Pairwise Alignments

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

Subject, 495 a.a., RNA polymerase factor sigma-54 (RefSeq) from Shewanella loihica PV-4

 Score =  583 bits (1502), Expect = e-171
 Identities = 298/495 (60%), Positives = 382/495 (77%), Gaps = 9/495 (1%)

Query: 1   MKPSLQLKLGQQLAMTPQLQQAIRLLQLSTLDLQQEIQEALESNPLLEVEENQDEAP-SL 59
           MK SLQLK+GQ L MTPQLQQAIRLLQLS+L+LQQEIQ+ALESNPLLE++E Q+ A   L
Sbjct: 1   MKASLQLKMGQHLTMTPQLQQAIRLLQLSSLELQQEIQQALESNPLLELDEEQESASIEL 60

Query: 60  DSVRMTEESPREPEELYEPEPQ------DSSDLIEKSEISAELEMDTTWDEVYSANTGST 113
               +T+    + ++  E +        ++SD + +  +  EL +DTTWDEVY+A+  S+
Sbjct: 61  QDDGVTDSFDNKYDDKIELDSSQDNSGVETSDALTQDSMPDELPVDTTWDEVYTASPNSS 120

Query: 114 GLALDDDAPIYQGETTQTLQDYLHWQLDLTPFSDVDRTIAVALIDAIDDYGYLTVSLEEI 173
             A+ DD   +QGET++ L ++L WQ +LTPFSD D  IA A+IDAID+ GYLT + E+I
Sbjct: 121 SGAMRDDDMPFQGETSEGLYEHLEWQKNLTPFSDNDLAIATAIIDAIDERGYLTQTCEDI 180

Query: 174 QESLRSDDIELDEIEAVRKRIQQFDPFGVASLNLQDCLLLQLTTYPCDTPWLEEARLLLS 233
            E++   +IELDE+EAV KR+Q FDP GVA+ +L +CL +QL  Y  DTP +  AR+L+ 
Sbjct: 181 LEAMGDPEIELDEVEAVLKRVQHFDPIGVAARDLSECLTIQLAQYSDDTPHIANARMLIK 240

Query: 234 QYIDDLGNRDYKTILKETKLKEEDLREILQLIQQLDPRPGSRIAQDHAEYVIPDVSVYKE 293
           +++D +  RD++ ++++TKLKE++LR+ + LIQ L+PRPG  I     EYVIPDV+V K+
Sbjct: 241 EHLDLIAGRDFRLLMRKTKLKEDELRDAIALIQTLNPRPGLAITASRDEYVIPDVTVTKK 300

Query: 294 QGRWLVTINPDSVPKLKINQQYADLMRG--NNAESNYIRTNLQEAKWLIKSLESRNETLL 351
           +GRW+V +NPDS+PK+ +NQQYA + R   + A+  +IR +LQEAKW +KSLESRNETLL
Sbjct: 301 KGRWVVELNPDSMPKINVNQQYAAMARSTKSQADGQFIRGHLQEAKWFLKSLESRNETLL 360

Query: 352 KVAKCIVEHQHDFFEYGEEAMKPMVLNDVAMAVEMHESTISRVTTQKYMHTPRGIFELKY 411
           KV  CIV+ Q  FFE+GEEAMKPMVLND+A AVEMHESTISRVTTQKYMHTPRGIFELKY
Sbjct: 361 KVTNCIVDFQQGFFEFGEEAMKPMVLNDIAEAVEMHESTISRVTTQKYMHTPRGIFELKY 420

Query: 412 FFSSHVSTDNGGECSSTAIRALIKKLVAAENPAKPLSDSKIATLLADQGIQVARRTIAKY 471
           FFSSHV TD+GGECSSTAIRA IKKLVAAEN  KPLSDSK+A LLA+QGI+VARRTIAKY
Sbjct: 421 FFSSHVGTDDGGECSSTAIRAFIKKLVAAENQKKPLSDSKMAQLLAEQGIKVARRTIAKY 480

Query: 472 RESLGIAPSSQRKRL 486
           RE++ I PS+QRK L
Sbjct: 481 REAMLIPPSNQRKSL 495