BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy15215
(1432 letters)
Database: swissprot
539,616 sequences; 191,569,459 total letters
Searching..................................................done
>sp|P52325|RPOD_NEIGO RNA polymerase sigma factor RpoD OS=Neisseria gonorrhoeae GN=rpoD
PE=3 SV=1
Length = 642
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
Score = 633 bits (1633), Expect = e-180, Method: Compositional matrix adjust.
Identities = 331/614 (53%), Positives = 442/614 (71%), Gaps = 18/614 (2%)
Query: 36 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 95
IE R + + LI +GKERGY+T+SEIND LP+D+ D + I++I+ + I V+EH D
Sbjct: 19 IEEQRARLRQLIIMGKERGYITYSEINDALPDDMSDADQIDNIVSMISGLGIQVTEHAPD 78
Query: 96 TETLMLSN---ITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIE 152
E ++LS+ +T DD VEEA EAALS+ DS+FGRT DP++MYMREMG V+LLTR+ EI
Sbjct: 79 AEDILLSDNAAVTDDDAVEEA-EAALSSADSEFGRTTDPVRMYMREMGQVDLLTREDEII 137
Query: 153 IAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIK 212
IAK+IE LK+M+ AIS+CP +I EIL +KI K+EI++DE+V+ +ID N N +
Sbjct: 138 IAKKIENALKNMVQAISACPGSIAEILELIEKICKDEIRVDEVVEAIIDPNEVLRNELGL 197
Query: 213 GN-KNNNEEK------------ILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRK 259
G+ + EK E + ++S L +LK + + F+ I + KM
Sbjct: 198 GHLETTAPEKPSNDNSDENEDDEESEEDADEISAANLAELKQKVIGHFAQIEKDYKKMIG 257
Query: 260 AFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVN 319
EK + Y+ + I+N++L +RF + I+ L +LR ++ + ++E++I +I ++
Sbjct: 258 CLEKHHSRHKDYLAYRDAIANKLLEVRFATRQIDSLSSSLRGKVENIRKLEREIRDICLD 317
Query: 320 KCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVL 379
+ M R +FI+ F NL W++ E ++ L R +I E Q +L +++ + +
Sbjct: 318 RVHMERDYFIQNFLPEITNLQWIEEEIAKGRVWSNALDRFRHAILEKQTELADMEKETRI 377
Query: 380 PLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLM 439
+ +L++IN+ M++ E + AK+EM +ANLRLVISIAKKYT+RGLQFLDLIQEGNIGLM
Sbjct: 378 SIEELKEINKNMVSSEKVSAAAKQEMIQANLRLVISIAKKYTNRGLQFLDLIQEGNIGLM 437
Query: 440 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQE 499
KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ LQE
Sbjct: 438 KAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISRQHLQE 497
Query: 500 TGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSD 559
TG EPD + +A M+MPE+KIRKIMKIAKEP+SME+P+GDD+DSHLGDFIED N +AP+D
Sbjct: 498 TGEEPDSAKLAELMQMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDANNVAPAD 557
Query: 560 AALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAK 619
AA+ S+ V K+IL SLTPRE+KVLRMRFGI+M++DHTLEEVG+QFDVTRERIRQIEAK
Sbjct: 558 AAMYTSLHEVTKEILESLTPREAKVLRMRFGIDMNTDHTLEEVGRQFDVTRERIRQIEAK 617
Query: 620 ALRKLR-PLAHDWL 632
ALRKLR P D L
Sbjct: 618 ALRKLRHPTRSDRL 631
>sp|P52326|RPOD_PSEFL RNA polymerase sigma factor RpoD OS=Pseudomonas fluorescens GN=rpoD
PE=3 SV=1
Length = 615
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
Score = 586 bits (1510), Expect = e-166, Method: Compositional matrix adjust.
Identities = 305/592 (51%), Positives = 412/592 (69%), Gaps = 8/592 (1%)
Query: 42 KFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLML 101
+ K LI G+E+GYLT++E+ND LPEDI D E +E II+ M I+V E D + L+L
Sbjct: 10 RLKELISRGREQGYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGINVFESAPDADALLL 69
Query: 102 SNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGL 161
+ +D+ E AAL+ V++D GRT DP++MYMREMG+VELLTR+GEIEIAKRIEEG+
Sbjct: 70 AEADTDEAAAEEAAAALAAVETDIGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEEGI 129
Query: 162 KDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKN-----FSSNNRVIKGNKN 216
++++ AI+ P T+ IL +++ ++ +++ G ID + ++ K
Sbjct: 130 REVMGAIAHFPGTVDHILSEYTRVTTEGGRLSDVLSGYIDPDDGITPPAAEVPPPVDTKT 189
Query: 217 NNEEKILIESSSADLSTEQLEKLKYESLI---KFSNISFHFDKMRKAFEKEGYNSESYIK 273
+ + + E+ + + +I +F ++ + RKA +K G ++ I
Sbjct: 190 AKADDDSEDEEAEATEDEEEAESGPDPVIAAQRFGAVADQMEVTRKALKKHGRENKQAIA 249
Query: 274 AHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFP 333
++ + I+ K E L + +R+ ++++ Q E+ I+++ V MPR F++ FP
Sbjct: 250 EMLALAELFMPIKLVPKQFEGLVERVRSALDRLRQQERAIMQLCVRDARMPRADFLRQFP 309
Query: 334 ENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIA 393
NE++ +W D K + Y + R P I QQKL L+ + L + +++DINR+M
Sbjct: 310 GNEVDESWTDALAKGKSKYAEAIARLQPDIIRCQQKLTALEVETGLKIAEIKDINRRMSI 369
Query: 394 GEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 453
GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF
Sbjct: 370 GEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKF 429
Query: 454 STYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKM 513
STYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQE G EP P + +M
Sbjct: 430 STYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGERM 489
Query: 514 EMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDI 573
EMPE+KIRK++KIAKEP+SME+P+GDDEDSHLGDFIED M +P D A S++ +++
Sbjct: 490 EMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIDVATVESLKEATREV 549
Query: 574 LNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
L+ LT RE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLR
Sbjct: 550 LSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 601
>sp|P32001|RPOD_BUCAP RNA polymerase sigma factor RpoD OS=Buchnera aphidicola subsp.
Schizaphis graminum (strain Sg) GN=rpoD PE=3 SV=1
Length = 617
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
Score = 576 bits (1485), Expect = e-163, Method: Compositional matrix adjust.
Identities = 308/620 (49%), Positives = 414/620 (66%), Gaps = 52/620 (8%)
Query: 38 NLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTE 97
N + + K+L+ GKE+GYLT++E+ND LPE+IID E I+ II+ M I V E D +
Sbjct: 4 NPKSQLKLLVTHGKEQGYLTYAEVNDHLPEEIIDSEQIDDIIQMINDMGIQVVEEAPDAD 63
Query: 98 TLMLSNITSDDDVEEATEAA---LSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIA 154
L+L+ I +D D E+A EAA LS+V+S+ GRT DP++MYMREMG+VELLTR+GEI+IA
Sbjct: 64 DLILNEINTDTD-EDAVEAATQVLSSVESELGRTTDPVRMYMREMGTVELLTREGEIDIA 122
Query: 155 KRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGN 214
KRIEEG+ + ++S P I +L D+I +I++ +I+ G +D N
Sbjct: 123 KRIEEGINQVQSSVSEYPEAITYLLEQYDRIKTGQIRLSDIITGFVDPN----------- 171
Query: 215 KNNNEEKILIESSSA-DLSTEQLEKLKYESLI------------------------KFSN 249
E+I S+SA + +E L+ + +S KF
Sbjct: 172 ----AEEIFSHSTSAIHIGSEILDNITNDSNENEDENEDENEDEDENSIDPELANEKFRE 227
Query: 250 ISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQI 309
+ + + + N + + N+S R K + L + +RN +N+V +
Sbjct: 228 LRKQYTNTSNTIKNKNRNHQDSLLEIYNLSEIFKQFRLVPKQFDHLVNNMRNMMNRVRKQ 287
Query: 310 EKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKE---- 365
E++I+++ + +C +P+ F+K+F E + NW E N + + IKE
Sbjct: 288 ERKIMKLCIEECKIPKKIFLKIFSGKETDQNWFKKE----QSSNQSWSKKLEEIKEKVFS 343
Query: 366 LQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGL 425
+KL ++ + L + ++DIN++M GE KA++AK+EM EANLRLVISIAKKYT+RGL
Sbjct: 344 SMKKLKQIEKETGLTIEQVKDINKRMSIGEAKAKRAKKEMVEANLRLVISIAKKYTNRGL 403
Query: 426 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET 485
QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET
Sbjct: 404 QFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIET 463
Query: 486 INKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHL 545
INK++RISRQ+LQE G EP P ++ KM +PE+KIRK++KIAKEP+SME+P+GDD+DSHL
Sbjct: 464 INKLNRISRQMLQEIGREPTPEELSEKMLIPEDKIRKVLKIAKEPISMETPIGDDDDSHL 523
Query: 546 GDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQ 605
GDFIED + P D+A + S+RS D+L+ LT RE+KVLRMRFGI+M++DHTLEEVGKQ
Sbjct: 524 GDFIEDTTLELPLDSATSESLRSATHDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQ 583
Query: 606 FDVTRERIRQIEAKALRKLR 625
FDVTRERIRQIEAKALRKLR
Sbjct: 584 FDVTRERIRQIEAKALRKLR 603
>sp|P57163|RPOD_BUCAI RNA polymerase sigma factor RpoD OS=Buchnera aphidicola subsp.
Acyrthosiphon pisum (strain APS) GN=rpoD PE=3 SV=1
Length = 612
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
Score = 576 bits (1485), Expect = e-163, Method: Compositional matrix adjust.
Identities = 309/617 (50%), Positives = 415/617 (67%), Gaps = 49/617 (7%)
Query: 37 ENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDT 96
+N + + K+L+ GKE+GYLT+SE+ND LPEDIID E I+ II+ M I V E D
Sbjct: 3 QNPQSQLKLLVTHGKEQGYLTYSEVNDHLPEDIIDSEQIDDIIQMINDMGIPVVEEAPDA 62
Query: 97 ETLMLSNITSDDDVEEATEAA---LSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEI 153
+ L+L+ I +D D E+A EAA LS+V+S+ GRT DP++MYMREMG+VELLTR+GEI+I
Sbjct: 63 DDLILNEINTDTD-EDAVEAATQVLSSVESELGRTTDPVRMYMREMGTVELLTREGEIDI 121
Query: 154 AKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKG 213
AKRIEEG+ + ++S P I +L D++ +I++ +I+ G +D N
Sbjct: 122 AKRIEEGINQVQCSVSEYPEAITYLLEQYDRVKTGQIRLSDIITGFVDPNAEE------- 174
Query: 214 NKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFH--------------FDKMRK 259
+ ++ + +E L++ + + +N H F ++R
Sbjct: 175 ---------IFPPTAIHIGSELLDEQQNNEEDEENNQEDHEDDHSIDPELANEKFSELRI 225
Query: 260 AFEKEGYNSESYIKAHN-------NISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQ 312
+ ++ + H N+S R K + L + +R+ + +V + E+
Sbjct: 226 QYNNTNNTIKNKNRTHKDSLLEIYNLSEVFKQFRLVPKQFDHLVNNMRHMMERVRKQERI 285
Query: 313 ILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKE----LQQ 368
I+++ V C MP+ +FIK+FP +IN W E + N N+ +KE +
Sbjct: 286 IIKLCVEICKMPKKNFIKIFPIKKINYLWFIRE----QNTNQPWSENLKKVKEDVFISVK 341
Query: 369 KLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFL 428
KLI ++ + L + ++DIN++M GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFL
Sbjct: 342 KLIKIEEETGLTIEQVKDINKRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFL 401
Query: 429 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK 488
DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK
Sbjct: 402 DLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK 461
Query: 489 ISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDF 548
++RISRQ+LQE G EP P ++ KM +PE+KIRK++KIAKEP+SME+P+GDD+DSHLGDF
Sbjct: 462 LNRISRQMLQEIGREPTPEELSEKMLIPEDKIRKVLKIAKEPISMETPIGDDDDSHLGDF 521
Query: 549 IEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDV 608
IED + P D+A + S+RS D+L+ LT RE+KVLRMRFGI+M++DHTLEEVGKQFDV
Sbjct: 522 IEDTTLELPLDSATSESLRSATHDVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDV 581
Query: 609 TRERIRQIEAKALRKLR 625
TRERIRQIEAKALRKLR
Sbjct: 582 TRERIRQIEAKALRKLR 598
>sp|P0A2E3|RPOD_SALTY RNA polymerase sigma factor RpoD OS=Salmonella typhimurium (strain
LT2 / SGSC1412 / ATCC 700720) GN=rpoD PE=3 SV=1
Length = 615
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
Score = 575 bits (1482), Expect = e-163, Method: Compositional matrix adjust.
Identities = 296/599 (49%), Positives = 406/599 (67%), Gaps = 10/599 (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 ETLMLS-NITS-DDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIA 154
+ L+L+ N TS D+D EEA LS+V+S+ GRT DP++MYMREMG+VELLTR+GEI+IA
Sbjct: 63 DDLLLAENTTSTDEDAEEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIA 122
Query: 155 KRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGN 214
KRIE+G+ + +++ P I +L D++ E ++ +++ G +D N +
Sbjct: 123 KRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDPNAEEEMAPTATH 182
Query: 215 KNNNEEKILIESSSADLSTEQLEKLKYE--------SLIKFSNISFHFDKMRKAFEKEGY 266
+ + ++ + + + + + KF+ + + R + +G
Sbjct: 183 VGSELSQEDLDDDEDEDEEDGDDDAADDDNSIDPELAREKFAELRAQYVVTRDTIKAKGR 242
Query: 267 NSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRL 326
+ + + +S R K + L +++R +++V E+ I+++ V +C MP+
Sbjct: 243 SHAAAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKK 302
Query: 327 HFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRD 386
+FI +F NE + W + + ++ L ++ QKL ++ + L + ++D
Sbjct: 303 NFITLFTGNETSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQKLRQIEEETGLTIEQVKD 362
Query: 387 INRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFE 446
INR+M GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFE
Sbjct: 363 INRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE 422
Query: 447 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDP 506
YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQE G EP P
Sbjct: 423 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTP 482
Query: 507 SVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASM 566
+A +M MPE+KIRK++KIAKEP+SME+P+GDDEDSHLGDFIED + P D+A S+
Sbjct: 483 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESL 542
Query: 567 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
R+ D+L LT RE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLR
Sbjct: 543 RAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 601
>sp|P0A2E4|RPOD_SALTI RNA polymerase sigma factor RpoD OS=Salmonella typhi GN=rpoD PE=3
SV=1
Length = 615
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
Score = 575 bits (1482), Expect = e-163, Method: Compositional matrix adjust.
Identities = 296/599 (49%), Positives = 406/599 (67%), Gaps = 10/599 (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 ETLMLS-NITS-DDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIA 154
+ L+L+ N TS D+D EEA LS+V+S+ GRT DP++MYMREMG+VELLTR+GEI+IA
Sbjct: 63 DDLLLAENTTSTDEDAEEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIA 122
Query: 155 KRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGN 214
KRIE+G+ + +++ P I +L D++ E ++ +++ G +D N +
Sbjct: 123 KRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDPNAEEEMAPTATH 182
Query: 215 KNNNEEKILIESSSADLSTEQLEKLKYE--------SLIKFSNISFHFDKMRKAFEKEGY 266
+ + ++ + + + + + KF+ + + R + +G
Sbjct: 183 VGSELSQEDLDDDEDEDEEDGDDDAADDDNSIDPELAREKFAELRAQYVVTRDTIKAKGR 242
Query: 267 NSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRL 326
+ + + +S R K + L +++R +++V E+ I+++ V +C MP+
Sbjct: 243 SHAAAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIMKLCVEQCKMPKK 302
Query: 327 HFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRD 386
+FI +F NE + W + + ++ L ++ QKL ++ + L + ++D
Sbjct: 303 NFITLFTGNETSETWFNAAIAMNKPWSEKLHDVAEEVQRCLQKLRQIEEETGLTIEQVKD 362
Query: 387 INRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFE 446
INR+M GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFE
Sbjct: 363 INRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE 422
Query: 447 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDP 506
YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQE G EP P
Sbjct: 423 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTP 482
Query: 507 SVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASM 566
+A +M MPE+KIRK++KIAKEP+SME+P+GDDEDSHLGDFIED + P D+A S+
Sbjct: 483 EELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATTESL 542
Query: 567 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
R+ D+L LT RE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLR
Sbjct: 543 RAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 601
>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
Length = 617
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
Score = 567 bits (1460), Expect = e-160, Method: Compositional matrix adjust.
Identities = 308/594 (51%), Positives = 411/594 (69%), Gaps = 10/594 (1%)
Query: 42 KFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLML 101
+ K LI G+E+GYLT++E+ND LPEDI D E +E II+ M I+V E D + L+L
Sbjct: 10 RLKELIARGREQGYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGINVFETAPDADALLL 69
Query: 102 SNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGL 161
+ +D+ E AAL+ V+SD GRT DP++MYMREMG+VELLTR+GEIEIAKRIEEG+
Sbjct: 70 AEADTDEAAAEEAAAALAAVESDIGRTTDPVRMYMREMGTVELLTREGEIEIAKRIEEGI 129
Query: 162 KDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSS--NNRVIKGNKNNNE 219
++++ AI+ P T+ IL ++I ++ +++ G ID + S V N ++
Sbjct: 130 REVMSAIAQFPGTVDSILADYNRIVAEGGRLSDVLSGYIDPDDGSLPAEEVEPVNLKDDS 189
Query: 220 --------EKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESY 271
E+ + SS E+ ++F+ +S DK +KA +K G S+
Sbjct: 190 ADSKEKDDEEEESDDSSDSDDEGDGGPDPEEARLRFTAVSEQLDKAKKALKKHGRGSKQA 249
Query: 272 IKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKV 331
++ + I+ K + L +R+ + V E+ I+++ V MPR F+++
Sbjct: 250 TAELTGLAELFMPIKLVPKQFDALVARVRSALEGVRAQERAIMQLCVRDARMPRADFLRL 309
Query: 332 FPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKM 391
FP +E + WVD+ K + Y + R I QQKL L++++ L + ++++INR M
Sbjct: 310 FPNHETDEKWVDSVLKSKPKYAEAIERLRDDILRNQQKLAALESEVELTVAEIKEINRAM 369
Query: 392 IAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 451
GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGY
Sbjct: 370 SIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 429
Query: 452 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAI 511
KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQE G EP P +
Sbjct: 430 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGE 489
Query: 512 KMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVK 571
+M+MPE+KIRK++KIAKEP+SME+P+GDDEDSHLGDFIED M +P + A + S++ +
Sbjct: 490 RMDMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIEMATSESLKESTR 549
Query: 572 DILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
++L LT RE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLR
Sbjct: 550 EVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 603
>sp|P52327|RPOD_PSEPU RNA polymerase sigma factor RpoD OS=Pseudomonas putida GN=rpoD PE=3
SV=1
Length = 614
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
Score = 567 bits (1461), Expect = e-160, Method: Compositional matrix adjust.
Identities = 306/594 (51%), Positives = 410/594 (69%), Gaps = 13/594 (2%)
Query: 42 KFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLML 101
+ K LI G+E+GYLT++E+ND LPEDI D E +E II+ M I+V E D + L+L
Sbjct: 10 RIKELITRGREQGYLTYAEVNDHLPEDISDPEQVEDIIRMINDMGINVFESAPDADALLL 69
Query: 102 SNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGL 161
+ +D+ E AAL+ V++D RT DP++MYMREMG+VELLTR+GEIEIAKRIEEG+
Sbjct: 70 AEADTDEAAAEEAAAALAAVETDIRRTTDPVRMYMREMGTVELLTREGEIEIAKRIEEGI 129
Query: 162 KDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKN----FSSNNRVIKGNKNN 217
++++ AI+ P T+ IL D++++ ++ +++ G ID + + I G K
Sbjct: 130 REVMGAIAHFPGTVDYILGEYDRVNRG-CRLSDVLSGYIDPDDNIAAPTEEVPIPGTKAA 188
Query: 218 NEEKILIESSSADLSTEQLEKLKYESLIKFSNISFH------FDKMRKAFEKEGYNSESY 271
++ + + E+ K +L + S S F + EK Y +
Sbjct: 189 AAKEEADDDEEESEGGDDEEEPKA-ALTRSSQPSVSVRYPSSFSDHQGPEEKRSY-PQGK 246
Query: 272 IKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKV 331
+A +++ + I+ K E L + +R+ +N++ Q E+ I+++ V MPR F+++
Sbjct: 247 RRALQALADLFMPIKLVPKQFEVLVERVRDALNRLRQQERAIMQLCVRDARMPRADFLRM 306
Query: 332 FPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKM 391
FP NE + W + K + L +I QQKLI+L+T+ L + ++++INR+M
Sbjct: 307 FPSNETDQTWSGDLAKRNTKWAAALGEKDAAIVACQQKLIDLETETGLTVAEIKEINRRM 366
Query: 392 IAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 451
GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGY
Sbjct: 367 SIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 426
Query: 452 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAI 511
KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQE G EP P +
Sbjct: 427 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELGE 486
Query: 512 KMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVK 571
+MEMPE+KIRK++KIAKEP+SME+P+GDDEDSHLGDFIED M +P A S++ +
Sbjct: 487 RMEMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDSTMQSPIYVATVESLKEATR 546
Query: 572 DILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
D+L+ LT RE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKA RKLR
Sbjct: 547 DVLSGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAWRKLR 600
>sp|P00579|RPOD_ECOLI RNA polymerase sigma factor RpoD OS=Escherichia coli (strain K12)
GN=rpoD PE=1 SV=2
Length = 613
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
Score = 561 bits (1447), Expect = e-158, Method: Compositional matrix adjust.
Identities = 293/597 (49%), Positives = 404/597 (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 IEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKN 216
IE+G+ + +++ P I +L D++ E ++ +++ G +D N + +
Sbjct: 123 IEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDPNAEEDLAPTATHVG 182
Query: 217 NNEEKILIESSSADLSTEQLEKLKYE--------SLIKFSNISFHFDKMRKAFEKEGYNS 268
+ + ++ + + + + + 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++D+TLEEVGKQFDVTRERIRQIEAKALRKLR
Sbjct: 543 ATHDVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIRQIEAKALRKLR 599
>sp|Q87DT7|RPOD_XYLFT RNA polymerase sigma factor RpoD OS=Xylella fastidiosa (strain
Temecula1 / ATCC 700964) GN=rpoD PE=3 SV=1
Length = 618
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
Score = 559 bits (1441), Expect = e-158, Method: Compositional matrix adjust.
Identities = 306/605 (50%), Positives = 411/605 (67%), Gaps = 35/605 (5%)
Query: 43 FKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLML- 101
K LI G E+GYLT++E+ND LPED++D + IE II M I V E D ETL+L
Sbjct: 12 IKQLISKGLEQGYLTYAEVNDHLPEDLVDPDQIEDIIGMINGMGIEVHEVAPDAETLLLN 71
Query: 102 ----SNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRI 157
N DD E AALS +D++ GRT DP++MYMREMG+VELLTR+GEI IAKRI
Sbjct: 72 EGNTGNREVDDTAAEEAAAALSALDTEAGRTTDPVRMYMREMGTVELLTREGEIAIAKRI 131
Query: 158 EEGLKDMIHAISSCPTTIMEILIAADKISK-NEIKIDEIVDG---LIDKNFSSNNRVIKG 213
EEGL ++ A+ + P + E+L++ ++ K + ++ E+V G LI+++ S + V
Sbjct: 132 EEGLSEVQAALGAFPLST-ELLLSEYELHKEGKRRLTEVVVGFNDLIEEDNSVTSSVDVT 190
Query: 214 NKN-------------NNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKA 260
+++ N+E+ +I A++++ + ++S + K +K
Sbjct: 191 DESIVEVDEEDDDSVGNDEDAPMIGPDPAEVAS------------RIESLSTEYAKFKKL 238
Query: 261 FEKEGYNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNK 320
+ K G ++ IK +++ + + + + L L+N +N V E+++L + N
Sbjct: 239 YAKHGPEHKAVIKVREDVAAIFVTFKLSLPLTDLLVQQLQNMVNSVKDHERKVLHLATNV 298
Query: 321 CGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLP 380
MPR FI+ + N+ NL WV++ K + ++ L I QQ I+L+ L
Sbjct: 299 AKMPRKDFIRSWENNQTNLEWVEDAIKRKQKWSSALRDIKDQITAEQQASIDLEKVNSLT 358
Query: 381 LNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMK 440
L D+++INR M+ GE KA KAK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMK
Sbjct: 359 LADIKEINRMMVYGEAKASKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMK 418
Query: 441 AVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQET 500
AV KFE+RRG+KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQ+
Sbjct: 419 AVCKFEHRRGFKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQQF 478
Query: 501 GSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDA 560
G E P +A +M+MPE+KIRK+MKIAKEP+SME+P+GDDEDSHLGDFIED N+ +P D
Sbjct: 479 GREATPEELAKEMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDPNVESPVDT 538
Query: 561 ALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKA 620
N ++ V+++L LTPRE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKA
Sbjct: 539 TTNVNLSETVREVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKA 598
Query: 621 LRKLR 625
LRKLR
Sbjct: 599 LRKLR 603
>sp|Q9PDM9|RPOD_XYLFA RNA polymerase sigma factor RpoD OS=Xylella fastidiosa (strain 9a5c)
GN=rpoD PE=3 SV=1
Length = 618
Score = 575 bits (1482), Expect = e-162, Method: Compositional matrix adjust.
Identities = 312/607 (51%), Positives = 411/607 (67%), Gaps = 13/607 (2%)
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-NEIKIDEIVDGLIDKNFSSNNRVIKGNKN 1006
EEGL ++ A+ P + E+L++ ++ K + ++ E+V G D +N V
Sbjct: 132 EEGLSEVQAALGVFPLST-ELLLSEYELHKEGKRRLTEVVVGFNDL-IEEDNSVTSSVDV 189
Query: 1007 NNEEKILIE-----SSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESY 1061
+E + ++ S D + E + ++S + K +K + K G ++
Sbjct: 190 TDESIVEVDEEDDDSVGNDEDAPTIGPDPAEVASRIESLSTEYAKFKKLYAKHGPEHKAV 249
Query: 1062 IKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKV 1121
IK +++ + + + + L L+N +N V E+++L + N MPR FI+
Sbjct: 250 IKVREDVAAIFVTFKLSLPLTDLLVQQLQNMVNSVKDHERKVLHLATNVAKMPRKDFIRS 309
Query: 1122 FPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKM 1181
+ N+ NL WV++ K + ++ L I QQ I+L+ L L D+++INR M
Sbjct: 310 WENNQTNLEWVEDAIKRKQKWSSALRDIKDQITAEQQASIDLEKANSLTLADIKEINRMM 369
Query: 1182 IAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 1241
+ GE KA KAK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAV KFE+RRG+
Sbjct: 370 VYGEAKASKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVCKFEHRRGF 429
Query: 1242 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAI 1301
KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQ+ G E P +A
Sbjct: 430 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQQFGREATPEELAK 489
Query: 1302 KMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVK 1361
+M+MPE+KIRK+MKIAKEP+SME+P+GDDEDSHLGDFIED N+ +P D N ++ V+
Sbjct: 490 EMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDPNVESPVDTTTNVNLSETVR 549
Query: 1362 DILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYY 1421
++L LTPRE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR
Sbjct: 550 EVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSE 609
Query: 1422 KLKIFLE 1428
+L+ FL+
Sbjct: 610 QLRSFLD 616
Score = 559 bits (1440), Expect = e-158, Method: Compositional matrix adjust.
Identities = 305/594 (51%), Positives = 401/594 (67%), Gaps = 13/594 (2%)
Query: 43 FKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLML- 101
K LI G E+GYLT++E+ND LPED++D + IE II M I V E D ETL+L
Sbjct: 12 IKQLISKGLEQGYLTYAEVNDHLPEDLVDPDQIEDIIGMINGMGIEVHEVAPDAETLLLN 71
Query: 102 ----SNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRI 157
N DD E AALS +D++ GRT DP++MYMREMG+VELLTR+GEI IAKRI
Sbjct: 72 EGNTGNREVDDTAAEEAAAALSALDTEAGRTTDPVRMYMREMGTVELLTREGEIAIAKRI 131
Query: 158 EEGLKDMIHAISSCPTTIMEILIAADKISK-NEIKIDEIVDGLIDKNFSSNNRVIKGNKN 216
EEGL ++ A+ P + E+L++ ++ K + ++ E+V G D +N V
Sbjct: 132 EEGLSEVQAALGVFPLST-ELLLSEYELHKEGKRRLTEVVVGFNDL-IEEDNSVTSSVDV 189
Query: 217 NNEEKILIE-----SSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESY 271
+E + ++ S D + E + ++S + K +K + K G ++
Sbjct: 190 TDESIVEVDEEDDDSVGNDEDAPTIGPDPAEVASRIESLSTEYAKFKKLYAKHGPEHKAV 249
Query: 272 IKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKV 331
IK +++ + + + + L L+N +N V E+++L + N MPR FI+
Sbjct: 250 IKVREDVAAIFVTFKLSLPLTDLLVQQLQNMVNSVKDHERKVLHLATNVAKMPRKDFIRS 309
Query: 332 FPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKM 391
+ N+ NL WV++ K + ++ L I QQ I+L+ L L D+++INR M
Sbjct: 310 WENNQTNLEWVEDAIKRKQKWSSALRDIKDQITAEQQASIDLEKANSLTLADIKEINRMM 369
Query: 392 IAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 451
+ GE KA KAK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAV KFE+RRG+
Sbjct: 370 VYGEAKASKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVCKFEHRRGF 429
Query: 452 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAI 511
KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQ+ G E P +A
Sbjct: 430 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQQFGREATPEELAK 489
Query: 512 KMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVK 571
+M+MPE+KIRK+MKIAKEP+SME+P+GDDEDSHLGDFIED N+ +P D N ++ V+
Sbjct: 490 EMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDPNVESPVDTTTNVNLSETVR 549
Query: 572 DILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
++L LTPRE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLR
Sbjct: 550 EVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 603
>sp|Q89B10|RPOD_BUCBP RNA polymerase sigma factor RpoD OS=Buchnera aphidicola subsp.
Baizongia pistaciae (strain Bp) GN=rpoD PE=3 SV=1
Length = 609
Score = 570 bits (1469), Expect = e-161, Method: Compositional matrix adjust.
Identities = 307/617 (49%), Positives = 420/617 (68%), Gaps = 26/617 (4%)
Query: 827 ENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDT 886
+N + + K+L+ GKE+GYLT+SEIND L ++II+ + IE II+ M I V E D+
Sbjct: 3 QNPQSQLKLLVTYGKEQGYLTYSEINDHLSDNIINSDQIEDIIQMINDMGIQVVEKAPDS 62
Query: 887 ETLMLSNIT----SDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIE 942
+ L+L I +D+D+ EAT LSTV+S+ GRT DP++MYMREMG+VELLTR+GEI+
Sbjct: 63 DDLILHEIKRNNETDEDIVEATAQVLSTVESELGRTTDPVRMYMREMGTVELLTREGEID 122
Query: 943 IAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIK 1002
IAKRIE+G+ + +++ P I +L +++ E+++ E++ G +D N + + I
Sbjct: 123 IAKRIEDGINQVQCSVAEYPEAITHLLEQYNRVELGELRLSELIHGFVDPNAEAVHTSIT 182
Query: 1003 GNKNNNEEKILIESSSADLSTEQLE-------KLKYESLIKFSNISFHFDKMRKAFEKEG 1055
+ N N E E D + E + +L E I N +H A + +
Sbjct: 183 NHINTNSE----EHHHNDNTEENNDDDHLVDPELAREKFIALKN-QYHITNY--AIKTKN 235
Query: 1056 YNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPR 1115
N + + NN+S R K + L +R + ++ E+ I ++ + +P+
Sbjct: 236 RNHQDTLIEINNLSEIFKQFRLVPKQFDHLVINMRKMMQKIRIQERNIAKLCIEYGNIPK 295
Query: 1116 LHFIKVFPENEINLNW---VDNETKIQHD-YNLILCRNIPSIKELQQKLINLQTDIVLPL 1171
+ F + N W V N K D +N I P I+ + +KL ++ + L +
Sbjct: 296 KALLNFFSLQKTNQIWSKIVQNIKKPWIDKFNTIK----PDIQMILKKLQKVEEETGLTI 351
Query: 1172 NDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKA 1231
+ +++IN+++ GE KA++AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKA
Sbjct: 352 HQVKNINKRISLGEAKAKRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 411
Query: 1232 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETG 1291
VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQILQE G
Sbjct: 412 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQEIG 471
Query: 1292 SEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAA 1351
EP P ++ +M +PE+KIRK++KIAKEP+SME+P+G+D+DSHLGDF+ED N+ P D+A
Sbjct: 472 REPTPEELSERMLIPEDKIRKVLKIAKEPISMETPIGEDDDSHLGDFLEDTNIELPLDSA 531
Query: 1352 LNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKAL 1411
+AS+RS K++L+ LT RE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKAL
Sbjct: 532 TSASLRSATKNVLSGLTTREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 591
Query: 1412 RKLRHPSRYYKLKIFLE 1428
RKLRHPSR L+ FL+
Sbjct: 592 RKLRHPSRSEILRSFLD 608
Score = 556 bits (1434), Expect = e-157, Method: Compositional matrix adjust.
Identities = 300/604 (49%), Positives = 411/604 (68%), Gaps = 26/604 (4%)
Query: 37 ENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDT 96
+N + + K+L+ GKE+GYLT+SEIND L ++II+ + IE II+ M I V E D+
Sbjct: 3 QNPQSQLKLLVTYGKEQGYLTYSEINDHLSDNIINSDQIEDIIQMINDMGIQVVEKAPDS 62
Query: 97 ETLMLSNIT----SDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIE 152
+ L+L I +D+D+ EAT LSTV+S+ GRT DP++MYMREMG+VELLTR+GEI+
Sbjct: 63 DDLILHEIKRNNETDEDIVEATAQVLSTVESELGRTTDPVRMYMREMGTVELLTREGEID 122
Query: 153 IAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIK 212
IAKRIE+G+ + +++ P I +L +++ E+++ E++ G +D N + + I
Sbjct: 123 IAKRIEDGINQVQCSVAEYPEAITHLLEQYNRVELGELRLSELIHGFVDPNAEAVHTSIT 182
Query: 213 GNKNNNEEKILIESSSADLSTEQLE-------KLKYESLIKFSNISFHFDKMRKAFEKEG 265
+ N N E E D + E + +L E I N +H A + +
Sbjct: 183 NHINTNSE----EHHHNDNTEENNDDDHLVDPELAREKFIALKN-QYHITNY--AIKTKN 235
Query: 266 YNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPR 325
N + + NN+S R K + L +R + ++ E+ I ++ + +P+
Sbjct: 236 RNHQDTLIEINNLSEIFKQFRLVPKQFDHLVINMRKMMQKIRIQERNIAKLCIEYGNIPK 295
Query: 326 LHFIKVFPENEINLNW---VDNETKIQHD-YNLILCRNIPSIKELQQKLINLQTDIVLPL 381
+ F + N W V N K D +N I P I+ + +KL ++ + L +
Sbjct: 296 KALLNFFSLQKTNQIWSKIVQNIKKPWIDKFNTIK----PDIQMILKKLQKVEEETGLTI 351
Query: 382 NDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKA 441
+ +++IN+++ GE KA++AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKA
Sbjct: 352 HQVKNINKRISLGEAKAKRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKA 411
Query: 442 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETG 501
VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQILQE G
Sbjct: 412 VDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQEIG 471
Query: 502 SEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAA 561
EP P ++ +M +PE+KIRK++KIAKEP+SME+P+G+D+DSHLGDF+ED N+ P D+A
Sbjct: 472 REPTPEELSERMLIPEDKIRKVLKIAKEPISMETPIGEDDDSHLGDFLEDTNIELPLDSA 531
Query: 562 LNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKAL 621
+AS+RS K++L+ LT RE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKAL
Sbjct: 532 TSASLRSATKNVLSGLTTREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKAL 591
Query: 622 RKLR 625
RKLR
Sbjct: 592 RKLR 595
>sp|O24744|RPOD_SHEVD RNA polymerase sigma factor RpoD OS=Shewanella violacea (strain JCM
10179 / CIP 106290 / LMG 19151 / DSS12) GN=rpoD PE=3 SV=1
Length = 614
Score = 567 bits (1462), Expect = e-160, Method: Compositional matrix adjust.
Identities = 305/606 (50%), Positives = 410/606 (67%), Gaps = 9/606 (1%)
Query: 832 KFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLML 891
+ K+L+ GKE+GYLT++E+ND LP D++D + IE I++ M I V E D + +M+
Sbjct: 8 QLKLLLAKGKEQGYLTYAEVNDHLPADMVDADQIEDIVQMINDMGIRVYEQAPDADEIMM 67
Query: 892 SNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGL 951
+ ++DDD E AAL+TV+++ GRT DP++MYMREMG+VELLTR+GEI IAKRIEEG+
Sbjct: 68 TEDSTDDDAAEEAAAALATVEAELGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGI 127
Query: 952 KDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFS--SNNRVIKGNKNNNE 1009
+ +++ P I IL D+ E+++ +I+ G ID N + + G+ +
Sbjct: 128 YTVQASVAEYPPAIASILDQFDRYEAEEVRLSDIISGFIDPNAADIAPTATHIGSDLSQS 187
Query: 1010 EKILIESSSADLSTEQLEKL-------KYESLIKFSNISFHFDKMRKAFEKEGYNSESYI 1062
E+ +S ++ E+ ES +F+ + + K +G
Sbjct: 188 ERDKDDSKDDSKDDDEDEEEEGPKGPDPEESKERFTQLREVHENTLKIIADKGRGHPEAT 247
Query: 1063 KAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVF 1122
A I R K ++L +R +++V E+ I+++ V + MP+ +F+K +
Sbjct: 248 VALFEIGELFKEFRLMPKQFDRLVKNMRATMDKVRVQERLIMKLCVEQAKMPKKNFVKGY 307
Query: 1123 PENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMI 1182
+E ++ W D E + Y L P ++ + KL ++ + L + ++DINR+M
Sbjct: 308 TADESSIAWFDTELASKKPYAEGLKMIEPDVRRCRFKLDIIEKETGLAIASIKDINRRMS 367
Query: 1183 AGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 1242
GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGYK
Sbjct: 368 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 427
Query: 1243 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIK 1302
FSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQE G EP P +A +
Sbjct: 428 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAER 487
Query: 1303 MEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKD 1362
M MPE+KIRK++KIAKEP+SME+P+GDDEDSHLGDFIED + P D+A S+R+ +
Sbjct: 488 MLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATGESLRNATHE 547
Query: 1363 ILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYK 1422
+L LT RE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSR
Sbjct: 548 VLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEI 607
Query: 1423 LKIFLE 1428
LK FL+
Sbjct: 608 LKSFLD 613
Score = 553 bits (1424), Expect = e-156, Method: Compositional matrix adjust.
Identities = 297/593 (50%), Positives = 401/593 (67%), Gaps = 9/593 (1%)
Query: 42 KFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLML 101
+ K+L+ GKE+GYLT++E+ND LP D++D + IE I++ M I V E D + +M+
Sbjct: 8 QLKLLLAKGKEQGYLTYAEVNDHLPADMVDADQIEDIVQMINDMGIRVYEQAPDADEIMM 67
Query: 102 SNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGL 161
+ ++DDD E AAL+TV+++ GRT DP++MYMREMG+VELLTR+GEI IAKRIEEG+
Sbjct: 68 TEDSTDDDAAEEAAAALATVEAELGRTTDPVRMYMREMGTVELLTREGEIVIAKRIEEGI 127
Query: 162 KDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFS--SNNRVIKGNKNNNE 219
+ +++ P I IL D+ E+++ +I+ G ID N + + G+ +
Sbjct: 128 YTVQASVAEYPPAIASILDQFDRYEAEEVRLSDIISGFIDPNAADIAPTATHIGSDLSQS 187
Query: 220 EKILIESSSADLSTEQLEKL-------KYESLIKFSNISFHFDKMRKAFEKEGYNSESYI 272
E+ +S ++ E+ ES +F+ + + K +G
Sbjct: 188 ERDKDDSKDDSKDDDEDEEEEGPKGPDPEESKERFTQLREVHENTLKIIADKGRGHPEAT 247
Query: 273 KAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVF 332
A I R K ++L +R +++V E+ I+++ V + MP+ +F+K +
Sbjct: 248 VALFEIGELFKEFRLMPKQFDRLVKNMRATMDKVRVQERLIMKLCVEQAKMPKKNFVKGY 307
Query: 333 PENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMI 392
+E ++ W D E + Y L P ++ + KL ++ + L + ++DINR+M
Sbjct: 308 TADESSIAWFDTELASKKPYAEGLKMIEPDVRRCRFKLDIIEKETGLAIASIKDINRRMS 367
Query: 393 AGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 452
GE KAR+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGYK
Sbjct: 368 IGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYK 427
Query: 453 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIK 512
FSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQE G EP P +A +
Sbjct: 428 FSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAER 487
Query: 513 MEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKD 572
M MPE+KIRK++KIAKEP+SME+P+GDDEDSHLGDFIED + P D+A S+R+ +
Sbjct: 488 MLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATGESLRNATHE 547
Query: 573 ILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
+L LT RE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLR
Sbjct: 548 VLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 600
>sp|Q8P4H2|RPOD_XANCP RNA polymerase sigma factor RpoD OS=Xanthomonas campestris pv.
campestris (strain ATCC 33913 / NCPPB 528 / LMG 568)
GN=rpoD PE=3 SV=1
Length = 624
Score = 559 bits (1440), Expect = e-158, Method: Compositional matrix adjust.
Identities = 309/611 (50%), Positives = 411/611 (67%), Gaps = 15/611 (2%)
Query: 833 FKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLS 892
K+LI G E+GYLT++E+ND LP+D++D E IE II M I V E D ETL+L+
Sbjct: 12 IKLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLN 71
Query: 893 NITSDD-----DVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRI 947
+ + + E AAL+ +D++ GRT DP++MYMREMG+VELLTR+GEI IAKRI
Sbjct: 72 DGNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRI 131
Query: 948 EEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDG---LIDKNFSSNNRVIKGN 1004
EEGL + A+ + P + +L + + + ++ EIV G LI++ ++ +
Sbjct: 132 EEGLSQVQAALGTFPLSTELLLSDYEAHKEGKKRLAEIVVGFNDLIEEADAAAAALAAAG 191
Query: 1005 KNNNEEKILIESSSADLSTEQLEKLK-------YESLIKFSNISFHFDKMRKAFEKEGYN 1057
+E + E + D + E+ E + N++ + K +KA+ K G
Sbjct: 192 PVAVDEDAVDEDADEDGDDDAAEEEAGPTGPDPVEVATRMENLANEYAKFKKAYVKYGAE 251
Query: 1058 SESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLH 1117
++ KA +++ ++ + L LR +N + E+++L + MPR
Sbjct: 252 HKNVAKAREDMAAIFTTLKLPLPLTDALVTQLRGVVNGIKDHERKVLHLATTVARMPRKD 311
Query: 1118 FIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDI 1177
FI+ + N+ NL WV++ K + ++ L I QQ I ++ L L +++DI
Sbjct: 312 FIRSWEGNQTNLEWVEDALKRKQKWSSALRDVKDQIVSEQQGSIEMEKANYLTLAEIKDI 371
Query: 1178 NRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEY 1237
+R M GE KARKAK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEY
Sbjct: 372 SRAMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 431
Query: 1238 RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPS 1297
RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQ+ G E P
Sbjct: 432 RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQQFGREATPE 491
Query: 1298 VIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMR 1357
+A +M+MPE+KIRK+MKIAKEP+SME+P+GDDEDSHLGDFIED N+ +P D N ++
Sbjct: 492 ELAKEMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDTNVESPIDNTTNINLS 551
Query: 1358 SVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 1417
V+D+L LTPRE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLRHP
Sbjct: 552 ETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHP 611
Query: 1418 SRYYKLKIFLE 1428
SR +L+ FL+
Sbjct: 612 SRSEQLRSFLD 622
Score = 543 bits (1399), Expect = e-153, Method: Compositional matrix adjust.
Identities = 302/598 (50%), Positives = 401/598 (67%), Gaps = 15/598 (2%)
Query: 43 FKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLS 102
K+LI G E+GYLT++E+ND LP+D++D E IE II M I V E D ETL+L+
Sbjct: 12 IKLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLN 71
Query: 103 NITSDD-----DVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRI 157
+ + + E AAL+ +D++ GRT DP++MYMREMG+VELLTR+GEI IAKRI
Sbjct: 72 DGNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRI 131
Query: 158 EEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDG---LIDKNFSSNNRVIKGN 214
EEGL + A+ + P + +L + + + ++ EIV G LI++ ++ +
Sbjct: 132 EEGLSQVQAALGTFPLSTELLLSDYEAHKEGKKRLAEIVVGFNDLIEEADAAAAALAAAG 191
Query: 215 KNNNEEKILIESSSADLSTEQLEKLK-------YESLIKFSNISFHFDKMRKAFEKEGYN 267
+E + E + D + E+ E + N++ + K +KA+ K G
Sbjct: 192 PVAVDEDAVDEDADEDGDDDAAEEEAGPTGPDPVEVATRMENLANEYAKFKKAYVKYGAE 251
Query: 268 SESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLH 327
++ KA +++ ++ + L LR +N + E+++L + MPR
Sbjct: 252 HKNVAKAREDMAAIFTTLKLPLPLTDALVTQLRGVVNGIKDHERKVLHLATTVARMPRKD 311
Query: 328 FIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDI 387
FI+ + N+ NL WV++ K + ++ L I QQ I ++ L L +++DI
Sbjct: 312 FIRSWEGNQTNLEWVEDALKRKQKWSSALRDVKDQIVSEQQGSIEMEKANYLTLAEIKDI 371
Query: 388 NRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEY 447
+R M GE KARKAK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEY
Sbjct: 372 SRAMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEY 431
Query: 448 RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPS 507
RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQ+ G E P
Sbjct: 432 RRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQQFGREATPE 491
Query: 508 VIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMR 567
+A +M+MPE+KIRK+MKIAKEP+SME+P+GDDEDSHLGDFIED N+ +P D N ++
Sbjct: 492 ELAKEMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDTNVESPIDNTTNINLS 551
Query: 568 SVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
V+D+L LTPRE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLR
Sbjct: 552 ETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 609
>sp|Q8PG33|RPOD_XANAC RNA polymerase sigma factor RpoD OS=Xanthomonas axonopodis pv. citri
(strain 306) GN=rpoD PE=3 SV=1
Length = 625
Score = 556 bits (1432), Expect = e-157, Method: Compositional matrix adjust.
Identities = 304/612 (49%), Positives = 403/612 (65%), Gaps = 16/612 (2%)
Query: 833 FKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLS 892
K+LI G E+GYLT++E+ND LP+D++D E IE II M I V E D ETL+L+
Sbjct: 12 IKLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLN 71
Query: 893 NITSDD-----DVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRI 947
+ + + E AAL+ +D++ GRT DP++MYMREMG+VELLTR+GEI IAKRI
Sbjct: 72 DGNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRI 131
Query: 948 EEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLID-----------KNFSS 996
EEGL + A+ P + +L + + + ++ EIV G D +
Sbjct: 132 EEGLSQVQAALGVFPLSTEMLLADYEAHKEGKKRLAEIVVGFNDLIEEADAAAAALAAAG 191
Query: 997 NNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGY 1056
V + ++ + +A+ E + N++ + K +K + K G
Sbjct: 192 PVAVSDDEAVDEDDDEDGDDEAAEEEAGPTGPDPVEVATRMENLANEYAKFKKVYAKNGA 251
Query: 1057 NSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRL 1116
+ +KA +++ ++ + L LR +N + E+++L + MPR
Sbjct: 252 EHKLVVKAREDMAAIFTTLKLPLPLTDALVTQLRGVVNGIKDHERKVLHLATTVARMPRK 311
Query: 1117 HFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRD 1176
FI+ + N+ NL WV++ K + ++ L I QQ I ++ L L ++++
Sbjct: 312 DFIRSWEGNQTNLEWVEDALKRKQKWSSALRDVKDQIISEQQGSIEMEKANYLTLGEIKE 371
Query: 1177 INRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFE 1236
I+R M GE KARKAK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFE
Sbjct: 372 ISRAMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE 431
Query: 1237 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDP 1296
YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQ+ G E P
Sbjct: 432 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQQFGREATP 491
Query: 1297 SVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASM 1356
+A +M+MPE+KIRK+MKIAKEP+SME+P+GDDEDSHLGDFIED N+ +P D N ++
Sbjct: 492 EELAKEMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDTNVESPIDNTTNINL 551
Query: 1357 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 1416
V+D+L LTPRE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLRH
Sbjct: 552 SETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 611
Query: 1417 PSRYYKLKIFLE 1428
PSR +L+ FL+
Sbjct: 612 PSRSEQLRSFLD 623
Score = 540 bits (1392), Expect = e-152, Method: Compositional matrix adjust.
Identities = 297/599 (49%), Positives = 393/599 (65%), Gaps = 16/599 (2%)
Query: 43 FKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLS 102
K+LI G E+GYLT++E+ND LP+D++D E IE II M I V E D ETL+L+
Sbjct: 12 IKLLISKGLEQGYLTYAEVNDHLPDDLVDPEQIEDIISMINGMGIDVHEVAPDAETLLLN 71
Query: 103 NITSDD-----DVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRI 157
+ + + E AAL+ +D++ GRT DP++MYMREMG+VELLTR+GEI IAKRI
Sbjct: 72 DGNTGNREVDDTAAEEAAAALTALDTEGGRTTDPVRMYMREMGTVELLTREGEIAIAKRI 131
Query: 158 EEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLID-----------KNFSS 206
EEGL + A+ P + +L + + + ++ EIV G D +
Sbjct: 132 EEGLSQVQAALGVFPLSTEMLLADYEAHKEGKKRLAEIVVGFNDLIEEADAAAAALAAAG 191
Query: 207 NNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGY 266
V + ++ + +A+ E + N++ + K +K + K G
Sbjct: 192 PVAVSDDEAVDEDDDEDGDDEAAEEEAGPTGPDPVEVATRMENLANEYAKFKKVYAKNGA 251
Query: 267 NSESYIKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRL 326
+ +KA +++ ++ + L LR +N + E+++L + MPR
Sbjct: 252 EHKLVVKAREDMAAIFTTLKLPLPLTDALVTQLRGVVNGIKDHERKVLHLATTVARMPRK 311
Query: 327 HFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRD 386
FI+ + N+ NL WV++ K + ++ L I QQ I ++ L L ++++
Sbjct: 312 DFIRSWEGNQTNLEWVEDALKRKQKWSSALRDVKDQIISEQQGSIEMEKANYLTLGEIKE 371
Query: 387 INRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFE 446
I+R M GE KARKAK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFE
Sbjct: 372 ISRAMAYGEAKARKAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE 431
Query: 447 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDP 506
YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQ+LQ+ G E P
Sbjct: 432 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQQFGREATP 491
Query: 507 SVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASM 566
+A +M+MPE+KIRK+MKIAKEP+SME+P+GDDEDSHLGDFIED N+ +P D N ++
Sbjct: 492 EELAKEMDMPEDKIRKVMKIAKEPISMETPIGDDEDSHLGDFIEDTNVESPIDNTTNINL 551
Query: 567 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
V+D+L LTPRE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLR
Sbjct: 552 SETVRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 610
>sp|Q83BB6|RPOD_COXBU RNA polymerase sigma factor RpoD OS=Coxiella burnetii (strain RSA 493
/ Nine Mile phase I) GN=rpoD PE=1 SV=1
Length = 698
Score = 546 bits (1407), Expect = e-154, Method: Compositional matrix adjust.
Identities = 298/610 (48%), Positives = 397/610 (65%), Gaps = 16/610 (2%)
Query: 827 ENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDT 886
E+ R F L++ K +GYL ++ + LP D D +E II M I V E D
Sbjct: 94 ESQRLGFGALLEEAKNKGYLVHEDLINLLPNDYADPSQMEGIIGRLTEMGIKVFEIPPDA 153
Query: 887 ETLMLSNITS--DDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIA 944
++L+L T DD++ E L+T RT DP++MYMREMGSVELLTR+GEI IA
Sbjct: 154 DSLLLEEDTQSDDDEINEDVAEVLATET----RTTDPVRMYMREMGSVELLTREGEIVIA 209
Query: 945 KRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGN 1004
KRIEEG++ ++ A+ P I + + D I E ++ +++ G D+ S+ + V
Sbjct: 210 KRIEEGIRQVMGAVVQYPELIEKFIKEYDTIVATEGRLSDLLIGFFDEEESTASPVAP-E 268
Query: 1005 KNNNEEKILIESSSADLSTEQLEKLKYESLIK---FSNISFHFDKMRKAFEKEGYNSESY 1061
+ E + E + +++ + + LI + + + + A ++ G + +
Sbjct: 269 ARDKEAETSDEDDGGEGGSDEFGESGPDPLITQQHMEELKKLYGRYQNAIKRYGKKAPAT 328
Query: 1062 IKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKV 1121
+K ++ + + K +L LR + E+ I+ V K PR FI
Sbjct: 329 LKHQKALAELFSTFKLSIKQFNRLTGQLRRMLRAARAQERLIMSYCVVKAKTPRKKFIAS 388
Query: 1122 FPENEINLNWVD---NETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDIN 1178
FP NE N+ W++ NE K Q L + I Q+ L L+ L + ++++IN
Sbjct: 389 FPHNETNMKWLEQYKNENKEQAKR---LEKYSKEIYRAQRNLAQLEEQNNLNIQEIKEIN 445
Query: 1179 RKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYR 1238
R++ GE K+R+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYR
Sbjct: 446 RRVAIGEAKSRRAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYR 505
Query: 1239 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSV 1298
RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQILQETG E P
Sbjct: 506 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQETGIEATPEE 565
Query: 1299 IAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRS 1358
+ +M+MPEEK+RK++KIAKEP+SME+P+G+DEDS+LGDFIED NM +P D A +A +
Sbjct: 566 LGRRMDMPEEKVRKVLKIAKEPISMETPIGEDEDSNLGDFIEDINMESPVDFATSAGLME 625
Query: 1359 VVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 1418
++IL++LTPRE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS
Sbjct: 626 ATREILSTLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPS 685
Query: 1419 RYYKLKIFLE 1428
R KL F+E
Sbjct: 686 RAEKLHSFIE 695
Score = 530 bits (1366), Expect = e-149, Method: Compositional matrix adjust.
Identities = 290/597 (48%), Positives = 388/597 (64%), Gaps = 16/597 (2%)
Query: 37 ENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDT 96
E+ R F L++ K +GYL ++ + LP D D +E II M I V E D
Sbjct: 94 ESQRLGFGALLEEAKNKGYLVHEDLINLLPNDYADPSQMEGIIGRLTEMGIKVFEIPPDA 153
Query: 97 ETLMLSNITS--DDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIA 154
++L+L T DD++ E L+T RT DP++MYMREMGSVELLTR+GEI IA
Sbjct: 154 DSLLLEEDTQSDDDEINEDVAEVLATET----RTTDPVRMYMREMGSVELLTREGEIVIA 209
Query: 155 KRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGN 214
KRIEEG++ ++ A+ P I + + D I E ++ +++ G D+ S+ + V
Sbjct: 210 KRIEEGIRQVMGAVVQYPELIEKFIKEYDTIVATEGRLSDLLIGFFDEEESTASPVAP-E 268
Query: 215 KNNNEEKILIESSSADLSTEQLEKLKYESLIK---FSNISFHFDKMRKAFEKEGYNSESY 271
+ E + E + +++ + + LI + + + + A ++ G + +
Sbjct: 269 ARDKEAETSDEDDGGEGGSDEFGESGPDPLITQQHMEELKKLYGRYQNAIKRYGKKAPAT 328
Query: 272 IKAHNNISNEMLGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKV 331
+K ++ + + K +L LR + E+ I+ V K PR FI
Sbjct: 329 LKHQKALAELFSTFKLSIKQFNRLTGQLRRMLRAARAQERLIMSYCVVKAKTPRKKFIAS 388
Query: 332 FPENEINLNWVD---NETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDIN 388
FP NE N+ W++ NE K Q L + I Q+ L L+ L + ++++IN
Sbjct: 389 FPHNETNMKWLEQYKNENKEQAKR---LEKYSKEIYRAQRNLAQLEEQNNLNIQEIKEIN 445
Query: 389 RKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYR 448
R++ GE K+R+AK+EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYR
Sbjct: 446 RRVAIGEAKSRRAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYR 505
Query: 449 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSV 508
RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK++RISRQILQETG E P
Sbjct: 506 RGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQILQETGIEATPEE 565
Query: 509 IAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRS 568
+ +M+MPEEK+RK++KIAKEP+SME+P+G+DEDS+LGDFIED NM +P D A +A +
Sbjct: 566 LGRRMDMPEEKVRKVLKIAKEPISMETPIGEDEDSNLGDFIEDINMESPVDFATSAGLME 625
Query: 569 VVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
++IL++LTPRE+KVLRMRFGI+M++DHTLEEVGKQFDVTRERIRQIEAKALRKLR
Sbjct: 626 ATREILSTLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 682
>sp|P43766|RPOD_HAEIN RNA polymerase sigma factor RpoD OS=Haemophilus influenzae (strain
ATCC 51907 / DSM 11121 / KW20 / Rd) GN=rpoD PE=3 SV=1
Length = 629
Score = 540 bits (1390), Expect = e-152, Method: Compositional matrix adjust.
Identities = 301/634 (47%), Positives = 410/634 (64%), Gaps = 29/634 (4%)
Query: 818 IKSNSREEIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRY-MD 876
++ N + E ++ + L++LG+ +GYLTF+EIND LPED ID E + +++T +
Sbjct: 1 MEKNQQSTAEQYSEQIEQLMELGRTQGYLTFAEINDLLPEDAIDPEYYDKLLQTLQNDAG 60
Query: 877 ISVSEHVLDTETLMLSNITSDDD-VEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELL 935
I V + +++ +MLS+ D+D VEEAT+ LS V+S+ GRT DP++MYMREMG+V+LL
Sbjct: 61 IPVLDEAPESDDMMLSDTIPDEDAVEEATQI-LSNVESEIGRTTDPVRMYMREMGTVDLL 119
Query: 936 TRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIV--------- 986
TR+ EI IAKRIE G+ ++ +IS+ P + +L D + K ++ +++
Sbjct: 120 TREDEISIAKRIEGGIDEVQTSISAYPEALNGLLKNYDDVEKGNFRLTDLITGFVDPNAE 179
Query: 987 ----DGLIDKNFSSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLI---KFSN 1039
+GL + ++ N + + + ++ S S + + KF
Sbjct: 180 IEEHNGLDEDFSDEDDEEESSNADVEDNEDEEDNESESTSDSSDSDNSIDPEVAREKFQQ 239
Query: 1040 ISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLG-----IRFTAKSIEKLCDTLRNQIN 1094
+ K EK G + + +A + I+ +LG R K + L +++ +
Sbjct: 240 LREQHSKTLAVIEKHGRSGK---RAQDQIA--LLGEIFKQFRLVPKQFDLLVLSMKEMMK 294
Query: 1095 QVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIK 1154
+V E+Q+ +I+V+ GMP+ F K+ N N WV K + L + I
Sbjct: 295 RVRYQERQLQKILVDIAGMPKDDFEKIITTNGSNSEWVAKALKSSKPWAKRLIKYEDRIY 354
Query: 1155 ELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRG 1214
E L + + L + +RDI + GE KAR+AK+EM EANLRLVISIAKKYT+RG
Sbjct: 355 EALNNLAITEENTKLTITQMRDICDAVARGEQKARRAKKEMVEANLRLVISIAKKYTNRG 414
Query: 1215 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 1274
LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE
Sbjct: 415 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 474
Query: 1275 TINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSH 1334
TINK++RISRQ+LQE G E P +A +M MPE+KIRK++KIAKEP+SME+P+GDD+DSH
Sbjct: 475 TINKLNRISRQLLQEMGREATPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSH 534
Query: 1335 LGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGK 1394
LGDFIED + P D+A S++ ++L LTPRE+KVLRMRFGI+M++DHTLEEVGK
Sbjct: 535 LGDFIEDSTLELPLDSATAQSLKVATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGK 594
Query: 1395 QFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
QFDVTRERIRQIEAKALRKLRHPSR L+ FL+
Sbjct: 595 QFDVTRERIRQIEAKALRKLRHPSRSETLRSFLD 628
Score = 525 bits (1351), Expect = e-147, Method: Compositional matrix adjust.
Identities = 294/621 (47%), Positives = 401/621 (64%), Gaps = 29/621 (4%)
Query: 28 IKSNSREEIENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRY-MD 86
++ N + E ++ + L++LG+ +GYLTF+EIND LPED ID E + +++T +
Sbjct: 1 MEKNQQSTAEQYSEQIEQLMELGRTQGYLTFAEINDLLPEDAIDPEYYDKLLQTLQNDAG 60
Query: 87 ISVSEHVLDTETLMLSNITSDDD-VEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELL 145
I V + +++ +MLS+ D+D VEEAT+ LS V+S+ GRT DP++MYMREMG+V+LL
Sbjct: 61 IPVLDEAPESDDMMLSDTIPDEDAVEEATQI-LSNVESEIGRTTDPVRMYMREMGTVDLL 119
Query: 146 TRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIV--------- 196
TR+ EI IAKRIE G+ ++ +IS+ P + +L D + K ++ +++
Sbjct: 120 TREDEISIAKRIEGGIDEVQTSISAYPEALNGLLKNYDDVEKGNFRLTDLITGFVDPNAE 179
Query: 197 ----DGLIDKNFSSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESLI---KFSN 249
+GL + ++ N + + + ++ S S + + KF
Sbjct: 180 IEEHNGLDEDFSDEDDEEESSNADVEDNEDEEDNESESTSDSSDSDNSIDPEVAREKFQQ 239
Query: 250 ISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLG-----IRFTAKSIEKLCDTLRNQIN 304
+ K EK G + + +A + I+ +LG R K + L +++ +
Sbjct: 240 LREQHSKTLAVIEKHGRSGK---RAQDQIA--LLGEIFKQFRLVPKQFDLLVLSMKEMMK 294
Query: 305 QVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIK 364
+V E+Q+ +I+V+ GMP+ F K+ N N WV K + L + I
Sbjct: 295 RVRYQERQLQKILVDIAGMPKDDFEKIITTNGSNSEWVAKALKSSKPWAKRLIKYEDRIY 354
Query: 365 ELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRG 424
E L + + L + +RDI + GE KAR+AK+EM EANLRLVISIAKKYT+RG
Sbjct: 355 EALNNLAITEENTKLTITQMRDICDAVARGEQKARRAKKEMVEANLRLVISIAKKYTNRG 414
Query: 425 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 484
LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE
Sbjct: 415 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 474
Query: 485 TINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSH 544
TINK++RISRQ+LQE G E P +A +M MPE+KIRK++KIAKEP+SME+P+GDD+DSH
Sbjct: 475 TINKLNRISRQLLQEMGREATPEELAERMGMPEDKIRKVLKIAKEPISMETPIGDDDDSH 534
Query: 545 LGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGK 604
LGDFIED + P D+A S++ ++L LTPRE+KVLRMRFGI+M++DHTLEEVGK
Sbjct: 535 LGDFIEDSTLELPLDSATAQSLKVATHEVLEGLTPREAKVLRMRFGIDMNTDHTLEEVGK 594
Query: 605 QFDVTRERIRQIEAKALRKLR 625
QFDVTRERIRQIEAKALRKLR
Sbjct: 595 QFDVTRERIRQIEAKALRKLR 615
>sp|P52324|RPOD_CAUCR RNA polymerase sigma factor RpoD OS=Caulobacter crescentus (strain
ATCC 19089 / CB15) GN=rpoD PE=3 SV=1
Length = 652
Score = 498 bits (1281), Expect = e-139, Method: Compositional matrix adjust.
Identities = 281/631 (44%), Positives = 393/631 (62%), Gaps = 42/631 (6%)
Query: 831 KKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLM 890
KKF IK K RGY+T E+N LP + + + IE + M ++V E D E
Sbjct: 30 KKF---IKQAKARGYVTMDELNKVLPSEEVSPDAIEDTLAMLSEMGVNVVEAEEDAENAE 86
Query: 891 LSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEG 950
+ + D E T S + + RT DP++MY+REMGSVELL+R+GEI IAKRIE G
Sbjct: 87 GGEVATRD---ENTTVIASDKPAAYDRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAG 143
Query: 951 LKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEE 1010
MI + T I++ +++ I + E++D ++ +++ N V ++E
Sbjct: 144 RDTMIRGLCESALTFEAIMVWREELGTGRILLREVID--LEGTYAAINGVAAQPAAEDDE 201
Query: 1011 KIL--IESSSADLSTEQLE--------------------KLKYESLIKFSNISFHFDKMR 1048
++ + + E E +L+ + I+ F+ R
Sbjct: 202 GPAEPVDDEAGEAKAEGAEGEDEDDFDDGAGPTVSAMEGELREGVMAILDAIASEFEAFR 261
Query: 1049 KAFEK------EGYN-SESYIKAHNNISNEML----GIRFTAKSIEKLCDTLRNQINQVT 1097
K +K +G + S++ KA+ +S ++ ++ IE L + L ++
Sbjct: 262 KLQDKLVGSRLKGEDLSDADRKAYEGLSATIIQHLKTLKLNNNRIEALVEQLYAINKRLI 321
Query: 1098 QIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQ 1157
+E ++L + + G+ R F+K + +E+N W + + + + + S+ +++
Sbjct: 322 GLEGRLLRLA-DSYGISRGEFLKAYFGSELNPTWSEQVKAMGVRWTKFVENDSQSVTDIR 380
Query: 1158 QKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQF 1217
++ L T+ +P++D R I + + GE +AR+AK+EM EANLRLVISIAKKYT+RGLQF
Sbjct: 381 SEIAALATETGVPIDDYRRIVQTVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQF 440
Query: 1218 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETIN 1277
LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETIN
Sbjct: 441 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETIN 500
Query: 1278 KISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGD 1337
KI R SRQ+L E G EP P +A K+ MP EK+RK++KIAKEP+S+E+P+GD+EDSHLGD
Sbjct: 501 KIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGD 560
Query: 1338 FIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFD 1397
FIED+N + P DAA+ +++R +L SLTPRE +VLRMRFGI M++DHTLEEVG+QF
Sbjct: 561 FIEDKNAILPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFS 620
Query: 1398 VTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
VTRERIRQIEAKALRKL+HPSR KL+ FL+
Sbjct: 621 VTRERIRQIEAKALRKLKHPSRSRKLRSFLD 651
Score = 480 bits (1236), Expect = e-134, Method: Compositional matrix adjust.
Identities = 273/618 (44%), Positives = 383/618 (61%), Gaps = 42/618 (6%)
Query: 41 KKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLM 100
KKF IK K RGY+T E+N LP + + + IE + M ++V E D E
Sbjct: 30 KKF---IKQAKARGYVTMDELNKVLPSEEVSPDAIEDTLAMLSEMGVNVVEAEEDAENAE 86
Query: 101 LSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEG 160
+ + D E T S + + RT DP++MY+REMGSVELL+R+GEI IAKRIE G
Sbjct: 87 GGEVATRD---ENTTVIASDKPAAYDRTDDPVRMYLREMGSVELLSREGEIAIAKRIEAG 143
Query: 161 LKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEE 220
MI + T I++ +++ I + E++D ++ +++ N V ++E
Sbjct: 144 RDTMIRGLCESALTFEAIMVWREELGTGRILLREVID--LEGTYAAINGVAAQPAAEDDE 201
Query: 221 KIL--IESSSADLSTEQLE--------------------KLKYESLIKFSNISFHFDKMR 258
++ + + E E +L+ + I+ F+ R
Sbjct: 202 GPAEPVDDEAGEAKAEGAEGEDEDDFDDGAGPTVSAMEGELREGVMAILDAIASEFEAFR 261
Query: 259 KAFEK------EGYN-SESYIKAHNNISNEML----GIRFTAKSIEKLCDTLRNQINQVT 307
K +K +G + S++ KA+ +S ++ ++ IE L + L ++
Sbjct: 262 KLQDKLVGSRLKGEDLSDADRKAYEGLSATIIQHLKTLKLNNNRIEALVEQLYAINKRLI 321
Query: 308 QIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETKIQHDYNLILCRNIPSIKELQ 367
+E ++L + + G+ R F+K + +E+N W + + + + + S+ +++
Sbjct: 322 GLEGRLLRLA-DSYGISRGEFLKAYFGSELNPTWSEQVKAMGVRWTKFVENDSQSVTDIR 380
Query: 368 QKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQF 427
++ L T+ +P++D R I + + GE +AR+AK+EM EANLRLVISIAKKYT+RGLQF
Sbjct: 381 SEIAALATETGVPIDDYRRIVQTVQKGEREARQAKKEMVEANLRLVISIAKKYTNRGLQF 440
Query: 428 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETIN 487
LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETIN
Sbjct: 441 LDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETIN 500
Query: 488 KISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGD 547
KI R SRQ+L E G EP P +A K+ MP EK+RK++KIAKEP+S+E+P+GD+EDSHLGD
Sbjct: 501 KIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVLKIAKEPISLETPIGDEEDSHLGD 560
Query: 548 FIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFD 607
FIED+N + P DAA+ +++R +L SLTPRE +VLRMRFGI M++DHTLEEVG+QF
Sbjct: 561 FIEDKNAILPIDAAIQSNLRETTTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFS 620
Query: 608 VTRERIRQIEAKALRKLR 625
VTRERIRQIEAKALRKL+
Sbjct: 621 VTRERIRQIEAKALRKLK 638
>sp|Q59753|RPOD_RHIME RNA polymerase sigma factor RpoD OS=Rhizobium meliloti (strain 1021)
GN=rpoD PE=3 SV=1
Length = 684
Score = 490 bits (1261), Expect = e-137, Method: Compositional matrix adjust.
Identities = 285/654 (43%), Positives = 396/654 (60%), Gaps = 59/654 (9%)
Query: 833 FKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISV-------SEHVLD 885
K +IK K+RGY+T E+N LP + + E IE + M I+V D
Sbjct: 31 VKKMIKAAKKRGYVTMDELNSVLPSEEVTSEQIEDTMSMLSDMGINVIEDEEAEEAAASD 90
Query: 886 TETLMLSNITSDDDVEEATEAAL--STVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEI 943
+ + ++ A+ AL S RT DP++MY+REMGSVELL+R+GEI I
Sbjct: 91 DDDGADEGESEGGELAPASGTALAASKKKEPTDRTDDPVRMYLREMGSVELLSREGEIAI 150
Query: 944 AKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVD---------GLIDKNF 994
AKRIE G + MI + P T ++I D++++ + + EI+D F
Sbjct: 151 AKRIEAGRETMIAGLCESPLTFQALIIWRDELNEGQTLLREIIDLETTYSGPEAKAAPQF 210
Query: 995 SSNNRVIKGNKNNNEEKILIESSSA--------------------------DLSTEQLE- 1027
S ++ K E++ + + +A +LS +E
Sbjct: 211 QSPEKIEADRKAAEEKEKVRRTRTAANDDDITNVGGEGQAPEEEEEDDDESNLSLAAMEA 270
Query: 1028 KLKYESLIKFSNISFHFDKMRKAFEKE--------GYNSESYIKAHNNISNEML----GI 1075
+L+ + + I+ + K+RK +++ G S + + + + +E++ +
Sbjct: 271 ELRPQVMETLDVIAETYKKLRKLQDQQVEARLAATGTLSPAQERRYKELKDELIKAVKSL 330
Query: 1076 RFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNE 1135
I+ L + L + ++TQ E ++L + G+ R F++ + E++ NW+ +
Sbjct: 331 SLNQNRIDALVEQLYDISKRLTQNEGRLLRLA-ESYGVKREAFLEQYSGAELDPNWMKSI 389
Query: 1136 TKIQHDYNLILCR-NIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKRE 1194
+ + R +I++++Q++ NL T+ + + + R I + GE +AR AK+E
Sbjct: 390 SNLAGKGWKEFARAENQTIRDIRQEIQNLATETGISIAEFRRIVSMVQKGEREARIAKKE 449
Query: 1195 MTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 1254
M EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA
Sbjct: 450 MVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 509
Query: 1255 ITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIM 1314
ITRSIADQARTIRIPVHMIETINKI R SRQ+L E G EP P +A K+ MP EK+RK++
Sbjct: 510 ITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVL 569
Query: 1315 KIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKV 1374
KIAKEP+S+E+PVGD+EDSHLGDFIED+N L P DAA+ A++R +L SLTPRE +V
Sbjct: 570 KIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERV 629
Query: 1375 LRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
LRMRFGI M++DHTLEEVG+QF VTRERIRQIEAKALRKL+HPSR KL+ FL+
Sbjct: 630 LRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 683
Score = 472 bits (1215), Expect = e-132, Method: Compositional matrix adjust.
Identities = 277/641 (43%), Positives = 386/641 (60%), Gaps = 59/641 (9%)
Query: 43 FKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISV-------SEHVLD 95
K +IK K+RGY+T E+N LP + + E IE + M I+V D
Sbjct: 31 VKKMIKAAKKRGYVTMDELNSVLPSEEVTSEQIEDTMSMLSDMGINVIEDEEAEEAAASD 90
Query: 96 TETLMLSNITSDDDVEEATEAAL--STVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEI 153
+ + ++ A+ AL S RT DP++MY+REMGSVELL+R+GEI I
Sbjct: 91 DDDGADEGESEGGELAPASGTALAASKKKEPTDRTDDPVRMYLREMGSVELLSREGEIAI 150
Query: 154 AKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVD---------GLIDKNF 204
AKRIE G + MI + P T ++I D++++ + + EI+D F
Sbjct: 151 AKRIEAGRETMIAGLCESPLTFQALIIWRDELNEGQTLLREIIDLETTYSGPEAKAAPQF 210
Query: 205 SSNNRVIKGNKNNNEEKILIESSSA--------------------------DLSTEQLE- 237
S ++ K E++ + + +A +LS +E
Sbjct: 211 QSPEKIEADRKAAEEKEKVRRTRTAANDDDITNVGGEGQAPEEEEEDDDESNLSLAAMEA 270
Query: 238 KLKYESLIKFSNISFHFDKMRKAFEKE--------GYNSESYIKAHNNISNEML----GI 285
+L+ + + I+ + K+RK +++ G S + + + + +E++ +
Sbjct: 271 ELRPQVMETLDVIAETYKKLRKLQDQQVEARLAATGTLSPAQERRYKELKDELIKAVKSL 330
Query: 286 RFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNE 345
I+ L + L + ++TQ E ++L + G+ R F++ + E++ NW+ +
Sbjct: 331 SLNQNRIDALVEQLYDISKRLTQNEGRLLRLA-ESYGVKREAFLEQYSGAELDPNWMKSI 389
Query: 346 TKIQHDYNLILCR-NIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKRE 404
+ + R +I++++Q++ NL T+ + + + R I + GE +AR AK+E
Sbjct: 390 SNLAGKGWKEFARAENQTIRDIRQEIQNLATETGISIAEFRRIVSMVQKGEREARIAKKE 449
Query: 405 MTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 464
M EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA
Sbjct: 450 MVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 509
Query: 465 ITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIM 524
ITRSIADQARTIRIPVHMIETINKI R SRQ+L E G EP P +A K+ MP EK+RK++
Sbjct: 510 ITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKVL 569
Query: 525 KIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKV 584
KIAKEP+S+E+PVGD+EDSHLGDFIED+N L P DAA+ A++R +L SLTPRE +V
Sbjct: 570 KIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREERV 629
Query: 585 LRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
LRMRFGI M++DHTLEEVG+QF VTRERIRQIEAKALRKL+
Sbjct: 630 LRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 670
>sp|P33452|RPOD_AGRT5 RNA polymerase sigma factor RpoD OS=Agrobacterium tumefaciens (strain
C58 / ATCC 33970) GN=rpoD PE=3 SV=2
Length = 684
Score = 489 bits (1259), Expect = e-137, Method: Compositional matrix adjust.
Identities = 287/655 (43%), Positives = 396/655 (60%), Gaps = 61/655 (9%)
Query: 833 FKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISV-SEHVLDTETLML 891
K +IK K+RGY+T E+N LP + + E IE + M I+V + +
Sbjct: 31 VKKMIKAAKKRGYVTMDELNSVLPSEEVTSEQIEDTMAMLSDMGINVIEDEDAEEAAPAE 90
Query: 892 SNITSDDDVEEATE------AALSTVDSD--FGRTKDPIKMYMREMGSVELLTRDGEIEI 943
+ SD++ E E AL+T RT DP++MY+REMGSVELL+R+GEI I
Sbjct: 91 DDGDSDNEESEGGELAPSGGTALATAKKKEPTDRTDDPVRMYLREMGSVELLSREGEIAI 150
Query: 944 AKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVD---------GLIDKNF 994
AKRIE G + MI + P T ++I D++++ + EI+D F
Sbjct: 151 AKRIEAGRETMISGLCESPLTFQALIIWRDELNEGTTLLREIIDLETTYSGPEAKAAPQF 210
Query: 995 SSNNRVIKGNKNNNEEK---------------------------ILIESSSADLSTEQLE 1027
S + I+ ++ EEK + ++LS +E
Sbjct: 211 QSPEK-IEADRKAAEEKEKTRRLRAPTGDEDVTDVGGDGLPPEEEEEDDDESNLSLAAME 269
Query: 1028 -KLKYESLIKFSNISFHFDKMRKAFEKE--------GYNSESYIKAHNNISNEML----G 1074
+L+ + + I+ + K+RK +++ G S + + + ++++
Sbjct: 270 AELRPQVMETLDTIADTYKKLRKLQDQQVEARLACTGTLSSGQERRYKELKDQLITAVKS 329
Query: 1075 IRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDN 1134
+ I+ L + L + ++ Q E ++L + G+ R F++ + E++ NW+ +
Sbjct: 330 LSLNQNRIDSLVEQLYDISKRLMQNEGRLLRLA-ESYGVKRDSFLEQYHGAELDPNWMKS 388
Query: 1135 ETKIQ-HDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKR 1193
T + + +I+E++Q++ NL T+ + + + R I + GE +AR AK+
Sbjct: 389 ITNLAARGWKEFAREESNTIREIRQEIQNLSTETGISIAEFRRIVSMVQKGEREARIAKK 448
Query: 1194 EMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 1253
EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ
Sbjct: 449 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 508
Query: 1254 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKI 1313
AITRSIADQARTIRIPVHMIETINKI R SRQ+L E G EP P +A K+ MP EK+RK+
Sbjct: 509 AITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKV 568
Query: 1314 MKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESK 1373
+KIAKEP+S+E+PVGD+EDSHLGDFIED+N L P DAA+ A++R +L SLTPRE +
Sbjct: 569 LKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREER 628
Query: 1374 VLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
VLRMRFGI M++DHTLEEVG+QF VTRERIRQIEAKALRKL+HPSR KL+ FL+
Sbjct: 629 VLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 683
Score = 472 bits (1214), Expect = e-131, Method: Compositional matrix adjust.
Identities = 279/642 (43%), Positives = 386/642 (60%), Gaps = 61/642 (9%)
Query: 43 FKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISV-SEHVLDTETLML 101
K +IK K+RGY+T E+N LP + + E IE + M I+V + +
Sbjct: 31 VKKMIKAAKKRGYVTMDELNSVLPSEEVTSEQIEDTMAMLSDMGINVIEDEDAEEAAPAE 90
Query: 102 SNITSDDDVEEATE------AALSTVDSD--FGRTKDPIKMYMREMGSVELLTRDGEIEI 153
+ SD++ E E AL+T RT DP++MY+REMGSVELL+R+GEI I
Sbjct: 91 DDGDSDNEESEGGELAPSGGTALATAKKKEPTDRTDDPVRMYLREMGSVELLSREGEIAI 150
Query: 154 AKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVD---------GLIDKNF 204
AKRIE G + MI + P T ++I D++++ + EI+D F
Sbjct: 151 AKRIEAGRETMISGLCESPLTFQALIIWRDELNEGTTLLREIIDLETTYSGPEAKAAPQF 210
Query: 205 SSNNRVIKGNKNNNEEK---------------------------ILIESSSADLSTEQLE 237
S + I+ ++ EEK + ++LS +E
Sbjct: 211 QSPEK-IEADRKAAEEKEKTRRLRAPTGDEDVTDVGGDGLPPEEEEEDDDESNLSLAAME 269
Query: 238 -KLKYESLIKFSNISFHFDKMRKAFEKE--------GYNSESYIKAHNNISNEML----G 284
+L+ + + I+ + K+RK +++ G S + + + ++++
Sbjct: 270 AELRPQVMETLDTIADTYKKLRKLQDQQVEARLACTGTLSSGQERRYKELKDQLITAVKS 329
Query: 285 IRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDN 344
+ I+ L + L + ++ Q E ++L + G+ R F++ + E++ NW+ +
Sbjct: 330 LSLNQNRIDSLVEQLYDISKRLMQNEGRLLRLA-ESYGVKRDSFLEQYHGAELDPNWMKS 388
Query: 345 ETKIQ-HDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKR 403
T + + +I+E++Q++ NL T+ + + + R I + GE +AR AK+
Sbjct: 389 ITNLAARGWKEFAREESNTIREIRQEIQNLSTETGISIAEFRRIVSMVQKGEREARIAKK 448
Query: 404 EMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 463
EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ
Sbjct: 449 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 508
Query: 464 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKI 523
AITRSIADQARTIRIPVHMIETINKI R SRQ+L E G EP P +A K+ MP EK+RK+
Sbjct: 509 AITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKV 568
Query: 524 MKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESK 583
+KIAKEP+S+E+PVGD+EDSHLGDFIED+N L P DAA+ A++R +L SLTPRE +
Sbjct: 569 LKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREER 628
Query: 584 VLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
VLRMRFGI M++DHTLEEVG+QF VTRERIRQIEAKALRKL+
Sbjct: 629 VLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 670
>sp|Q2K619|RPOD_RHIEC RNA polymerase sigma factor rpoD OS=Rhizobium etli (strain CFN 42 /
ATCC 51251) GN=sigA PE=1 SV=1
Length = 685
Score = 487 bits (1253), Expect = e-136, Method: Compositional matrix adjust.
Identities = 285/655 (43%), Positives = 391/655 (59%), Gaps = 60/655 (9%)
Query: 833 FKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSE----------H 882
K +IK K+RGY+T E+N LP + + E IE + M I+V E
Sbjct: 31 VKKMIKAAKKRGYVTMDELNAVLPSEEVTSEQIEDTMSMLSDMGINVIEDEEAEEAGASG 90
Query: 883 VLDTETLMLSNITSDDDVEEATEAALSTVDSD--FGRTKDPIKMYMREMGSVELLTRDGE 940
D + + ++ + AL+T RT DP++MY+REMGSVELL+R+GE
Sbjct: 91 GGDDDDAGGDEDSEGGELAPSAGTALATAKKKEPTDRTDDPVRMYLREMGSVELLSREGE 150
Query: 941 IEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVD---------GLID 991
I IAKRIE G + MI + P T ++I D++++ + EI+D
Sbjct: 151 IAIAKRIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIIDLETTYSGPEAKAA 210
Query: 992 KNFSSNNRVIKGNKNNNEEKILIESSSAD-----LSTEQLEKLKYESLIKFSNISFH--- 1043
F S ++ K E++ + S D + E L + E SN+S
Sbjct: 211 PQFQSPEKIEADRKAAEEKEKTRRARSGDDDITDVGGEGLPPEEEEEDEDESNLSLAAME 270
Query: 1044 -----------------FDKMRKAFEKE--------GYNSESYIKAHNNISNEML----G 1074
+ K+RK +++ G S + + + + +E++
Sbjct: 271 AELRPQVMETLDIIAETYKKLRKLQDQQVEQRLAATGTLSSAQERRYKELKDELIKAVKS 330
Query: 1075 IRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDN 1134
+ I+ L + L + ++ Q E ++L + G+ R F++ + E++ NW+ +
Sbjct: 331 LSLNQNRIDALVEQLYDINKRLVQNEGRLLRLA-ESYGVKRDSFLEQYQGAELDPNWMKS 389
Query: 1135 ETKIQ-HDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKR 1193
+ + +I++++Q++ NL T+ + +++ R I + GE +AR AK+
Sbjct: 390 IGNLAARGWKEFAKAENTTIRDIRQEIQNLATETGISISEFRRIVHMVQKGEREARIAKK 449
Query: 1194 EMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 1253
EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ
Sbjct: 450 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 509
Query: 1254 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKI 1313
AITRSIADQARTIRIPVHMIETINKI R SRQ+L E G EP P +A K+ MP EK+RK+
Sbjct: 510 AITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKV 569
Query: 1314 MKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESK 1373
+KIAKEP+S+E+PVGD+EDSHLGDFIED+N L P DAA+ A++R +L SLTPRE +
Sbjct: 570 LKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREER 629
Query: 1374 VLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
VLRMRFGI M++DHTLEEVG+QF VTRERIRQIEAKALRKL+HPSR KL+ FL+
Sbjct: 630 VLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 684
Score = 469 bits (1207), Expect = e-131, Method: Compositional matrix adjust.
Identities = 277/642 (43%), Positives = 381/642 (59%), Gaps = 60/642 (9%)
Query: 43 FKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSE----------H 92
K +IK K+RGY+T E+N LP + + E IE + M I+V E
Sbjct: 31 VKKMIKAAKKRGYVTMDELNAVLPSEEVTSEQIEDTMSMLSDMGINVIEDEEAEEAGASG 90
Query: 93 VLDTETLMLSNITSDDDVEEATEAALSTVDSD--FGRTKDPIKMYMREMGSVELLTRDGE 150
D + + ++ + AL+T RT DP++MY+REMGSVELL+R+GE
Sbjct: 91 GGDDDDAGGDEDSEGGELAPSAGTALATAKKKEPTDRTDDPVRMYLREMGSVELLSREGE 150
Query: 151 IEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVD---------GLID 201
I IAKRIE G + MI + P T ++I D++++ + EI+D
Sbjct: 151 IAIAKRIEAGRETMIAGLCESPLTFQALIIWRDELNEGTTLLREIIDLETTYSGPEAKAA 210
Query: 202 KNFSSNNRVIKGNKNNNEEKILIESSSAD-----LSTEQLEKLKYESLIKFSNISFH--- 253
F S ++ K E++ + S D + E L + E SN+S
Sbjct: 211 PQFQSPEKIEADRKAAEEKEKTRRARSGDDDITDVGGEGLPPEEEEEDEDESNLSLAAME 270
Query: 254 -----------------FDKMRKAFEKE--------GYNSESYIKAHNNISNEML----G 284
+ K+RK +++ G S + + + + +E++
Sbjct: 271 AELRPQVMETLDIIAETYKKLRKLQDQQVEQRLAATGTLSSAQERRYKELKDELIKAVKS 330
Query: 285 IRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDN 344
+ I+ L + L + ++ Q E ++L + G+ R F++ + E++ NW+ +
Sbjct: 331 LSLNQNRIDALVEQLYDINKRLVQNEGRLLRLA-ESYGVKRDSFLEQYQGAELDPNWMKS 389
Query: 345 ETKIQ-HDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKR 403
+ + +I++++Q++ NL T+ + +++ R I + GE +AR AK+
Sbjct: 390 IGNLAARGWKEFAKAENTTIRDIRQEIQNLATETGISISEFRRIVHMVQKGEREARIAKK 449
Query: 404 EMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 463
EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ
Sbjct: 450 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 509
Query: 464 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKI 523
AITRSIADQARTIRIPVHMIETINKI R SRQ+L E G EP P +A K+ MP EK+RK+
Sbjct: 510 AITRSIADQARTIRIPVHMIETINKIVRTSRQMLHEIGREPTPEELAEKLAMPLEKVRKV 569
Query: 524 MKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESK 583
+KIAKEP+S+E+PVGD+EDSHLGDFIED+N L P DAA+ A++R +L SLTPRE +
Sbjct: 570 LKIAKEPISLETPVGDEEDSHLGDFIEDKNALLPIDAAIQANLRETTTRVLASLTPREER 629
Query: 584 VLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
VLRMRFGI M++DHTLEEVG+QF VTRERIRQIEAKALRKL+
Sbjct: 630 VLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 671
>sp|P17531|RPOD_MYXXA RNA polymerase sigma factor RpoD OS=Myxococcus xanthus GN=rpoD PE=3
SV=1
Length = 708
Score = 474 bits (1219), Expect = e-132, Method: Compositional matrix adjust.
Identities = 281/660 (42%), Positives = 411/660 (62%), Gaps = 45/660 (6%)
Query: 792 DKYDPDSYIRKFGYKIFSKKNAFSFDIKSNSREEIENLRKKFKILIKLGKERGYLTFSEI 851
D DP+ + + +A DI+ + E RK+ K L+ G+E+G+LT+ E+
Sbjct: 72 DDVDPEEAAEEAAAAVQVDPDAVEDDIEEDPVAE----RKEVKDLLAAGREKGFLTYDEV 127
Query: 852 NDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSN-----ITSDDDVEEATEA 906
ND LP DI+ + I+ ++ F DI ++D + +N +T +++ E+A E
Sbjct: 128 NDALPADIVSSDQIDDVMSMFGDNDI----EIVDAQKAAQNNEIKPTVTVEEEKEDADED 183
Query: 907 ALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIM 966
D G++ DP+++Y+R+MGSV LLTR+GE+EIAKRIE+G K+++ A+ +C +
Sbjct: 184 EKDEDDEPGGKSNDPVRLYLRKMGSVSLLTREGEVEIAKRIEDGEKEVLRALLACKVAVE 243
Query: 967 EILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEKILIESSSADLSTEQL 1026
EIL +K+ ++++ +++ ++ S +G + EE + + A L+ +L
Sbjct: 244 EILDIGNKLKTAKLRVRDVIKDAPEETQS------EGAEEAPEE-VGEGDAPAQLAQSEL 296
Query: 1027 EKL-----KYESLIKFSN----ISFHFDKMRKAFEKEGYNSESYIKAHNNISNEMLG-IR 1076
K+ + E KF+ + +K E + IK E+L +R
Sbjct: 297 NKIEQICKQIERFRKFAQDCDVLEEELSSKKKLTEVRKKEVKQEIKDLRTKMMEVLEEMR 356
Query: 1077 FTAKSIEKLCDTLRNQINQVTQIEKQILEIVVN-KCGMPRLHFIKVFPENEINLNWVDNE 1135
K ++++ L+ I +V + E ++ ++ C M L E+ N N
Sbjct: 357 LNKKQVDRIVINLKALIERVDKAEDELRDLERRYDCSMKELR--PQLKESRENPNI---G 411
Query: 1136 TKIQHDYNL------ILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKAR 1189
K+Q NL +L R++ + +K+ ++ + LP+ LR + GE +A
Sbjct: 412 KKLQKQLNLTPEQLEVLDRDV---RTAVRKIKKVEEEANLPVESLRRNYDAIRLGERRAE 468
Query: 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 1249
+AK E+ EANLRLV+SIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEY+RGYKFSTYATW
Sbjct: 469 RAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYKRGYKFSTYATW 528
Query: 1250 WIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEK 1309
WIRQAITR+IADQARTIRIPVHMIETINK+ R SR ++QE G EP P IA KME+P +K
Sbjct: 529 WIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLVQEIGREPTPEEIAEKMELPLDK 588
Query: 1310 IRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTP 1369
+RK++KIAKEP+S+E+P+G++EDSHLGDFIED+++++P+DA +N ++ + +L +LTP
Sbjct: 589 VRKVLKIAKEPISLETPIGEEEDSHLGDFIEDKSLVSPADAVINMNLAEQTRKVLATLTP 648
Query: 1370 RESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429
RE KVLRMRFGI SDHTLEEVG+ F+VTRERIRQIEAKALRKLRHPSR +L+ F+E
Sbjct: 649 REEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIEAKALRKLRHPSRSKRLRSFVES 708
Score = 457 bits (1175), Expect = e-127, Method: Compositional matrix adjust.
Identities = 267/608 (43%), Positives = 388/608 (63%), Gaps = 41/608 (6%)
Query: 40 RKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETL 99
RK+ K L+ G+E+G+LT+ E+ND LP DI+ + I+ ++ F DI ++D +
Sbjct: 106 RKEVKDLLAAGREKGFLTYDEVNDALPADIVSSDQIDDVMSMFGDNDI----EIVDAQKA 161
Query: 100 MLSN-----ITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIA 154
+N +T +++ E+A E D G++ DP+++Y+R+MGSV LLTR+GE+EIA
Sbjct: 162 AQNNEIKPTVTVEEEKEDADEDEKDEDDEPGGKSNDPVRLYLRKMGSVSLLTREGEVEIA 221
Query: 155 KRIEEGLKDMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGN 214
KRIE+G K+++ A+ +C + EIL +K+ ++++ +++ ++ S +G
Sbjct: 222 KRIEDGEKEVLRALLACKVAVEEILDIGNKLKTAKLRVRDVIKDAPEETQS------EGA 275
Query: 215 KNNNEEKILIESSSADLSTEQLEKL-----KYESLIKFSN----ISFHFDKMRKAFEKEG 265
+ EE + + A L+ +L K+ + E KF+ + +K E
Sbjct: 276 EEAPEE-VGEGDAPAQLAQSELNKIEQICKQIERFRKFAQDCDVLEEELSSKKKLTEVRK 334
Query: 266 YNSESYIKAHNNISNEMLG-IRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVN-KCGM 323
+ IK E+L +R K ++++ L+ I +V + E ++ ++ C M
Sbjct: 335 KEVKQEIKDLRTKMMEVLEEMRLNKKQVDRIVINLKALIERVDKAEDELRDLERRYDCSM 394
Query: 324 PRLHFIKVFPENEINLNWVDNETKIQHDYNL------ILCRNIPSIKELQQKLINLQTDI 377
L E+ N N K+Q NL +L R++ + +K+ ++ +
Sbjct: 395 KELR--PQLKESRENPNI---GKKLQKQLNLTPEQLEVLDRDV---RTAVRKIKKVEEEA 446
Query: 378 VLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIG 437
LP+ LR + GE +A +AK E+ EANLRLV+SIAKKYT+RGLQFLDLIQEGNIG
Sbjct: 447 NLPVESLRRNYDAIRLGERRAERAKSELVEANLRLVVSIAKKYTNRGLQFLDLIQEGNIG 506
Query: 438 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQIL 497
LMKAVDKFEY+RGYKFSTYATWWIRQAITR+IADQARTIRIPVHMIETINK+ R SR ++
Sbjct: 507 LMKAVDKFEYKRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKLIRTSRYLV 566
Query: 498 QETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAP 557
QE G EP P IA KME+P +K+RK++KIAKEP+S+E+P+G++EDSHLGDFIED+++++P
Sbjct: 567 QEIGREPTPEEIAEKMELPLDKVRKVLKIAKEPISLETPIGEEEDSHLGDFIEDKSLVSP 626
Query: 558 SDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIE 617
+DA +N ++ + +L +LTPRE KVLRMRFGI SDHTLEEVG+ F+VTRERIRQIE
Sbjct: 627 ADAVINMNLAEQTRKVLATLTPREEKVLRMRFGIGEKSDHTLEEVGQDFEVTRERIRQIE 686
Query: 618 AKALRKLR 625
AKALRKLR
Sbjct: 687 AKALRKLR 694
>sp|D5AQI9|RPOD_RHOCB RNA polymerase sigma factor rpoD OS=Rhodobacter capsulatus (strain
ATCC BAA-309 / NBRC 16581 / SB1003) GN=rpoD PE=3 SV=1
Length = 674
Score = 466 bits (1198), Expect = e-130, Method: Compositional matrix adjust.
Identities = 276/655 (42%), Positives = 389/655 (59%), Gaps = 70/655 (10%)
Query: 834 KILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSN 893
K +I KERGY+T ++N +P + + E IE ++ M I+V E E+
Sbjct: 29 KRMIGEAKERGYITIDQLNAVMPPETVSGEQIEDVMSMLSEMGINVVEGEEVEESEGGEV 88
Query: 894 ITSDDDVEE--ATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGL 951
+ + E AA T+D RT DP++MY+REMGSVELL+R+GEI IAKRIE G
Sbjct: 89 VETGSGSREIAVAGAAGETLD----RTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGR 144
Query: 952 KDMIHAISSCPTTIMEILIAADKISKNEIKI----------------DE----------- 984
MI + P T I I D++ EI + DE
Sbjct: 145 NTMIAGLCESPLTFQAITIWRDELLSEEILLRDVIDLEATFGRSLDGDEGMEGMEGIEGP 204
Query: 985 IVDGL---------------------IDKNFSSNNRVIKGNKNNNEEKILIESSSADLST 1023
+V+GL D + + +R+ + +++ + + + A L
Sbjct: 205 VVEGLDLETAEGAAPAARRPASDEPEYDADGNPISRIDEEEDDDDSSNMSLAAMEAALKP 264
Query: 1024 EQLEKLK-----YESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEML----G 1074
+ LE L+ Y L + ++ +M ++G S + A+ + +E++
Sbjct: 265 KVLETLELIARDYAKLAEMQDL-----RMSATLNEDGTFSVAEEAAYQKLRSEIVLLVNE 319
Query: 1075 IRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDN 1134
+ IE L D L ++ I+ ++++ + + R FI + E++ W+D
Sbjct: 320 LHLHNNRIEALIDQLYGINRKIMSIDSGMVKLA-DAARINRREFIDEYRGYELDPTWMDR 378
Query: 1135 -ETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKR 1193
K + + ++ +++L+ ++ + + + +++ R I ++ GE +AR+AK+
Sbjct: 379 MSAKPARAWVTLFEKSRDKVEDLRHEMAQVGQYVGVDISEFRRIVNQVQKGEKEARQAKK 438
Query: 1194 EMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 1253
EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ
Sbjct: 439 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 498
Query: 1254 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKI 1313
AITRSIADQARTIRIPVHMIETINK+ R RQ+L E G EP P +A K++MP EK+RK+
Sbjct: 499 AITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAEKLQMPLEKVRKV 558
Query: 1314 MKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESK 1373
MKIAKEP+S+E+P+GD+EDS LGDFIED+N + P D+A+ +++ +L SLTPRE +
Sbjct: 559 MKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSAIQENLKETTTRVLASLTPREER 618
Query: 1374 VLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
VLRMRFGI M++DHTLEEVG+QF VTRERIRQIEAKALRKL+HPSR KL+ FL+
Sbjct: 619 VLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLD 673
Score = 448 bits (1153), Expect = e-124, Method: Compositional matrix adjust.
Identities = 268/642 (41%), Positives = 379/642 (59%), Gaps = 70/642 (10%)
Query: 44 KILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSN 103
K +I KERGY+T ++N +P + + E IE ++ M I+V E E+
Sbjct: 29 KRMIGEAKERGYITIDQLNAVMPPETVSGEQIEDVMSMLSEMGINVVEGEEVEESEGGEV 88
Query: 104 ITSDDDVEE--ATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGL 161
+ + E AA T+D RT DP++MY+REMGSVELL+R+GEI IAKRIE G
Sbjct: 89 VETGSGSREIAVAGAAGETLD----RTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGR 144
Query: 162 KDMIHAISSCPTTIMEILIAADKISKNEIKI----------------DE----------- 194
MI + P T I I D++ EI + DE
Sbjct: 145 NTMIAGLCESPLTFQAITIWRDELLSEEILLRDVIDLEATFGRSLDGDEGMEGMEGIEGP 204
Query: 195 IVDGL---------------------IDKNFSSNNRVIKGNKNNNEEKILIESSSADLST 233
+V+GL D + + +R+ + +++ + + + A L
Sbjct: 205 VVEGLDLETAEGAAPAARRPASDEPEYDADGNPISRIDEEEDDDDSSNMSLAAMEAALKP 264
Query: 234 EQLEKLK-----YESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEML----G 284
+ LE L+ Y L + ++ +M ++G S + A+ + +E++
Sbjct: 265 KVLETLELIARDYAKLAEMQDL-----RMSATLNEDGTFSVAEEAAYQKLRSEIVLLVNE 319
Query: 285 IRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDN 344
+ IE L D L ++ I+ ++++ + + R FI + E++ W+D
Sbjct: 320 LHLHNNRIEALIDQLYGINRKIMSIDSGMVKLA-DAARINRREFIDEYRGYELDPTWMDR 378
Query: 345 -ETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKR 403
K + + ++ +++L+ ++ + + + +++ R I ++ GE +AR+AK+
Sbjct: 379 MSAKPARAWVTLFEKSRDKVEDLRHEMAQVGQYVGVDISEFRRIVNQVQKGEKEARQAKK 438
Query: 404 EMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 463
EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ
Sbjct: 439 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 498
Query: 464 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKI 523
AITRSIADQARTIRIPVHMIETINK+ R RQ+L E G EP P +A K++MP EK+RK+
Sbjct: 499 AITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAEKLQMPLEKVRKV 558
Query: 524 MKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESK 583
MKIAKEP+S+E+P+GD+EDS LGDFIED+N + P D+A+ +++ +L SLTPRE +
Sbjct: 559 MKIAKEPISLETPIGDEEDSQLGDFIEDKNAILPLDSAIQENLKETTTRVLASLTPREER 618
Query: 584 VLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
VLRMRFGI M++DHTLEEVG+QF VTRERIRQIEAKALRKL+
Sbjct: 619 VLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 660
>sp|P0CZ15|RPOD_RHOCA RNA polymerase sigma factor rpoD OS=Rhodobacter capsulatus GN=rpoD
PE=2 SV=1
Length = 674
Score = 459 bits (1182), Expect = e-128, Method: Compositional matrix adjust.
Identities = 274/655 (41%), Positives = 387/655 (59%), Gaps = 70/655 (10%)
Query: 834 KILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSN 893
K +I KERGY+T ++N +P + + E IE ++ M I+V E E+
Sbjct: 29 KRMIGEAKERGYITIDQLNAVMPPETVSGEQIEDVMSMLSEMGINVVEGEEVEESEGGEV 88
Query: 894 ITSDDDVEE--ATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGL 951
+ + E AA T+D RT DP++MY+REMGSVELL+R+GEI IAKRIE G
Sbjct: 89 VETGSGSREIAVAGAAGETLD----RTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGR 144
Query: 952 KDMIHAISSCPTTIMEILIAADKISKNEIKI----------------DE----------- 984
MI + P T I I D++ EI + DE
Sbjct: 145 NTMIAGLCESPLTFQAITIWRDELLSEEILLRDVIDLEATFGRSLDGDEGLEGMEGIEGP 204
Query: 985 IVDGL---------------------IDKNFSSNNRVIKGNKNNNEEKILIESSSADLST 1023
+V+GL D + + +R+ + +++ + + + A L
Sbjct: 205 VVEGLDLEAAEGAAPAARRPASDEPEYDADGNPISRIDEEEDDDDSSNMSLAAMEAALKP 264
Query: 1024 EQLEKLK-----YESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEML----G 1074
+ LE L+ Y L + ++ +M ++G + + A+ + +E++
Sbjct: 265 KVLETLELIARDYAKLAEMQDL-----RMSATLNEDGTFTVAEEAAYQKLRSEIVLLVNE 319
Query: 1075 IRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDN 1134
+ IE L D L ++ I+ ++++ + + R FI + E++ W+D
Sbjct: 320 LHLHNNRIEALIDQLYGINRKIMSIDSGMVKLA-DAARINRREFIDEYRGYELDPTWMDR 378
Query: 1135 -ETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKR 1193
K + + ++ +++L+ ++ + + + +++ R I ++ GE +AR+AK+
Sbjct: 379 MSAKPARAWVTLFEKSRHKVEDLRHEMAQVGQYVGVDISEFRRIVNQVQKGEKEARQAKK 438
Query: 1194 EMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 1253
EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ
Sbjct: 439 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 498
Query: 1254 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKI 1313
AITRSIADQARTIRIPVHMIETINK+ R RQ+L E G EP P +A K++MP EK+RK+
Sbjct: 499 AITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAEKLQMPLEKVRKV 558
Query: 1314 MKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESK 1373
MKIAKEP+S+E+P+G +EDS LGDFIED+N + P D+A+ +++ +L SLTPRE +
Sbjct: 559 MKIAKEPISLETPIGHEEDSQLGDFIEDKNAILPLDSAIQENLKETTTRVLPSLTPREER 618
Query: 1374 VLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
VLRMRFGI M++DHTLEEVG+QF VTRERIRQIEAKALRKL+HPSR KL FL+
Sbjct: 619 VLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLPSFLD 673
Score = 443 bits (1140), Expect = e-123, Method: Compositional matrix adjust.
Identities = 266/642 (41%), Positives = 378/642 (58%), Gaps = 70/642 (10%)
Query: 44 KILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSN 103
K +I KERGY+T ++N +P + + E IE ++ M I+V E E+
Sbjct: 29 KRMIGEAKERGYITIDQLNAVMPPETVSGEQIEDVMSMLSEMGINVVEGEEVEESEGGEV 88
Query: 104 ITSDDDVEE--ATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGL 161
+ + E AA T+D RT DP++MY+REMGSVELL+R+GEI IAKRIE G
Sbjct: 89 VETGSGSREIAVAGAAGETLD----RTDDPVRMYLREMGSVELLSREGEIAIAKRIEAGR 144
Query: 162 KDMIHAISSCPTTIMEILIAADKISKNEIKI----------------DE----------- 194
MI + P T I I D++ EI + DE
Sbjct: 145 NTMIAGLCESPLTFQAITIWRDELLSEEILLRDVIDLEATFGRSLDGDEGLEGMEGIEGP 204
Query: 195 IVDGL---------------------IDKNFSSNNRVIKGNKNNNEEKILIESSSADLST 233
+V+GL D + + +R+ + +++ + + + A L
Sbjct: 205 VVEGLDLEAAEGAAPAARRPASDEPEYDADGNPISRIDEEEDDDDSSNMSLAAMEAALKP 264
Query: 234 EQLEKLK-----YESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEML----G 284
+ LE L+ Y L + ++ +M ++G + + A+ + +E++
Sbjct: 265 KVLETLELIARDYAKLAEMQDL-----RMSATLNEDGTFTVAEEAAYQKLRSEIVLLVNE 319
Query: 285 IRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDN 344
+ IE L D L ++ I+ ++++ + + R FI + E++ W+D
Sbjct: 320 LHLHNNRIEALIDQLYGINRKIMSIDSGMVKLA-DAARINRREFIDEYRGYELDPTWMDR 378
Query: 345 -ETKIQHDYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKR 403
K + + ++ +++L+ ++ + + + +++ R I ++ GE +AR+AK+
Sbjct: 379 MSAKPARAWVTLFEKSRHKVEDLRHEMAQVGQYVGVDISEFRRIVNQVQKGEKEARQAKK 438
Query: 404 EMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 463
EM EANLRLVISIAKKYT+RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ
Sbjct: 439 EMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQ 498
Query: 464 AITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKI 523
AITRSIADQARTIRIPVHMIETINK+ R RQ+L E G EP P +A K++MP EK+RK+
Sbjct: 499 AITRSIADQARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAEKLQMPLEKVRKV 558
Query: 524 MKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESK 583
MKIAKEP+S+E+P+G +EDS LGDFIED+N + P D+A+ +++ +L SLTPRE +
Sbjct: 559 MKIAKEPISLETPIGHEEDSQLGDFIEDKNAILPLDSAIQENLKETTTRVLPSLTPREER 618
Query: 584 VLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
VLRMRFGI M++DHTLEEVG+QF VTRERIRQIEAKALRKL+
Sbjct: 619 VLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 660
>sp|Q1RKH7|RPOD_RICBR RNA polymerase sigma factor RpoD OS=Rickettsia bellii (strain
RML369-C) GN=rpoD PE=3 SV=1
Length = 641
Score = 443 bits (1139), Expect = e-123, Method: Compositional matrix adjust.
Identities = 272/625 (43%), Positives = 388/625 (62%), Gaps = 56/625 (8%)
Query: 844 GYLTFSEINDFLPEDIIDHEIIESIIKT-FRYMDISVSEHVLDTETLMLSNITSDDDVEE 902
G +T+++IN LP D +E I K FR+ + V +LDT + DD+E
Sbjct: 24 GSVTYNDINRALP----DGTSVEEIDKVMFRFSEAEVD--ILDTNE---DDAIKIDDMEM 74
Query: 903 ATEAALST----------VDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLK 952
+ST + + G T DP+++Y+++MG V+LLTR+ E+EIAKRIEEG K
Sbjct: 75 EEGFKISTNIDHEPEDETEEENIGTTDDPVRLYLKDMGGVDLLTRENEVEIAKRIEEGRK 134
Query: 953 DMIHAISSCPTTIMEIL-IAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEK 1011
+I A+ P + + AD +++N + + +++D ++ N ++ + ++N +
Sbjct: 135 TLIAALCRSPIAMDKFRKWYADLVNENNMLLRDLID--LESNMMHDDETSESEDDHNSDH 192
Query: 1012 ILIESSSAD---------LSTEQLEKLKYESLI-KFSNISFHFDKM----RKAFEKEG-- 1055
E D LS ++E ++I + I+F +++ +K+FEK
Sbjct: 193 ---EEEEQDHDHDHEENILSMSKVETQILPNIIERMKKIAFICEELLIETKKSFEKSAGP 249
Query: 1056 ---YNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTL----RNQINQVTQIEKQILEIVV 1108
NS+ Y + +E+ I F +K E++ + R+ IN+ T K +
Sbjct: 250 KILQNSKKYNDNLELLISEVSEIHFNSKRTEEILSEMYRINRDLINKETAFLK-----LA 304
Query: 1109 NKCGMPRLHFIKVFPENEINLNWVDNETK-IQHDYNLILCRNIPSIKELQQKLINLQTDI 1167
K G+ R +F+ + IN W + K + + +L + I ++ +L ++ +
Sbjct: 305 EKYGITRQNFLDEYIGAVINAAWKEKMLKNKKAGWKELLTKESDYIDQMIAELSAIEINT 364
Query: 1168 VLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIG 1227
L +ND + + + E + +AK++M EANLRLVISIAKKY +RGLQFLDLIQEGNIG
Sbjct: 365 GLLVNDFKKLVNAIQKSERQTLQAKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIG 424
Query: 1228 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQIL 1287
LMKAVDKFEYRRGYKFSTYATWWIRQAITR+IADQARTIRIPVHMIETINKI R SRQ+L
Sbjct: 425 LMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKIIRTSRQML 484
Query: 1288 QETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGD-DEDSHLGDFIEDENMLA 1346
E G EP P+ IA ++ MP +K+RK+MKIAKEP+S+E+PVGD D++S+LGDFIED+N +A
Sbjct: 485 NELGYEPTPAEIAARLSMPIDKVRKVMKIAKEPISLENPVGDGDDNSYLGDFIEDKNAVA 544
Query: 1347 PSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQI 1406
P DAA+ +++R V +L +LTPRE +VLRMRFGI M++DHTLEEVG+QF VTRERIRQI
Sbjct: 545 PIDAAIQSNLREVTTRVLATLTPREERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQI 604
Query: 1407 EAKALRKLRHPSRYYKLKIFLEGKK 1431
E+KALRKL+HP R KL F G K
Sbjct: 605 ESKALRKLQHPIRSKKLNSFRSGGK 629
Score = 429 bits (1102), Expect = e-118, Method: Compositional matrix adjust.
Identities = 264/609 (43%), Positives = 380/609 (62%), Gaps = 56/609 (9%)
Query: 54 GYLTFSEINDFLPEDIIDHEIIESIIKT-FRYMDISVSEHVLDTETLMLSNITSDDDVEE 112
G +T+++IN LP D +E I K FR+ + V +LDT + DD+E
Sbjct: 24 GSVTYNDINRALP----DGTSVEEIDKVMFRFSEAEVD--ILDTNE---DDAIKIDDMEM 74
Query: 113 ATEAALST----------VDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLK 162
+ST + + G T DP+++Y+++MG V+LLTR+ E+EIAKRIEEG K
Sbjct: 75 EEGFKISTNIDHEPEDETEEENIGTTDDPVRLYLKDMGGVDLLTRENEVEIAKRIEEGRK 134
Query: 163 DMIHAISSCPTTIMEIL-IAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEK 221
+I A+ P + + AD +++N + + +++D ++ N ++ + ++N +
Sbjct: 135 TLIAALCRSPIAMDKFRKWYADLVNENNMLLRDLID--LESNMMHDDETSESEDDHNSDH 192
Query: 222 ILIESSSAD---------LSTEQLEKLKYESLI-KFSNISFHFDKM----RKAFEKEG-- 265
E D LS ++E ++I + I+F +++ +K+FEK
Sbjct: 193 ---EEEEQDHDHDHEENILSMSKVETQILPNIIERMKKIAFICEELLIETKKSFEKSAGP 249
Query: 266 ---YNSESYIKAHNNISNEMLGIRFTAKSIEKLCDTL----RNQINQVTQIEKQILEIVV 318
NS+ Y + +E+ I F +K E++ + R+ IN+ T K +
Sbjct: 250 KILQNSKKYNDNLELLISEVSEIHFNSKRTEEILSEMYRINRDLINKETAFLK-----LA 304
Query: 319 NKCGMPRLHFIKVFPENEINLNWVDNETK-IQHDYNLILCRNIPSIKELQQKLINLQTDI 377
K G+ R +F+ + IN W + K + + +L + I ++ +L ++ +
Sbjct: 305 EKYGITRQNFLDEYIGAVINAAWKEKMLKNKKAGWKELLTKESDYIDQMIAELSAIEINT 364
Query: 378 VLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIG 437
L +ND + + + E + +AK++M EANLRLVISIAKKY +RGLQFLDLIQEGNIG
Sbjct: 365 GLLVNDFKKLVNAIQKSERQTLQAKKDMIEANLRLVISIAKKYANRGLQFLDLIQEGNIG 424
Query: 438 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQIL 497
LMKAVDKFEYRRGYKFSTYATWWIRQAITR+IADQARTIRIPVHMIETINKI R SRQ+L
Sbjct: 425 LMKAVDKFEYRRGYKFSTYATWWIRQAITRAIADQARTIRIPVHMIETINKIIRTSRQML 484
Query: 498 QETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGD-DEDSHLGDFIEDENMLA 556
E G EP P+ IA ++ MP +K+RK+MKIAKEP+S+E+PVGD D++S+LGDFIED+N +A
Sbjct: 485 NELGYEPTPAEIAARLSMPIDKVRKVMKIAKEPISLENPVGDGDDNSYLGDFIEDKNAVA 544
Query: 557 PSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQI 616
P DAA+ +++R V +L +LTPRE +VLRMRFGI M++DHTLEEVG+QF VTRERIRQI
Sbjct: 545 PIDAAIQSNLREVTTRVLATLTPREERVLRMRFGIGMNTDHTLEEVGQQFKVTRERIRQI 604
Query: 617 EAKALRKLR 625
E+KALRKL+
Sbjct: 605 ESKALRKLQ 613
>sp|P33451|RPOD_RICPR RNA polymerase sigma factor RpoD OS=Rickettsia prowazekii (strain
Madrid E) GN=rpoD PE=3 SV=1
Length = 635
Score = 434 bits (1117), Expect = e-120, Method: Compositional matrix adjust.
Identities = 249/536 (46%), Positives = 353/536 (65%), Gaps = 30/536 (5%)
Query: 915 FGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADK 974
G T DP+++Y+++MG V+LLTR+ E+EIAKRIEEG K M ++ P + ++ +
Sbjct: 99 IGSTDDPVRLYLKDMGGVDLLTRENEVEIAKRIEEGRKTMTASLCRSPIAMRCFIVWYED 158
Query: 975 ISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESL 1034
+ ++ + +++D ++ N ++ V + ++ +N E + E LS ++E ++
Sbjct: 159 LVNEKMLLRDLID--LEANML-HDEVHENDEEHNSETEVEEHEDNHLSMSRVETQILHNI 215
Query: 1035 I-KFSNISFHFDKM----RKAFE-----KEGYNSESYIKAHNNIS---NEMLGIRFTAKS 1081
I + ISF +++ +K +E K NS+ Y +NN+ NE+ I F +K
Sbjct: 216 IDRMKKISFICEELLIEAKKCYEESFEPKVLQNSKKY---NNNLELLINEVSEIHFNSKR 272
Query: 1082 IEKLCDTL----RNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETK 1137
E++ + R+ IN+ T K + K G+ R +F+ + + IN W + K
Sbjct: 273 TEEILGKMYGINRDLINKETAFLK-----LAEKYGVTRQNFLDEYIGSVINAAWKEKMLK 327
Query: 1138 IQH-DYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMT 1196
+ + ++ + I ++ +L ++++ L +ND + + + E + +AK++M
Sbjct: 328 NKKVAWKELITKESDYIDQMINELSVIESNTGLLVNDFKKLVNTIQKSERQTLQAKKDMI 387
Query: 1197 EANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 1256
EANLRLVISIAKKY +RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT
Sbjct: 388 EANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 447
Query: 1257 RSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKI 1316
R+IADQARTIRIPVHMIETINKI R SRQ+L E G EP + IA ++ MP +K+RK+MKI
Sbjct: 448 RAIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKVRKVMKI 507
Query: 1317 AKEPVSMESPVGDDED-SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVL 1375
AKEP+S+E+PVGDD D LGDFIED+N +AP DAA+ +++R V +L +LTPRE +VL
Sbjct: 508 AKEPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTPREERVL 567
Query: 1376 RMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEGKK 1431
RMRFGI M++DHTLEEVG+QF VTRERIRQIE+KALRKL+HP R KL F G K
Sbjct: 568 RMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKKLNSFRNGGK 623
Score = 421 bits (1081), Expect = e-116, Method: Compositional matrix adjust.
Identities = 241/520 (46%), Positives = 345/520 (66%), Gaps = 30/520 (5%)
Query: 125 FGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADK 184
G T DP+++Y+++MG V+LLTR+ E+EIAKRIEEG K M ++ P + ++ +
Sbjct: 99 IGSTDDPVRLYLKDMGGVDLLTRENEVEIAKRIEEGRKTMTASLCRSPIAMRCFIVWYED 158
Query: 185 ISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESL 244
+ ++ + +++D ++ N ++ V + ++ +N E + E LS ++E ++
Sbjct: 159 LVNEKMLLRDLID--LEANML-HDEVHENDEEHNSETEVEEHEDNHLSMSRVETQILHNI 215
Query: 245 I-KFSNISFHFDKM----RKAFE-----KEGYNSESYIKAHNNIS---NEMLGIRFTAKS 291
I + ISF +++ +K +E K NS+ Y +NN+ NE+ I F +K
Sbjct: 216 IDRMKKISFICEELLIEAKKCYEESFEPKVLQNSKKY---NNNLELLINEVSEIHFNSKR 272
Query: 292 IEKLCDTL----RNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETK 347
E++ + R+ IN+ T K + K G+ R +F+ + + IN W + K
Sbjct: 273 TEEILGKMYGINRDLINKETAFLK-----LAEKYGVTRQNFLDEYIGSVINAAWKEKMLK 327
Query: 348 IQH-DYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMT 406
+ + ++ + I ++ +L ++++ L +ND + + + E + +AK++M
Sbjct: 328 NKKVAWKELITKESDYIDQMINELSVIESNTGLLVNDFKKLVNTIQKSERQTLQAKKDMI 387
Query: 407 EANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 466
EANLRLVISIAKKY +RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT
Sbjct: 388 EANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 447
Query: 467 RSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKI 526
R+IADQARTIRIPVHMIETINKI R SRQ+L E G EP + IA ++ MP +K+RK+MKI
Sbjct: 448 RAIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKVRKVMKI 507
Query: 527 AKEPVSMESPVGDDED-SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVL 585
AKEP+S+E+PVGDD D LGDFIED+N +AP DAA+ +++R V +L +LTPRE +VL
Sbjct: 508 AKEPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTPREERVL 567
Query: 586 RMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
RMRFGI M++DHTLEEVG+QF VTRERIRQIE+KALRKL+
Sbjct: 568 RMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQ 607
>sp|Q68VQ5|RPOD_RICTY RNA polymerase sigma factor RpoD OS=Rickettsia typhi (strain ATCC
VR-144 / Wilmington) GN=rpoD PE=3 SV=1
Length = 635
Score = 433 bits (1113), Expect = e-120, Method: Compositional matrix adjust.
Identities = 248/536 (46%), Positives = 352/536 (65%), Gaps = 30/536 (5%)
Query: 915 FGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADK 974
G T DP+++Y+++MG V+LLTR+ E+EIAKRIEEG K M ++ P + ++ +
Sbjct: 99 IGSTDDPVRLYLKDMGGVDLLTRENEVEIAKRIEEGRKTMTASLCRSPVAMRCFIVWYED 158
Query: 975 ISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESL 1034
+ ++ + +++D ++ N ++ V + ++ +N E + E LS ++E ++
Sbjct: 159 LVNEKMLLRDLID--LEANML-HDEVHENDEEHNSETEVEEHEDNHLSMSRVETQILHNI 215
Query: 1035 I-KFSNISFHFDKM----RKAFE-----KEGYNSESYIKAHNNIS---NEMLGIRFTAKS 1081
I + ISF +++ +K +E K NS Y +NN+ +E+ I F +K
Sbjct: 216 IDRMKKISFICEELLIEAKKCYEESFDPKVLQNSRKY---NNNLELLIHEVSEIHFNSKR 272
Query: 1082 IEKLCDTL----RNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETK 1137
E++ + R+ IN+ T K + K G+ R +F+ + + IN W + K
Sbjct: 273 TEEILGKMYGINRDLINKETAFLK-----LAEKYGVTRQNFLDEYIGSVINAAWKEKMLK 327
Query: 1138 IQH-DYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMT 1196
+ + ++ + I ++ +L ++++ L +ND + + + E + +AK++M
Sbjct: 328 NKKVAWKELITKESDYIDQMINELSVIESNTGLLVNDFKKLVNTIQKSERQTLQAKKDMI 387
Query: 1197 EANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 1256
EANLRLVISIAKKY +RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT
Sbjct: 388 EANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 447
Query: 1257 RSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKI 1316
R+IADQARTIRIPVHMIETINKI R SRQ+L E G EP + IA ++ MP +K+RK+MKI
Sbjct: 448 RAIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKVRKVMKI 507
Query: 1317 AKEPVSMESPVGDDED-SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVL 1375
AKEP+S+E+PVGDD D LGDFIED+N +AP DAA+ +++R V +L +LTPRE +VL
Sbjct: 508 AKEPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTPREERVL 567
Query: 1376 RMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEGKK 1431
RMRFGI M++DHTLEEVG+QF VTRERIRQIE+KALRKL+HP R KL F G K
Sbjct: 568 RMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKKLNSFRNGGK 623
Score = 419 bits (1078), Expect = e-116, Method: Compositional matrix adjust.
Identities = 240/520 (46%), Positives = 344/520 (66%), Gaps = 30/520 (5%)
Query: 125 FGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADK 184
G T DP+++Y+++MG V+LLTR+ E+EIAKRIEEG K M ++ P + ++ +
Sbjct: 99 IGSTDDPVRLYLKDMGGVDLLTRENEVEIAKRIEEGRKTMTASLCRSPVAMRCFIVWYED 158
Query: 185 ISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESL 244
+ ++ + +++D ++ N ++ V + ++ +N E + E LS ++E ++
Sbjct: 159 LVNEKMLLRDLID--LEANML-HDEVHENDEEHNSETEVEEHEDNHLSMSRVETQILHNI 215
Query: 245 I-KFSNISFHFDKM----RKAFE-----KEGYNSESYIKAHNNIS---NEMLGIRFTAKS 291
I + ISF +++ +K +E K NS Y +NN+ +E+ I F +K
Sbjct: 216 IDRMKKISFICEELLIEAKKCYEESFDPKVLQNSRKY---NNNLELLIHEVSEIHFNSKR 272
Query: 292 IEKLCDTL----RNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETK 347
E++ + R+ IN+ T K + K G+ R +F+ + + IN W + K
Sbjct: 273 TEEILGKMYGINRDLINKETAFLK-----LAEKYGVTRQNFLDEYIGSVINAAWKEKMLK 327
Query: 348 IQH-DYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMT 406
+ + ++ + I ++ +L ++++ L +ND + + + E + +AK++M
Sbjct: 328 NKKVAWKELITKESDYIDQMINELSVIESNTGLLVNDFKKLVNTIQKSERQTLQAKKDMI 387
Query: 407 EANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 466
EANLRLVISIAKKY +RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT
Sbjct: 388 EANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 447
Query: 467 RSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKI 526
R+IADQARTIRIPVHMIETINKI R SRQ+L E G EP + IA ++ MP +K+RK+MKI
Sbjct: 448 RAIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKVRKVMKI 507
Query: 527 AKEPVSMESPVGDDED-SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVL 585
AKEP+S+E+PVGDD D LGDFIED+N +AP DAA+ +++R V +L +LTPRE +VL
Sbjct: 508 AKEPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTPREERVL 567
Query: 586 RMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
RMRFGI M++DHTLEEVG+QF VTRERIRQIE+KALRKL+
Sbjct: 568 RMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQ 607
>sp|Q92FZ8|RPOD_RICCN RNA polymerase sigma factor RpoD OS=Rickettsia conorii (strain ATCC
VR-613 / Malish 7) GN=rpoD PE=3 SV=1
Length = 634
Score = 431 bits (1109), Expect = e-119, Method: Compositional matrix adjust.
Identities = 248/536 (46%), Positives = 350/536 (65%), Gaps = 31/536 (5%)
Query: 915 FGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADK 974
G T DP+++Y+++MG V+LLTR+ E+EIAKRIEEG K MI ++ P + ++ +
Sbjct: 99 IGTTDDPVRLYLKDMGGVDLLTREHEVEIAKRIEEGHKTMIASLCRSPIAMRCFIVWYED 158
Query: 975 ISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESL 1034
+ ++ + +++D ++ N ++ + ++ N+ E E LS ++E ++
Sbjct: 159 LVNEKMLLRDLID--LEANML-HDETPENDEENSSETEGEEHEDNHLSMSRVETQILPNI 215
Query: 1035 I-KFSNISFHFDKM----RKAFEKEG-----YNSESYIKAHNNIS---NEMLGIRFTAKS 1081
I + I+F +++ +K +EK NS+ Y NN+ NE+ I F +K
Sbjct: 216 IERMKKIAFICEELLIEAKKCYEKSFEPKVLQNSKKY----NNLELLINEVSEIHFNSKR 271
Query: 1082 IEKLCDTL----RNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETK 1137
E++ + R+ IN+ T K + K G+ R +F+ + + IN W + K
Sbjct: 272 TEEILGKMYGINRDLINKETAFLK-----LAEKYGVTRQNFLDEYIGSVINAAWKEKMLK 326
Query: 1138 IQH-DYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMT 1196
+ + ++ + I ++ +L +++ L +ND + + + E + +AK++M
Sbjct: 327 NKKVAWKELMTKESDYIDQMIAELSVIESKTGLLVNDFKKLVNTIQKSERQTLQAKKDMI 386
Query: 1197 EANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 1256
EANLRLVISIAKKY +RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT
Sbjct: 387 EANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 446
Query: 1257 RSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKI 1316
R+IADQARTIRIPVHMIETINKI R SRQ+L E G EP + IA ++ MP +K+RK+MKI
Sbjct: 447 RAIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKVRKVMKI 506
Query: 1317 AKEPVSMESPVGDDED-SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVL 1375
AKEP+S+E+PVGDD D LGDFIED+N +AP DAA+ +++R V +L +LTPRE +VL
Sbjct: 507 AKEPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTPREERVL 566
Query: 1376 RMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEGKK 1431
RMRFGI M++DHTLEEVG+QF VTRERIRQIE+KALRKL+HP R KL F G K
Sbjct: 567 RMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKKLNSFRSGGK 622
Score = 417 bits (1073), Expect = e-115, Method: Compositional matrix adjust.
Identities = 240/520 (46%), Positives = 342/520 (65%), Gaps = 31/520 (5%)
Query: 125 FGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADK 184
G T DP+++Y+++MG V+LLTR+ E+EIAKRIEEG K MI ++ P + ++ +
Sbjct: 99 IGTTDDPVRLYLKDMGGVDLLTREHEVEIAKRIEEGHKTMIASLCRSPIAMRCFIVWYED 158
Query: 185 ISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESL 244
+ ++ + +++D ++ N ++ + ++ N+ E E LS ++E ++
Sbjct: 159 LVNEKMLLRDLID--LEANML-HDETPENDEENSSETEGEEHEDNHLSMSRVETQILPNI 215
Query: 245 I-KFSNISFHFDKM----RKAFEKEG-----YNSESYIKAHNNIS---NEMLGIRFTAKS 291
I + I+F +++ +K +EK NS+ Y NN+ NE+ I F +K
Sbjct: 216 IERMKKIAFICEELLIEAKKCYEKSFEPKVLQNSKKY----NNLELLINEVSEIHFNSKR 271
Query: 292 IEKLCDTL----RNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETK 347
E++ + R+ IN+ T K + K G+ R +F+ + + IN W + K
Sbjct: 272 TEEILGKMYGINRDLINKETAFLK-----LAEKYGVTRQNFLDEYIGSVINAAWKEKMLK 326
Query: 348 IQH-DYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMT 406
+ + ++ + I ++ +L +++ L +ND + + + E + +AK++M
Sbjct: 327 NKKVAWKELMTKESDYIDQMIAELSVIESKTGLLVNDFKKLVNTIQKSERQTLQAKKDMI 386
Query: 407 EANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 466
EANLRLVISIAKKY +RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT
Sbjct: 387 EANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 446
Query: 467 RSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKI 526
R+IADQARTIRIPVHMIETINKI R SRQ+L E G EP + IA ++ MP +K+RK+MKI
Sbjct: 447 RAIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKVRKVMKI 506
Query: 527 AKEPVSMESPVGDDED-SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVL 585
AKEP+S+E+PVGDD D LGDFIED+N +AP DAA+ +++R V +L +LTPRE +VL
Sbjct: 507 AKEPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTPREERVL 566
Query: 586 RMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
RMRFGI M++DHTLEEVG+QF VTRERIRQIE+KALRKL+
Sbjct: 567 RMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQ 606
>sp|Q4UJT1|RPOD_RICFE RNA polymerase sigma factor RpoD OS=Rickettsia felis (strain ATCC
VR-1525 / URRWXCal2) GN=rpoD PE=3 SV=1
Length = 635
Score = 428 bits (1100), Expect = e-118, Method: Compositional matrix adjust.
Identities = 246/536 (45%), Positives = 350/536 (65%), Gaps = 30/536 (5%)
Query: 915 FGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADK 974
G T DP+++Y+++MG V+LLTR+ E+EIAKRIEEG K M ++ P + ++ +
Sbjct: 99 IGTTDDPVRLYLKDMGGVDLLTRENEVEIAKRIEEGRKTMTASLCKSPIAMRCFIVWYED 158
Query: 975 ISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESL 1034
+ ++ + +++D ++ N ++ + ++ ++ E E LS ++E ++
Sbjct: 159 LVNEKMLLRDLID--LEANML-HDETPENDEEHSSETEGEEHEDNHLSMSRVETQILPNI 215
Query: 1035 I-KFSNISFHFDKM----RKAFEKEG-----YNSESYIKAHNNIS---NEMLGIRFTAKS 1081
I + ISF +++ +K +EK NS+ Y +NN+ NE+ I F +K
Sbjct: 216 IERMKKISFICEELLIEAKKCYEKSFEPKVLQNSKKY---NNNLELLINEVSEIHFNSKR 272
Query: 1082 IEKLCDTL----RNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETK 1137
E++ + R+ IN+ K + K G+ R +F+ + + IN W + K
Sbjct: 273 TEEILGKMYGINRDLINKEIAFLK-----LAEKYGVTRQNFLDEYIGSVINAAWKEKMLK 327
Query: 1138 IQH-DYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMT 1196
+ + ++ + I ++ +L ++++ L +ND + + + E + +AK++M
Sbjct: 328 NKKVAWKELITKESDYIDQMIAELSVIESNTGLLVNDFKKLVNTIQKSERQTLQAKKDMI 387
Query: 1197 EANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 1256
EANLRLVISIAKKY +RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT
Sbjct: 388 EANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 447
Query: 1257 RSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKI 1316
R+IADQARTIRIPVHMIETINKI R SRQ+L E G EP + IA ++ MP +K+RK+MKI
Sbjct: 448 RAIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKVRKVMKI 507
Query: 1317 AKEPVSMESPVGDDED-SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVL 1375
AKEP+S+E+PVGDD D LGDFIED+N +AP DAA+ +++R V +L +LTPRE +VL
Sbjct: 508 AKEPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTPREERVL 567
Query: 1376 RMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEGKK 1431
RMRFGI M++DHTLEEVG+QF VTRERIRQIE+KALRKL+HP R KL F G K
Sbjct: 568 RMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQHPIRSKKLNSFRSGGK 623
Score = 414 bits (1064), Expect = e-114, Method: Compositional matrix adjust.
Identities = 238/520 (45%), Positives = 342/520 (65%), Gaps = 30/520 (5%)
Query: 125 FGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADK 184
G T DP+++Y+++MG V+LLTR+ E+EIAKRIEEG K M ++ P + ++ +
Sbjct: 99 IGTTDDPVRLYLKDMGGVDLLTRENEVEIAKRIEEGRKTMTASLCKSPIAMRCFIVWYED 158
Query: 185 ISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEKILIESSSADLSTEQLEKLKYESL 244
+ ++ + +++D ++ N ++ + ++ ++ E E LS ++E ++
Sbjct: 159 LVNEKMLLRDLID--LEANML-HDETPENDEEHSSETEGEEHEDNHLSMSRVETQILPNI 215
Query: 245 I-KFSNISFHFDKM----RKAFEKEG-----YNSESYIKAHNNIS---NEMLGIRFTAKS 291
I + ISF +++ +K +EK NS+ Y +NN+ NE+ I F +K
Sbjct: 216 IERMKKISFICEELLIEAKKCYEKSFEPKVLQNSKKY---NNNLELLINEVSEIHFNSKR 272
Query: 292 IEKLCDTL----RNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWVDNETK 347
E++ + R+ IN+ K + K G+ R +F+ + + IN W + K
Sbjct: 273 TEEILGKMYGINRDLINKEIAFLK-----LAEKYGVTRQNFLDEYIGSVINAAWKEKMLK 327
Query: 348 IQH-DYNLILCRNIPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKAKREMT 406
+ + ++ + I ++ +L ++++ L +ND + + + E + +AK++M
Sbjct: 328 NKKVAWKELITKESDYIDQMIAELSVIESNTGLLVNDFKKLVNTIQKSERQTLQAKKDMI 387
Query: 407 EANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 466
EANLRLVISIAKKY +RGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT
Sbjct: 388 EANLRLVISIAKKYANRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAIT 447
Query: 467 RSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKI 526
R+IADQARTIRIPVHMIETINKI R SRQ+L E G EP + IA ++ MP +K+RK+MKI
Sbjct: 448 RAIADQARTIRIPVHMIETINKILRTSRQMLNELGYEPTATEIANRLSMPLDKVRKVMKI 507
Query: 527 AKEPVSMESPVGDDED-SHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVL 585
AKEP+S+E+PVGDD D LGDFIED+N +AP DAA+ +++R V +L +LTPRE +VL
Sbjct: 508 AKEPISLENPVGDDSDGGQLGDFIEDKNAVAPIDAAIQSNLREVTTRVLATLTPREERVL 567
Query: 586 RMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
RMRFGI M++DHTLEEVG+QF VTRERIRQIE+KALRKL+
Sbjct: 568 RMRFGIGMNTDHTLEEVGQQFKVTRERIRQIESKALRKLQ 607
>sp|P59117|RPOD_LEPIN RNA polymerase sigma factor RpoD OS=Leptospira interrogans serogroup
Icterohaemorrhagiae serovar Lai (strain 56601) GN=rpoD
PE=3 SV=1
Length = 585
Score = 379 bits (973), Expect = e-103, Method: Compositional matrix adjust.
Identities = 234/598 (39%), Positives = 365/598 (61%), Gaps = 29/598 (4%)
Query: 836 LIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNIT 895
+I LGK G +++ +IN+ LP+ I++ E I+ M I + E S +
Sbjct: 13 IISLGKANGEVSYDDINEILPDKILNSEKIDDFFTLLHEMGIEIVEEYTRNTLEPASTLV 72
Query: 896 SDDDVEEA---TEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLK 952
DD + A E++ ST S+ DPIK+Y+RE+G V L++ + E+ +AKRIE+G K
Sbjct: 73 PKDDSKPARKKKESSASTSGSE-----DPIKLYLREIGKVSLISGETEVFLAKRIEKGEK 127
Query: 953 DMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEKI 1012
+ I S + KI +IK+ +++ +DK ++ N + + E++
Sbjct: 128 IIEETILSSSILRANYIKLLPKIRSKKIKVYDLIR--VDKMYALN-----AEEAHKLEEL 180
Query: 1013 LIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEM 1072
++ L ++ EK+ E++ K S K K F KE ++ + I HN I
Sbjct: 181 FFKNI---LVIQEQEKVLQEAVSKIRKYS-ETSKKYKEF-KEKIDASTEI-IHNAIRE-- 232
Query: 1073 LGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWV 1132
LG+ + K I+K+ +++ + ++ +I++ L+I + G + IK F I N
Sbjct: 233 LGV--SQKEIQKISQKIKSMVFRIKEIDRHFLKIKA-QYGQD-VRDIKAF-NRFIEKNEK 287
Query: 1133 DNETKIQHDYNLILCRN-IPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKA 1191
++ +++ N+ R I I+ ++KL ++ + + +++D K+I GE + +A
Sbjct: 288 LDDIEVKMGVNIDEVREVIKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREISQA 347
Query: 1192 KREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 1251
K+E+ +ANLRLV+SIAK+Y +RG+ F DLIQEGNIGL+KAVDKFEY++GYKFSTYATWWI
Sbjct: 348 KKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWI 407
Query: 1252 RQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIR 1311
RQAITR+I+DQARTIR+PVHMIE +NK+ R +R +QE G +P+ IA ++ P +K++
Sbjct: 408 RQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVK 467
Query: 1312 KIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRE 1371
+ +A+EP+S+E PVG +EDS LGDFI D + P +AA ++ + ++ +L++L RE
Sbjct: 468 MVKNVAREPISLEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPARE 527
Query: 1372 SKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429
KV+RMRFG++ TLEEVG QF VTRERIRQIEAKALR+LRHPSR KLK +++G
Sbjct: 528 QKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDYIDG 585
Score = 361 bits (927), Expect = 2e-98, Method: Compositional matrix adjust.
Identities = 226/584 (38%), Positives = 354/584 (60%), Gaps = 29/584 (4%)
Query: 46 LIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNIT 105
+I LGK G +++ +IN+ LP+ I++ E I+ M I + E S +
Sbjct: 13 IISLGKANGEVSYDDINEILPDKILNSEKIDDFFTLLHEMGIEIVEEYTRNTLEPASTLV 72
Query: 106 SDDDVEEA---TEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLK 162
DD + A E++ ST S+ DPIK+Y+RE+G V L++ + E+ +AKRIE+G K
Sbjct: 73 PKDDSKPARKKKESSASTSGSE-----DPIKLYLREIGKVSLISGETEVFLAKRIEKGEK 127
Query: 163 DMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEKI 222
+ I S + KI +IK+ +++ +DK ++ N + + E++
Sbjct: 128 IIEETILSSSILRANYIKLLPKIRSKKIKVYDLIR--VDKMYALN-----AEEAHKLEEL 180
Query: 223 LIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEM 282
++ L ++ EK+ E++ K S K K F KE ++ + I HN I
Sbjct: 181 FFKNI---LVIQEQEKVLQEAVSKIRKYS-ETSKKYKEF-KEKIDASTEI-IHNAIRE-- 232
Query: 283 LGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWV 342
LG+ + K I+K+ +++ + ++ +I++ L+I + G + IK F I N
Sbjct: 233 LGV--SQKEIQKISQKIKSMVFRIKEIDRHFLKIKA-QYGQD-VRDIKAF-NRFIEKNEK 287
Query: 343 DNETKIQHDYNLILCRN-IPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKA 401
++ +++ N+ R I I+ ++KL ++ + + +++D K+I GE + +A
Sbjct: 288 LDDIEVKMGVNIDEVREVIKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREISQA 347
Query: 402 KREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 461
K+E+ +ANLRLV+SIAK+Y +RG+ F DLIQEGNIGL+KAVDKFEY++GYKFSTYATWWI
Sbjct: 348 KKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWI 407
Query: 462 RQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIR 521
RQAITR+I+DQARTIR+PVHMIE +NK+ R +R +QE G +P+ IA ++ P +K++
Sbjct: 408 RQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVK 467
Query: 522 KIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRE 581
+ +A+EP+S+E PVG +EDS LGDFI D + P +AA ++ + ++ +L++L RE
Sbjct: 468 MVKNVAREPISLEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPARE 527
Query: 582 SKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
KV+RMRFG++ TLEEVG QF VTRERIRQIEAKALR+LR
Sbjct: 528 QKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEAKALRRLR 571
>sp|P61540|RPOD_LEPIC RNA polymerase sigma factor RpoD OS=Leptospira interrogans serogroup
Icterohaemorrhagiae serovar copenhageni (strain Fiocruz
L1-130) GN=rpoD PE=3 SV=1
Length = 585
Score = 379 bits (973), Expect = e-103, Method: Compositional matrix adjust.
Identities = 234/598 (39%), Positives = 365/598 (61%), Gaps = 29/598 (4%)
Query: 836 LIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNIT 895
+I LGK G +++ +IN+ LP+ I++ E I+ M I + E S +
Sbjct: 13 IISLGKANGEVSYDDINEILPDKILNSEKIDDFFTLLHEMGIEIVEEYTRNTLEPASTLV 72
Query: 896 SDDDVEEA---TEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLK 952
DD + A E++ ST S+ DPIK+Y+RE+G V L++ + E+ +AKRIE+G K
Sbjct: 73 PKDDSKPARKKKESSASTSGSE-----DPIKLYLREIGKVSLISGETEVFLAKRIEKGEK 127
Query: 953 DMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEKI 1012
+ I S + KI +IK+ +++ +DK ++ N + + E++
Sbjct: 128 IIEETILSSSILRANYIKLLPKIRSKKIKVYDLIR--VDKMYALN-----AEEAHKLEEL 180
Query: 1013 LIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEM 1072
++ L ++ EK+ E++ K S K K F KE ++ + I HN I
Sbjct: 181 FFKNI---LVIQEQEKVLQEAVSKIRKYS-ETSKKYKEF-KEKIDASTEI-IHNAIRE-- 232
Query: 1073 LGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWV 1132
LG+ + K I+K+ +++ + ++ +I++ L+I + G + IK F I N
Sbjct: 233 LGV--SQKEIQKISQKIKSMVFRIKEIDRHFLKIKA-QYGQD-VRDIKAF-NRFIEKNEK 287
Query: 1133 DNETKIQHDYNLILCRN-IPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKA 1191
++ +++ N+ R I I+ ++KL ++ + + +++D K+I GE + +A
Sbjct: 288 LDDIEVKMGVNIDEVREVIKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREISQA 347
Query: 1192 KREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 1251
K+E+ +ANLRLV+SIAK+Y +RG+ F DLIQEGNIGL+KAVDKFEY++GYKFSTYATWWI
Sbjct: 348 KKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWI 407
Query: 1252 RQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIR 1311
RQAITR+I+DQARTIR+PVHMIE +NK+ R +R +QE G +P+ IA ++ P +K++
Sbjct: 408 RQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVK 467
Query: 1312 KIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRE 1371
+ +A+EP+S+E PVG +EDS LGDFI D + P +AA ++ + ++ +L++L RE
Sbjct: 468 MVKNVAREPISLEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPARE 527
Query: 1372 SKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLEG 1429
KV+RMRFG++ TLEEVG QF VTRERIRQIEAKALR+LRHPSR KLK +++G
Sbjct: 528 QKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEAKALRRLRHPSRSKKLKDYIDG 585
Score = 361 bits (927), Expect = 2e-98, Method: Compositional matrix adjust.
Identities = 226/584 (38%), Positives = 354/584 (60%), Gaps = 29/584 (4%)
Query: 46 LIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNIT 105
+I LGK G +++ +IN+ LP+ I++ E I+ M I + E S +
Sbjct: 13 IISLGKANGEVSYDDINEILPDKILNSEKIDDFFTLLHEMGIEIVEEYTRNTLEPASTLV 72
Query: 106 SDDDVEEA---TEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEGLK 162
DD + A E++ ST S+ DPIK+Y+RE+G V L++ + E+ +AKRIE+G K
Sbjct: 73 PKDDSKPARKKKESSASTSGSE-----DPIKLYLREIGKVSLISGETEVFLAKRIEKGEK 127
Query: 163 DMIHAISSCPTTIMEILIAADKISKNEIKIDEIVDGLIDKNFSSNNRVIKGNKNNNEEKI 222
+ I S + KI +IK+ +++ +DK ++ N + + E++
Sbjct: 128 IIEETILSSSILRANYIKLLPKIRSKKIKVYDLIR--VDKMYALN-----AEEAHKLEEL 180
Query: 223 LIESSSADLSTEQLEKLKYESLIKFSNISFHFDKMRKAFEKEGYNSESYIKAHNNISNEM 282
++ L ++ EK+ E++ K S K K F KE ++ + I HN I
Sbjct: 181 FFKNI---LVIQEQEKVLQEAVSKIRKYS-ETSKKYKEF-KEKIDASTEI-IHNAIRE-- 232
Query: 283 LGIRFTAKSIEKLCDTLRNQINQVTQIEKQILEIVVNKCGMPRLHFIKVFPENEINLNWV 342
LG+ + K I+K+ +++ + ++ +I++ L+I + G + IK F I N
Sbjct: 233 LGV--SQKEIQKISQKIKSMVFRIKEIDRHFLKIKA-QYGQD-VRDIKAF-NRFIEKNEK 287
Query: 343 DNETKIQHDYNLILCRN-IPSIKELQQKLINLQTDIVLPLNDLRDINRKMIAGEMKARKA 401
++ +++ N+ R I I+ ++KL ++ + + +++D K+I GE + +A
Sbjct: 288 LDDIEVKMGVNIDEVREVIKDIRNNERKLRRMEQEAGSTVQEIKDWGEKIIKGEREISQA 347
Query: 402 KREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWI 461
K+E+ +ANLRLV+SIAK+Y +RG+ F DLIQEGNIGL+KAVDKFEY++GYKFSTYATWWI
Sbjct: 348 KKELVKANLRLVVSIAKRYANRGMHFFDLIQEGNIGLIKAVDKFEYKKGYKFSTYATWWI 407
Query: 462 RQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIR 521
RQAITR+I+DQARTIR+PVHMIE +NK+ R +R +QE G +P+ IA ++ P +K++
Sbjct: 408 RQAITRAISDQARTIRVPVHMIEQVNKVIRETRLFIQEFGRDPNNEEIAERLGWPVQKVK 467
Query: 522 KIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRE 581
+ +A+EP+S+E PVG +EDS LGDFI D + P +AA ++ + ++ +L++L RE
Sbjct: 468 MVKNVAREPISLEIPVGSEEDSELGDFIPDTEVETPVNAAASSILAEQIRQVLHTLPARE 527
Query: 582 SKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
KV+RMRFG++ TLEEVG QF VTRERIRQIEAKALR+LR
Sbjct: 528 QKVIRMRFGLDDGYPQTLEEVGYQFKVTRERIRQIEAKALRRLR 571
>sp|P43344|RPOD_SERMA RNA polymerase sigma factor RpoD (Fragment) OS=Serratia marcescens
GN=rpoD PE=3 SV=1
Length = 215
Score = 355 bits (911), Expect = 2e-96, Method: Compositional matrix adjust.
Identities = 168/214 (78%), Positives = 189/214 (88%)
Query: 1215 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 1274
LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE
Sbjct: 1 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 60
Query: 1275 TINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSH 1334
TINK++RISRQ+LQE G EP P +A +M MPE+KIRK++KIAKEP+SME+P+GDDEDSH
Sbjct: 61 TINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSH 120
Query: 1335 LGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGK 1394
LGDFIED + P D+A + S+RS D+L LT RE KVLRMRFGI+M++DHTLEEVGK
Sbjct: 121 LGDFIEDTTLELPLDSATSESLRSATHDVLAGLTAREXKVLRMRFGIDMNTDHTLEEVGK 180
Query: 1395 QFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
QFDVTRERIRQIEAKALRKLRHPSR L+ FL+
Sbjct: 181 QFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 214
Score = 341 bits (875), Expect = 2e-92, Method: Compositional matrix adjust.
Identities = 161/201 (80%), Positives = 180/201 (89%)
Query: 425 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 484
LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE
Sbjct: 1 LQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIE 60
Query: 485 TINKISRISRQILQETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSH 544
TINK++RISRQ+LQE G EP P +A +M MPE+KIRK++KIAKEP+SME+P+GDDEDSH
Sbjct: 61 TINKLNRISRQMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSH 120
Query: 545 LGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGK 604
LGDFIED + P D+A + S+RS D+L LT RE KVLRMRFGI+M++DHTLEEVGK
Sbjct: 121 LGDFIEDTTLELPLDSATSESLRSATHDVLAGLTAREXKVLRMRFGIDMNTDHTLEEVGK 180
Query: 605 QFDVTRERIRQIEAKALRKLR 625
QFDVTRERIRQIEAKALRKLR
Sbjct: 181 QFDVTRERIRQIEAKALRKLR 201
>sp|P52329|RPOD_ENTFA RNA polymerase sigma factor RpoD OS=Enterococcus faecalis (strain
ATCC 700802 / V583) GN=rpoD PE=3 SV=2
Length = 368
Score = 346 bits (888), Expect = 8e-94, Method: Compositional matrix adjust.
Identities = 158/240 (65%), Positives = 204/240 (85%)
Query: 1189 RKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 1248
++AK+ + EANLRLV+SIAK+Y RG+QFLDLIQEGN+GLMKAV+KF+YR+G+KFSTYAT
Sbjct: 129 QEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYAT 188
Query: 1249 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEE 1308
WWIRQAITR+IADQARTIRIPVHM+ETINK+ RI RQ+LQ+ G EP P I +M++P E
Sbjct: 189 WWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTE 248
Query: 1309 KIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLT 1368
K+R+I+KIA+EPVS+E+P+G+++DSHLGDFIED++ +P++ A ++ ++D+L++LT
Sbjct: 249 KVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAEHAAYELLKEQLEDVLDTLT 308
Query: 1369 PRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
RE VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLRHPSR +LK FLE
Sbjct: 309 DREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKQLKDFLE 368
Score = 328 bits (841), Expect = 2e-88, Method: Compositional matrix adjust.
Identities = 149/227 (65%), Positives = 194/227 (85%)
Query: 399 RKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYAT 458
++AK+ + EANLRLV+SIAK+Y RG+QFLDLIQEGN+GLMKAV+KF+YR+G+KFSTYAT
Sbjct: 129 QEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVEKFDYRKGFKFSTYAT 188
Query: 459 WWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEE 518
WWIRQAITR+IADQARTIRIPVHM+ETINK+ RI RQ+LQ+ G EP P I +M++P E
Sbjct: 189 WWIRQAITRAIADQARTIRIPVHMVETINKLIRIQRQLLQDLGREPTPEEIGAEMDLPTE 248
Query: 519 KIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLT 578
K+R+I+KIA+EPVS+E+P+G+++DSHLGDFIED++ +P++ A ++ ++D+L++LT
Sbjct: 249 KVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPAEHAAYELLKEQLEDVLDTLT 308
Query: 579 PRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
RE VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLR
Sbjct: 309 DREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 355
Score = 49.3 bits (116), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 36/117 (30%), Positives = 60/117 (51%), Gaps = 7/117 (5%)
Query: 46 LIKLGKERGYLTFSEI-NDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNI 104
IK K +G + + ++ N +D E +E +I+ ISV + D L
Sbjct: 16 FIKENKPKGTVVYDDLANQLATPYTLDAEAMEKLIQKVEDAGISVVDENGDPSEHSLKK- 74
Query: 105 TSDDDVEEATEAALSTVDSDFG-RTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEG 160
D +EA +A + + G + DP++MY++E+G V+LLT E+E+A +IEEG
Sbjct: 75 ----DEKEAEKAQAEDLSAPTGVKINDPVRMYLKEIGRVQLLTAAEEVELALKIEEG 127
Score = 49.3 bits (116), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 36/117 (30%), Positives = 60/117 (51%), Gaps = 7/117 (5%)
Query: 836 LIKLGKERGYLTFSEI-NDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNI 894
IK K +G + + ++ N +D E +E +I+ ISV + D L
Sbjct: 16 FIKENKPKGTVVYDDLANQLATPYTLDAEAMEKLIQKVEDAGISVVDENGDPSEHSLKK- 74
Query: 895 TSDDDVEEATEAALSTVDSDFG-RTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEG 950
D +EA +A + + G + DP++MY++E+G V+LLT E+E+A +IEEG
Sbjct: 75 ----DEKEAEKAQAEDLSAPTGVKINDPVRMYLKEIGRVQLLTAAEEVELALKIEEG 127
>sp|P52328|RPSD2_BACSP RNA polymerase sigma factor RpoD OS=Bacillus sp. GN=sigA PE=3 SV=1
Length = 377
Score = 344 bits (883), Expect = 2e-93, Method: Compositional matrix adjust.
Identities = 164/261 (62%), Positives = 214/261 (81%), Gaps = 3/261 (1%)
Query: 1168 VLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIG 1227
+L +D ++ ++++ G+ +AKR + EANLRLV+SIAK+Y RG+ FLDLIQEGN+G
Sbjct: 120 LLSADDEVELAKRIMNGD---EEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMG 176
Query: 1228 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQIL 1287
L+KAV+KF++ +G+KFSTYATWWIRQAITR+IADQARTIRIPVHM+ETINK+ R+SRQ+L
Sbjct: 177 LIKAVEKFDHNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLL 236
Query: 1288 QETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAP 1347
QE G EP P IA +ME+ EK+R+IMKIA+EPVS+E+P+G+++DSHLGDFIED+ L P
Sbjct: 237 QELGREPTPEEIAAEMELSVEKVREIMKIAQEPVSLETPIGEEDDSHLGDFIEDQEALTP 296
Query: 1348 SDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIE 1407
+DAA ++ ++D+L++LT RE VLR+RFG++ TLEEVGK F VTRERIRQIE
Sbjct: 297 ADAAAYELLKEQLEDVLDTLTEREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 356
Query: 1408 AKALRKLRHPSRYYKLKIFLE 1428
AKALRKLRHPSR +LK FLE
Sbjct: 357 AKALRKLRHPSRSKRLKDFLE 377
Score = 327 bits (837), Expect = 6e-88, Method: Compositional matrix adjust.
Identities = 155/248 (62%), Positives = 204/248 (82%), Gaps = 3/248 (1%)
Query: 378 VLPLNDLRDINRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIG 437
+L +D ++ ++++ G+ +AKR + EANLRLV+SIAK+Y RG+ FLDLIQEGN+G
Sbjct: 120 LLSADDEVELAKRIMNGD---EEAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMG 176
Query: 438 LMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQIL 497
L+KAV+KF++ +G+KFSTYATWWIRQAITR+IADQARTIRIPVHM+ETINK+ R+SRQ+L
Sbjct: 177 LIKAVEKFDHNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVSRQLL 236
Query: 498 QETGSEPDPSVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAP 557
QE G EP P IA +ME+ EK+R+IMKIA+EPVS+E+P+G+++DSHLGDFIED+ L P
Sbjct: 237 QELGREPTPEEIAAEMELSVEKVREIMKIAQEPVSLETPIGEEDDSHLGDFIEDQEALTP 296
Query: 558 SDAALNASMRSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIE 617
+DAA ++ ++D+L++LT RE VLR+RFG++ TLEEVGK F VTRERIRQIE
Sbjct: 297 ADAAAYELLKEQLEDVLDTLTEREENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIE 356
Query: 618 AKALRKLR 625
AKALRKLR
Sbjct: 357 AKALRKLR 364
Score = 42.4 bits (98), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 42/69 (60%), Gaps = 1/69 (1%)
Query: 130 DPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNE 189
DP++MY++E+G V LL+ D E+E+AKRI G ++ ++ ++ + IA + +
Sbjct: 106 DPVRMYLKEIGRVPLLSADDEVELAKRIMNGDEEAKRRLAEANLRLV-VSIAKRYVGRGM 164
Query: 190 IKIDEIVDG 198
+ +D I +G
Sbjct: 165 LFLDLIQEG 173
Score = 42.4 bits (98), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 42/69 (60%), Gaps = 1/69 (1%)
Query: 920 DPIKMYMREMGSVELLTRDGEIEIAKRIEEGLKDMIHAISSCPTTIMEILIAADKISKNE 979
DP++MY++E+G V LL+ D E+E+AKRI G ++ ++ ++ + IA + +
Sbjct: 106 DPVRMYLKEIGRVPLLSADDEVELAKRIMNGDEEAKRRLAEANLRLV-VSIAKRYVGRGM 164
Query: 980 IKIDEIVDG 988
+ +D I +G
Sbjct: 165 LFLDLIQEG 173
>sp|O66381|RPOD_BACHD RNA polymerase sigma factor RpoD OS=Bacillus halodurans (strain ATCC
BAA-125 / DSM 18197 / FERM 7344 / JCM 9153 / C-125)
GN=sigA PE=3 SV=2
Length = 372
Score = 343 bits (881), Expect = 5e-93, Method: Compositional matrix adjust.
Identities = 159/239 (66%), Positives = 203/239 (84%)
Query: 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 1249
+AKR + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF+Y +G+KFSTYATW
Sbjct: 134 EAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYNKGFKFSTYATW 193
Query: 1250 WIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEK 1309
WIRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G EP P +A +M++ EK
Sbjct: 194 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEVAEEMDLTPEK 253
Query: 1310 IRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTP 1369
+R+I+KIA+EPVS+E+P+G+++DSHLGDFIED++ LAPSDAA ++ ++D+L++LT
Sbjct: 254 VREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDALAPSDAAAYELLKEQLEDVLDTLTD 313
Query: 1370 RESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
RE VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLRHPSR +LK FLE
Sbjct: 314 REENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 372
Score = 326 bits (835), Expect = 1e-87, Method: Compositional matrix adjust.
Identities = 150/226 (66%), Positives = 193/226 (85%)
Query: 400 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 459
+AKR + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF+Y +G+KFSTYATW
Sbjct: 134 EAKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDYNKGFKFSTYATW 193
Query: 460 WIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEK 519
WIRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G EP P +A +M++ EK
Sbjct: 194 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPSPEEVAEEMDLTPEK 253
Query: 520 IRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTP 579
+R+I+KIA+EPVS+E+P+G+++DSHLGDFIED++ LAPSDAA ++ ++D+L++LT
Sbjct: 254 VREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDALAPSDAAAYELLKEQLEDVLDTLTD 313
Query: 580 RESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
RE VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLR
Sbjct: 314 REENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 359
Score = 53.9 bits (128), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 42/117 (35%), Positives = 65/117 (55%), Gaps = 10/117 (8%)
Query: 46 LIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNIT 105
L++LGK+RG LT++EI + L D + ++ F Y+ E + D E +
Sbjct: 23 LVELGKKRGVLTYAEITEKLAPYDQDSDQMDEF---FEYLGEQGVEILNDNE-----EVP 74
Query: 106 SDDDVE-EATEAALSTVDSDFG-RTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEG 160
S VE E E L+ + G + DP++MY++E+G V LLT + EIE+A RIE+G
Sbjct: 75 SLQQVEKEEEEFDLNDLSVPPGVKINDPVRMYLKEIGRVPLLTAEEEIELATRIEQG 131
Score = 53.9 bits (128), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 42/117 (35%), Positives = 65/117 (55%), Gaps = 10/117 (8%)
Query: 836 LIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNIT 895
L++LGK+RG LT++EI + L D + ++ F Y+ E + D E +
Sbjct: 23 LVELGKKRGVLTYAEITEKLAPYDQDSDQMDEF---FEYLGEQGVEILNDNE-----EVP 74
Query: 896 SDDDVE-EATEAALSTVDSDFG-RTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEG 950
S VE E E L+ + G + DP++MY++E+G V LLT + EIE+A RIE+G
Sbjct: 75 SLQQVEKEEEEFDLNDLSVPPGVKINDPVRMYLKEIGRVPLLTAEEEIELATRIEQG 131
>sp|P06224|RPOD_BACSU RNA polymerase sigma factor RpoD OS=Bacillus subtilis (strain 168)
GN=sigA PE=1 SV=2
Length = 371
Score = 342 bits (877), Expect = 1e-92, Method: Compositional matrix adjust.
Identities = 159/239 (66%), Positives = 200/239 (83%)
Query: 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 1249
++KR + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GLMKAV+KF+YR+GYKFSTYATW
Sbjct: 133 ESKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGYKFSTYATW 192
Query: 1250 WIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEK 1309
WIRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G EP P IA M++ EK
Sbjct: 193 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPEEIAEDMDLTPEK 252
Query: 1310 IRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTP 1369
+R+I+KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT
Sbjct: 253 VREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYELLKEQLEDVLDTLTD 312
Query: 1370 RESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
RE VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLRHPSR +LK FLE
Sbjct: 313 REENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFLE 371
Score = 324 bits (831), Expect = 3e-87, Method: Compositional matrix adjust.
Identities = 150/226 (66%), Positives = 190/226 (84%)
Query: 400 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 459
++KR + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GLMKAV+KF+YR+GYKFSTYATW
Sbjct: 133 ESKRRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFDYRKGYKFSTYATW 192
Query: 460 WIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEK 519
WIRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G EP P IA M++ EK
Sbjct: 193 WIRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGREPTPEEIAEDMDLTPEK 252
Query: 520 IRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTP 579
+R+I+KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT
Sbjct: 253 VREILKIAQEPVSLETPIGEEDDSHLGDFIEDQEATSPSDHAAYELLKEQLEDVLDTLTD 312
Query: 580 RESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
RE VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLR
Sbjct: 313 REENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 358
Score = 41.2 bits (95), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 35/116 (30%), Positives = 61/116 (52%), Gaps = 6/116 (5%)
Query: 46 LIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNIT 105
L + GK+RG LT+ EI + + I+ + ++ + + ++ E + + E NI
Sbjct: 20 LTESGKKRGVLTYEEIAERMSSFEIESDQMD---EYYEFLGEQGVELISENEETEDPNIQ 76
Query: 106 SDDDVEEATEAALSTVDSDFG-RTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEG 160
EE E L+ + G + DP++MY++E+G V LL+ EI A++IEEG
Sbjct: 77 QLAKAEE--EFDLNDLSVPPGVKINDPVRMYLKEIGRVNLLSAKEEIAYAQKIEEG 130
Score = 41.2 bits (95), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 35/116 (30%), Positives = 61/116 (52%), Gaps = 6/116 (5%)
Query: 836 LIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNIT 895
L + GK+RG LT+ EI + + I+ + ++ + + ++ E + + E NI
Sbjct: 20 LTESGKKRGVLTYEEIAERMSSFEIESDQMD---EYYEFLGEQGVELISENEETEDPNIQ 76
Query: 896 SDDDVEEATEAALSTVDSDFG-RTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEG 950
EE E L+ + G + DP++MY++E+G V LL+ EI A++IEEG
Sbjct: 77 QLAKAEE--EFDLNDLSVPPGVKINDPVRMYLKEIGRVNLLSAKEEIAYAQKIEEG 130
>sp|O33662|RPOD_STRMU RNA polymerase sigma factor RpoD OS=Streptococcus mutans serotype c
(strain ATCC 700610 / UA159) GN=rpoD PE=3 SV=1
Length = 371
Score = 333 bits (855), Expect = 5e-90, Method: Compositional matrix adjust.
Identities = 158/247 (63%), Positives = 200/247 (80%)
Query: 1182 IAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 1241
IA E +AK+ + EANLRLV+SIAK+Y RG+QFLDLIQEGN+GLMKAVDKF+Y +G+
Sbjct: 124 IAVENGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGF 183
Query: 1242 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAI 1301
KFSTYATWWIRQAITR+IADQARTIRIPVHM+ETINK+ R R +LQE G +P P IA
Sbjct: 184 KFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAE 243
Query: 1302 KMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVK 1361
+M+M +K+R+I+KIA+EPVS+E+P+G+++DSHLGDFIEDE + P D +R +
Sbjct: 244 RMDMTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLD 303
Query: 1362 DILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYY 1421
++L++LT RE VLR+RFG++ TLE+VGK FDVTRERIRQIEAKALRKLRHPSR
Sbjct: 304 EVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFDVTRERIRQIEAKALRKLRHPSRSK 363
Query: 1422 KLKIFLE 1428
+L+ F+E
Sbjct: 364 QLRDFVE 370
Score = 318 bits (814), Expect = 3e-85, Method: Compositional matrix adjust.
Identities = 151/234 (64%), Positives = 190/234 (81%)
Query: 392 IAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGY 451
IA E +AK+ + EANLRLV+SIAK+Y RG+QFLDLIQEGN+GLMKAVDKF+Y +G+
Sbjct: 124 IAVENGDLEAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGF 183
Query: 452 KFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAI 511
KFSTYATWWIRQAITR+IADQARTIRIPVHM+ETINK+ R R +LQE G +P P IA
Sbjct: 184 KFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAE 243
Query: 512 KMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVK 571
+M+M +K+R+I+KIA+EPVS+E+P+G+++DSHLGDFIEDE + P D +R +
Sbjct: 244 RMDMTPDKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRVVLREQLD 303
Query: 572 DILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
++L++LT RE VLR+RFG++ TLE+VGK FDVTRERIRQIEAKALRKLR
Sbjct: 304 EVLDTLTDREENVLRLRFGLDDGKMRTLEDVGKVFDVTRERIRQIEAKALRKLR 357
Score = 37.7 bits (86), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 32/50 (64%), Gaps = 2/50 (4%)
Query: 111 EEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEG 160
EE T+ L + S+ + DP++MY++E+G V LLT + E E+A +E G
Sbjct: 82 EELTDEEL--LGSNSAKVNDPVRMYLKEIGVVPLLTNEEEKELAIAVENG 129
Score = 37.7 bits (86), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 32/50 (64%), Gaps = 2/50 (4%)
Query: 901 EEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEG 950
EE T+ L + S+ + DP++MY++E+G V LLT + E E+A +E G
Sbjct: 82 EELTDEEL--LGSNSAKVNDPVRMYLKEIGVVPLLTNEEEKELAIAVENG 129
>sp|P52331|RPOD_LISMO RNA polymerase sigma factor RpoD OS=Listeria monocytogenes serovar
1/2a (strain ATCC BAA-679 / EGD-e) GN=rpoD PE=3 SV=1
Length = 374
Score = 333 bits (854), Expect = 7e-90, Method: Compositional matrix adjust.
Identities = 155/252 (61%), Positives = 207/252 (82%), Gaps = 3/252 (1%)
Query: 1177 INRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFE 1236
+ +++ AG+++A K + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GLMKAV+KF+
Sbjct: 126 LAKRIEAGDIEA---KGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFD 182
Query: 1237 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDP 1296
+ +G+KFSTYATWWIRQAITR+IADQARTIRIPVHM+ETINK+ R+ R +LQ+ G +P P
Sbjct: 183 FNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSP 242
Query: 1297 SVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASM 1356
I +M++P EK+R+I+KIA+EPVS+E+P+G+++DSHLGDFIED++ +PSD A +
Sbjct: 243 EEIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELL 302
Query: 1357 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 1416
+ ++D+L++LT RE VLR+RFG++ TLEEVG+ F VTRERIRQIEAKALRKLRH
Sbjct: 303 KEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRH 362
Query: 1417 PSRYYKLKIFLE 1428
PSR +LK FLE
Sbjct: 363 PSRSKQLKDFLE 374
Score = 315 bits (808), Expect = 1e-84, Method: Compositional matrix adjust.
Identities = 146/239 (61%), Positives = 197/239 (82%), Gaps = 3/239 (1%)
Query: 387 INRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFE 446
+ +++ AG+++A K + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GLMKAV+KF+
Sbjct: 126 LAKRIEAGDIEA---KGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFD 182
Query: 447 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDP 506
+ +G+KFSTYATWWIRQAITR+IADQARTIRIPVHM+ETINK+ R+ R +LQ+ G +P P
Sbjct: 183 FNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSP 242
Query: 507 SVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASM 566
I +M++P EK+R+I+KIA+EPVS+E+P+G+++DSHLGDFIED++ +PSD A +
Sbjct: 243 EEIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELL 302
Query: 567 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
+ ++D+L++LT RE VLR+RFG++ TLEEVG+ F VTRERIRQIEAKALRKLR
Sbjct: 303 KEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 361
Score = 48.5 bits (114), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 37/116 (31%), Positives = 62/116 (53%), Gaps = 6/116 (5%)
Query: 46 LIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNIT 105
LI+ GK++G LT+++I L +D + ++ ++ I VS+ D + +
Sbjct: 23 LIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVGEAGIEVSDDADDEDPDETELVK 82
Query: 106 SDDDVEEATEAALSTVDSDFG-RTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEG 160
EE L+ + G + DP++MY++E+G V+LLT D EI +AKRIE G
Sbjct: 83 -----EETESFDLTDMSVPPGVKINDPVRMYLKEIGRVDLLTADEEIALAKRIEAG 133
Score = 48.5 bits (114), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 37/116 (31%), Positives = 62/116 (53%), Gaps = 6/116 (5%)
Query: 836 LIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNIT 895
LI+ GK++G LT+++I L +D + ++ ++ I VS+ D + +
Sbjct: 23 LIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVGEAGIEVSDDADDEDPDETELVK 82
Query: 896 SDDDVEEATEAALSTVDSDFG-RTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEG 950
EE L+ + G + DP++MY++E+G V+LLT D EI +AKRIE G
Sbjct: 83 -----EETESFDLTDMSVPPGVKINDPVRMYLKEIGRVDLLTADEEIALAKRIEAG 133
>sp|Q92BQ6|RPOD_LISIN RNA polymerase sigma factor RpoD OS=Listeria innocua serovar 6a
(strain CLIP 11262) GN=rpoD PE=3 SV=1
Length = 374
Score = 333 bits (853), Expect = 8e-90, Method: Compositional matrix adjust.
Identities = 155/252 (61%), Positives = 207/252 (82%), Gaps = 3/252 (1%)
Query: 1177 INRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFE 1236
+ +++ AG+++A K + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GLMKAV+KF+
Sbjct: 126 LAKRIEAGDIEA---KGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFD 182
Query: 1237 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDP 1296
+ +G+KFSTYATWWIRQAITR+IADQARTIRIPVHM+ETINK+ R+ R +LQ+ G +P P
Sbjct: 183 FNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSP 242
Query: 1297 SVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASM 1356
I +M++P EK+R+I+KIA+EPVS+E+P+G+++DSHLGDFIED++ +PSD A +
Sbjct: 243 EEIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELL 302
Query: 1357 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRH 1416
+ ++D+L++LT RE VLR+RFG++ TLEEVG+ F VTRERIRQIEAKALRKLRH
Sbjct: 303 KEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLRH 362
Query: 1417 PSRYYKLKIFLE 1428
PSR +LK FLE
Sbjct: 363 PSRSKQLKDFLE 374
Score = 315 bits (807), Expect = 2e-84, Method: Compositional matrix adjust.
Identities = 146/239 (61%), Positives = 197/239 (82%), Gaps = 3/239 (1%)
Query: 387 INRKMIAGEMKARKAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFE 446
+ +++ AG+++A K + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GLMKAV+KF+
Sbjct: 126 LAKRIEAGDIEA---KGRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLMKAVEKFD 182
Query: 447 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDP 506
+ +G+KFSTYATWWIRQAITR+IADQARTIRIPVHM+ETINK+ R+ R +LQ+ G +P P
Sbjct: 183 FNKGFKFSTYATWWIRQAITRAIADQARTIRIPVHMVETINKLIRVQRSLLQDLGRDPSP 242
Query: 507 SVIAIKMEMPEEKIRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASM 566
I +M++P EK+R+I+KIA+EPVS+E+P+G+++DSHLGDFIED++ +PSD A +
Sbjct: 243 EEIGEEMDLPTEKVREILKIAQEPVSLETPIGEEDDSHLGDFIEDQDATSPSDHAAYELL 302
Query: 567 RSVVKDILNSLTPRESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
+ ++D+L++LT RE VLR+RFG++ TLEEVG+ F VTRERIRQIEAKALRKLR
Sbjct: 303 KEQLEDVLDTLTDREENVLRLRFGLDDGRTRTLEEVGRVFGVTRERIRQIEAKALRKLR 361
Score = 48.9 bits (115), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 38/124 (30%), Positives = 66/124 (53%), Gaps = 6/124 (4%)
Query: 38 NLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTE 97
N+ + + LI+ GK++G LT+++I L +D + ++ ++ I VS+ D +
Sbjct: 15 NVEQVKEALIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVGEAGIEVSDDADDED 74
Query: 98 TLMLSNITSDDDVEEATEAALSTVDSDFG-RTKDPIKMYMREMGSVELLTRDGEIEIAKR 156
+ EE L+ + G + DP++MY++E+G V+LLT D EI +AKR
Sbjct: 75 PDETELVK-----EETESFDLTDMSVPPGVKINDPVRMYLKEIGRVDLLTADEEIALAKR 129
Query: 157 IEEG 160
IE G
Sbjct: 130 IEAG 133
Score = 48.9 bits (115), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 38/124 (30%), Positives = 66/124 (53%), Gaps = 6/124 (4%)
Query: 828 NLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTE 887
N+ + + LI+ GK++G LT+++I L +D + ++ ++ I VS+ D +
Sbjct: 15 NVEQVKEALIEEGKKKGILTYAKIAARLAPFTLDSDQMDEYLEHVGEAGIEVSDDADDED 74
Query: 888 TLMLSNITSDDDVEEATEAALSTVDSDFG-RTKDPIKMYMREMGSVELLTRDGEIEIAKR 946
+ EE L+ + G + DP++MY++E+G V+LLT D EI +AKR
Sbjct: 75 PDETELVK-----EETESFDLTDMSVPPGVKINDPVRMYLKEIGRVDLLTADEEIALAKR 129
Query: 947 IEEG 950
IE G
Sbjct: 130 IEAG 133
>sp|P0A0I9|RPOD_STAAW RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MW2) GN=rpoD PE=3 SV=1
Length = 368
Score = 332 bits (851), Expect = 1e-89, Method: Compositional matrix adjust.
Identities = 152/238 (63%), Positives = 198/238 (83%)
Query: 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 1250
AK + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF++ +G+KFSTYATWW
Sbjct: 131 AKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWW 190
Query: 1251 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 1310
IRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G +P P I +M++P EK+
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKV 250
Query: 1311 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 1370
R+I+KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT R
Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDR 310
Query: 1371 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
E VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLRHPSR +LK F++
Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368
Score = 316 bits (809), Expect = 1e-84, Method: Compositional matrix adjust.
Identities = 145/225 (64%), Positives = 188/225 (83%)
Query: 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460
AK + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF++ +G+KFSTYATWW
Sbjct: 131 AKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWW 190
Query: 461 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 520
IRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G +P P I +M++P EK+
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKV 250
Query: 521 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 580
R+I+KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT R
Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDR 310
Query: 581 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
E VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLR
Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 355
Score = 50.1 bits (118), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 39/125 (31%), Positives = 66/125 (52%), Gaps = 16/125 (12%)
Query: 36 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 95
+E+++K+ LI+ GK+ G+L+ EI + L ID + ++ DIS
Sbjct: 19 LEDVKKQ---LIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDIS------- 68
Query: 96 TETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAK 155
+++ S D E+ + LS + DP++MY++E+G V LL+ EIE+AK
Sbjct: 69 ----LVNEKDSSDTDEKLNPSDLSAPPG--VKINDPVRMYLKEIGRVNLLSAQEEIELAK 122
Query: 156 RIEEG 160
RIE+G
Sbjct: 123 RIEQG 127
Score = 50.1 bits (118), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 39/125 (31%), Positives = 66/125 (52%), Gaps = 16/125 (12%)
Query: 826 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 885
+E+++K+ LI+ GK+ G+L+ EI + L ID + ++ DIS
Sbjct: 19 LEDVKKQ---LIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDIS------- 68
Query: 886 TETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAK 945
+++ S D E+ + LS + DP++MY++E+G V LL+ EIE+AK
Sbjct: 69 ----LVNEKDSSDTDEKLNPSDLSAPPG--VKINDPVRMYLKEIGRVNLLSAQEEIELAK 122
Query: 946 RIEEG 950
RIE+G
Sbjct: 123 RIEQG 127
>sp|Q6G905|RPOD_STAAS RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MSSA476) GN=rpoD PE=3 SV=1
Length = 368
Score = 332 bits (851), Expect = 1e-89, Method: Compositional matrix adjust.
Identities = 152/238 (63%), Positives = 198/238 (83%)
Query: 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 1250
AK + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF++ +G+KFSTYATWW
Sbjct: 131 AKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWW 190
Query: 1251 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 1310
IRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G +P P I +M++P EK+
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKV 250
Query: 1311 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 1370
R+I+KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT R
Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDR 310
Query: 1371 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
E VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLRHPSR +LK F++
Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368
Score = 316 bits (809), Expect = 1e-84, Method: Compositional matrix adjust.
Identities = 145/225 (64%), Positives = 188/225 (83%)
Query: 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460
AK + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF++ +G+KFSTYATWW
Sbjct: 131 AKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWW 190
Query: 461 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 520
IRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G +P P I +M++P EK+
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKV 250
Query: 521 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 580
R+I+KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT R
Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDR 310
Query: 581 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
E VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLR
Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 355
Score = 50.1 bits (118), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 39/125 (31%), Positives = 66/125 (52%), Gaps = 16/125 (12%)
Query: 36 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 95
+E+++K+ LI+ GK+ G+L+ EI + L ID + ++ DIS
Sbjct: 19 LEDVKKQ---LIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDIS------- 68
Query: 96 TETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAK 155
+++ S D E+ + LS + DP++MY++E+G V LL+ EIE+AK
Sbjct: 69 ----LVNEKDSSDTDEKLNPSDLSAPPG--VKINDPVRMYLKEIGRVNLLSAQEEIELAK 122
Query: 156 RIEEG 160
RIE+G
Sbjct: 123 RIEQG 127
Score = 50.1 bits (118), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 39/125 (31%), Positives = 66/125 (52%), Gaps = 16/125 (12%)
Query: 826 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 885
+E+++K+ LI+ GK+ G+L+ EI + L ID + ++ DIS
Sbjct: 19 LEDVKKQ---LIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDIS------- 68
Query: 886 TETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAK 945
+++ S D E+ + LS + DP++MY++E+G V LL+ EIE+AK
Sbjct: 69 ----LVNEKDSSDTDEKLNPSDLSAPPG--VKINDPVRMYLKEIGRVNLLSAQEEIELAK 122
Query: 946 RIEEG 950
RIE+G
Sbjct: 123 RIEQG 127
>sp|Q6GGD8|RPOD_STAAR RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
MRSA252) GN=rpoD PE=3 SV=1
Length = 368
Score = 332 bits (851), Expect = 1e-89, Method: Compositional matrix adjust.
Identities = 152/238 (63%), Positives = 198/238 (83%)
Query: 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 1250
AK + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF++ +G+KFSTYATWW
Sbjct: 131 AKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWW 190
Query: 1251 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 1310
IRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G +P P I +M++P EK+
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKV 250
Query: 1311 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 1370
R+I+KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT R
Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDR 310
Query: 1371 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
E VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLRHPSR +LK F++
Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368
Score = 316 bits (809), Expect = 1e-84, Method: Compositional matrix adjust.
Identities = 145/225 (64%), Positives = 188/225 (83%)
Query: 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460
AK + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF++ +G+KFSTYATWW
Sbjct: 131 AKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWW 190
Query: 461 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 520
IRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G +P P I +M++P EK+
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKV 250
Query: 521 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 580
R+I+KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT R
Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDR 310
Query: 581 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
E VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLR
Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 355
Score = 50.1 bits (118), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 39/125 (31%), Positives = 66/125 (52%), Gaps = 16/125 (12%)
Query: 36 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 95
+E+++K+ LI+ GK+ G+L+ EI + L ID + ++ DIS
Sbjct: 19 LEDVKKQ---LIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDIS------- 68
Query: 96 TETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAK 155
+++ S D E+ + LS + DP++MY++E+G V LL+ EIE+AK
Sbjct: 69 ----LVNEKDSSDTDEKLNPSDLSAPPG--VKINDPVRMYLKEIGRVNLLSAQEEIELAK 122
Query: 156 RIEEG 160
RIE+G
Sbjct: 123 RIEQG 127
Score = 50.1 bits (118), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 39/125 (31%), Positives = 66/125 (52%), Gaps = 16/125 (12%)
Query: 826 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 885
+E+++K+ LI+ GK+ G+L+ EI + L ID + ++ DIS
Sbjct: 19 LEDVKKQ---LIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDIS------- 68
Query: 886 TETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAK 945
+++ S D E+ + LS + DP++MY++E+G V LL+ EIE+AK
Sbjct: 69 ----LVNEKDSSDTDEKLNPSDLSAPPG--VKINDPVRMYLKEIGRVNLLSAQEEIELAK 122
Query: 946 RIEEG 950
RIE+G
Sbjct: 123 RIEQG 127
>sp|P0A0I8|RPOD_STAAM RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
Mu50 / ATCC 700699) GN=rpoD PE=1 SV=1
Length = 368
Score = 332 bits (851), Expect = 1e-89, Method: Compositional matrix adjust.
Identities = 152/238 (63%), Positives = 198/238 (83%)
Query: 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 1250
AK + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF++ +G+KFSTYATWW
Sbjct: 131 AKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWW 190
Query: 1251 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 1310
IRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G +P P I +M++P EK+
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKV 250
Query: 1311 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 1370
R+I+KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT R
Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDR 310
Query: 1371 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
E VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLRHPSR +LK F++
Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368
Score = 316 bits (809), Expect = 1e-84, Method: Compositional matrix adjust.
Identities = 145/225 (64%), Positives = 188/225 (83%)
Query: 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460
AK + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF++ +G+KFSTYATWW
Sbjct: 131 AKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWW 190
Query: 461 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 520
IRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G +P P I +M++P EK+
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKV 250
Query: 521 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 580
R+I+KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT R
Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDR 310
Query: 581 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
E VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLR
Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 355
Score = 50.1 bits (118), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 39/125 (31%), Positives = 66/125 (52%), Gaps = 16/125 (12%)
Query: 36 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 95
+E+++K+ LI+ GK+ G+L+ EI + L ID + ++ DIS
Sbjct: 19 LEDVKKQ---LIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDIS------- 68
Query: 96 TETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAK 155
+++ S D E+ + LS + DP++MY++E+G V LL+ EIE+AK
Sbjct: 69 ----LVNEKDSSDTDEKLNPSDLSAPPG--VKINDPVRMYLKEIGRVNLLSAQEEIELAK 122
Query: 156 RIEEG 160
RIE+G
Sbjct: 123 RIEQG 127
Score = 50.1 bits (118), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 39/125 (31%), Positives = 66/125 (52%), Gaps = 16/125 (12%)
Query: 826 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 885
+E+++K+ LI+ GK+ G+L+ EI + L ID + ++ DIS
Sbjct: 19 LEDVKKQ---LIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDIS------- 68
Query: 886 TETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAK 945
+++ S D E+ + LS + DP++MY++E+G V LL+ EIE+AK
Sbjct: 69 ----LVNEKDSSDTDEKLNPSDLSAPPG--VKINDPVRMYLKEIGRVNLLSAQEEIELAK 122
Query: 946 RIEEG 950
RIE+G
Sbjct: 123 RIEQG 127
>sp|Q5HFJ9|RPOD_STAAC RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
COL) GN=rpoD PE=3 SV=1
Length = 368
Score = 332 bits (851), Expect = 1e-89, Method: Compositional matrix adjust.
Identities = 152/238 (63%), Positives = 198/238 (83%)
Query: 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 1250
AK + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF++ +G+KFSTYATWW
Sbjct: 131 AKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWW 190
Query: 1251 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 1310
IRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G +P P I +M++P EK+
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKV 250
Query: 1311 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 1370
R+I+KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT R
Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDR 310
Query: 1371 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
E VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLRHPSR +LK F++
Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368
Score = 316 bits (809), Expect = 1e-84, Method: Compositional matrix adjust.
Identities = 145/225 (64%), Positives = 188/225 (83%)
Query: 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460
AK + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF++ +G+KFSTYATWW
Sbjct: 131 AKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWW 190
Query: 461 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 520
IRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G +P P I +M++P EK+
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKV 250
Query: 521 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 580
R+I+KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT R
Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDR 310
Query: 581 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
E VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLR
Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 355
Score = 50.1 bits (118), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 39/125 (31%), Positives = 66/125 (52%), Gaps = 16/125 (12%)
Query: 36 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 95
+E+++K+ LI+ GK+ G+L+ EI + L ID + ++ DIS
Sbjct: 19 LEDVKKQ---LIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDIS------- 68
Query: 96 TETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAK 155
+++ S D E+ + LS + DP++MY++E+G V LL+ EIE+AK
Sbjct: 69 ----LVNEKDSSDTDEKLNPSDLSAPPG--VKINDPVRMYLKEIGRVNLLSAQEEIELAK 122
Query: 156 RIEEG 160
RIE+G
Sbjct: 123 RIEQG 127
Score = 50.1 bits (118), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 39/125 (31%), Positives = 66/125 (52%), Gaps = 16/125 (12%)
Query: 826 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 885
+E+++K+ LI+ GK+ G+L+ EI + L ID + ++ DIS
Sbjct: 19 LEDVKKQ---LIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDIS------- 68
Query: 886 TETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAK 945
+++ S D E+ + LS + DP++MY++E+G V LL+ EIE+AK
Sbjct: 69 ----LVNEKDSSDTDEKLNPSDLSAPPG--VKINDPVRMYLKEIGRVNLLSAQEEIELAK 122
Query: 946 RIEEG 950
RIE+G
Sbjct: 123 RIEQG 127
>sp|P0A0J0|RPOD_STAA8 RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
NCTC 8325) GN=rpoD PE=3 SV=1
Length = 368
Score = 332 bits (851), Expect = 1e-89, Method: Compositional matrix adjust.
Identities = 152/238 (63%), Positives = 198/238 (83%)
Query: 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 1250
AK + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF++ +G+KFSTYATWW
Sbjct: 131 AKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWW 190
Query: 1251 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 1310
IRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G +P P I +M++P EK+
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKV 250
Query: 1311 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 1370
R+I+KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT R
Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDR 310
Query: 1371 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
E VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLRHPSR +LK F++
Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368
Score = 316 bits (809), Expect = 1e-84, Method: Compositional matrix adjust.
Identities = 145/225 (64%), Positives = 188/225 (83%)
Query: 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460
AK + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF++ +G+KFSTYATWW
Sbjct: 131 AKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWW 190
Query: 461 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 520
IRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G +P P I +M++P EK+
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKV 250
Query: 521 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 580
R+I+KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT R
Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDR 310
Query: 581 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
E VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLR
Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 355
Score = 50.1 bits (118), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 39/125 (31%), Positives = 66/125 (52%), Gaps = 16/125 (12%)
Query: 36 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 95
+E+++K+ LI+ GK+ G+L+ EI + L ID + ++ DIS
Sbjct: 19 LEDVKKQ---LIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDIS------- 68
Query: 96 TETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAK 155
+++ S D E+ + LS + DP++MY++E+G V LL+ EIE+AK
Sbjct: 69 ----LVNEKDSSDTDEKLNPSDLSAPPG--VKINDPVRMYLKEIGRVNLLSAQEEIELAK 122
Query: 156 RIEEG 160
RIE+G
Sbjct: 123 RIEQG 127
Score = 50.1 bits (118), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 39/125 (31%), Positives = 66/125 (52%), Gaps = 16/125 (12%)
Query: 826 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 885
+E+++K+ LI+ GK+ G+L+ EI + L ID + ++ DIS
Sbjct: 19 LEDVKKQ---LIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDIS------- 68
Query: 886 TETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAK 945
+++ S D E+ + LS + DP++MY++E+G V LL+ EIE+AK
Sbjct: 69 ----LVNEKDSSDTDEKLNPSDLSAPPG--VKINDPVRMYLKEIGRVNLLSAQEEIELAK 122
Query: 946 RIEEG 950
RIE+G
Sbjct: 123 RIEQG 127
>sp|Q8CP24|RPOD_STAES RNA polymerase sigma factor RpoD OS=Staphylococcus epidermidis
(strain ATCC 12228) GN=rpoD PE=3 SV=1
Length = 368
Score = 331 bits (849), Expect = 2e-89, Method: Compositional matrix adjust.
Identities = 152/238 (63%), Positives = 198/238 (83%)
Query: 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 1250
AK + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF++ +G+KFSTYATWW
Sbjct: 131 AKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATWW 190
Query: 1251 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 1310
IRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G +P P I +M++P EK+
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEKV 250
Query: 1311 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 1370
R+I+KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT R
Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDR 310
Query: 1371 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
E VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLRHPSR +LK F++
Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368
Score = 315 bits (808), Expect = 1e-84, Method: Compositional matrix adjust.
Identities = 145/225 (64%), Positives = 188/225 (83%)
Query: 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460
AK + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF++ +G+KFSTYATWW
Sbjct: 131 AKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATWW 190
Query: 461 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 520
IRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G +P P I +M++P EK+
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEKV 250
Query: 521 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 580
R+I+KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT R
Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDR 310
Query: 581 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
E VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLR
Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 355
Score = 47.8 bits (112), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 65/125 (52%), Gaps = 16/125 (12%)
Query: 36 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 95
+E+++K+ LI GK+ G+L+ EI + L +D + ++ DI++
Sbjct: 19 LEDVKKQ---LIDKGKKEGHLSHEEIAEKLQNFEMDSDQMDDFFDQLNDNDITLVNEKDS 75
Query: 96 TETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAK 155
++T DD + +A V + DP++MY++E+G V LL+ EIE+AK
Sbjct: 76 SDT--------DDKINPNDLSAPPGV-----KINDPVRMYLKEIGRVNLLSAQEEIELAK 122
Query: 156 RIEEG 160
RIE+G
Sbjct: 123 RIEQG 127
Score = 47.8 bits (112), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 65/125 (52%), Gaps = 16/125 (12%)
Query: 826 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 885
+E+++K+ LI GK+ G+L+ EI + L +D + ++ DI++
Sbjct: 19 LEDVKKQ---LIDKGKKEGHLSHEEIAEKLQNFEMDSDQMDDFFDQLNDNDITLVNEKDS 75
Query: 886 TETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAK 945
++T DD + +A V + DP++MY++E+G V LL+ EIE+AK
Sbjct: 76 SDT--------DDKINPNDLSAPPGV-----KINDPVRMYLKEIGRVNLLSAQEEIELAK 122
Query: 946 RIEEG 950
RIE+G
Sbjct: 123 RIEQG 127
>sp|Q5HNY7|RPOD_STAEQ RNA polymerase sigma factor RpoD OS=Staphylococcus epidermidis
(strain ATCC 35984 / RP62A) GN=rpoD PE=3 SV=1
Length = 368
Score = 331 bits (849), Expect = 2e-89, Method: Compositional matrix adjust.
Identities = 152/238 (63%), Positives = 198/238 (83%)
Query: 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 1250
AK + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF++ +G+KFSTYATWW
Sbjct: 131 AKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATWW 190
Query: 1251 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 1310
IRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G +P P I +M++P EK+
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEKV 250
Query: 1311 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 1370
R+I+KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT R
Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDR 310
Query: 1371 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
E VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLRHPSR +LK F++
Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368
Score = 315 bits (808), Expect = 1e-84, Method: Compositional matrix adjust.
Identities = 145/225 (64%), Positives = 188/225 (83%)
Query: 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460
AK + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF++ +G+KFSTYATWW
Sbjct: 131 AKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFSKGFKFSTYATWW 190
Query: 461 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 520
IRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G +P P I +M++P EK+
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPPEKV 250
Query: 521 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 580
R+I+KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT R
Sbjct: 251 REILKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDR 310
Query: 581 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
E VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLR
Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 355
Score = 47.8 bits (112), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 65/125 (52%), Gaps = 16/125 (12%)
Query: 36 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 95
+E+++K+ LI GK+ G+L+ EI + L +D + ++ DI++
Sbjct: 19 LEDVKKQ---LIDKGKKEGHLSHEEIAEKLQNFEMDSDQMDDFFDQLNDNDITLVNEKDS 75
Query: 96 TETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAK 155
++T DD + +A V + DP++MY++E+G V LL+ EIE+AK
Sbjct: 76 SDT--------DDKINPNDLSAPPGV-----KINDPVRMYLKEIGRVNLLSAQEEIELAK 122
Query: 156 RIEEG 160
RIE+G
Sbjct: 123 RIEQG 127
Score = 47.8 bits (112), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 65/125 (52%), Gaps = 16/125 (12%)
Query: 826 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 885
+E+++K+ LI GK+ G+L+ EI + L +D + ++ DI++
Sbjct: 19 LEDVKKQ---LIDKGKKEGHLSHEEIAEKLQNFEMDSDQMDDFFDQLNDNDITLVNEKDS 75
Query: 886 TETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAK 945
++T DD + +A V + DP++MY++E+G V LL+ EIE+AK
Sbjct: 76 SDT--------DDKINPNDLSAPPGV-----KINDPVRMYLKEIGRVNLLSAQEEIELAK 122
Query: 946 RIEEG 950
RIE+G
Sbjct: 123 RIEQG 127
>sp|Q99TT5|RPOD_STAAN RNA polymerase sigma factor RpoD OS=Staphylococcus aureus (strain
N315) GN=rpoD PE=1 SV=1
Length = 368
Score = 331 bits (849), Expect = 2e-89, Method: Compositional matrix adjust.
Identities = 151/238 (63%), Positives = 198/238 (83%)
Query: 1191 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 1250
AK + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF++ +G+KFSTYATWW
Sbjct: 131 AKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWW 190
Query: 1251 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 1310
IRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G +P P I +M++P EK+
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKV 250
Query: 1311 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 1370
R+++KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT R
Sbjct: 251 REVLKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDR 310
Query: 1371 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
E VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLRHPSR +LK F++
Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLRHPSRSKRLKDFMD 368
Score = 315 bits (807), Expect = 2e-84, Method: Compositional matrix adjust.
Identities = 144/225 (64%), Positives = 188/225 (83%)
Query: 401 AKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 460
AK + EANLRLV+SIAK+Y RG+ FLDLIQEGN+GL+KAV+KF++ +G+KFSTYATWW
Sbjct: 131 AKSRLAEANLRLVVSIAKRYVGRGMLFLDLIQEGNMGLIKAVEKFDFNKGFKFSTYATWW 190
Query: 461 IRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEKI 520
IRQAITR+IADQARTIRIPVHM+ETINK+ R+ RQ+LQ+ G +P P I +M++P EK+
Sbjct: 191 IRQAITRAIADQARTIRIPVHMVETINKLIRVQRQLLQDLGRDPAPEEIGEEMDLPAEKV 250
Query: 521 RKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTPR 580
R+++KIA+EPVS+E+P+G+++DSHLGDFIED+ +PSD A ++ ++D+L++LT R
Sbjct: 251 REVLKIAQEPVSLETPIGEEDDSHLGDFIEDQEAQSPSDHAAYELLKEQLEDVLDTLTDR 310
Query: 581 ESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
E VLR+RFG++ TLEEVGK F VTRERIRQIEAKALRKLR
Sbjct: 311 EENVLRLRFGLDDGRTRTLEEVGKVFGVTRERIRQIEAKALRKLR 355
Score = 50.1 bits (118), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 39/125 (31%), Positives = 66/125 (52%), Gaps = 16/125 (12%)
Query: 36 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 95
+E+++K+ LI+ GK+ G+L+ EI + L ID + ++ DIS
Sbjct: 19 LEDVKKQ---LIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDIS------- 68
Query: 96 TETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAK 155
+++ S D E+ + LS + DP++MY++E+G V LL+ EIE+AK
Sbjct: 69 ----LVNEKDSSDTDEKLNPSDLSAPPG--VKINDPVRMYLKEIGRVNLLSAQEEIELAK 122
Query: 156 RIEEG 160
RIE+G
Sbjct: 123 RIEQG 127
Score = 50.1 bits (118), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 39/125 (31%), Positives = 66/125 (52%), Gaps = 16/125 (12%)
Query: 826 IENLRKKFKILIKLGKERGYLTFSEINDFLPEDIIDHEIIESIIKTFRYMDISVSEHVLD 885
+E+++K+ LI+ GK+ G+L+ EI + L ID + ++ DIS
Sbjct: 19 LEDVKKQ---LIEKGKKEGHLSHEEIAEKLQNFDIDSDQMDDFFDQLNDNDIS------- 68
Query: 886 TETLMLSNITSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAK 945
+++ S D E+ + LS + DP++MY++E+G V LL+ EIE+AK
Sbjct: 69 ----LVNEKDSSDTDEKLNPSDLSAPPG--VKINDPVRMYLKEIGRVNLLSAQEEIELAK 122
Query: 946 RIEEG 950
RIE+G
Sbjct: 123 RIEQG 127
>sp|P0A4J0|RPOD_STRR6 RNA polymerase sigma factor RpoD OS=Streptococcus pneumoniae (strain
ATCC BAA-255 / R6) GN=rpoD PE=3 SV=1
Length = 369
Score = 327 bits (838), Expect = 4e-88, Method: Compositional matrix adjust.
Identities = 154/239 (64%), Positives = 195/239 (81%)
Query: 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 1249
+AK+ + EANLRLV+SIAK+Y RG+QFLDLIQEGN+GLMKAVDKF+Y +G+KFSTYATW
Sbjct: 130 EAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 189
Query: 1250 WIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEK 1309
WIRQAITR+IADQARTIRIPVHM+ETINK+ R R +LQE G +P P IA +M+M +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDK 249
Query: 1310 IRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTP 1369
+R+I+KIA+EPVS+E+P+G+++DSHLGDFIEDE + P D +R + +IL++LT
Sbjct: 250 VREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDEILDTLTD 309
Query: 1370 RESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
RE VLR+RFG++ TLE+VGK F+VTRERIRQIEAKALRKLR PSR L+ F+E
Sbjct: 310 REENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSKPLRDFIE 368
Score = 315 bits (806), Expect = 2e-84, Method: Compositional matrix adjust.
Identities = 148/226 (65%), Positives = 187/226 (82%)
Query: 400 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 459
+AK+ + EANLRLV+SIAK+Y RG+QFLDLIQEGN+GLMKAVDKF+Y +G+KFSTYATW
Sbjct: 130 EAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 189
Query: 460 WIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEK 519
WIRQAITR+IADQARTIRIPVHM+ETINK+ R R +LQE G +P P IA +M+M +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDK 249
Query: 520 IRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTP 579
+R+I+KIA+EPVS+E+P+G+++DSHLGDFIEDE + P D +R + +IL++LT
Sbjct: 250 VREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDEILDTLTD 309
Query: 580 RESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
RE VLR+RFG++ TLE+VGK F+VTRERIRQIEAKALRKLR
Sbjct: 310 REENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLR 355
Score = 43.1 bits (100), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 33/116 (28%), Positives = 60/116 (51%), Gaps = 7/116 (6%)
Query: 46 LIKLGKERGYLTFSEIN-DFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNI 104
I+ K++G T EIN + +D + IE +++ + IS++++ + +LSN
Sbjct: 18 FIRNHKQKGTATDDEINASLVIPFTLDADGIEDLLQRIQDAGISITDNEGNPSARVLSN- 76
Query: 105 TSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEG 160
EE + + S + DP++MY++E+G V LLT + E E+A +E G
Sbjct: 77 -----EEEPELSDEDLIGSTSAKVNDPVRMYLKEIGVVPLLTNEEEKELALAVEAG 127
Score = 43.1 bits (100), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 33/116 (28%), Positives = 60/116 (51%), Gaps = 7/116 (6%)
Query: 836 LIKLGKERGYLTFSEIN-DFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNI 894
I+ K++G T EIN + +D + IE +++ + IS++++ + +LSN
Sbjct: 18 FIRNHKQKGTATDDEINASLVIPFTLDADGIEDLLQRIQDAGISITDNEGNPSARVLSN- 76
Query: 895 TSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEG 950
EE + + S + DP++MY++E+G V LLT + E E+A +E G
Sbjct: 77 -----EEEPELSDEDLIGSTSAKVNDPVRMYLKEIGVVPLLTNEEEKELALAVEAG 127
>sp|P0A4I9|RPOD_STRPN RNA polymerase sigma factor RpoD OS=Streptococcus pneumoniae serotype
4 (strain ATCC BAA-334 / TIGR4) GN=rpoD PE=3 SV=1
Length = 369
Score = 327 bits (838), Expect = 4e-88, Method: Compositional matrix adjust.
Identities = 154/239 (64%), Positives = 195/239 (81%)
Query: 1190 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 1249
+AK+ + EANLRLV+SIAK+Y RG+QFLDLIQEGN+GLMKAVDKF+Y +G+KFSTYATW
Sbjct: 130 EAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 189
Query: 1250 WIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEK 1309
WIRQAITR+IADQARTIRIPVHM+ETINK+ R R +LQE G +P P IA +M+M +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDK 249
Query: 1310 IRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTP 1369
+R+I+KIA+EPVS+E+P+G+++DSHLGDFIEDE + P D +R + +IL++LT
Sbjct: 250 VREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDEILDTLTD 309
Query: 1370 RESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRYYKLKIFLE 1428
RE VLR+RFG++ TLE+VGK F+VTRERIRQIEAKALRKLR PSR L+ F+E
Sbjct: 310 REENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLRQPSRSKPLRDFIE 368
Score = 315 bits (806), Expect = 2e-84, Method: Compositional matrix adjust.
Identities = 148/226 (65%), Positives = 187/226 (82%)
Query: 400 KAKREMTEANLRLVISIAKKYTDRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATW 459
+AK+ + EANLRLV+SIAK+Y RG+QFLDLIQEGN+GLMKAVDKF+Y +G+KFSTYATW
Sbjct: 130 EAKQRLAEANLRLVVSIAKRYVGRGMQFLDLIQEGNMGLMKAVDKFDYSKGFKFSTYATW 189
Query: 460 WIRQAITRSIADQARTIRIPVHMIETINKISRISRQILQETGSEPDPSVIAIKMEMPEEK 519
WIRQAITR+IADQARTIRIPVHM+ETINK+ R R +LQE G +P P IA +M+M +K
Sbjct: 190 WIRQAITRAIADQARTIRIPVHMVETINKLVREQRNLLQELGQDPTPEQIAERMDMTPDK 249
Query: 520 IRKIMKIAKEPVSMESPVGDDEDSHLGDFIEDENMLAPSDAALNASMRSVVKDILNSLTP 579
+R+I+KIA+EPVS+E+P+G+++DSHLGDFIEDE + P D +R + +IL++LT
Sbjct: 250 VREILKIAQEPVSLETPIGEEDDSHLGDFIEDEVIENPVDYTTRIVLREQLDEILDTLTD 309
Query: 580 RESKVLRMRFGIEMSSDHTLEEVGKQFDVTRERIRQIEAKALRKLR 625
RE VLR+RFG++ TLE+VGK F+VTRERIRQIEAKALRKLR
Sbjct: 310 REENVLRLRFGLDDGKMRTLEDVGKVFNVTRERIRQIEAKALRKLR 355
Score = 43.1 bits (100), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 33/116 (28%), Positives = 60/116 (51%), Gaps = 7/116 (6%)
Query: 46 LIKLGKERGYLTFSEIN-DFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNI 104
I+ K++G T EIN + +D + IE +++ + IS++++ + +LSN
Sbjct: 18 FIRNHKQKGTATDDEINASLVIPFTLDADGIEDLLQRIQDAGISITDNEGNPSARVLSN- 76
Query: 105 TSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEG 160
EE + + S + DP++MY++E+G V LLT + E E+A +E G
Sbjct: 77 -----EEEPELSDEDLIGSTSAKVNDPVRMYLKEIGVVPLLTNEEEKELALAVEAG 127
Score = 43.1 bits (100), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 33/116 (28%), Positives = 60/116 (51%), Gaps = 7/116 (6%)
Query: 836 LIKLGKERGYLTFSEIN-DFLPEDIIDHEIIESIIKTFRYMDISVSEHVLDTETLMLSNI 894
I+ K++G T EIN + +D + IE +++ + IS++++ + +LSN
Sbjct: 18 FIRNHKQKGTATDDEINASLVIPFTLDADGIEDLLQRIQDAGISITDNEGNPSARVLSN- 76
Query: 895 TSDDDVEEATEAALSTVDSDFGRTKDPIKMYMREMGSVELLTRDGEIEIAKRIEEG 950
EE + + S + DP++MY++E+G V LLT + E E+A +E G
Sbjct: 77 -----EEEPELSDEDLIGSTSAKVNDPVRMYLKEIGVVPLLTNEEEKELALAVEAG 127
Database: swissprot
Posted date: Mar 23, 2013 2:32 AM
Number of letters in database: 191,569,459
Number of sequences in database: 539,616
Lambda K H
0.318 0.135 0.372
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 499,408,482
Number of Sequences: 539616
Number of extensions: 21661755
Number of successful extensions: 91556
Number of sequences better than 100.0: 50
Number of HSP's better than 100.0 without gapping: 207
Number of HSP's successfully gapped in prelim test: 162
Number of HSP's that attempted gapping in prelim test: 89600
Number of HSP's gapped (non-prelim): 1687
length of query: 1432
length of database: 191,569,459
effective HSP length: 130
effective length of query: 1302
effective length of database: 121,419,379
effective search space: 158088031458
effective search space used: 158088031458
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 68 (30.8 bits)