Pairwise Alignments

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

Subject, 533 a.a., RNA polymerase sigma-54 factor RpoN from Variovorax sp. SCN45

 Score =  338 bits (866), Expect = 4e-97
 Identities = 211/536 (39%), Positives = 308/536 (57%), Gaps = 43/536 (8%)

Query: 1   MKPSLVLRMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALESNPMLER-------QEEG 53
           MK  L LR+ Q L +TPQLQQ+IRLLQLSTL+L QE+++ L+ NP LER       +E G
Sbjct: 1   MKQGLSLRVSQHLALTPQLQQSIRLLQLSTLELSQEVEQMLDENPFLERTAEEAAREEFG 60

Query: 54  DDFDNADPLADNIEQKPNSDVQEPSYQ------ETAPTVDNLE---------EGDWN-ER 97
            D  +     D + +    D   PS        ET+ T  + +         E DW  + 
Sbjct: 61  LDAVDTPVQRDEVAEAGEGDFTPPSASTSTASTETSTTAADSDGPAAEIAEREPDWEGDG 120

Query: 98  IPNELPVDTAWEDVYQTSASSLPSNDDDEWDFTTRTSVGESLQSHLLWQLNLAPMSDTDR 157
             +  P D+ W        ++L   DD+  D T      ESLQS L  Q     +S+ D 
Sbjct: 121 TVDMAPDDSEWGSDAPARQNNL--GDDERADATELARSQESLQSFLHRQALSLRLSENDS 178

Query: 158 LIAVTLIDCINNQGYLDETLEEILEAFDPELDIELDEI----EAVLHRIQQFEPAGIGAR 213
                LI+ +N+ GYL+++L  +      + + + D++    +  L  +Q  EP G+GAR
Sbjct: 179 AALRFLIESLNDDGYLEDSLPALASGLAGDDNDQFDDLVHHFQVALGLLQSLEPVGVGAR 238

Query: 214 TLSECLLLQLRQLPAKTAWLTEAQR---------LVTDYIDLLGSRDYSQLMRRMKLKED 264
            L ECL +QLR L A+     E  R         +    ++LL  RD+ +L    +  E+
Sbjct: 239 DLGECLSIQLRALAAEDEDGEEEDRAQVYKTAIAICKQPMELLARRDFKRLATLTRSNEE 298

Query: 265 DLRQVIELVQSLNPRPGSQIESSEAEYVVPDVIVRKD----NERWLVELNQESVPRLRVN 320
            +R  ++++  L P+PG +    E   V+PDVIV K     N ++ V LN E +PRLRV+
Sbjct: 299 LVRLALQVIARLEPKPGRRFVDVERNIVIPDVIVTKTGRGTNVKFRVMLNPEVMPRLRVH 358

Query: 321 PQYAGFVRRADTSADNTFMRNQLQEARWFIKSLQSRNETLMKVATQIVEHQRGFLEYGDE 380
             YAG ++ +     +  +  +LQEARWFIK++Q R +T+++V+  IVE Q+ +  +G+ 
Sbjct: 359 DIYAGALK-SHKGEGSQALSQRLQEARWFIKNIQQRFDTILRVSNAIVERQKSYFVHGEL 417

Query: 381 AMKPLVLHDIAEAVGMHESTISRVTTQKFMHTPRGIYELKYFFSSHVSTSEGGECSSTAI 440
           AM+PLVL +IA+ +G+HESTISRVTT K+M TP G  ELKYFF S + T  GG  SSTA+
Sbjct: 418 AMRPLVLREIADELGLHESTISRVTTAKYMATPFGTVELKYFFGSALGTETGGNASSTAV 477

Query: 441 RAIIKKLVAAENQKKPLSDSKIAGLLEAQGIQVARRTVAKYRESLGIAPSSERKRL 496
           RA+IK+ V++E+ KKPLSDS+I+ +L+ QGI+ ARRTVAKYRE+L IAP++ RK L
Sbjct: 478 RALIKQFVSSESIKKPLSDSQISEMLKEQGIECARRTVAKYREALRIAPANLRKAL 533