367 L~~re-r~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~r 1409 (1432)
+++.+ +.|+.+ +..|. |..+||+.||||+.||..++.+
T Consensus 6 ~~~~~~~~i~~l-~~~g~----s~~~ia~~lgvs~~Tv~r~l~~ 44 (52)
T 1jko_C 6 INKHEQEQISRL-LEKGH----PRQQLAIIFGIGVSTLYRYFPA 44 (52)
T ss_dssp SCTTHHHHHHHH-HHTTC----CHHHHHHTTSCCHHHHHHHSCT
T ss_pred CCHHHHHHHHHH-HHcCC----CHHHHHHHHCCCHHHHHHHHHH
Confidence 44433 445555 44444 9999999999999999987643
|
| >2gwr_A DNA-binding response regulator MTRA; two-component regulatory system, transcription regulation, phosphorylation, OMPR family; 2.10A {Mycobacterium tuberculosis} PDB: 3nhz_A | Back alignment and structure |
|---|
Probab=86.96 E-value=0.65 Score=50.61 Aligned_cols=52 Identities=17% Similarity=0.059 Sum_probs=44.1
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHh-----CCCHHHHHHHHHHHHHHhhCc
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQF-----DVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l-----~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
..||++|.+||.+- ..+.+...|.+|||+.+ ++|..||+...++.++||...
T Consensus 152 ~~LT~rE~~vL~~l-~~~~~~~~s~~eIa~~lw~~~~~~s~~tV~~hi~~lr~KL~~~ 208 (238)
T 2gwr_A 152 ISLTPLEFDLLVAL-ARKPRQVFTRDVLLEQVWGYRHPADTRLVNVHVQRLRAKVEKD 208 (238)
T ss_dssp ECCCHHHHHHHHHH-HHSTTCCBCHHHHHHHHTCCC--CCTHHHHHHHHHHHHHHCSS
T ss_pred cccCHHHHHHHHHH-HHCCCceecHHHHHHHHcCCCCCCCcccHHHHHHHHHHHhccC
Confidence 35999999999764 45655678999999999 999999999999999999753
|
| >1qgp_A Protein (double stranded RNA adenosine deaminase); Z-alpha-Z-DNA binding domain, RNA-editing, Z-DNA recognition, ADAR1, helix- turn-helix; NMR {Homo sapiens} SCOP: a.4.5.19 | Back alignment and structure |
|---|
Probab=86.43 E-value=0.6 Score=41.54 Aligned_cols=42 Identities=10% Similarity=0.224 Sum_probs=30.9
Q ss_pred HHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHH
Q psy15215 1369 PRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 1410 (1432)
Q Consensus 1369 ~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rA 1410 (1432)
+.++.||.+-.-.+.+.+.|..|||+.+|||+.+|++++.+-
T Consensus 14 ~~~~~IL~~L~~~~~~~~~t~~eLA~~Lgvs~~tV~~~L~~L 55 (77)
T 1qgp_A 14 DQEQRILKFLEELGEGKATTAHDLSGKLGTPKKEINRVLYSL 55 (77)
T ss_dssp HHHHHHHHHHHHHCSSSCEEHHHHHHHHCCCHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCCCCcCHHHHHHHHCcCHHHHHHHHHHH
Confidence 445777665554553456799999999999999998776543
|
| >1qbj_A Protein (double-stranded RNA specific adenosine D (ADAR1)); protein-Z-DNA complex, hydrolase-DNA complex; HET: DNA; 2.10A {Homo sapiens} SCOP: a.4.5.19 PDB: 3f21_A* 3f22_A* 3f23_A* 3irr_A* 3irq_D* 2gxb_A 2acj_A 2l54_A | Back alignment and structure |
|---|
Probab=86.15 E-value=0.99 Score=40.54 Aligned_cols=41 Identities=10% Similarity=0.239 Sum_probs=30.3
Q ss_pred HHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHH
Q psy15215 1369 PRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 1409 (1432)
Q Consensus 1369 ~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~r 1409 (1432)
+.++.||.+-.-.+.|...|..|||+.||||+.+|++.+.+
T Consensus 10 ~~~~~IL~~L~~~~pg~~~t~~eLA~~Lgvsr~tV~~~L~~ 50 (81)
T 1qbj_A 10 DQEQRILKFLEELGEGKATTAHDLSGKLGTPKKEINRVLYS 50 (81)
T ss_dssp HHHHHHHHHHHHHCTTCCBCHHHHHHHHTCCHHHHHHHHHH
T ss_pred HHHHHHHHHHHHcCCCCCcCHHHHHHHHCcCHHHHHHHHHH
Confidence 34666776655555455779999999999999998865544
|
| >2oqr_A Sensory transduction protein REGX3; response regulator, winged-helix-turn-helix, DNA-binding, 3D swapping, two component system; 2.03A {Mycobacterium tuberculosis H37RV} | Back alignment and structure |
|---|
Probab=86.09 E-value=0.6 Score=50.41 Aligned_cols=51 Identities=10% Similarity=-0.025 Sum_probs=44.5
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHh-----CCCHHHHHHHHHHHHHHhhCc
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQF-----DVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l-----~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
.||++|.+||.+- ..+.+...|.+|||+.+ ++|..||+...++.++||...
T Consensus 156 ~Lt~rE~~vL~~l-~~~~~~~~s~~~Ia~~lw~~~~~~s~~tv~~hi~~i~~Kl~~~ 211 (230)
T 2oqr_A 156 TLPLKEFDLLEYL-MRNSGRVLTRGQLIDRVWGADYVGDTKTLDVHVKRLRSKIEAD 211 (230)
T ss_dssp CCCHHHHHHHHHH-HHTTTSCEEHHHHHHHHTSSCCTTHHHHHHHHHHHHHHHHCSS
T ss_pred ecCHHHHHHHHHH-HhCCCceEcHHHHHHHhcCCCCCCCCcCHHHHHHHHHHHHhhC
Confidence 5999999999874 35655678999999999 999999999999999999753
|
| >3c3w_A Two component transcriptional regulatory protein; response regulator, two-component regulatory system, DNA-BIN protein; 2.20A {Mycobacterium tuberculosis} | Back alignment and structure |
|---|
Probab=85.94 E-value=0.63 Score=50.28 Aligned_cols=46 Identities=17% Similarity=0.273 Sum_probs=40.0
Q ss_pred hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 575 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 575 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
..||++|++||.+- ..| .|.+|||+.+++|..+|+...++.++||.
T Consensus 148 ~~LT~rE~~vL~~l-~~g----~s~~eIa~~l~is~~TV~~hi~~l~~KL~ 193 (225)
T 3c3w_A 148 SGLTDQERTLLGLL-SEG----LTNKQIADRMFLAEKTVKNYVSRLLAKLG 193 (225)
T ss_dssp TTSCHHHHHHHHHH-HTT----CCHHHHHHHHTCCHHHHHHHHHHHHHHTT
T ss_pred CCCCHHHHHHHHHH-HCC----CCHHHHHHHhCCCHHHHHHHHHHHHHHhC
Confidence 45999999999874 344 59999999999999999999999988884
|
| >1kgs_A DRRD, DNA binding response regulator D; DNA-binding protein, ALPH-beta sandwich, winged-helix, helix helix, DNA binding protein; HET: DNA MSE; 1.50A {Thermotoga maritima} SCOP: a.4.6.1 c.23.1.1 PDB: 3nnn_A* | Back alignment and structure |
|---|
Probab=84.97 E-value=0.72 Score=49.52 Aligned_cols=54 Identities=19% Similarity=0.158 Sum_probs=45.5
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhC-----CCHHHHHHHHHHHHHHhhCchhh
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFD-----VTRERIRQIEAKALRKLRHPSRY 1420 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~-----vs~~~Vrq~~~rAl~kLr~~~~~ 1420 (1432)
.||++|.+||.+- ..|.+...|.+|||+.++ +|..||+...++.++||....+.
T Consensus 151 ~Lt~rE~~vL~~l-~~~~~~~~s~~eIa~~l~~~~~~~s~~tv~~hi~~l~~Kl~~~~~~ 209 (225)
T 1kgs_A 151 DLTKKEYQILEYL-VMNKNRVVTKEELQEHLWSFDDEVFSDVLRSHIKNLRKKVDKGFKK 209 (225)
T ss_dssp CCCHHHHHHHHHH-HHTTTSCEEHHHHHHHCC-----CHHHHHHHHHHHHHHHHHTTCSS
T ss_pred ecCHHHHHHHHHH-HhCCCcccCHHHHHHHhcCCCCCCCcchHHHHHHHHHHHhhCCCCC
Confidence 5999999999764 355456679999999998 99999999999999999765443
|
| >3klo_A Transcriptional regulator VPST; REC domain, HTH domain, DNA-binding, transcription regulation; HET: C2E TAR; 2.80A {Vibrio cholerae} PDB: 3kln_A* | Back alignment and structure |
|---|
Probab=83.68 E-value=0.73 Score=49.73 Aligned_cols=47 Identities=17% Similarity=0.352 Sum_probs=40.5
Q ss_pred HhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 574 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 574 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
...||++|.+||.+- .. ++|.++||+.+++|..+|+.+.++.++||.
T Consensus 157 ~~~Lt~rE~~vL~~l-~~----g~s~~~Ia~~l~~s~~Tv~~~i~~l~~KL~ 203 (225)
T 3klo_A 157 YAKLTKREQQIIKLL-GS----GASNIEIADKLFVSENTVKTHLHNVFKKIN 203 (225)
T ss_dssp HHTSCHHHHHHHHHH-TT----TCCHHHHHHHTTCCHHHHHHHHHHHTTTSC
T ss_pred cccCCHHHHHHHHHH-Hc----CCCHHHHHHHhCCCHHHHHHHHHHHHHHhC
Confidence 345999999999884 34 459999999999999999999999988884
|
| >1zx4_A P1 PARB, plasmid partition PAR B protein, PARB; translation; HET: CIT; 2.98A {Enterobacteria phage P1} PDB: 2ntz_A | Back alignment and structure |
|---|
Probab=83.67 E-value=0.82 Score=48.04 Aligned_cols=37 Identities=11% Similarity=0.187 Sum_probs=30.7
Q ss_pred HHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHH
Q psy15215 1370 RESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKAL 1411 (1432)
Q Consensus 1370 rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl 1411 (1432)
.-..+..+ |..|+ |.+|||+.||||+.+|++++..|.
T Consensus 13 iG~ria~~-y~~g~----tQ~eIA~~lGiSr~~VSR~L~~A~ 49 (192)
T 1zx4_A 13 IGLRLMRM-KNDGM----SQKDIAAKEGLSQAKVTRALQAAS 49 (192)
T ss_dssp HHHHHHHH-HHTTC----CHHHHHHHHTCCHHHHHHHHHHHT
T ss_pred HHHHHHHH-HHcCC----CHHHHHHHhCcCHHHHHHHHHHhc
Confidence 34456666 76777 999999999999999999998875
|
| >1ys7_A Transcriptional regulatory protein PRRA; response regulator, DNA binding domain, phosphorylation; 1.58A {Mycobacterium tuberculosis} SCOP: a.4.6.1 c.23.1.1 PDB: 1ys6_A | Back alignment and structure |
|---|
Probab=82.94 E-value=0.79 Score=49.49 Aligned_cols=54 Identities=15% Similarity=0.028 Sum_probs=44.0
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhC-----CCHHHHHHHHHHHHHHhhCchhh
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFD-----VTRERIRQIEAKALRKLRHPSRY 1420 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~-----vs~~~Vrq~~~rAl~kLr~~~~~ 1420 (1432)
.||++|.+||.+- ..|.+...|.++||+.++ +|..||+...++.++||....+.
T Consensus 159 ~Lt~rE~~vL~~l-~~g~~~~~s~~~Ia~~l~~~~~~~s~~tv~~hi~~l~~Kl~~~~~~ 217 (233)
T 1ys7_A 159 DLTKREFDLLAVL-AEHKTAVLSRAQLLELVWGYDFAADTNVVDVFIGYLRRKLEAGGGP 217 (233)
T ss_dssp CCCHHHHHHHHHH-HHTTTCCBCHHHHHHHHHCCCCC-CCCHHHHHHHHHHHHHHCC--C
T ss_pred ccCHHHHHHHHHH-HhCCCCeEcHHHHHHHhcCcccCCCccCHHHHHHHHHHHhccCCCC
Confidence 5999999999764 456556679999999998 99999999999999999865443
|
| >1p2f_A Response regulator; DRRB, OMPR/PHOB, transcription; HET: MSE; 1.80A {Thermotoga maritima} SCOP: a.4.6.1 c.23.1.1 PDB: 3nns_A* | Back alignment and structure |
|---|
Probab=82.05 E-value=1.4 Score=47.20 Aligned_cols=49 Identities=14% Similarity=0.179 Sum_probs=41.9
Q ss_pred cCCHHHHHHHHHHhhcccCCCCcHHHHHhhcc---cchhHHHHHHHHHHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFD---VTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~---is~~~v~~~~~rAl~kLr 625 (1432)
.||++|.+||.+ +..|.|...|.++||+.++ +|..+|+.+.++.++||.
T Consensus 145 ~Lt~rE~~vl~~-l~~~~~~~~s~~~Ia~~l~~~~~s~~tv~~~i~~l~~Kl~ 196 (220)
T 1p2f_A 145 HLPKKEFEILLF-LAENAGKVVTREKLLETFWEDPVSPRVVDTVIKRIRKAIE 196 (220)
T ss_dssp CCCHHHHHHHHH-HHHTTTSCEEHHHHHHHHCSSCCCTHHHHHHHHHHHHHHC
T ss_pred ecCHHHHHHHHH-HHHCCCceEcHHHHHHHHhCCCCCcchHHHHHHHHHHHHh
Confidence 599999999976 4556556689999999999 999999999888888874
|
| >3q9s_A DNA-binding response regulator; DNA binding protein; 2.40A {Deinococcus radiodurans} | Back alignment and structure |
|---|
Probab=81.93 E-value=0.99 Score=49.71 Aligned_cols=54 Identities=20% Similarity=0.279 Sum_probs=46.0
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHH-----HhCCCHHHHHHHHHHHHHHhhCchhh
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGK-----QFDVTRERIRQIEAKALRKLRHPSRY 1420 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~-----~l~vs~~~Vrq~~~rAl~kLr~~~~~ 1420 (1432)
.||++|.+||.+-. .+.+..+|.+|||+ .+++|..||+...++.++||....+.
T Consensus 182 ~LT~rE~evL~ll~-~g~~~~~s~~eIa~~l~~~~l~~s~~TV~~hi~~lr~KL~~~~~~ 240 (249)
T 3q9s_A 182 RLSPKEFDILALLI-RQPGRVYSRQEIGQEIWQGRLPEGSNVVDVHMANLRAKLRDLDGY 240 (249)
T ss_dssp CCCHHHHHHHHHHH-HSTTCCCCHHHHHHHHHTTCSCTTCSHHHHHHHHHHHHHCCCSCC
T ss_pred ecCHHHHHHHHHHH-HCCCceEcHHHHHHHhcCCCCCCCccCHHHHHHHHHHHhhcCCCC
Confidence 59999999998754 56567789999999 58899999999999999999865543
|
| >2oqr_A Sensory transduction protein REGX3; response regulator, winged-helix-turn-helix, DNA-binding, 3D swapping, two component system; 2.03A {Mycobacterium tuberculosis H37RV} | Back alignment and structure |
|---|
Probab=80.46 E-value=1.6 Score=46.84 Aligned_cols=49 Identities=10% Similarity=-0.016 Sum_probs=41.9
Q ss_pred cCCHHHHHHHHHHhhcccCCCCcHHHHHhhc-----ccchhHHHHHHHHHHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQF-----DVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l-----~is~~~v~~~~~rAl~kLr 625 (1432)
.||++|.+||.+- ..|.|...|.+|||+.+ ++|..+|+.+.++.++||.
T Consensus 156 ~Lt~rE~~vL~~l-~~~~~~~~s~~~Ia~~lw~~~~~~s~~tv~~hi~~i~~Kl~ 209 (230)
T 2oqr_A 156 TLPLKEFDLLEYL-MRNSGRVLTRGQLIDRVWGADYVGDTKTLDVHVKRLRSKIE 209 (230)
T ss_dssp CCCHHHHHHHHHH-HHTTTSCEEHHHHHHHHTSSCCTTHHHHHHHHHHHHHHHHC
T ss_pred ecCHHHHHHHHHH-HhCCCceEcHHHHHHHhcCCCCCCCCcCHHHHHHHHHHHHh
Confidence 4999999999864 45655668999999999 9999999999888888884
|
| >2gwr_A DNA-binding response regulator MTRA; two-component regulatory system, transcription regulation, phosphorylation, OMPR family; 2.10A {Mycobacterium tuberculosis} PDB: 3nhz_A | Back alignment and structure |
|---|
Probab=80.29 E-value=1.8 Score=47.04 Aligned_cols=49 Identities=18% Similarity=0.082 Sum_probs=41.2
Q ss_pred cCCHHHHHHHHHHhhcccCCCCcHHHHHhhc-----ccchhHHHHHHHHHHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQF-----DVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l-----~is~~~v~~~~~rAl~kLr 625 (1432)
.||++|.+||.+- ..|.|...|.+|||+.+ ++|..+|+...++.++||.
T Consensus 153 ~LT~rE~~vL~~l-~~~~~~~~s~~eIa~~lw~~~~~~s~~tV~~hi~~lr~KL~ 206 (238)
T 2gwr_A 153 SLTPLEFDLLVAL-ARKPRQVFTRDVLLEQVWGYRHPADTRLVNVHVQRLRAKVE 206 (238)
T ss_dssp CCCHHHHHHHHHH-HHSTTCCBCHHHHHHHHTCCC--CCTHHHHHHHHHHHHHHC
T ss_pred ccCHHHHHHHHHH-HHCCCceecHHHHHHHHcCCCCCCCcccHHHHHHHHHHHhc
Confidence 5999999999864 45655668999999999 9999999999888888884
|
Homologous Structure Domains
Structure Domains Detected by RPS-BLAST
Original result of RPS-BLAST against SCOP70(version1.75) database
| ID | Alignment Graph | Length |
Definition |
E-value |
| 1432 | ||||
| d1siga_ | 334 | a.177.1.1 (A:) Sigma70 {Escherichia coli [TaxId: 5 | 5e-71 | |
| d1siga_ | 334 | a.177.1.1 (A:) Sigma70 {Escherichia coli [TaxId: 5 | 5e-71 | |
| d1ku2a2 | 180 | a.177.1.1 (A:93-272) Sigma factor SigA {Thermus aq | 2e-27 | |
| d1ku2a2 | 180 | a.177.1.1 (A:93-272) Sigma factor SigA {Thermus aq | 2e-27 | |
| d1ku2a2 | 180 | a.177.1.1 (A:93-272) Sigma factor SigA {Thermus aq | 6e-08 | |
| d1ku2a2 | 180 | a.177.1.1 (A:93-272) Sigma factor SigA {Thermus aq | 6e-08 | |
| d1ttya_ | 87 | a.4.13.2 (A:) Sigma70 (SigA, RpoD) {Thermotoga mar | 6e-24 | |
| d1ttya_ | 87 | a.4.13.2 (A:) Sigma70 (SigA, RpoD) {Thermotoga mar | 2e-19 | |
| d2p7vb1 | 68 | a.4.13.2 (B:546-613) Sigma70 (SigA, RpoD) {Escheri | 2e-21 | |
| d2p7vb1 | 68 | a.4.13.2 (B:546-613) Sigma70 (SigA, RpoD) {Escheri | 5e-17 | |
| d1ku2a1 | 60 | a.4.13.1 (A:273-332) Sigma factor SigA {Thermus aq | 1e-20 | |
| d1ku2a1 | 60 | a.4.13.1 (A:273-332) Sigma factor SigA {Thermus aq | 1e-20 | |
| d1ku3a_ | 61 | a.4.13.2 (A:) Sigma70 (SigA, RpoD) {Thermus aquati | 3e-19 | |
| d1ku3a_ | 61 | a.4.13.2 (A:) Sigma70 (SigA, RpoD) {Thermus aquati | 4e-18 | |
| d1rp3a3 | 87 | a.177.1.1 (A:0-86) Sigma factor sigma-28 (FliA) {A | 4e-18 | |
| d1rp3a3 | 87 | a.177.1.1 (A:0-86) Sigma factor sigma-28 (FliA) {A | 4e-18 | |
| d1l0oc_ | 57 | a.4.13.2 (C:) SigmaF {Bacillus stearothermophilus | 1e-14 | |
| d1l0oc_ | 57 | a.4.13.2 (C:) SigmaF {Bacillus stearothermophilus | 1e-14 | |
| d1rp3a1 | 77 | a.4.13.1 (A:87-163) Sigma factor sigma-28 (FliA) { | 2e-13 | |
| d1rp3a1 | 77 | a.4.13.1 (A:87-163) Sigma factor sigma-28 (FliA) { | 2e-13 | |
| d1rp3a2 | 71 | a.4.13.2 (A:164-234) Sigma factor sigma-28 (FliA) | 8e-09 | |
| d1rp3a2 | 71 | a.4.13.2 (A:164-234) Sigma factor sigma-28 (FliA) | 1e-08 | |
| d1dd9a_ | 314 | e.13.1.1 (A:) DNA primase DnaG catalytic core {Esc | 5e-08 | |
| d1t6t1_ | 108 | c.136.1.1 (1:) Hypothetical protein aq_2086 {Aquif | 1e-06 | |
| d1nuia1 | 192 | e.13.1.2 (A:64-255) Primase fragment of primase-he | 1e-04 | |
| d1or7a1 | 68 | a.4.13.2 (A:120-187) SigmaE factor (RpoE) {Escheri | 0.002 | |
| d1or7a1 | 68 | a.4.13.2 (A:120-187) SigmaE factor (RpoE) {Escheri | 0.002 | |
| d2fcja1 | 114 | c.136.1.1 (A:1-114) Hypothetical protein RBSTP2199 | 0.003 |
| >d1siga_ a.177.1.1 (A:) Sigma70 {Escherichia coli [TaxId: 562]} Length = 334 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Sigma2 domain of RNA polymerase sigma factors superfamily: Sigma2 domain of RNA polymerase sigma factors family: Sigma2 domain of RNA polymerase sigma factors domain: Sigma70 species: Escherichia coli [TaxId: 562]
Score = 239 bits (610), Expect = 5e-71
Identities = 126/332 (37%), Positives = 191/332 (57%), Gaps = 8/332 (2%)
Query: 149 GEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNF---- 204
GEI+IAKRIE+G+ + +++ P I +L +++ E ++ +++ G +D N
Sbjct: 3 GEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYNRVEAEEARLSDLITGFVDPNAEEDL 62
Query: 205 ----SSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKA 260
+ + +++E E D + + + KF+ + + R
Sbjct: 63 APTATHVGSELSQEDLDDDEDEDEEDGDDDSADDDNSIDPELAREKFAELRAQYVVTRDT 122
Query: 261 FEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNK 320
+ +G + + + +S R K + L +++R +++V E+ I+++ V +
Sbjct: 123 IKAKGRSHATAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQ 182
Query: 321 CGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLP 380
C MP+ +FI +F NE + W + + ++ L + QKL ++ + L
Sbjct: 183 CKMPKKNFITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETGLT 242
Query: 381 LNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMK 440
+ ++DINR+M GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMK
Sbjct: 243 IEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 302
Query: 441 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 472
AVDKFEYRRGYKFSTYATWWIRQAITRSIADQ
Sbjct: 303 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 334
|
| >d1siga_ a.177.1.1 (A:) Sigma70 {Escherichia coli [TaxId: 562]} Length = 334 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Sigma2 domain of RNA polymerase sigma factors superfamily: Sigma2 domain of RNA polymerase sigma factors family: Sigma2 domain of RNA polymerase sigma factors domain: Sigma70 species: Escherichia coli [TaxId: 562]
Score = 239 bits (610), Expect = 5e-71
Identities = 126/332 (37%), Positives = 191/332 (57%), Gaps = 8/332 (2%)
Query: 939 GEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNF---- 994
GEI+IAKRIE+G+ + +++ P I +L +++ E ++ +++ G +D N
Sbjct: 3 GEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYNRVEAEEARLSDLITGFVDPNAEEDL 62
Query: 995 ----SSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKA 1050
+ + +++E E D + + + KF+ + + R
Sbjct: 63 APTATHVGSELSQEDLDDDEDEDEEDGDDDSADDDNSIDPELAREKFAELRAQYVVTRDT 122
Query: 1051 FEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNK 1110
+ +G + + + +S R K + L +++R +++V E+ I+++ V +
Sbjct: 123 IKAKGRSHATAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQ 182
Query: 1111 CGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLP 1170
C MP+ +FI +F NE + W + + ++ L + QKL ++ + L
Sbjct: 183 CKMPKKNFITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETGLT 242
Query: 1171 LNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMK 1230
+ ++DINR+M GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMK
Sbjct: 243 IEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 302
Query: 1231 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 1262
AVDKFEYRRGYKFSTYATWWIRQAITRSIADQ
Sbjct: 303 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 334
|
| >d1ku2a2 a.177.1.1 (A:93-272) Sigma factor SigA {Thermus aquaticus [TaxId: 271]} Length = 180 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Sigma2 domain of RNA polymerase sigma factors superfamily: Sigma2 domain of RNA polymerase sigma factors family: Sigma2 domain of RNA polymerase sigma factors domain: Sigma factor SigA species: Thermus aquaticus [TaxId: 271]
Score = 107 bits (269), Expect = 2e-27
Identities = 60/97 (61%), Positives = 74/97 (76%)
Query: 379 LPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGL 438
L L ++ + + A++ + EANLRLV+SIAKKYT RGL FLDLIQEGN GL
Sbjct: 84 GKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGL 143
Query: 439 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 475
++AV+KFEY+R +KFSTYATWWIRQAI R+IADQART
Sbjct: 144 IRAVEKFEYKRRFKFSTYATWWIRQAINRAIADQART 180
|
| >d1ku2a2 a.177.1.1 (A:93-272) Sigma factor SigA {Thermus aquaticus [TaxId: 271]} Length = 180 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Sigma2 domain of RNA polymerase sigma factors superfamily: Sigma2 domain of RNA polymerase sigma factors family: Sigma2 domain of RNA polymerase sigma factors domain: Sigma factor SigA species: Thermus aquaticus [TaxId: 271]
Score = 107 bits (269), Expect = 2e-27
Identities = 60/97 (61%), Positives = 74/97 (76%)
Query: 1169 LPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGL 1228
L L ++ + + A++ + EANLRLV+SIAKKYT RGL FLDLIQEGN GL
Sbjct: 84 GKLKSLPKELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGL 143
Query: 1229 MKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 1265
++AV+KFEY+R +KFSTYATWWIRQAI R+IADQART
Sbjct: 144 IRAVEKFEYKRRFKFSTYATWWIRQAINRAIADQART 180
|
| >d1ku2a2 a.177.1.1 (A:93-272) Sigma factor SigA {Thermus aquaticus [TaxId: 271]} Length = 180 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Sigma2 domain of RNA polymerase sigma factors superfamily: Sigma2 domain of RNA polymerase sigma factors family: Sigma2 domain of RNA polymerase sigma factors domain: Sigma factor SigA species: Thermus aquaticus [TaxId: 271]
Score = 52.1 bits (124), Expect = 6e-08
Identities = 15/37 (40%), Positives = 28/37 (75%)
Query: 130 DPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIH 166
DP++ Y+ E+G V LLT + EI++A+++EEG++ +
Sbjct: 2 DPVRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKK 38
|
| >d1ku2a2 a.177.1.1 (A:93-272) Sigma factor SigA {Thermus aquaticus [TaxId: 271]} Length = 180 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Sigma2 domain of RNA polymerase sigma factors superfamily: Sigma2 domain of RNA polymerase sigma factors family: Sigma2 domain of RNA polymerase sigma factors domain: Sigma factor SigA species: Thermus aquaticus [TaxId: 271]
Score = 52.1 bits (124), Expect = 6e-08
Identities = 15/37 (40%), Positives = 28/37 (75%)
Query: 920 DPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIH 956
DP++ Y+ E+G V LLT + EI++A+++EEG++ +
Sbjct: 2 DPVRQYLHEIGQVPLLTLEEEIDLARKVEEGMEAIKK 38
|
| >d1ttya_ a.4.13.2 (A:) Sigma70 (SigA, RpoD) {Thermotoga maritima [TaxId: 2336]} Length = 87 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: Sigma70 (SigA, RpoD) species: Thermotoga maritima [TaxId: 2336]
Score = 94.8 bits (236), Expect = 6e-24
Identities = 45/78 (57%), Positives = 56/78 (71%)
Query: 1351 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 1410
A+ MR ++ +L +L+PRE+ VLRMR+G+ TLEEVG+ F+VTRERIRQIE KA
Sbjct: 3 AMRMLMREELEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKA 62
Query: 1411 LRKLRHPSRYYKLKIFLE 1428
LRKLRHPSR LK L
Sbjct: 63 LRKLRHPSRSKYLKSLLS 80
|
| >d1ttya_ a.4.13.2 (A:) Sigma70 (SigA, RpoD) {Thermotoga maritima [TaxId: 2336]} Length = 87 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: Sigma70 (SigA, RpoD) species: Thermotoga maritima [TaxId: 2336]
Score = 82.1 bits (203), Expect = 2e-19
Identities = 38/65 (58%), Positives = 49/65 (75%)
Query: 561 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 620
A+ MR ++ +L +L+PRE+ VLRMR+G+ TLEEVG+ F+VTRERIRQIE KA
Sbjct: 3 AMRMLMREELEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKA 62
Query: 621 LRKLR 625
LRKLR
Sbjct: 63 LRKLR 67
|
| >d2p7vb1 a.4.13.2 (B:546-613) Sigma70 (SigA, RpoD) {Escherichia coli [TaxId: 562]} Length = 68 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: Sigma70 (SigA, RpoD) species: Escherichia coli [TaxId: 562]
Score = 87.1 bits (216), Expect = 2e-21
Identities = 52/67 (77%), Positives = 60/67 (89%)
Query: 1362 DILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYY 1421
D+L LT RE+KVLRMRFGI+M++D+TLEEVGKQFDVTRERIRQIEAKALRKLRHPSR
Sbjct: 1 DVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSE 60
Query: 1422 KLKIFLE 1428
L+ FL+
Sbjct: 61 VLRSFLD 67
|
| >d2p7vb1 a.4.13.2 (B:546-613) Sigma70 (SigA, RpoD) {Escherichia coli [TaxId: 562]} Length = 68 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: Sigma70 (SigA, RpoD) species: Escherichia coli [TaxId: 562]
Score = 74.4 bits (183), Expect = 5e-17
Identities = 45/54 (83%), Positives = 51/54 (94%)
Query: 572 DILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
D+L LT RE+KVLRMRFGI+M++D+TLEEVGKQFDVTRERIRQIEAKALRKLR
Sbjct: 1 DVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLR 54
|
| >d1ku2a1 a.4.13.1 (A:273-332) Sigma factor SigA {Thermus aquaticus [TaxId: 271]} Length = 60 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma3 domain domain: Sigma factor SigA species: Thermus aquaticus [TaxId: 271]
Score = 84.7 bits (210), Expect = 1e-20
Identities = 31/60 (51%), Positives = 42/60 (70%), Gaps = 2/60 (3%)
Query: 476 IRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKM--EMPEEKIRKIMKIAKEPVSM 533
IRIPVHM+ETINK+SR +RQ+ QE G EP IA M +++ + +KIA+EPVS+
Sbjct: 1 IRIPVHMVETINKLSRTARQLQQELGREPSYEEIAEAMGPGWDAKRVEETLKIAQEPVSL 60
|
| >d1ku2a1 a.4.13.1 (A:273-332) Sigma factor SigA {Thermus aquaticus [TaxId: 271]} Length = 60 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma3 domain domain: Sigma factor SigA species: Thermus aquaticus [TaxId: 271]
Score = 84.7 bits (210), Expect = 1e-20
Identities = 31/60 (51%), Positives = 42/60 (70%), Gaps = 2/60 (3%)
Query: 1266 IRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKM--EMPEEKIRKIMKIAKEPVSM 1323
IRIPVHM+ETINK+SR +RQ+ QE G EP IA M +++ + +KIA+EPVS+
Sbjct: 1 IRIPVHMVETINKLSRTARQLQQELGREPSYEEIAEAMGPGWDAKRVEETLKIAQEPVSL 60
|
| >d1ku3a_ a.4.13.2 (A:) Sigma70 (SigA, RpoD) {Thermus aquaticus [TaxId: 271]} Length = 61 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: Sigma70 (SigA, RpoD) species: Thermus aquaticus [TaxId: 271]
Score = 80.5 bits (199), Expect = 3e-19
Identities = 33/59 (55%), Positives = 43/59 (72%)
Query: 1360 VKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 1418
++ L+ L+ RE+ VL+MR G+ +HTLEEVG F VTRERIRQIE KALRKL++
Sbjct: 2 LEKALSKLSEREAMVLKMRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRKLKYHE 60
|
| >d1ku3a_ a.4.13.2 (A:) Sigma70 (SigA, RpoD) {Thermus aquaticus [TaxId: 271]} Length = 61 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: Sigma70 (SigA, RpoD) species: Thermus aquaticus [TaxId: 271]
Score = 77.4 bits (191), Expect = 4e-18
Identities = 33/56 (58%), Positives = 42/56 (75%)
Query: 570 VKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
++ L+ L+ RE+ VL+MR G+ +HTLEEVG F VTRERIRQIE KALRKL+
Sbjct: 2 LEKALSKLSEREAMVLKMRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRKLK 57
|
| >d1rp3a3 a.177.1.1 (A:0-86) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]} Length = 87 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Sigma2 domain of RNA polymerase sigma factors superfamily: Sigma2 domain of RNA polymerase sigma factors family: Sigma2 domain of RNA polymerase sigma factors domain: Sigma factor sigma-28 (FliA) species: Aquifex aeolicus [TaxId: 63363]
Score = 78.4 bits (193), Expect = 4e-18
Identities = 21/77 (27%), Positives = 30/77 (38%), Gaps = 3/77 (3%)
Query: 399 RKAKREMTEANLRLVISIAKKYTDR---GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 455
+ + E+ L LV +IA + DLI G IGL+KAVD +
Sbjct: 9 QIEREELILKYLPLVKAIATNIKKHLPEDVDIRDLISYGVIGLIKAVDNLSTENPKRAEA 68
Query: 456 YATWWIRQAITRSIADQ 472
Y I+ AI +
Sbjct: 69 YIKLRIKGAIYDYLRSL 85
|
| >d1rp3a3 a.177.1.1 (A:0-86) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]} Length = 87 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Sigma2 domain of RNA polymerase sigma factors superfamily: Sigma2 domain of RNA polymerase sigma factors family: Sigma2 domain of RNA polymerase sigma factors domain: Sigma factor sigma-28 (FliA) species: Aquifex aeolicus [TaxId: 63363]
Score = 78.4 bits (193), Expect = 4e-18
Identities = 21/77 (27%), Positives = 30/77 (38%), Gaps = 3/77 (3%)
Query: 1189 RKAKREMTEANLRLVISIAKKYTDR---GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFST 1245
+ + E+ L LV +IA + DLI G IGL+KAVD +
Sbjct: 9 QIEREELILKYLPLVKAIATNIKKHLPEDVDIRDLISYGVIGLIKAVDNLSTENPKRAEA 68
Query: 1246 YATWWIRQAITRSIADQ 1262
Y I+ AI +
Sbjct: 69 YIKLRIKGAIYDYLRSL 85
|
| >d1l0oc_ a.4.13.2 (C:) SigmaF {Bacillus stearothermophilus [TaxId: 1422]} Length = 57 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: SigmaF species: Bacillus stearothermophilus [TaxId: 1422]
Score = 67.4 bits (165), Expect = 1e-14
Identities = 10/55 (18%), Positives = 24/55 (43%)
Query: 474 RTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAK 528
T+++ + E NKI + ++ + G P + IA + + E + + +
Sbjct: 2 GTVKVSRSLKEMGNKIRKAKDELSKTRGRAPTVTEIADHLGISPEDVVLAQEAVR 56
|
| >d1l0oc_ a.4.13.2 (C:) SigmaF {Bacillus stearothermophilus [TaxId: 1422]} Length = 57 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: SigmaF species: Bacillus stearothermophilus [TaxId: 1422]
Score = 67.4 bits (165), Expect = 1e-14
Identities = 10/55 (18%), Positives = 24/55 (43%)
Query: 1264 RTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAK 1318
T+++ + E NKI + ++ + G P + IA + + E + + +
Sbjct: 2 GTVKVSRSLKEMGNKIRKAKDELSKTRGRAPTVTEIADHLGISPEDVVLAQEAVR 56
|
| >d1rp3a1 a.4.13.1 (A:87-163) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]} Length = 77 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma3 domain domain: Sigma factor sigma-28 (FliA) species: Aquifex aeolicus [TaxId: 63363]
Score = 64.4 bits (157), Expect = 2e-13
Identities = 14/81 (17%), Positives = 31/81 (38%), Gaps = 9/81 (11%)
Query: 474 RTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKI--AKEPV 531
R +R E +I + ++ ++ G EP +A ++ + E++ K + +
Sbjct: 3 RQVR------EKERRIKEVVEKLKEKLGREPTDEEVAKELGISTEELFKTLDKINFSYIL 56
Query: 532 SMESPVGDDEDSHLGDFIEDE 552
S+E D + I
Sbjct: 57 SLEEVFRDFARD-YSELIPSS 76
|
| >d1rp3a1 a.4.13.1 (A:87-163) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]} Length = 77 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma3 domain domain: Sigma factor sigma-28 (FliA) species: Aquifex aeolicus [TaxId: 63363]
Score = 64.4 bits (157), Expect = 2e-13
Identities = 14/81 (17%), Positives = 31/81 (38%), Gaps = 9/81 (11%)
Query: 1264 RTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKI--AKEPV 1321
R +R E +I + ++ ++ G EP +A ++ + E++ K + +
Sbjct: 3 RQVR------EKERRIKEVVEKLKEKLGREPTDEEVAKELGISTEELFKTLDKINFSYIL 56
Query: 1322 SMESPVGDDEDSHLGDFIEDE 1342
S+E D + I
Sbjct: 57 SLEEVFRDFARD-YSELIPSS 76
|
| >d1rp3a2 a.4.13.2 (A:164-234) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]} Length = 71 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: Sigma factor sigma-28 (FliA) species: Aquifex aeolicus [TaxId: 63363]
Score = 51.4 bits (123), Expect = 8e-09
Identities = 19/70 (27%), Positives = 36/70 (51%), Gaps = 4/70 (5%)
Query: 1347 PSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQI 1406
+ + + VK+ ++ L RE V+++ F E+ +EV K + + R+ Q+
Sbjct: 2 VEEEVIKRELTEKVKEAVSKLPEREKLVIQLIFYEELP----AKEVAKILETSVSRVSQL 57
Query: 1407 EAKALRKLRH 1416
+AKAL +LR
Sbjct: 58 KAKALERLRE 67
|
| >d1rp3a2 a.4.13.2 (A:164-234) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]} Length = 71 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: Sigma factor sigma-28 (FliA) species: Aquifex aeolicus [TaxId: 63363]
Score = 50.6 bits (121), Expect = 1e-08
Identities = 19/69 (27%), Positives = 36/69 (52%), Gaps = 4/69 (5%)
Query: 557 PSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQI 616
+ + + VK+ ++ L RE V+++ F E+ +EV K + + R+ Q+
Sbjct: 2 VEEEVIKRELTEKVKEAVSKLPEREKLVIQLIFYEELP----AKEVAKILETSVSRVSQL 57
Query: 617 EAKALRKLR 625
+AKAL +LR
Sbjct: 58 KAKALERLR 66
|
| >d1dd9a_ e.13.1.1 (A:) DNA primase DnaG catalytic core {Escherichia coli [TaxId: 562]} Length = 314 | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: DNA primase core superfamily: DNA primase core family: DNA primase DnaG catalytic core domain: DNA primase DnaG catalytic core species: Escherichia coli [TaxId: 562]
Score = 54.1 bits (129), Expect = 5e-08
Identities = 50/135 (37%), Positives = 73/135 (54%), Gaps = 21/135 (15%)
Query: 705 HETPLFHKSNELYGLFEAKNAIGKSGYVLITEGYMDVIGLSQFGFFANSS---------- 754
ET +FHK +LYGL+EA+ + +L+ EGYMDV+ L+Q+G +
Sbjct: 120 PETDIFHKGRQLYGLYEAQQDNAEPNRLLVVEGYMDVVALAQYGINYAVASLGTSTTADH 179
Query: 755 -----------YTCFDGDQAGRRAARRALEVCLLYATDDKIIKFLFLPDKYDPDSYIRKF 803
C+DGD+AGR AA RALE L Y TD + ++F+FLPD DPD+ +RK
Sbjct: 180 IQLLFRATNNVICCYDGDRAGRDAAWRALETALPYMTDGRQLRFMFLPDGEDPDTLVRKE 239
Query: 804 GYKIFSKKNAFSFDI 818
G + F + + +
Sbjct: 240 GKEAFEARMEQAMPL 254
|
| >d1t6t1_ c.136.1.1 (1:) Hypothetical protein aq_2086 {Aquifex aeolicus [TaxId: 63363]} Length = 108 | Back information, alignment and structure |
|---|
class: Alpha and beta proteins (a/b) fold: Toprim domain superfamily: Toprim domain family: Toprim domain domain: Hypothetical protein aq 2086 species: Aquifex aeolicus [TaxId: 63363]
Score = 46.1 bits (109), Expect = 1e-06
Identities = 16/116 (13%), Positives = 30/116 (25%), Gaps = 32/116 (27%)
Query: 717 YGLFEAKNAI--GKSGYVLITEGYMDVIGLSQFGF--------------------FANSS 754
L E + V++ EG D LS+F
Sbjct: 2 RNLSEWIKELKKASREAVILVEGKNDKKALSKFSIKNVIDLSGKRYADVVDMLEGKWEKV 61
Query: 755 YTCFDGDQAGRRAARRALEVCLLYATDDKIIKFLFLPDKYDPDSYIRKFGYKIFSK 810
FD D G R ++ E+ + ++++K+ +
Sbjct: 62 ILLFDLDTHGERINQKMKELLSSQG----------FLVDENFRNFLKKWNIIHIEE 107
|
| >d1nuia1 e.13.1.2 (A:64-255) Primase fragment of primase-helicase protein {Bacteriophage T7 [TaxId: 10760]} Length = 192 | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: DNA primase core superfamily: DNA primase core family: Primase fragment of primase-helicase protein domain: Primase fragment of primase-helicase protein species: Bacteriophage T7 [TaxId: 10760]
Score = 42.2 bits (98), Expect = 1e-04
Identities = 19/147 (12%), Positives = 42/147 (28%), Gaps = 33/147 (22%)
Query: 691 HGISGFLLTTPDPVHETPLFHKSNELYGLFEAKNAIGKSGYVLITEGYMDVIGLSQFGFF 750
+G +++ + + K+ +++TEG +D++ + +
Sbjct: 49 RDQNGNIVSQKVRDKDKNFKTTGSHKSDALFGKHLWNGGKKIVVTEGEIDMLTVMELQDC 108
Query: 751 ANSS---------------------------YTCFDGDQAGRRAARRALEVCLLYATDDK 783
FD D+AGR+A A +V
Sbjct: 109 KYPVVSLGHGASAAKKTCAANYEYFDQFEQIILMFDMDEAGRKAVEEAAQVLP-----AG 163
Query: 784 IIKFLFLPDKYDPDSYIRKFGYKIFSK 810
++ LP K D + + +
Sbjct: 164 KVRVAVLPCK-DANECHLNGHDREIME 189
|
| >d1or7a1 a.4.13.2 (A:120-187) SigmaE factor (RpoE) {Escherichia coli [TaxId: 562]} Length = 68 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: SigmaE factor (RpoE) species: Escherichia coli [TaxId: 562]
Score = 36.2 bits (84), Expect = 0.002
Identities = 12/67 (17%), Positives = 24/67 (35%), Gaps = 4/67 (5%)
Query: 559 DAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEA 618
+ L+ +R +V + SL + +R +S EE+ D +R
Sbjct: 1 NLMLSEELRQIVFRTIESLPEDLRMAITLRELDGLS----YEEIAAIMDCPVGTVRSRIF 56
Query: 619 KALRKLR 625
+A +
Sbjct: 57 RAREAID 63
|
| >d1or7a1 a.4.13.2 (A:120-187) SigmaE factor (RpoE) {Escherichia coli [TaxId: 562]} Length = 68 | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: SigmaE factor (RpoE) species: Escherichia coli [TaxId: 562]
Score = 36.2 bits (84), Expect = 0.002
Identities = 12/67 (17%), Positives = 24/67 (35%), Gaps = 4/67 (5%)
Query: 1349 DAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEA 1408
+ L+ +R +V + SL + +R +S EE+ D +R
Sbjct: 1 NLMLSEELRQIVFRTIESLPEDLRMAITLRELDGLS----YEEIAAIMDCPVGTVRSRIF 56
Query: 1409 KALRKLR 1415
+A +
Sbjct: 57 RAREAID 63
|
| >d2fcja1 c.136.1.1 (A:1-114) Hypothetical protein RBSTP2199 {Bacillus stearothermophilus [TaxId: 1422]} Length = 114 | Back information, alignment and structure |
|---|
class: Alpha and beta proteins (a/b) fold: Toprim domain superfamily: Toprim domain family: Toprim domain domain: Hypothetical protein RBSTP2199 species: Bacillus stearothermophilus [TaxId: 1422]
Score = 36.8 bits (85), Expect = 0.003
Identities = 15/103 (14%), Positives = 27/103 (26%), Gaps = 27/103 (26%)
Query: 726 IGKSGYVLITEGYMDVIGLSQFGF--------FANSS----------------YTCFDGD 761
+ + V+I EG D ++ S Y D D
Sbjct: 1 MRRVEKVIIVEGRSDKQKVAAVLNEPVVIVCTNGTISDARLEELADELEGYDVYLLADAD 60
Query: 762 QAGRRAARRALEV---CLLYATDDKIIKFLFLPDKYDPDSYIR 801
+AG + R+ + D + P + +R
Sbjct: 61 EAGEKLRRQFRRMFPEAEHLYIDRAYREVAAAPIWHLAQVLLR 103
|
Homologous Domains Detected by HHsearch
Original result of HHsearch against SCOP70(version1.75) database
| ID | Alignment Graph | Length |
Definition |
Probability |
| Query | 1432 | |||
| d1siga_ | 334 | Sigma70 {Escherichia coli [TaxId: 562]} | 100.0 | |
| d1siga_ | 334 | Sigma70 {Escherichia coli [TaxId: 562]} | 100.0 | |
| d1dd9a_ | 314 | DNA primase DnaG catalytic core {Escherichia coli | 100.0 | |
| d1ku2a2 | 180 | Sigma factor SigA {Thermus aquaticus [TaxId: 271]} | 99.97 | |
| d1ku2a2 | 180 | Sigma factor SigA {Thermus aquaticus [TaxId: 271]} | 99.97 | |
| d1nuia1 | 192 | Primase fragment of primase-helicase protein {Bact | 99.66 | |
| d1rp3a3 | 87 | Sigma factor sigma-28 (FliA) {Aquifex aeolicus [Ta | 99.65 | |
| d1rp3a3 | 87 | Sigma factor sigma-28 (FliA) {Aquifex aeolicus [Ta | 99.63 | |
| d2p7vb1 | 68 | Sigma70 (SigA, RpoD) {Escherichia coli [TaxId: 562 | 99.54 | |
| d1ttya_ | 87 | Sigma70 (SigA, RpoD) {Thermotoga maritima [TaxId: | 99.5 | |
| d1t6t1_ | 108 | Hypothetical protein aq_2086 {Aquifex aeolicus [Ta | 99.48 | |
| d1ku3a_ | 61 | Sigma70 (SigA, RpoD) {Thermus aquaticus [TaxId: 27 | 99.33 | |
| d1ku2a1 | 60 | Sigma factor SigA {Thermus aquaticus [TaxId: 271]} | 99.25 | |
| d1ku2a1 | 60 | Sigma factor SigA {Thermus aquaticus [TaxId: 271]} | 99.24 | |
| d1rp3a2 | 71 | Sigma factor sigma-28 (FliA) {Aquifex aeolicus [Ta | 99.12 | |
| d1ku3a_ | 61 | Sigma70 (SigA, RpoD) {Thermus aquaticus [TaxId: 27 | 99.11 | |
| d1ttya_ | 87 | Sigma70 (SigA, RpoD) {Thermotoga maritima [TaxId: | 99.06 | |
| d1or7a2 | 113 | SigmaE factor (RpoE) {Escherichia coli [TaxId: 562 | 99.04 | |
| d1rp3a2 | 71 | Sigma factor sigma-28 (FliA) {Aquifex aeolicus [Ta | 99.02 | |
| d2p7vb1 | 68 | Sigma70 (SigA, RpoD) {Escherichia coli [TaxId: 562 | 99.01 | |
| d1or7a2 | 113 | SigmaE factor (RpoE) {Escherichia coli [TaxId: 562 | 99.0 | |
| d1l0oc_ | 57 | SigmaF {Bacillus stearothermophilus [TaxId: 1422]} | 98.94 | |
| d1l0oc_ | 57 | SigmaF {Bacillus stearothermophilus [TaxId: 1422]} | 98.93 | |
| d1or7a1 | 68 | SigmaE factor (RpoE) {Escherichia coli [TaxId: 562 | 98.88 | |
| d2fcja1 | 114 | Hypothetical protein RBSTP2199 {Bacillus stearothe | 98.85 | |
| d1or7a1 | 68 | SigmaE factor (RpoE) {Escherichia coli [TaxId: 562 | 98.77 | |
| d1s7oa_ | 106 | Hypothetical protein SPy1201 {Streptococcus pyogen | 98.43 | |
| d1h3la_ | 75 | Sigma factor SigR {Streptomyces coelicolor a3(2) [ | 98.42 | |
| d1xsva_ | 106 | Hypothetical protein SAV1236 {Staphylococcus aureu | 98.4 | |
| d1h3la_ | 75 | Sigma factor SigR {Streptomyces coelicolor a3(2) [ | 98.28 | |
| d1rp3a1 | 77 | Sigma factor sigma-28 (FliA) {Aquifex aeolicus [Ta | 98.21 | |
| d1rp3a1 | 77 | Sigma factor sigma-28 (FliA) {Aquifex aeolicus [Ta | 98.21 | |
| d1s7oa_ | 106 | Hypothetical protein SPy1201 {Streptococcus pyogen | 98.21 | |
| d1xsva_ | 106 | Hypothetical protein SAV1236 {Staphylococcus aureu | 98.17 | |
| d1yioa1 | 70 | Response regulatory protein StyR, C-terminal domai | 97.78 | |
| d1yioa1 | 70 | Response regulatory protein StyR, C-terminal domai | 97.62 | |
| d1a04a1 | 67 | Nitrate/nitrite response regulator (NarL) {Escheri | 97.49 | |
| d1l3la1 | 65 | Quorum-sensing transcription factor TraR, C-termin | 97.35 | |
| d1a04a1 | 67 | Nitrate/nitrite response regulator (NarL) {Escheri | 97.23 | |
| d1fsea_ | 67 | Germination protein GerE {Bacillus subtilis [TaxId | 97.19 | |
| d1l3la1 | 65 | Quorum-sensing transcription factor TraR, C-termin | 97.04 | |
| d1fsea_ | 67 | Germination protein GerE {Bacillus subtilis [TaxId | 96.87 | |
| d1p4wa_ | 87 | Transcriptional regulator RcsB {Erwinia amylovora | 96.58 | |
| d1p4wa_ | 87 | Transcriptional regulator RcsB {Erwinia amylovora | 95.93 | |
| d1jhfa1 | 71 | LexA repressor, N-terminal DNA-binding domain {Esc | 93.84 | |
| d1ijwc_ | 47 | HIN recombinase (DNA-binding domain) {Synthetic} | 92.0 | |
| d1ijwc_ | 47 | HIN recombinase (DNA-binding domain) {Synthetic} | 88.2 | |
| d1hlva1 | 66 | DNA-binding domain of centromere binding protein B | 86.82 | |
| d1jhfa1 | 71 | LexA repressor, N-terminal DNA-binding domain {Esc | 86.05 | |
| d1stza1 | 87 | Heat-inducible transcription repressor HrcA, N-ter | 81.87 | |
| d2cg4a1 | 63 | Regulatory protein AsnC {Escherichia coli [TaxId: | 80.22 |
| >d1siga_ a.177.1.1 (A:) Sigma70 {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Sigma2 domain of RNA polymerase sigma factors superfamily: Sigma2 domain of RNA polymerase sigma factors family: Sigma2 domain of RNA polymerase sigma factors domain: Sigma70 species: Escherichia coli [TaxId: 562]
Probab=100.00 E-value=9e-54 Score=504.08 Aligned_cols=324 Identities=39% Similarity=0.648 Sum_probs=278.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHhhhcccchhhhhccccCCCCCCcchh---c------cCCCCCC
Q psy15215 148 DGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRV---I------KGNKNNN 218 (1432)
Q Consensus 148 EgEIeIAKRIE~G~~~v~~al~~~P~~v~~il~~~e~l~~ge~rl~dii~g~~d~~~~~~~~~---~------~~~~~~~ 218 (1432)
||||+||||||+|+++|+.+||.||.+++.|++|+++|.+|+++++|||+||.|++.+++... . ++.++++
T Consensus 2 EGEI~IAKRIE~G~~~~~~ai~~~P~~i~~il~~~~~l~~ge~~lrdiI~g~~d~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (334)
T d1siga_ 2 EGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYNRVEAEEARLSDLITGFVDPNAEEDLAPTATHVGSELSQEDLDDD 81 (334)
T ss_dssp CTHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTTTSSCGGGTEEEECC-----CCCCSCTTTTCCSCTTTTC--
T ss_pred chHHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHhCCcchhHhhcccCCCcccccccccccccchhhhccccccc
Confidence 899999999999999999999999999999999999999999999999999998874432210 0 0000000
Q ss_pred hhhhhhhcCCCCCCHHHHHHhHHHHHHHHHhHHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhcccCCHHHHHHHHHH
Q psy15215 219 EEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDT 298 (1432)
Q Consensus 219 e~~d~~~~~~~~~~~~~~~~l~~~~~~~f~~l~~~~~~~~~~~~~~g~~~~~~~k~~~~i~~~l~~ikl~~k~ie~l~~~ 298 (1432)
++.+ ++..+...........+..+.++|..+.+.+.++.++..+.+..++.+.+.+..|.+.|+.++|+++.++.+++.
T Consensus 82 ~~~~-~~~~~~~~~~~e~~~~~~~~~~~~~~l~~~~~k~~~~~~~~~~~~~~~~~~~~~i~~~~~~ikl~~~~ie~l~~~ 160 (334)
T d1siga_ 82 EDED-EEDGDDDSADDDNSIDPELAREKFAELRAQYVVTRDTIKAKGRSHATAQEEILKLSEVFKQFRLVPKQFDYLVNS 160 (334)
T ss_dssp -------------------CCHHHHHHHHHHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHTTEEECHHHHHHHHHH
T ss_pred cccc-cccccchhhhhhcccccchhHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence 0000 000000011111122345667889999999999999988889899999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHcCCChHHHHHhcCCCccchhhhhhHhhhcCchHHHHhhchHHHHHHHHHHHhhhhccC
Q psy15215 299 LRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIV 378 (1432)
Q Consensus 299 l~~~~~~ir~~Er~i~~~~v~~~gmpr~~fi~~f~~~e~~~~wl~~~~~~~~~~~~~L~~~~~~i~~~q~~L~~iE~~~~ 378 (1432)
++..+++++..|+.|+++|++.+||||++|++.|++++++..|+..+.+.++.|...+.+..+.|...|+++..++..++
T Consensus 161 l~~~~~~i~~~E~~l~~l~~~~~~~~r~~fik~~~~~e~~~~wl~~~~k~~~~~~~~l~~~~~~I~~~q~kl~~ie~~~g 240 (334)
T d1siga_ 161 MRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETG 240 (334)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTSCCCHHHHHHHHTTTCSSGGGTHHHHTTCSHHHHHGGGTHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhhhhhhHHHHHHHHhhchhHHHHHHhhHHHHHHHHHHHHHHHHHhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CChhhHHHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHH
Q psy15215 379 LPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 458 (1432)
Q Consensus 379 l~~~e~~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~ 458 (1432)
++..+++.+++.+..|...+++|+.+|+++|+|||++||++|.++|++++||||+|++|||+|+++|||.+|++|||||+
T Consensus 241 l~~~elk~i~~~i~~ge~~~~~ak~~~~~~~~~lv~~~~~~~~~~~~~~~dl~~~~~~~l~~~~~~~~~~~~~~f~~~~~ 320 (334)
T d1siga_ 241 LTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 320 (334)
T ss_dssp SCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHTTSTTSSSCHHHHHHHHHHHHHHHHHHCCGGGCCCHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHhhccchHHHHHHhHHHHHHHHHHhccCCCCCHHHHHHhhHHHHHHHHHhcCCCCCCchHhhhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHh
Q psy15215 459 WWIRQAITRSIADQ 472 (1432)
Q Consensus 459 ~~ir~~i~~~i~~~ 472 (1432)
|||||+|+|+|++|
T Consensus 321 ~~~~~~~~~~~~~~ 334 (334)
T d1siga_ 321 WWIRQAITRSIADQ 334 (334)
T ss_dssp HHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHhCC
Confidence 99999999999986
|
| >d1siga_ a.177.1.1 (A:) Sigma70 {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Sigma2 domain of RNA polymerase sigma factors superfamily: Sigma2 domain of RNA polymerase sigma factors family: Sigma2 domain of RNA polymerase sigma factors domain: Sigma70 species: Escherichia coli [TaxId: 562]
Probab=100.00 E-value=2.1e-53 Score=500.89 Aligned_cols=324 Identities=39% Similarity=0.641 Sum_probs=278.3
Q ss_pred hHHHHHHHHHHHhHHHHHHHHhhChHHHHHHHHHHHHhhhcccchhhhhccccCCCCCCchhh---c------cCCCCCc
Q psy15215 938 DGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRV---I------KGNKNNN 1008 (1432)
Q Consensus 938 EgEIeIAKRIE~G~~~v~~al~~~P~~v~~il~~~e~l~~ge~~l~dii~g~~d~~~~~~~~~---~------~~~~~~e 1008 (1432)
||||+||||||+|+++|+.|||.||++++.|++|+++|.+|+++|+|||+||.|++.+.+... . ++.++++
T Consensus 2 EGEI~IAKRIE~G~~~~~~ai~~~P~~i~~il~~~~~l~~ge~~lrdiI~g~~d~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (334)
T d1siga_ 2 EGEIDIAKRIEDGINQVQCSVAEYPEAITYLLEQYNRVEAEEARLSDLITGFVDPNAEEDLAPTATHVGSELSQEDLDDD 81 (334)
T ss_dssp CTHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTTTSSCGGGTEEEECC-----CCCCSCTTTTCCSCTTTTC--
T ss_pred chHHHHHHHHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHhCCcchhHhhcccCCCcccccccccccccchhhhccccccc
Confidence 899999999999999999999999999999999999999999999999999998864322110 0 0000000
Q ss_pred hhhhhhhccCCCCCHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhhccccCHHHHHHHHHH
Q psy15215 1009 EEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDT 1088 (1432)
Q Consensus 1009 ~~~d~~~~~~~~~~~~~l~~l~~~~~~~f~~l~~~~~~~~~~~~~~~~~~~~~~k~~~~i~~~l~~irl~~k~i~~l~~~ 1088 (1432)
++.+++ ..+...........+..+.++|..+.+.+.++.++..+.+..++.+.+....|.+.|..++|+++.++.+++.
T Consensus 82 ~~~~~~-~~~~~~~~~e~~~~~~~~~~~~~~l~~~~~k~~~~~~~~~~~~~~~~~~~~~i~~~~~~ikl~~~~ie~l~~~ 160 (334)
T d1siga_ 82 EDEDEE-DGDDDSADDDNSIDPELAREKFAELRAQYVVTRDTIKAKGRSHATAQEEILKLSEVFKQFRLVPKQFDYLVNS 160 (334)
T ss_dssp -------------------CCHHHHHHHHHHHHHHHHHHHHHTTC----CHHHHHHHHHHHHHHTTEEECHHHHHHHHHH
T ss_pred cccccc-cccchhhhhhcccccchhHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhhhhHHHHHHHH
Confidence 000000 0000000111112345567889999999999999988888889999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhcCCChHHHHHhcCCCccchhhHHHHhhhcCchhHHHhhchHHHHHHHHHHHHhhhhcC
Q psy15215 1089 LRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIV 1168 (1432)
Q Consensus 1089 l~~~~~~ir~~Er~i~~~~~~~~~m~r~~fl~~f~~~e~~~~wl~~~~~~~~~~~~~L~~~~~~I~~~q~~L~~ie~~~~ 1168 (1432)
++..+++++..|+.|+++|++.+||||++|++.|++++++..|+..+.+.++.|...+.+..+.|...|+++..++..+|
T Consensus 161 l~~~~~~i~~~E~~l~~l~~~~~~~~r~~fik~~~~~e~~~~wl~~~~k~~~~~~~~l~~~~~~I~~~q~kl~~ie~~~g 240 (334)
T d1siga_ 161 MRVMMDRVRTQERLIMKLCVEQCKMPKKNFITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQKLQQIEEETG 240 (334)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTSCCCHHHHHHHHTTTCSSGGGTHHHHTTCSHHHHHGGGTHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhhhhhhHHHHHHHHhhchhHHHHHHhhHHHHHHHHHHHHHHHHHhh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CChhhHHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHH
Q psy15215 1169 LPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 1248 (1432)
Q Consensus 1169 l~~~e~~~l~~~~~~g~~~~~~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~ 1248 (1432)
++..+++.+++++..|...+++|+.+|+.+|+|||++||++|.++|++++||+|+||+|||+|+++|||.+||+|||||+
T Consensus 241 l~~~elk~i~~~i~~ge~~~~~ak~~~~~~~~~lv~~~~~~~~~~~~~~~dl~~~~~~~l~~~~~~~~~~~~~~f~~~~~ 320 (334)
T d1siga_ 241 LTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 320 (334)
T ss_dssp SCHHHHHHHHHHHHHHHHHHHHHHHHHHHHTHHHHHHHHTTSTTSSSCHHHHHHHHHHHHHHHHHHCCGGGCCCHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHhhccchHHHHHHhHHHHHHHHHHhccCCCCCHHHHHHhhHHHHHHHHHhcCCCCCCchHhhhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHh
Q psy15215 1249 WWIRQAITRSIADQ 1262 (1432)
Q Consensus 1249 ~~ir~~i~~~i~~~ 1262 (1432)
||||++|+|++++|
T Consensus 321 ~~~~~~~~~~~~~~ 334 (334)
T d1siga_ 321 WWIRQAITRSIADQ 334 (334)
T ss_dssp HHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHhCC
Confidence 99999999999986
|
| >d1dd9a_ e.13.1.1 (A:) DNA primase DnaG catalytic core {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: DNA primase core superfamily: DNA primase core family: DNA primase DnaG catalytic core domain: DNA primase DnaG catalytic core species: Escherichia coli [TaxId: 562]
Probab=100.00 E-value=5.9e-40 Score=375.96 Aligned_cols=200 Identities=35% Similarity=0.552 Sum_probs=176.2
Q ss_pred HHHHHHHHHHHHHHhhhh--hhhhH-hhcC--CCcccccccccCCCCCchhhHHHHHH------------------HHHH
Q psy15215 621 LRKLRPLAHDWLEQRTHQ--NEKII-ACSS--DSSNHNEHVTNNNFPPGFNIFHKLLR------------------ILQE 677 (1432)
Q Consensus 621 l~kLr~~l~~~~~~~l~~--~~~~~-~l~~--l~~~~~~~f~~Gyap~~~~~l~~~~~------------------~~~~ 677 (1432)
|..+.+.+..||++.|.. +++|+ ||++ ||+++|+.|+|||||.+|+.|.+++. ....
T Consensus 2 L~~i~~~a~~~y~~~L~~~~~~~a~~YL~~Rgl~~~~i~~f~lGyap~~~~~l~~~l~~~~~~~~~l~~~gl~~~~~~g~ 81 (314)
T d1dd9a_ 2 LYQLMDGLNTFYQQSLQQPVATSARQYLEKRGLSHEVIARFAIGFAPPGWDNVLKRFGGNPENRQSLIDAGMLVTNDQGR 81 (314)
T ss_dssp HHHHHHHHHHHHHHHHTSGGGHHHHHHHHHTTCCHHHHHHHTCEEECSSSCHHHHHHCSSHHHHHHHHHTTSEEEC---C
T ss_pred HHHHHHHHHHHHHHHhCCCchHHHHHHHHHCCCCHHHHHHcccccCcccHHHHHHHHhhCCCchhhhhhhhheeeccccc
Confidence 567888899999999865 56777 9877 99999999999999999999988762 1223
Q ss_pred hhhcc--EEEEee-----eeeeeeeeeeCCCCC----CCCCCCcccCccccCchHhHHhhccCCeEEEEecchhHHHHhh
Q psy15215 678 YLESF--LISFFL-----RNHGISGFLLTTPDP----VHETPLFHKSNELYGLFEAKNAIGKSGYVLITEGYMDVIGLSQ 746 (1432)
Q Consensus 678 ~~~~f--ri~fpi-----r~igf~gR~~~~~~~----s~et~~f~K~~~Ly~~~~a~~~~~~~~~~~~vEG~~D~ia~~~ 746 (1432)
++++| |||||| +||||+||.++++.| ||+|++|+|+++|||++.|+..+++.+++||||||||||++||
T Consensus 82 ~~d~F~~ri~fPI~d~~g~~i~f~gR~~~~~~~KY~ns~et~~f~k~~~ly~~~~a~~~~~~~~~~iivEG~~Dvi~l~q 161 (314)
T d1dd9a_ 82 SYDRFRERVMFPIRDKRGRVIGFGGRVLGNDTPKYLNSPETDIFHKGRQLYGLYEAQQDNAEPNRLLVVEGYMDVVALAQ 161 (314)
T ss_dssp EEESCCSEEEEEEECTTSCEEEEEEEESSSCSCSEEECCCCSSCCTTTCCBTHHHHHHTCSSCSCEEEESSHHHHHHHHH
T ss_pred cchhccceeEEEEecccceEEEEeeeecccccccccCCCccccccchhhcccHHHHHhhhccccceEEEechHHHHHHHH
Confidence 55666 799999 799999999998777 9999999999999999999999999999999999999999999
Q ss_pred hCC---------------------CCCeEEEEecCcHHHHHHHHHHHHHhhhhcCCCceEEEecCCCCCCHHHHHHHhCh
Q psy15215 747 FGF---------------------FANSSYTCFDGDQAGRRAARRALEVCLLYATDDKIIKFLFLPDKYDPDSYIRKFGY 805 (1432)
Q Consensus 747 ~g~---------------------~~~~i~~~~D~D~aG~~a~~~~~~~~~~~~~~~~~~~~~~lp~~~Dpde~~~~~g~ 805 (1432)
+|| ++++|++|||||.||++|+.|+++.++.....+..|+|+.+|+|+|||||++++|+
T Consensus 162 ~Gi~n~Va~~Gta~t~~~~~~l~~~~~~i~l~~D~D~AG~~A~~r~~~~~~~~~~~g~~v~v~~lp~g~DPDe~l~k~G~ 241 (314)
T d1dd9a_ 162 YGINYAVASLGTSTTADHIQLLFRATNNVICCYDGDRAGRDAAWRALETALPYMTDGRQLRFMFLPDGEDPDTLVRKEGK 241 (314)
T ss_dssp TTCCCEEECCC-CCCHHHHHHHHHHCSEEEEEEESSHHHHHHHHHHHHHHGGGCCTTCEEEEEEECTTCCHHHHHHHHHH
T ss_pred cccccchhHHhhhhhhHHHHHHHhcCCceEEEeecCcchhhHHHhHHHHhhHHhcCCCeEEEEeccCcCCHHHHHHhcCH
Confidence 999 68999999999999999999999999888777888999999999999999999999
Q ss_pred hhhhhc-----cccchhhcc
Q psy15215 806 KIFSKK-----NAFSFDIKS 820 (1432)
Q Consensus 806 ~~~~~~-----~~~~f~~~~ 820 (1432)
++|.+. +.++|.+..
T Consensus 242 e~~~~ll~~a~~~~eFli~~ 261 (314)
T d1dd9a_ 242 EAFEARMEQAMPLSAFLFNS 261 (314)
T ss_dssp HHHHHHHTTCEEHHHHHHHH
T ss_pred HHHHHHHhcCCCHHHHHHHH
Confidence 999773 444454443
|
| >d1ku2a2 a.177.1.1 (A:93-272) Sigma factor SigA {Thermus aquaticus [TaxId: 271]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Sigma2 domain of RNA polymerase sigma factors superfamily: Sigma2 domain of RNA polymerase sigma factors family: Sigma2 domain of RNA polymerase sigma factors domain: Sigma factor SigA species: Thermus aquaticus [TaxId: 271]
Probab=99.97 E-value=2e-32 Score=290.75 Aligned_cols=76 Identities=76% Similarity=1.218 Sum_probs=74.1
Q ss_pred hhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhccc
Q psy15215 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQART 1265 (1432)
Q Consensus 1190 ~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~r~ 1265 (1432)
+|+++||.+|+|||++||++|.++|.+++||||||++|||+|+++|||++|++|||||+||||++|.+++++++||
T Consensus 105 ~a~~~li~~~~~lv~~~a~~~~~~~~~~~dl~q~g~~gl~~a~~~fd~~~g~~f~tya~~~i~~~i~~~~~~~~rt 180 (180)
T d1ku2a2 105 AARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATWWIRQAINRAIADQART 180 (180)
T ss_dssp HHHHHHHHTTHHHHHHHHHTTCSSSSCHHHHHHHHHHHHHHHHHHCCGGGCSCHHHHHHHHHHHHHHHHHTTSCCC
T ss_pred HHHHHHHHHHHHHHHHHHhcccCCCcCHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHHHHHHHhCCC
Confidence 3899999999999999999999999999999999999999999999999999999999999999999999999885
|
| >d1ku2a2 a.177.1.1 (A:93-272) Sigma factor SigA {Thermus aquaticus [TaxId: 271]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Sigma2 domain of RNA polymerase sigma factors superfamily: Sigma2 domain of RNA polymerase sigma factors family: Sigma2 domain of RNA polymerase sigma factors domain: Sigma factor SigA species: Thermus aquaticus [TaxId: 271]
Probab=99.97 E-value=1.9e-32 Score=290.92 Aligned_cols=87 Identities=69% Similarity=1.081 Sum_probs=78.7
Q ss_pred HHHHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHH
Q psy15215 385 RDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 464 (1432)
Q Consensus 385 ~~l~~~i~~gd~~~~~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~ 464 (1432)
+.+....+.|+ .|+++||.+|+|||++||++|.++|.+++||||||+||||+|+++|||.+|++|||||+||||++
T Consensus 94 ~~l~~~~~~~~----~a~~~li~~~~~lv~~~a~~~~~~~~~~~dl~q~g~~gl~~a~~~fd~~~g~~f~tya~~~i~~~ 169 (180)
T d1ku2a2 94 KRYLHIAREGE----AARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATWWIRQA 169 (180)
T ss_dssp HHHHHHHHHHH----HHHHHHHHTTHHHHHHHHHTTCSSSSCHHHHHHHHHHHHHHHHHHCCGGGCSCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHH----HHHHHHHHHHHHHHHHHHhcccCCCcCHHHHHHHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHH
Confidence 33344444443 38999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhccc
Q psy15215 465 ITRSIADQART 475 (1432)
Q Consensus 465 i~~~i~~~~r~ 475 (1432)
|.++|++++||
T Consensus 170 i~~~~~~~~rt 180 (180)
T d1ku2a2 170 INRAIADQART 180 (180)
T ss_dssp HHHHHTTSCCC
T ss_pred HHHHHHHhCCC
Confidence 99999999885
|
| >d1nuia1 e.13.1.2 (A:64-255) Primase fragment of primase-helicase protein {Bacteriophage T7 [TaxId: 10760]} | Back information, alignment and structure |
|---|
class: Multi-domain proteins (alpha and beta) fold: DNA primase core superfamily: DNA primase core family: Primase fragment of primase-helicase protein domain: Primase fragment of primase-helicase protein species: Bacteriophage T7 [TaxId: 10760]
Probab=99.66 E-value=1.5e-17 Score=177.62 Aligned_cols=140 Identities=16% Similarity=0.041 Sum_probs=110.3
Q ss_pred hhcC--CCcccccccccCCCCCchhhHHHHHHHHHHhhhccEEEEee-----eeeeeeeeeeCCCCCCCCCCCcccCccc
Q psy15215 644 ACSS--DSSNHNEHVTNNNFPPGFNIFHKLLRILQEYLESFLISFFL-----RNHGISGFLLTTPDPVHETPLFHKSNEL 716 (1432)
Q Consensus 644 ~l~~--l~~~~~~~f~~Gyap~~~~~l~~~~~~~~~~~~~fri~fpi-----r~igf~gR~~~~~~~s~et~~f~K~~~L 716 (1432)
||+. ||.||+++|++||...+... +++||+ +++||.+|..+...+.. --.+...+
T Consensus 17 ~L~~RGIs~et~~~~~~~~~~~~~~~---------------~~~~p~~d~~G~~v~~~~R~~~k~~~~~---~~~~~~~~ 78 (192)
T d1nuia1 17 ALTARGISKETCQKAGYWIAKVDGVM---------------YQVADYRDQNGNIVSQKVRDKDKNFKTT---GSHKSDAL 78 (192)
T ss_dssp CBGGGTBCHHHHHHHTEEEEEETTEE---------------EEEEEEECTTSCEEEEEEECTTCCCEEE---ECCCTTCC
T ss_pred hhhhCcCCHHHHHHCCeEEEeeCCeE---------------EEEEeeECCCCCEEEEEcccccccceec---cCCCCCcc
Confidence 7866 99999999999998765322 389999 69999999776543200 01234567
Q ss_pred cCchHhHHhhccCCeEEEEecchhHHHHhhhCC---------------------------CCCeEEEEecCcHHHHHHHH
Q psy15215 717 YGLFEAKNAIGKSGYVLITEGYMDVIGLSQFGF---------------------------FANSSYTCFDGDQAGRRAAR 769 (1432)
Q Consensus 717 y~~~~a~~~~~~~~~~~~vEG~~D~ia~~~~g~---------------------------~~~~i~~~~D~D~aG~~a~~ 769 (1432)
||.+.+ .+.+.++||||++||||++|+|. ...+|++|||||.||++|+.
T Consensus 79 ~~~~~~----~~~~~iiI~EGe~Dals~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~Vvl~~DnD~AG~~aa~ 154 (192)
T d1nuia1 79 FGKHLW----NGGKKIVVTEGEIDMLTVMELQDCKYPVVSLGHGASAAKKTCAANYEYFDQFEQIILMFDMDEAGRKAVE 154 (192)
T ss_dssp TTGGGC----CCBSCCEEESSHHHHHHHHHHHTTCSCEECCTTTTTTHHHHHHHTHHHHTTBSCEEEECCSSHHHHHHHH
T ss_pred eeeecc----ccCcEEEEECchHHHHHHHHhcCCCcceeecCcchhhhhhHHhHHHHHhcCCCeEEEEcCCCHHHHHHHH
Confidence 887654 34678999999999999999975 25789999999999999999
Q ss_pred HHHHHhhhhcCCCceEEEecCCCCCCHHHHHHHhChhhhhhc
Q psy15215 770 RALEVCLLYATDDKIIKFLFLPDKYDPDSYIRKFGYKIFSKK 811 (1432)
Q Consensus 770 ~~~~~~~~~~~~~~~~~~~~lp~~~Dpde~~~~~g~~~~~~~ 811 (1432)
++...+... .++++.+| +|||+|+++++|.+.+.++
T Consensus 155 ~~~~~l~~~-----~~~~~~~~-~KD~nd~l~~~~~~~~~~~ 190 (192)
T d1nuia1 155 EAAQVLPAG-----KVRVAVLP-CKDANECHLNGHDREIMEQ 190 (192)
T ss_dssp HHHHHSCTT-----TEEECCCS-SSSHHHHHTTTTHHHHHHH
T ss_pred HHHHHcCCC-----cEEEecCC-CcCHHHHHHcCCHHHHHHh
Confidence 999875422 37788777 7999999999999988764
|
| >d1rp3a3 a.177.1.1 (A:0-86) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Sigma2 domain of RNA polymerase sigma factors superfamily: Sigma2 domain of RNA polymerase sigma factors family: Sigma2 domain of RNA polymerase sigma factors domain: Sigma factor sigma-28 (FliA) species: Aquifex aeolicus [TaxId: 63363]
Probab=99.65 E-value=9.7e-17 Score=146.00 Aligned_cols=74 Identities=28% Similarity=0.354 Sum_probs=69.3
Q ss_pred hHHHHHHHHHHHHHHHHHhcccC---CCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHHHhcc
Q psy15215 401 AKREMTEANLRLVISIAKKYTDR---GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQAR 474 (1432)
Q Consensus 401 A~~~li~~~~~lV~~ia~ky~~~---~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~~~~r 474 (1432)
.+++||..|+|||.++|.+|.++ +++++||+|+|++||++|+++|||.+|.+|+|||.+|||++|.+++|++.+
T Consensus 11 ~re~li~~~~~LV~~ia~~~~~~~~~~~e~eDL~q~G~igL~~A~~~yd~~~g~~F~tYA~~~Irgai~d~lRk~dw 87 (87)
T d1rp3a3 11 EREELILKYLPLVKAIATNIKKHLPEDVDIRDLISYGVIGLIKAVDNLSTENPKRAEAYIKLRIKGAIYDYLRSLDF 87 (87)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTSCTTSCHHHHHHHHHHHHHHHHHTCCCCCTHHHHHHHHHHHHHHHHHHHHTSST
T ss_pred HHHHHHHHhHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence 57899999999999999998664 789999999999999999999999999999999999999999999998753
|
| >d1rp3a3 a.177.1.1 (A:0-86) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Sigma2 domain of RNA polymerase sigma factors superfamily: Sigma2 domain of RNA polymerase sigma factors family: Sigma2 domain of RNA polymerase sigma factors domain: Sigma factor sigma-28 (FliA) species: Aquifex aeolicus [TaxId: 63363]
Probab=99.63 E-value=2e-16 Score=143.84 Aligned_cols=73 Identities=29% Similarity=0.373 Sum_probs=68.8
Q ss_pred hHHHHHHHHHHHHHHHHHhccCC---CCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHHHhc
Q psy15215 1191 AKREMTEANLRLVISIAKKYTDR---GLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQA 1263 (1432)
Q Consensus 1191 A~~~Li~~~~~lV~~ia~~y~~~---~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~~~~ 1263 (1432)
.+++|+..|+|||.++|++|.++ +++++||+|+|++||++|+++|||++|.+|+|||.+|||++|.+++|++.
T Consensus 11 ~re~li~~~~~LV~~ia~~~~~~~~~~~e~eDL~q~G~igL~~A~~~yd~~~g~~F~tYA~~~Irgai~d~lRk~d 86 (87)
T d1rp3a3 11 EREELILKYLPLVKAIATNIKKHLPEDVDIRDLISYGVIGLIKAVDNLSTENPKRAEAYIKLRIKGAIYDYLRSLD 86 (87)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTTSCTTSCHHHHHHHHHHHHHHHHHTCCCCCTHHHHHHHHHHHHHHHHHHHHTSS
T ss_pred HHHHHHHHhHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHHHHHHhhCCCCCCCHHHHHHHHHHHHHHHHHHhCC
Confidence 57899999999999999998654 78999999999999999999999999999999999999999999999864
|
| >d2p7vb1 a.4.13.2 (B:546-613) Sigma70 (SigA, RpoD) {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: Sigma70 (SigA, RpoD) species: Escherichia coli [TaxId: 562]
Probab=99.54 E-value=2.5e-15 Score=128.38 Aligned_cols=67 Identities=76% Similarity=1.083 Sum_probs=64.5
Q ss_pred HHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHhhhcc
Q psy15215 1363 ILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429 (1432)
Q Consensus 1363 ~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~~~~~ 1429 (1432)
+|+.|||+|+.||.+|||++.+.++|++|||+.||||+++|||++.+|++|||++.++..|++||++
T Consensus 2 ~L~~L~~rE~~Ii~~rfGl~~~~~~tl~eI~~~lgiSrerVrqie~~al~kLr~~~~~~~L~~yl~d 68 (68)
T d2p7vb1 2 VLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDD 68 (68)
T ss_dssp CSCCCCHHHHHHHHHHTTTTSSSCCCHHHHHHHHTCCHHHHHHHHHHHHHGGGSCCGGGGGSCTTCC
T ss_pred hhhcCCHHHHHHHHHHcCCCCCCcCCHHHHHHHHCCCHHHHHHHHHHHHHHHHhhHHHHHHHHHhcC
Confidence 5789999999999999999988999999999999999999999999999999999999999999974
|
| >d1ttya_ a.4.13.2 (A:) Sigma70 (SigA, RpoD) {Thermotoga maritima [TaxId: 2336]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: Sigma70 (SigA, RpoD) species: Thermotoga maritima [TaxId: 2336]
Probab=99.50 E-value=9.1e-15 Score=131.24 Aligned_cols=74 Identities=59% Similarity=0.855 Sum_probs=70.3
Q ss_pred HHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHHhhhcc
Q psy15215 1356 MRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429 (1432)
Q Consensus 1356 ~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~~~~~~ 1429 (1432)
+++.|..+|+.|+|+|+.||.+|||++.+.++|++|||+.||||+++|||++.+|++|||++.++..|+.|++-
T Consensus 8 l~~~l~~~l~~L~~rE~~Ii~~rfGl~~~~~~tl~eI~~~lgiSrERVRQie~~al~kLr~~~~~~~L~~~l~~ 81 (87)
T d1ttya_ 8 MREELEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLRHPSRSKYLKSLLSL 81 (87)
T ss_dssp CCSHHHHHHTTSCHHHHHHHHHHHTTTTSSCCCHHHHHHHHTCCHHHHHHHHHHHHHHHBTTBSSHHHHHHHHH
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHcCCCCCCcCCHHHHHHHhCCCHHHHHHHHHHHHHHHhCcHHHHHHHHHHHh
Confidence 35678899999999999999999999999999999999999999999999999999999999999999999974
|
| >d1t6t1_ c.136.1.1 (1:) Hypothetical protein aq_2086 {Aquifex aeolicus [TaxId: 63363]} | Back information, alignment and structure |
|---|
class: Alpha and beta proteins (a/b) fold: Toprim domain superfamily: Toprim domain family: Toprim domain domain: Hypothetical protein aq 2086 species: Aquifex aeolicus [TaxId: 63363]
Probab=99.48 E-value=1.2e-14 Score=137.77 Aligned_cols=83 Identities=20% Similarity=0.209 Sum_probs=72.5
Q ss_pred cCchHhHHhhcc--CCeEEEEecchhHHHHhhhCC--------------------CCCeEEEEecCcHHHHHHHHHHHHH
Q psy15215 717 YGLFEAKNAIGK--SGYVLITEGYMDVIGLSQFGF--------------------FANSSYTCFDGDQAGRRAARRALEV 774 (1432)
Q Consensus 717 y~~~~a~~~~~~--~~~~~~vEG~~D~ia~~~~g~--------------------~~~~i~~~~D~D~aG~~a~~~~~~~ 774 (1432)
||+..+.+.+++ .+.+|||||||||++||++|| ...+||+|||||.||++|+.|+...
T Consensus 2 ~~l~e~i~~l~~~~~~~viiVEG~~Dv~al~~~Gi~n~va~~Gt~~~~~~~~l~~~~~~vii~~D~D~aG~~aa~kl~~~ 81 (108)
T d1t6t1_ 2 RNLSEWIKELKKASREAVILVEGKNDKKALSKFSIKNVIDLSGKRYADVVDMLEGKWEKVILLFDLDTHGERINQKMKEL 81 (108)
T ss_dssp CSHHHHHHHHHHHTTTSEEEESSHHHHHHHHTTTCCCEEECTTSCHHHHHHHHTTTCSEEEECCCSSHHHHHHHHHHHHH
T ss_pred cCHHHHHHHHHHcCCCcEEEEechHHHHHHHHhCCceEEeCCCCccHHHHHHHHhcCCeEEEEeCCCHHHHHHHHHHHHH
Confidence 678888887754 567999999999999999999 4689999999999999999999999
Q ss_pred hhhhcCCCceEEEecCCCCCCHHHHHHHhChhhhh
Q psy15215 775 CLLYATDDKIIKFLFLPDKYDPDSYIRKFGYKIFS 809 (1432)
Q Consensus 775 ~~~~~~~~~~~~~~~lp~~~Dpde~~~~~g~~~~~ 809 (1432)
+.+.|+. | +.||++|++++|...+.
T Consensus 82 L~~~g~~---v-------d~~~~~~l~~~~~~~ie 106 (108)
T d1t6t1_ 82 LSSQGFL---V-------DENFRNFLKKWNIIHIE 106 (108)
T ss_dssp HHHTTCE---E-------ECHHHHHHHHTTCCCGG
T ss_pred HHHcCCC---C-------CcCHHHHHHHHhHHHHh
Confidence 9988764 3 48999999999877664
|
| >d1ku3a_ a.4.13.2 (A:) Sigma70 (SigA, RpoD) {Thermus aquaticus [TaxId: 271]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: Sigma70 (SigA, RpoD) species: Thermus aquaticus [TaxId: 271]
Probab=99.33 E-value=2.8e-13 Score=113.18 Aligned_cols=57 Identities=58% Similarity=0.786 Sum_probs=54.4
Q ss_pred HHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1361 KDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1361 ~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
.++|+.||++|+.||.+|||++.++++|++|||+.||||+++|||++.+|++|||++
T Consensus 3 ~~~L~~L~~rer~Ii~~ryGl~~~~~~tl~eIa~~lgiS~erVrqi~~~al~kLR~~ 59 (61)
T d1ku3a_ 3 EKALSKLSEREAMVLKMRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRKLKYH 59 (61)
T ss_dssp SSSTTTSCHHHHHHHHHHHTTTTSSCCCHHHHHHHHTCCHHHHHHHHHHHHHHHHHT
T ss_pred HHHHhcCCHHHHHHHHHHhCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHhcC
Confidence 457899999999999999999999999999999999999999999999999999985
|
| >d1ku2a1 a.4.13.1 (A:273-332) Sigma factor SigA {Thermus aquaticus [TaxId: 271]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma3 domain domain: Sigma factor SigA species: Thermus aquaticus [TaxId: 271]
Probab=99.25 E-value=3.9e-12 Score=105.78 Aligned_cols=58 Identities=53% Similarity=0.792 Sum_probs=55.6
Q ss_pred cccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcC--CCHHHHHHHHHHccCCCCC
Q psy15215 476 IRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKME--MPEEKIRKIMKIAKEPVSM 533 (1432)
Q Consensus 476 irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~--~~~~~v~~~~~~~~~~~sl 533 (1432)
||+|+||++++|+++++++++.|++||+||++|||+.|| +++++|+.++++++.|+||
T Consensus 1 IRlPvH~~e~i~rv~r~~~~l~qe~gRePt~eEiA~~l~~~l~~ekV~~~l~~~~~p~SL 60 (60)
T d1ku2a1 1 IRIPVHMVETINKLSRTARQLQQELGREPSYEEIAEAMGPGWDAKRVEETLKIAQEPVSL 60 (60)
T ss_dssp CCCCHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHCSSCCHHHHHHHGGGSSSCCCC
T ss_pred CccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHCCCCCHHHHHHHHHHccCCCCC
Confidence 799999999999999999999999999999999999997 5589999999999999997
|
| >d1ku2a1 a.4.13.1 (A:273-332) Sigma factor SigA {Thermus aquaticus [TaxId: 271]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma3 domain domain: Sigma factor SigA species: Thermus aquaticus [TaxId: 271]
Probab=99.24 E-value=4.6e-12 Score=105.34 Aligned_cols=58 Identities=53% Similarity=0.792 Sum_probs=55.6
Q ss_pred ccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcC--CCHHHHHHHHHHccCCCCC
Q psy15215 1266 IRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKME--MPEEKIRKIMKIAKEPVSM 1323 (1432)
Q Consensus 1266 irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~--~~~~~v~~~~~~~~~~~Sl 1323 (1432)
||+|+||++.+||++++.+++.|++||+||++|||+++| +++++|+.+++.++.|+||
T Consensus 1 IRlPvH~~e~i~rv~r~~~~l~qe~gRePt~eEiA~~l~~~l~~ekV~~~l~~~~~p~SL 60 (60)
T d1ku2a1 1 IRIPVHMVETINKLSRTARQLQQELGREPSYEEIAEAMGPGWDAKRVEETLKIAQEPVSL 60 (60)
T ss_dssp CCCCHHHHHHHHHHHHHHHHHHHHHTSCCCHHHHHHHHCSSCCHHHHHHHGGGSSSCCCC
T ss_pred CccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHCCCCCHHHHHHHHHHccCCCCC
Confidence 799999999999999999999999999999999999997 5589999999999999997
|
| >d1rp3a2 a.4.13.2 (A:164-234) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: Sigma factor sigma-28 (FliA) species: Aquifex aeolicus [TaxId: 63363]
Probab=99.12 E-value=6.2e-11 Score=103.69 Aligned_cols=69 Identities=28% Similarity=0.429 Sum_probs=65.2
Q ss_pred ChHHHHHHHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCch
Q psy15215 1346 APSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 1418 (1432)
Q Consensus 1346 ~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~ 1418 (1432)
+|++.+...+....|..+|+.|||++|.||.|+|+.|+ |++|||+.||+|+++|++++++|+++||+..
T Consensus 1 d~e~~~~~~e~~~~l~~~l~~L~~~~r~v~~l~~~~~~----s~~eIA~~lgis~~tv~~~~~ra~~~Lr~~L 69 (71)
T d1rp3a2 1 NVEEEVIKRELTEKVKEAVSKLPEREKLVIQLIFYEEL----PAKEVAKILETSVSRVSQLKAKALERLREML 69 (71)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHTSCC----CHHHHHHHTTSCHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHhHhC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHc
Confidence 47788889999999999999999999999999999888 9999999999999999999999999999854
|
| >d1ku3a_ a.4.13.2 (A:) Sigma70 (SigA, RpoD) {Thermus aquaticus [TaxId: 271]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: Sigma70 (SigA, RpoD) species: Thermus aquaticus [TaxId: 271]
Probab=99.11 E-value=1.9e-11 Score=101.97 Aligned_cols=58 Identities=57% Similarity=0.773 Sum_probs=54.6
Q ss_pred HHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHH
Q psy15215 570 VKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPL 627 (1432)
Q Consensus 570 l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~ 627 (1432)
|..+|+.||++|+.||.+|||++.+.++|++|||+.+|+|.++|+|++.+|+++||+.
T Consensus 2 l~~~L~~L~~rer~Ii~~ryGl~~~~~~tl~eIa~~lgiS~erVrqi~~~al~kLR~~ 59 (61)
T d1ku3a_ 2 LEKALSKLSEREAMVLKMRKGLIDGREHTLEEVGAYFGVTRERIRQIENKALRKLKYH 59 (61)
T ss_dssp CSSSTTTSCHHHHHHHHHHHTTTTSSCCCHHHHHHHHTCCHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHhcCCHHHHHHHHHHhCCCCCCCCCHHHHHHHHCCCHHHHHHHHHHHHHHHhcC
Confidence 3457899999999999999999999999999999999999999999999999999974
|
| >d1ttya_ a.4.13.2 (A:) Sigma70 (SigA, RpoD) {Thermotoga maritima [TaxId: 2336]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: Sigma70 (SigA, RpoD) species: Thermotoga maritima [TaxId: 2336]
Probab=99.06 E-value=8.4e-11 Score=105.15 Aligned_cols=63 Identities=59% Similarity=0.878 Sum_probs=58.8
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 566 MRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 566 ~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
+++.|..+|+.|+|+|+.||.+|||++.+.++|+.|||+.||+|+++|+|++.+|+++||++.
T Consensus 8 l~~~l~~~l~~L~~rE~~Ii~~rfGl~~~~~~tl~eI~~~lgiSrERVRQie~~al~kLr~~~ 70 (87)
T d1ttya_ 8 MREELEKVLKTLSPREAMVLRMRYGLLDGKPKTLEEVGQYFNVTRERIRQIEVKALRKLRHPS 70 (87)
T ss_dssp CCSHHHHHHTTSCHHHHHHHHHHHTTTTSSCCCHHHHHHHHTCCHHHHHHHHHHHHHHHBTTB
T ss_pred HHHHHHHHHhcCCHHHHHHHHHHcCCCCCCcCCHHHHHHHhCCCHHHHHHHHHHHHHHHhCcH
Confidence 356788999999999999999999999999999999999999999999999999999998643
|
| >d1rp3a2 a.4.13.2 (A:164-234) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: Sigma factor sigma-28 (FliA) species: Aquifex aeolicus [TaxId: 63363]
Probab=99.02 E-value=3.7e-10 Score=98.62 Aligned_cols=70 Identities=27% Similarity=0.446 Sum_probs=66.4
Q ss_pred ChHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHH
Q psy15215 556 APSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 556 ~p~~~~~~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~ 629 (1432)
||++.+...+....|..+|++|||+++.||.|+|+.|+ |++|||+.+|+|+++|+++.++|+++|++.+.
T Consensus 1 d~e~~~~~~e~~~~l~~~l~~L~~~~r~v~~l~~~~~~----s~~eIA~~lgis~~tv~~~~~ra~~~Lr~~L~ 70 (71)
T d1rp3a2 1 NVEEEVIKRELTEKVKEAVSKLPEREKLVIQLIFYEEL----PAKEVAKILETSVSRVSQLKAKALERLREMLS 70 (71)
T ss_dssp HHHHHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHTSCC----CHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHhHhC----CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHcc
Confidence 47788899999999999999999999999999999988 99999999999999999999999999998874
|
| >d2p7vb1 a.4.13.2 (B:546-613) Sigma70 (SigA, RpoD) {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: Sigma70 (SigA, RpoD) species: Escherichia coli [TaxId: 562]
Probab=99.01 E-value=8.9e-11 Score=99.85 Aligned_cols=55 Identities=80% Similarity=1.099 Sum_probs=52.3
Q ss_pred HHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHH
Q psy15215 573 ILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPL 627 (1432)
Q Consensus 573 ~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~ 627 (1432)
+|+.|||+|+.||.+|||++.+.++|++|||+.||+|+++|+|++.+|+++|++.
T Consensus 2 ~L~~L~~rE~~Ii~~rfGl~~~~~~tl~eI~~~lgiSrerVrqie~~al~kLr~~ 56 (68)
T d2p7vb1 2 VLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLRHP 56 (68)
T ss_dssp CSCCCCHHHHHHHHHHTTTTSSSCCCHHHHHHHHTCCHHHHHHHHHHHHHGGGSC
T ss_pred hhhcCCHHHHHHHHHHcCCCCCCcCCHHHHHHHHCCCHHHHHHHHHHHHHHHHhh
Confidence 5789999999999999999988999999999999999999999999999999854
|
| >d1l0oc_ a.4.13.2 (C:) SigmaF {Bacillus stearothermophilus [TaxId: 1422]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: SigmaF species: Bacillus stearothermophilus [TaxId: 1422]
Probab=98.94 E-value=5.3e-10 Score=92.14 Aligned_cols=54 Identities=19% Similarity=0.280 Sum_probs=51.7
Q ss_pred cccccchhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHc
Q psy15215 474 RTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIA 527 (1432)
Q Consensus 474 r~irip~~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~ 527 (1432)
.+||+|+|+.+.+||+.++.+++.|++||+||++|||+.||+|+++|..++..+
T Consensus 2 g~IrvPr~~~e~~~ki~~~~~~l~q~lgRePT~~EiA~~l~~~~e~V~~~l~a~ 55 (57)
T d1l0oc_ 2 GTVKVSRSLKEMGNKIRKAKDELSKTRGRAPTVTEIADHLGISPEDVVLAQEAV 55 (57)
T ss_dssp CCCTTHHHHHHHHHHHHHHHHHHHHHHTSCCBHHHHHHHHTSCHHHHHHHHHHH
T ss_pred CCEeCcHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHCcCHHHHHHHHHHh
Confidence 479999999999999999999999999999999999999999999999998765
|
| >d1l0oc_ a.4.13.2 (C:) SigmaF {Bacillus stearothermophilus [TaxId: 1422]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: SigmaF species: Bacillus stearothermophilus [TaxId: 1422]
Probab=98.93 E-value=5.5e-10 Score=92.07 Aligned_cols=54 Identities=19% Similarity=0.280 Sum_probs=51.6
Q ss_pred ccccccccHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHc
Q psy15215 1264 RTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIA 1317 (1432)
Q Consensus 1264 r~irip~~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~ 1317 (1432)
.+||+|+|+.+.++|++++.+++.+++||+||++|||+.||+|+++|..++..+
T Consensus 2 g~IrvPr~~~e~~~ki~~~~~~l~q~lgRePT~~EiA~~l~~~~e~V~~~l~a~ 55 (57)
T d1l0oc_ 2 GTVKVSRSLKEMGNKIRKAKDELSKTRGRAPTVTEIADHLGISPEDVVLAQEAV 55 (57)
T ss_dssp CCCTTHHHHHHHHHHHHHHHHHHHHHHTSCCBHHHHHHHHTSCHHHHHHHHHHH
T ss_pred CCEeCcHHHHHHHHHHHHHHHHHHHHcCCCCCHHHHHHHHCcCHHHHHHHHHHh
Confidence 479999999999999999999999999999999999999999999999998764
|
| >d1or7a1 a.4.13.2 (A:120-187) SigmaE factor (RpoE) {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: SigmaE factor (RpoE) species: Escherichia coli [TaxId: 562]
Probab=98.88 E-value=1.5e-09 Score=93.72 Aligned_cols=62 Identities=16% Similarity=0.190 Sum_probs=57.9
Q ss_pred HHHHHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCch
Q psy15215 1353 NASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 1418 (1432)
Q Consensus 1353 ~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~ 1418 (1432)
..++...|..+|+.|||++|.||.|+|+.|+ |++|||+.+|+|.++|+++++||+++||...
T Consensus 5 ~~e~~~~l~~~l~~Lp~~~r~v~~l~~~~~~----s~~eIA~~lgis~~tv~~~l~ra~~~Lr~~l 66 (68)
T d1or7a1 5 SEELRQIVFRTIESLPEDLRMAITLRELDGL----SYEEIAAIMDCPVGTVRSRIFRAREAIDNKV 66 (68)
T ss_dssp HHHHHHHHHHHHHHSCHHHHHHHHHHHTTCC----CHHHHHHHTTSCHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHc
Confidence 3566788999999999999999999999999 9999999999999999999999999999854
|
| >d2fcja1 c.136.1.1 (A:1-114) Hypothetical protein RBSTP2199 {Bacillus stearothermophilus [TaxId: 1422]} | Back information, alignment and structure |
|---|
class: Alpha and beta proteins (a/b) fold: Toprim domain superfamily: Toprim domain family: Toprim domain domain: Hypothetical protein RBSTP2199 species: Bacillus stearothermophilus [TaxId: 1422]
Probab=98.85 E-value=1.1e-09 Score=104.59 Aligned_cols=79 Identities=15% Similarity=0.129 Sum_probs=59.9
Q ss_pred hccCCeEEEEecchhHHHHhhhCC------------------------CCCeEEEEecCcHHHHHHHHHHHHHhhhhcCC
Q psy15215 726 IGKSGYVLITEGYMDVIGLSQFGF------------------------FANSSYTCFDGDQAGRRAARRALEVCLLYATD 781 (1432)
Q Consensus 726 ~~~~~~~~~vEG~~D~ia~~~~g~------------------------~~~~i~~~~D~D~aG~~a~~~~~~~~~~~~~~ 781 (1432)
|++.++||||||++||++++|+|+ ...+||+|||||.||++++.+....+..
T Consensus 1 ik~~~~viIvEG~~D~~~l~~~g~~~vv~~~~gg~~~~~~~~~l~~~~~~~~Iii~~D~D~aG~~~a~~l~~~l~~---- 76 (114)
T d2fcja1 1 MRRVEKVIIVEGRSDKQKVAAVLNEPVVIVCTNGTISDARLEELADELEGYDVYLLADADEAGEKLRRQFRRMFPE---- 76 (114)
T ss_dssp CCCCCEEEEESSHHHHHHHHHHBSSCCEEEECCSCCCHHHHHHHHHHTTTSEEEEECCSSHHHHHHHHHHHHHCTT----
T ss_pred CCcCCEEEEEcCHHHHHHHHHcCCCCeEEeCCCccccHHHHHHHHHHhCCCcEEEEeCCChHHHHHHHHHHHHCCC----
Confidence 467789999999999999999997 3568999999999999999988886542
Q ss_pred CceEEEecCCCC-CCHHHHHHHhChhhhhhc
Q psy15215 782 DKIIKFLFLPDK-YDPDSYIRKFGYKIFSKK 811 (1432)
Q Consensus 782 ~~~~~~~~lp~~-~Dpde~~~~~g~~~~~~~ 811 (1432)
...+.+|.. +|..+...++-.+.+.+.
T Consensus 77 ---~~~~~i~~~~~~v~~~p~~~~~~~l~~~ 104 (114)
T d2fcja1 77 ---AEHLYIDRAYREVAAAPIWHLAQVLLRA 104 (114)
T ss_dssp ---SEEECCCTTTCSTTTSCHHHHHHHHHHT
T ss_pred ---CcEEEecccccchhhCcHHHHHHHHHhc
Confidence 223334543 566666666666666553
|
| >d1or7a1 a.4.13.2 (A:120-187) SigmaE factor (RpoE) {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma4 domain domain: SigmaE factor (RpoE) species: Escherichia coli [TaxId: 562]
Probab=98.77 E-value=8.4e-09 Score=88.84 Aligned_cols=62 Identities=16% Similarity=0.177 Sum_probs=58.4
Q ss_pred HHHHHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHH
Q psy15215 563 NASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLA 628 (1432)
Q Consensus 563 ~~~~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l 628 (1432)
..+....|..+|+.|||+++.||.|+|+.|+ |++|||+.+|+|.++|+++.++|+++|++.+
T Consensus 5 ~~e~~~~l~~~l~~Lp~~~r~v~~l~~~~~~----s~~eIA~~lgis~~tv~~~l~ra~~~Lr~~l 66 (68)
T d1or7a1 5 SEELRQIVFRTIESLPEDLRMAITLRELDGL----SYEEIAAIMDCPVGTVRSRIFRAREAIDNKV 66 (68)
T ss_dssp HHHHHHHHHHHHHHSCHHHHHHHHHHHTTCC----CHHHHHHHTTSCHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHc
Confidence 4567888999999999999999999999999 9999999999999999999999999999876
|
| >d1s7oa_ a.4.13.3 (A:) Hypothetical protein SPy1201 {Streptococcus pyogenes [TaxId: 1314]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: YlxM/p13-like domain: Hypothetical protein SPy1201 species: Streptococcus pyogenes [TaxId: 1314]
Probab=98.43 E-value=2.1e-07 Score=86.24 Aligned_cols=51 Identities=16% Similarity=0.288 Sum_probs=47.3
Q ss_pred HHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1363 ILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1363 ~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
...-|||+||.|+.|+|+.|+ |++|||+.+|||+++|+++++||+++||..
T Consensus 13 y~~lLp~~qR~v~~L~y~~~l----s~~EIA~~lgiS~~aV~~~l~RA~~~L~~~ 63 (106)
T d1s7oa_ 13 YAALLTDKQMNYIELYYADDY----SLAEIADEFGVSRQAVYDNIKRTEKILETY 63 (106)
T ss_dssp HGGGSCHHHHHHHHHHHHTCC----CHHHHHHHHTCCHHHHHHHHHHHHHHHHHH
T ss_pred HHhhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHH
Confidence 334499999999999999999 999999999999999999999999999973
|
| >d1h3la_ a.177.1.1 (A:) Sigma factor SigR {Streptomyces coelicolor a3(2) [TaxId: 100226]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Sigma2 domain of RNA polymerase sigma factors superfamily: Sigma2 domain of RNA polymerase sigma factors family: Sigma2 domain of RNA polymerase sigma factors domain: Sigma factor SigR species: Streptomyces coelicolor a3(2) [TaxId: 100226]
Probab=98.42 E-value=7e-08 Score=84.73 Aligned_cols=69 Identities=14% Similarity=0.071 Sum_probs=64.1
Q ss_pred hhHHHHHHHHHHHHHHHHHhccCCCCChhHHHHHHHHHHHHHHHhccccCCCcchhHHHHHHHHHHHHHHH
Q psy15215 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 1260 (1432)
Q Consensus 1190 ~A~~~Li~~~~~lV~~ia~~y~~~~~~~~DLiQEg~igl~kav~kfd~~~g~~Fstya~~~ir~~i~~~i~ 1260 (1432)
.+|++++..|.+.|+++|.+++++..+++|++||+|+.+|+..++|++. .+|.+|++.+++|.+.+++|
T Consensus 7 ~~f~~~~~~y~~~l~~~~~~~~~d~~~aeDivQd~f~~~~~~~~~~~~~--~~~~~wl~~i~~n~~~d~~R 75 (75)
T d1h3la_ 7 ARFERDALEFLDQMYSAALRMTRNPADAEDLVQETYAKAYASFHQFREG--TNLKAWLYRILTNTFINSYR 75 (75)
T ss_dssp HHHHHHHHHTHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHGGGCCSS--SCHHHHHHHHHHHHHHHTCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhhhcCCC--CCHHHHHHHHHHHHHHHHhC
Confidence 3799999999999999999999999999999999999999999999864 47999999999999998753
|
| >d1xsva_ a.4.13.3 (A:) Hypothetical protein SAV1236 {Staphylococcus aureus, strain Mu50 / ATCC 700699 [TaxId: 1280]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: YlxM/p13-like domain: Hypothetical protein SAV1236 species: Staphylococcus aureus, strain Mu50 / ATCC 700699 [TaxId: 1280]
Probab=98.40 E-value=3.1e-07 Score=85.01 Aligned_cols=49 Identities=16% Similarity=0.261 Sum_probs=46.6
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCc
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~ 1417 (1432)
.-|||+||.|+.|||+.|+ |+.|||+.+|||+++|+++++||+++||.-
T Consensus 17 ~LLpe~QR~vl~L~~~e~l----s~~EIA~~lgiS~~aV~~~l~Ra~~~L~~y 65 (106)
T d1xsva_ 17 SLLTNKQRNYLELFYLEDY----SLSEIADTFNVSRQAVYDNIRRTGDLVEDY 65 (106)
T ss_dssp GGSCHHHHHHHHHHHTSCC----CHHHHHHHTTCCHHHHHHHHHHHHHHHHHH
T ss_pred HhCCHHHHHHHHHHHHhCC----cHHHHHHHHCcCHHHHHHHHHHHHHHHHHH
Confidence 3499999999999999999 999999999999999999999999999974
|
| >d1h3la_ a.177.1.1 (A:) Sigma factor SigR {Streptomyces coelicolor a3(2) [TaxId: 100226]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: Sigma2 domain of RNA polymerase sigma factors superfamily: Sigma2 domain of RNA polymerase sigma factors family: Sigma2 domain of RNA polymerase sigma factors domain: Sigma factor SigR species: Streptomyces coelicolor a3(2) [TaxId: 100226]
Probab=98.28 E-value=2.9e-07 Score=80.67 Aligned_cols=69 Identities=14% Similarity=0.071 Sum_probs=63.9
Q ss_pred HhHHHHHHHHHHHHHHHHHhcccCCCChhhHHHHHHHHHHHHHhhccccCCCccHHHHHHHHHHHHHHHHH
Q psy15215 400 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIA 470 (1432)
Q Consensus 400 ~A~~~li~~~~~lV~~ia~ky~~~~~~~~DLiQEg~igL~kav~~fd~~~g~~Fstya~~~ir~~i~~~i~ 470 (1432)
.++++++..|.+.|+++|.+++++..+++|++||.++.+|+..++|++. .+|.+|++..++|.+.+++|
T Consensus 7 ~~f~~~~~~y~~~l~~~~~~~~~d~~~aeDivQd~f~~~~~~~~~~~~~--~~~~~wl~~i~~n~~~d~~R 75 (75)
T d1h3la_ 7 ARFERDALEFLDQMYSAALRMTRNPADAEDLVQETYAKAYASFHQFREG--TNLKAWLYRILTNTFINSYR 75 (75)
T ss_dssp HHHHHHHHHTHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHGGGCCSS--SCHHHHHHHHHHHHHHHTCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHhhhhcCCC--CCHHHHHHHHHHHHHHHHhC
Confidence 3799999999999999999999999999999999999999999999864 47999999999999988653
|
| >d1rp3a1 a.4.13.1 (A:87-163) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma3 domain domain: Sigma factor sigma-28 (FliA) species: Aquifex aeolicus [TaxId: 63363]
Probab=98.21 E-value=7.9e-08 Score=84.69 Aligned_cols=70 Identities=17% Similarity=0.284 Sum_probs=57.4
Q ss_pred hHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHc--cCCCCCCCCCCCCCCCCcCccccc
Q psy15215 481 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIA--KEPVSMESPVGDDEDSHLGDFIED 551 (1432)
Q Consensus 481 ~~~~~~~k~~r~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~--~~~~sl~~~~~~~~~~~~~~~i~d 551 (1432)
.+.+.++++.++.+++.+++||+||.+|||+.|||++++|++++... ..++|||.++++++ ..+.+++++
T Consensus 4 s~r~~~~ki~~a~~~L~~~lGR~Pt~~EiA~~lg~s~~e~~~~l~~~~~~~~~SLD~~~~d~~-~~~~e~lps 75 (77)
T d1rp3a1 4 QVREKERRIKEVVEKLKEKLGREPTDEEVAKELGISTEELFKTLDKINFSYILSLEEVFRDFA-RDYSELIPS 75 (77)
T ss_dssp HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHTTTGGG
T ss_pred HHHHHHHHHHHHHHHHHHHHCcCCCHHHHHHHHCcCHHHHHHHHHHHhcCCceecccCccCCC-CchhccCCC
Confidence 45578899999999999999999999999999999999999998654 46789998765443 345565554
|
| >d1rp3a1 a.4.13.1 (A:87-163) Sigma factor sigma-28 (FliA) {Aquifex aeolicus [TaxId: 63363]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: Sigma3 domain domain: Sigma factor sigma-28 (FliA) species: Aquifex aeolicus [TaxId: 63363]
Probab=98.21 E-value=5.9e-08 Score=85.52 Aligned_cols=70 Identities=17% Similarity=0.283 Sum_probs=57.2
Q ss_pred cHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCHHHHHHHHHHc--cCCCCCCCCCCCCCCCCcCccccc
Q psy15215 1271 HMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIA--KEPVSMESPVGDDEDSHLGDFIED 1341 (1432)
Q Consensus 1271 ~~~~~~~k~~~~~~~~~~~~g~~pt~~eia~~~~~~~~~v~~~~~~~--~~~~Sl~~~~~~~~~~~~~d~i~d 1341 (1432)
.+.+.+++++++.+.+.+++||+||.+|||+.|||++++|++++... ..++|||.+++++ +..+.+++++
T Consensus 4 s~r~~~~ki~~a~~~L~~~lGR~Pt~~EiA~~lg~s~~e~~~~l~~~~~~~~~SLD~~~~d~-~~~~~e~lps 75 (77)
T d1rp3a1 4 QVREKERRIKEVVEKLKEKLGREPTDEEVAKELGISTEELFKTLDKINFSYILSLEEVFRDF-ARDYSELIPS 75 (77)
T ss_dssp HHHHHHHHHHHHHHHHHHHHSSCCCHHHHHHHHTSCHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHTTTGGG
T ss_pred HHHHHHHHHHHHHHHHHHHHCcCCCHHHHHHHHCcCHHHHHHHHHHHhcCCceecccCccCC-CCchhccCCC
Confidence 34577889999999999999999999999999999999999998754 3678999876543 3345566554
|
| >d1s7oa_ a.4.13.3 (A:) Hypothetical protein SPy1201 {Streptococcus pyogenes [TaxId: 1314]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: YlxM/p13-like domain: Hypothetical protein SPy1201 species: Streptococcus pyogenes [TaxId: 1314]
Probab=98.21 E-value=1.8e-06 Score=79.98 Aligned_cols=53 Identities=15% Similarity=0.291 Sum_probs=48.3
Q ss_pred HHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHH
Q psy15215 573 ILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 573 ~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~ 629 (1432)
+.+-|||++|.|+.|+|+.|+ |++|||+.+|+|+++|+++.+||+.+|++.-.
T Consensus 13 y~~lLp~~qR~v~~L~y~~~l----s~~EIA~~lgiS~~aV~~~l~RA~~~L~~~e~ 65 (106)
T d1s7oa_ 13 YAALLTDKQMNYIELYYADDY----SLAEIADEFGVSRQAVYDNIKRTEKILETYEM 65 (106)
T ss_dssp HGGGSCHHHHHHHHHHHHTCC----CHHHHHHHHTCCHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhhCCHHHHHHHHHHHHcCC----CHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHH
Confidence 334499999999999999999 99999999999999999999999999997543
|
| >d1xsva_ a.4.13.3 (A:) Hypothetical protein SAV1236 {Staphylococcus aureus, strain Mu50 / ATCC 700699 [TaxId: 1280]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Sigma3 and sigma4 domains of RNA polymerase sigma factors family: YlxM/p13-like domain: Hypothetical protein SAV1236 species: Staphylococcus aureus, strain Mu50 / ATCC 700699 [TaxId: 1280]
Probab=98.17 E-value=2.5e-06 Score=78.84 Aligned_cols=52 Identities=15% Similarity=0.253 Sum_probs=48.0
Q ss_pred HhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHHHHHH
Q psy15215 574 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRPLAH 629 (1432)
Q Consensus 574 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr~~l~ 629 (1432)
..-|||+||.|+.|||..|+ |+.|||+.+|+|+++|+++.+||+++|++...
T Consensus 16 ~~LLpe~QR~vl~L~~~e~l----s~~EIA~~lgiS~~aV~~~l~Ra~~~L~~ye~ 67 (106)
T d1xsva_ 16 QSLLTNKQRNYLELFYLEDY----SLSEIADTFNVSRQAVYDNIRRTGDLVEDYEK 67 (106)
T ss_dssp GGGSCHHHHHHHHHHHTSCC----CHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHH
T ss_pred HHhCCHHHHHHHHHHHHhCC----cHHHHHHHHCcCHHHHHHHHHHHHHHHHHHHH
Confidence 34499999999999999999 99999999999999999999999999998644
|
| >d1yioa1 a.4.6.2 (A:131-200) Response regulatory protein StyR, C-terminal domain {Pseudomonas fluorescens [TaxId: 294]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: C-terminal effector domain of the bipartite response regulators family: GerE-like (LuxR/UhpA family of transcriptional regulators) domain: Response regulatory protein StyR, C-terminal domain species: Pseudomonas fluorescens [TaxId: 294]
Probab=97.78 E-value=3.3e-05 Score=65.91 Aligned_cols=62 Identities=16% Similarity=0.247 Sum_probs=53.9
Q ss_pred HHHHHHHHHccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhh
Q psy15215 1356 MRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422 (1432)
Q Consensus 1356 ~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~ 1422 (1432)
.++.+...++.|||+|++|+.+- ..|. |..|||..||+|..||+....++++||--..+...
T Consensus 2 ~~~~~~~~~~~LT~rE~~vl~~l-~~G~----s~~eIA~~l~iS~~TV~~~~~~i~~Klgv~~r~el 63 (70)
T d1yioa1 2 TQDQLEQLFSSLTGREQQVLQLT-IRGL----MNKQIAGELGIAEVTVKVHRHNIMQKLNVRSLANL 63 (70)
T ss_dssp HHHHHHHHHHTSCHHHHHHHHHH-TTTC----CHHHHHHHHTCCHHHHHHHHHHHHHHTTCSSHHHH
T ss_pred cHHHHHHHHccCCHHHHHHHHHH-HcCC----CHHHHHHHHCCCHHHHHHHHHHHHHHcCCCCHHHH
Confidence 45677888899999999999885 3455 99999999999999999999999999987776654
|
| >d1yioa1 a.4.6.2 (A:131-200) Response regulatory protein StyR, C-terminal domain {Pseudomonas fluorescens [TaxId: 294]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: C-terminal effector domain of the bipartite response regulators family: GerE-like (LuxR/UhpA family of transcriptional regulators) domain: Response regulatory protein StyR, C-terminal domain species: Pseudomonas fluorescens [TaxId: 294]
Probab=97.62 E-value=4.9e-05 Score=64.83 Aligned_cols=55 Identities=16% Similarity=0.321 Sum_probs=48.4
Q ss_pred HHHHHHHHHhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 566 MRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 566 ~~~~l~~~L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
..+.+...++.|||+|++|+.+. . .|+|..|||..+|+|+.+|+....++++||.
T Consensus 2 ~~~~~~~~~~~LT~rE~~vl~~l-~----~G~s~~eIA~~l~iS~~TV~~~~~~i~~Klg 56 (70)
T d1yioa1 2 TQDQLEQLFSSLTGREQQVLQLT-I----RGLMNKQIAGELGIAEVTVKVHRHNIMQKLN 56 (70)
T ss_dssp HHHHHHHHHHTSCHHHHHHHHHH-T----TTCCHHHHHHHHTCCHHHHHHHHHHHHHHTT
T ss_pred cHHHHHHHHccCCHHHHHHHHHH-H----cCCCHHHHHHHHCCCHHHHHHHHHHHHHHcC
Confidence 45678888999999999999985 3 4559999999999999999999999999984
|
| >d1a04a1 a.4.6.2 (A:150-216) Nitrate/nitrite response regulator (NarL) {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: C-terminal effector domain of the bipartite response regulators family: GerE-like (LuxR/UhpA family of transcriptional regulators) domain: Nitrate/nitrite response regulator (NarL) species: Escherichia coli [TaxId: 562]
Probab=97.49 E-value=0.0001 Score=62.30 Aligned_cols=56 Identities=23% Similarity=0.392 Sum_probs=48.9
Q ss_pred HccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHH
Q psy15215 1364 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1364 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~ 1424 (1432)
+..|||+|.+|+.+.- .|+ |..|||+.+|+|..||++...++++||.-..+.....
T Consensus 4 l~~LT~rE~~vl~ll~-~G~----s~~eIA~~l~iS~~TV~~~~~~i~~Klgv~~r~elv~ 59 (67)
T d1a04a1 4 VNQLTPRERDILKLIA-QGL----PNKMIARRLDITESTVKVHVKHMLKKMKLKSRVEAAV 59 (67)
T ss_dssp GGGSCHHHHHHHHHHH-TTC----CHHHHHHHHTCCHHHHHHHHHHHHHHHTCCSHHHHHH
T ss_pred cccCCHHHHHHHHHHH-hCC----CHHHHHHHHCCCHHHHHHHHHHHHHHhCCCCHHHHHH
Confidence 6789999999998753 455 9999999999999999999999999998877776543
|
| >d1l3la1 a.4.6.2 (A:170-234) Quorum-sensing transcription factor TraR, C-terminal domain {Agrobacterium tumefaciens [TaxId: 358]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: C-terminal effector domain of the bipartite response regulators family: GerE-like (LuxR/UhpA family of transcriptional regulators) domain: Quorum-sensing transcription factor TraR, C-terminal domain species: Agrobacterium tumefaciens [TaxId: 358]
Probab=97.35 E-value=0.00024 Score=59.49 Aligned_cols=54 Identities=22% Similarity=0.269 Sum_probs=46.9
Q ss_pred ccCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhH
Q psy15215 1365 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKL 1423 (1432)
Q Consensus 1365 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l 1423 (1432)
..|||+|++||.+- ..|. |.+|||+.||+|..||++...++++||.-..+....
T Consensus 3 ~~Lt~rE~~vl~l~-~~G~----s~~eIA~~l~iS~~TV~~~~~~i~~Klgv~~r~~l~ 56 (65)
T d1l3la1 3 AWLDPKEATYLRWI-AVGK----TMEEIADVEGVKYNSVRVKLREAMKRFDVRSKAHLT 56 (65)
T ss_dssp CCCCHHHHHHHHHH-TTTC----CHHHHHHHHTCCHHHHHHHHHHHHHHHTCSSHHHHH
T ss_pred cccCHHHHHHHHHH-HhcC----CHHHHHHHHCCCHHHHHHHHHHHHHHcCCCCHHHHH
Confidence 46999999999875 3454 999999999999999999999999999887776643
|
| >d1a04a1 a.4.6.2 (A:150-216) Nitrate/nitrite response regulator (NarL) {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: C-terminal effector domain of the bipartite response regulators family: GerE-like (LuxR/UhpA family of transcriptional regulators) domain: Nitrate/nitrite response regulator (NarL) species: Escherichia coli [TaxId: 562]
Probab=97.23 E-value=0.00018 Score=60.68 Aligned_cols=47 Identities=23% Similarity=0.474 Sum_probs=42.1
Q ss_pred HhcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 574 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 574 L~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
+..|||+|.+|+.+.- .|+|..|||..+|+|+.+|+++..+++.||.
T Consensus 4 l~~LT~rE~~vl~ll~-----~G~s~~eIA~~l~iS~~TV~~~~~~i~~Klg 50 (67)
T d1a04a1 4 VNQLTPRERDILKLIA-----QGLPNKMIARRLDITESTVKVHVKHMLKKMK 50 (67)
T ss_dssp GGGSCHHHHHHHHHHH-----TTCCHHHHHHHHTCCHHHHHHHHHHHHHHHT
T ss_pred cccCCHHHHHHHHHHH-----hCCCHHHHHHHHCCCHHHHHHHHHHHHHHhC
Confidence 6789999999999753 4459999999999999999999999999985
|
| >d1fsea_ a.4.6.2 (A:) Germination protein GerE {Bacillus subtilis [TaxId: 1423]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: C-terminal effector domain of the bipartite response regulators family: GerE-like (LuxR/UhpA family of transcriptional regulators) domain: Germination protein GerE species: Bacillus subtilis [TaxId: 1423]
Probab=97.19 E-value=0.00038 Score=58.67 Aligned_cols=54 Identities=22% Similarity=0.321 Sum_probs=46.9
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhhHH
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLK 1424 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~l~ 1424 (1432)
.|||+|++|+.+ +..|+ |.+|||..||+|..||+....+.++||--..+.....
T Consensus 4 ~LT~rE~~vl~l-~~~G~----s~~eIA~~L~is~~TV~~~~~~i~~Kl~v~~r~~lv~ 57 (67)
T d1fsea_ 4 LLTKREREVFEL-LVQDK----TTKEIASELFISEKTVRNHISNAMQKLGVKGRSQAVV 57 (67)
T ss_dssp CCCHHHHHHHHH-HTTTC----CHHHHHHHHTSCHHHHHHHHHHHHHHHTCSSHHHHHH
T ss_pred CCCHHHHHHHHH-HHccC----CHHHHHHHHCCCHHHHHHHHHHHHHHcCCCCHHHHHH
Confidence 499999999988 44555 9999999999999999999999999998877766543
|
| >d1l3la1 a.4.6.2 (A:170-234) Quorum-sensing transcription factor TraR, C-terminal domain {Agrobacterium tumefaciens [TaxId: 358]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: C-terminal effector domain of the bipartite response regulators family: GerE-like (LuxR/UhpA family of transcriptional regulators) domain: Quorum-sensing transcription factor TraR, C-terminal domain species: Agrobacterium tumefaciens [TaxId: 358]
Probab=97.04 E-value=0.0004 Score=58.07 Aligned_cols=46 Identities=24% Similarity=0.353 Sum_probs=40.9
Q ss_pred hcCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 575 NSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 575 ~~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
..|||+|++||.+. ..|+|.+|||+.+|+|+.+|+.+..+++.||.
T Consensus 3 ~~Lt~rE~~vl~l~-----~~G~s~~eIA~~l~iS~~TV~~~~~~i~~Klg 48 (65)
T d1l3la1 3 AWLDPKEATYLRWI-----AVGKTMEEIADVEGVKYNSVRVKLREAMKRFD 48 (65)
T ss_dssp CCCCHHHHHHHHHH-----TTTCCHHHHHHHHTCCHHHHHHHHHHHHHHHT
T ss_pred cccCHHHHHHHHHH-----HhcCCHHHHHHHHCCCHHHHHHHHHHHHHHcC
Confidence 35999999999875 34559999999999999999999999999985
|
| >d1fsea_ a.4.6.2 (A:) Germination protein GerE {Bacillus subtilis [TaxId: 1423]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: C-terminal effector domain of the bipartite response regulators family: GerE-like (LuxR/UhpA family of transcriptional regulators) domain: Germination protein GerE species: Bacillus subtilis [TaxId: 1423]
Probab=96.87 E-value=0.00069 Score=57.00 Aligned_cols=45 Identities=27% Similarity=0.409 Sum_probs=40.0
Q ss_pred cCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
.|||+|++|+.+. . .|+|.+|||..||+|..+|+.+..+.++||.
T Consensus 4 ~LT~rE~~vl~l~-~----~G~s~~eIA~~L~is~~TV~~~~~~i~~Kl~ 48 (67)
T d1fsea_ 4 LLTKREREVFELL-V----QDKTTKEIASELFISEKTVRNHISNAMQKLG 48 (67)
T ss_dssp CCCHHHHHHHHHH-T----TTCCHHHHHHHHTSCHHHHHHHHHHHHHHHT
T ss_pred CCCHHHHHHHHHH-H----ccCCHHHHHHHHCCCHHHHHHHHHHHHHHcC
Confidence 4999999999884 3 4559999999999999999999999999984
|
| >d1p4wa_ a.4.6.2 (A:) Transcriptional regulator RcsB {Erwinia amylovora [TaxId: 552]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: C-terminal effector domain of the bipartite response regulators family: GerE-like (LuxR/UhpA family of transcriptional regulators) domain: Transcriptional regulator RcsB species: Erwinia amylovora [TaxId: 552]
Probab=96.58 E-value=0.0017 Score=57.50 Aligned_cols=52 Identities=25% Similarity=0.342 Sum_probs=45.5
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHHHHHhhCchhhhh
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rAl~kLr~~~~~~~ 1422 (1432)
.||++|.+|+.+- ..|+ |.+|||+.|++|..||+....++++||.-..+...
T Consensus 22 ~LT~rE~~vl~ll-~~G~----s~~eIA~~l~iS~~TV~~~~~~i~~Kl~~~~~~~l 73 (87)
T d1p4wa_ 22 RLSPKESEVLRLF-AEGF----LVTEIAKKLNRSIKTISSQKKSAMMKLGVDNDIAL 73 (87)
T ss_dssp SCCHHHHHHHHHH-HHTC----CHHHHHHHHTSCHHHHHHHHHHHHHHHTCSSHHHH
T ss_pred CCCHHHHHHHHHH-HcCC----CHHHHHHHhCCCHHHHHHHHHHHHHHcCCCCHHHH
Confidence 5999999999875 3555 99999999999999999999999999987666554
|
| >d1p4wa_ a.4.6.2 (A:) Transcriptional regulator RcsB {Erwinia amylovora [TaxId: 552]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: C-terminal effector domain of the bipartite response regulators family: GerE-like (LuxR/UhpA family of transcriptional regulators) domain: Transcriptional regulator RcsB species: Erwinia amylovora [TaxId: 552]
Probab=95.93 E-value=0.004 Score=55.04 Aligned_cols=45 Identities=29% Similarity=0.434 Sum_probs=40.3
Q ss_pred cCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHHHHHHHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~~~rAl~kLr 625 (1432)
.||++|.+|+.+- ..| +|..|||+.|++|..+|+....++++||.
T Consensus 22 ~LT~rE~~vl~ll-~~G----~s~~eIA~~l~iS~~TV~~~~~~i~~Kl~ 66 (87)
T d1p4wa_ 22 RLSPKESEVLRLF-AEG----FLVTEIAKKLNRSIKTISSQKKSAMMKLG 66 (87)
T ss_dssp SCCHHHHHHHHHH-HHT----CCHHHHHHHHTSCHHHHHHHHHHHHHHHT
T ss_pred CCCHHHHHHHHHH-HcC----CCHHHHHHHhCCCHHHHHHHHHHHHHHcC
Confidence 5999999999875 344 49999999999999999999999999985
|
| >d1jhfa1 a.4.5.2 (A:2-72) LexA repressor, N-terminal DNA-binding domain {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: "Winged helix" DNA-binding domain family: LexA repressor, N-terminal DNA-binding domain domain: LexA repressor, N-terminal DNA-binding domain species: Escherichia coli [TaxId: 562]
Probab=93.84 E-value=0.033 Score=46.75 Aligned_cols=43 Identities=14% Similarity=0.193 Sum_probs=36.8
Q ss_pred cCCHHHHHHHHH--HhcccCCCCCCHHHHHHHhCC-CHHHHHHHHH
Q psy15215 1366 SLTPRESKVLRM--RFGIEMSSDHTLEEVGKQFDV-TRERIRQIEA 1408 (1432)
Q Consensus 1366 ~L~~rer~Vl~l--r~~~~~~~~~t~~EIa~~l~v-s~~~Vrq~~~ 1408 (1432)
.|||+|++||.. .|....|.+-|++|||+.||+ |.++|+..+.
T Consensus 2 ~LT~rQ~~vL~~I~~~~~~~G~~Ps~rei~~~~g~~S~stv~~~l~ 47 (71)
T d1jhfa1 2 ALTARQQEVFDLIRDHISQTGMPPTRAEIAQRLGFRSPNAAEEHLK 47 (71)
T ss_dssp CCCHHHHHHHHHHHHHHHHHSSCCCHHHHHHHTTCSSHHHHHHHHH
T ss_pred CCCHHHHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCCHHHHHHHHH
Confidence 599999999876 566666788899999999999 8999998754
|
| >d1ijwc_ a.4.1.2 (C:) HIN recombinase (DNA-binding domain) {Synthetic} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Homeodomain-like family: Recombinase DNA-binding domain domain: HIN recombinase (DNA-binding domain) species: Synthetic
Probab=92.00 E-value=0.09 Score=40.01 Aligned_cols=38 Identities=5% Similarity=0.074 Sum_probs=31.8
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHH
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIE 1407 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~ 1407 (1432)
.|++.+.+-++-.+-.|. |..+||+.||||+.||-+.+
T Consensus 5 ~lt~~q~~~a~~l~~~G~----s~~~iA~~~gVSr~TiYry~ 42 (47)
T d1ijwc_ 5 AINKHEQEQISRLLEKGH----PRQQLAIIFGIGVSTLYRYF 42 (47)
T ss_dssp SSCHHHHHHHHHHHHTTC----CHHHHHHHHTCCHHHHHHHS
T ss_pred cCCHHHHHHHHHHHHCCC----CHHHHHHHHCcCHHHHHhhC
Confidence 588888887777776666 99999999999999997653
|
| >d1ijwc_ a.4.1.2 (C:) HIN recombinase (DNA-binding domain) {Synthetic} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Homeodomain-like family: Recombinase DNA-binding domain domain: HIN recombinase (DNA-binding domain) species: Synthetic
Probab=88.20 E-value=0.28 Score=37.18 Aligned_cols=37 Identities=5% Similarity=0.111 Sum_probs=30.7
Q ss_pred cCCHHHHHHHHHHhhcccCCCCcHHHHHhhcccchhHHHHH
Q psy15215 576 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQI 616 (1432)
Q Consensus 576 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~is~~~v~~~ 616 (1432)
.|++.+..-++-.+-.|. |..+||+.||||+.++.+.
T Consensus 5 ~lt~~q~~~a~~l~~~G~----s~~~iA~~~gVSr~TiYry 41 (47)
T d1ijwc_ 5 AINKHEQEQISRLLEKGH----PRQQLAIIFGIGVSTLYRY 41 (47)
T ss_dssp SSCHHHHHHHHHHHHTTC----CHHHHHHHHTCCHHHHHHH
T ss_pred cCCHHHHHHHHHHHHCCC----CHHHHHHHHCcCHHHHHhh
Confidence 488888887777775555 9999999999999999764
|
| >d1hlva1 a.4.1.7 (A:1-66) DNA-binding domain of centromere binding protein B (CENP-B) {Human (Homo sapiens) [TaxId: 9606]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: Homeodomain-like family: Centromere-binding domain: DNA-binding domain of centromere binding protein B (CENP-B) species: Human (Homo sapiens) [TaxId: 9606]
Probab=86.82 E-value=0.39 Score=39.09 Aligned_cols=43 Identities=19% Similarity=0.261 Sum_probs=32.6
Q ss_pred cCCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHH
Q psy15215 1366 SLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 1410 (1432)
Q Consensus 1366 ~L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rA 1410 (1432)
.||..++.=+..+|-.| ...+..|||..|||+++||+.|+..-
T Consensus 7 ~LT~~eK~~ii~~~e~g--~k~sq~eIA~~fGv~~STvs~IlKnK 49 (66)
T d1hlva1 7 QLTFREKSRIIQEVEEN--PDLRKGEIARRFNIPPSTLSTILKNK 49 (66)
T ss_dssp CCCHHHHHHHHHHHHHC--TTSCHHHHHHHHTCCHHHHHHHHHTH
T ss_pred cCCHHHHHHHHHHHHcC--CcchHHHHHHHhCCChhHHHHHHHHH
Confidence 47777776555555443 23379999999999999999998774
|
| >d1jhfa1 a.4.5.2 (A:2-72) LexA repressor, N-terminal DNA-binding domain {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: "Winged helix" DNA-binding domain family: LexA repressor, N-terminal DNA-binding domain domain: LexA repressor, N-terminal DNA-binding domain species: Escherichia coli [TaxId: 562]
Probab=86.05 E-value=0.75 Score=38.10 Aligned_cols=42 Identities=17% Similarity=0.287 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHHhCCCCCHHHHHHHcCC-CHHHHHHHHHHc
Q psy15215 1276 INKISRISRQILQETGSEPDPSVIAIKMEM-PEEKIRKIMKIA 1317 (1432)
Q Consensus 1276 ~~k~~~~~~~~~~~~g~~pt~~eia~~~~~-~~~~v~~~~~~~ 1317 (1432)
-.++-........+.|.+||..|||+.+|+ |+..|+..++..
T Consensus 7 Q~~vL~~I~~~~~~~G~~Ps~rei~~~~g~~S~stv~~~l~~L 49 (71)
T d1jhfa1 7 QQEVFDLIRDHISQTGMPPTRAEIAQRLGFRSPNAAEEHLKAL 49 (71)
T ss_dssp HHHHHHHHHHHHHHHSSCCCHHHHHHHTTCSSHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHhCCCCCHHHHHHHcCCCCHHHHHHHHHHH
Confidence 345666777788899999999999999999 799999888643
|
| >d1stza1 a.4.5.51 (A:14-100) Heat-inducible transcription repressor HrcA, N-terminal domain {Thermotoga maritima [TaxId: 2336]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: "Winged helix" DNA-binding domain family: Heat-inducible transcription repressor HrcA, N-terminal domain domain: Heat-inducible transcription repressor HrcA, N-terminal domain species: Thermotoga maritima [TaxId: 2336]
Probab=81.87 E-value=0.77 Score=39.63 Aligned_cols=44 Identities=27% Similarity=0.191 Sum_probs=35.4
Q ss_pred cCCHHHHHHHHH--HhcccCCCCCCHHHHHHHhC--CCHHHHHHHHHH
Q psy15215 1366 SLTPRESKVLRM--RFGIEMSSDHTLEEVGKQFD--VTRERIRQIEAK 1409 (1432)
Q Consensus 1366 ~L~~rer~Vl~l--r~~~~~~~~~t~~EIa~~l~--vs~~~Vrq~~~r 1409 (1432)
+|++|++.||.. .++...|.+-+.++|++.+| +|..|||+.+..
T Consensus 1 ~Lt~Rq~~IL~~Ive~y~~~g~Pv~s~~i~~~~~l~~S~aTIRn~m~~ 48 (87)
T d1stza1 1 KLNDRQRKVLYCIVREYIENKKPVSSQRVLEVSNIEFSSATIRNDMKK 48 (87)
T ss_dssp CCCHHHHHHHHHHHHHHHHHCSCBCHHHHHHHSCCCSCHHHHHHHHHH
T ss_pred CcCHHHHHHHHHHHHHHHHcCCccCHHHHHHHhCCCCCHHHHHHHHHH
Confidence 489999999875 33455678999999999966 589999987753
|
| >d2cg4a1 a.4.5.32 (A:4-66) Regulatory protein AsnC {Escherichia coli [TaxId: 562]} | Back information, alignment and structure |
|---|
class: All alpha proteins fold: DNA/RNA-binding 3-helical bundle superfamily: "Winged helix" DNA-binding domain family: Lrp/AsnC-like transcriptional regulator N-terminal domain domain: Regulatory protein AsnC species: Escherichia coli [TaxId: 562]
Probab=80.22 E-value=1.4 Score=35.45 Aligned_cols=41 Identities=24% Similarity=0.325 Sum_probs=32.4
Q ss_pred CCHHHHHHHHHHhcccCCCCCCHHHHHHHhCCCHHHHHHHHHHH
Q psy15215 1367 LTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 1410 (1432)
Q Consensus 1367 L~~rer~Vl~lr~~~~~~~~~t~~EIa~~l~vs~~~Vrq~~~rA 1410 (1432)
|.+..++||..--.. ...|+.|||+.+|+|.++|++++.+=
T Consensus 3 lD~~D~~IL~~L~~~---~r~s~~eiA~~l~ls~~~v~~Ri~rL 43 (63)
T d2cg4a1 3 IDNLDRGILEALMGN---ARTAYAELAKQFGVSPETIHVRVEKM 43 (63)
T ss_dssp CCHHHHHHHHHHHHC---TTSCHHHHHHHHTSCHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHc---CCCCHHHHHHHHCcCHHHHHHHHHHH
Confidence 667788888765443 34699999999999999999877653
|