Pairwise Alignments

Query, 487 a.a., RNA polymerase sigma-54 factor from Vibrio cholerae E7946 ATCC 55056

Subject, 497 a.a., RNA polymerase factor sigma-54 from Pseudomonas simiae WCS417

 Score =  561 bits (1446), Expect = e-164
 Identities = 298/499 (59%), Positives = 374/499 (74%), Gaps = 14/499 (2%)

Query: 1   MKPSLQLKLGQQLAMTPQLQQAIRLLQLSTLDLQQEIQEALESNPLLEVEENQDEAPSLD 60
           MKPSL L++GQQL MTPQLQQAIRLLQLSTLDLQQEIQEALESNP+LE +E  D+  + D
Sbjct: 1   MKPSLVLRMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALESNPMLERQEEGDDFDNAD 60

Query: 61  SVRMTEESPREPEELYEPEPQDSSDLIEKSE-------ISAELEMDTTWDEVYSANTGST 113
            +    E  +   ++ EP  Q+++  ++  E       I  EL +DT W++VY  +  S 
Sbjct: 61  PLADNIEQ-KPNSDVQEPSYQETAPTVDNLEEGDWNERIPNELPVDTAWEDVYQTSASSL 119

Query: 114 GLALDDDAPIYQGETT--QTLQDYLHWQLDLTPFSDVDRTIAVALIDAIDDYGYLTVSLE 171
             + DDD   +   T+  ++LQ +L WQL+L P SD DR IAV LID I++ GYL  +LE
Sbjct: 120 P-SNDDDEWDFTTRTSVGESLQSHLLWQLNLAPMSDTDRLIAVTLIDCINNQGYLDETLE 178

Query: 172 EIQESLRSD-DIELDEIEAVRKRIQQFDPFGVASLNLQDCLLLQLTTYPCDTPWLEEARL 230
           EI E+   + DIELDEIEAV  RIQQF+P G+ +  L +CLLLQL   P  T WL EA+ 
Sbjct: 179 EILEAFDPELDIELDEIEAVLHRIQQFEPAGIGARTLSECLLLQLRQLPAKTAWLTEAQR 238

Query: 231 LLSQYIDDLGNRDYKTILKETKLKEEDLREILQLIQQLDPRPGSRIAQDHAEYVIPDVSV 290
           L++ YID LG+RDY  +++  KLKE+DLR++++L+Q L+PRPGS+I    AEYV+PDV V
Sbjct: 239 LVTDYIDLLGSRDYSQLMRRMKLKEDDLRQVIELVQSLNPRPGSQIESSEAEYVVPDVIV 298

Query: 291 YKEQGRWLVTINPDSVPKLKINQQYADLMR--GNNAESNYIRTNLQEAKWLIKSLESRNE 348
            K+  RWLV +N +SVP+L++N QYA  +R    +A++ ++R  LQEA+W IKSL+SRNE
Sbjct: 299 RKDNERWLVELNQESVPRLRVNPQYAGFVRRADTSADNTFMRNQLQEARWFIKSLQSRNE 358

Query: 349 TLLKVAKCIVEHQHDFFEYGEEAMKPMVLNDVAMAVEMHESTISRVTTQKYMHTPRGIFE 408
           TL+KVA  IVEHQ  F EYG+EAMKP+VL+D+A AV MHESTISRVTTQK+MHTPRGI+E
Sbjct: 359 TLMKVATQIVEHQRGFLEYGDEAMKPLVLHDIAEAVGMHESTISRVTTQKFMHTPRGIYE 418

Query: 409 LKYFFSSHVSTDNGGECSSTAIRALIKKLVAAENPAKPLSDSKIATLLADQGIQVARRTI 468
           LKYFFSSHVST  GGECSSTAIRA+IKKLVAAEN  KPLSDSKIA LL  QGIQVARRT+
Sbjct: 419 LKYFFSSHVSTSEGGECSSTAIRAIIKKLVAAENQKKPLSDSKIAGLLEAQGIQVARRTV 478

Query: 469 AKYRESLGIAPSSQRKRLL 487
           AKYRESLGIAPSS+RKRL+
Sbjct: 479 AKYRESLGIAPSSERKRLM 497