Pairwise Alignments

Query, 514 a.a., RNA polymerase sigma-54 factor from Agrobacterium fabrum C58

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

 Score =  301 bits (770), Expect = 5e-86
 Identities = 195/518 (37%), Positives = 288/518 (55%), Gaps = 40/518 (7%)

Query: 3   LSASLLLRQNQSLVMTPQLMQSIQLLQMTHFELTQFIAQEVERNPLLEIAANDGDLGSDT 62
           +  SL+LR  Q L MTPQL Q+I+LLQ++  +L Q I + +E NP+LE      D  +  
Sbjct: 1   MKPSLVLRMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALESNPMLERQEEGDDFDNAD 60

Query: 63  PVDVDNFGDAEASDAAV----RVTPDSD-----DWYGERAANLGEQLDTSFENVFPDDGE 113
           P+  DN      SD          P  D     DW  ER  N    +DT++E+V+     
Sbjct: 61  PL-ADNIEQKPNSDVQEPSYQETAPTVDNLEEGDW-NERIPN-ELPVDTAWEDVYQTSAS 117

Query: 114 PRKADAPELASQWKSMPGQESGESYDLDDFVAARQSLSDHLNQQLPLAISAAEDRMIADA 173
                         S+P  +  E +D     +  +SL  HL  QL LA  +  DR+IA  
Sbjct: 118 --------------SLPSNDDDE-WDFTTRTSVGESLQSHLLWQLNLAPMSDTDRLIAVT 162

Query: 174 LIGQLDETGYIAADAVDDVAE----RLGATPSAVEYVLKTLQGFDPPGIFSRSLSECLAT 229
           LI  ++  GY+  + ++++ E     L      +E VL  +Q F+P GI +R+LSECL  
Sbjct: 163 LIDCINNQGYLD-ETLEEILEAFDPELDIELDEIEAVLHRIQQFEPAGIGARTLSECLLL 221

Query: 230 QLAQKDR----LDPAMRAFVDNLELLAKRDFASLKKLCGVDEEDLLDMLAEIRTLNPRPG 285
           QL Q       L  A R   D ++LL  RD++ L +   + E+DL  ++  +++LNPRPG
Sbjct: 222 QLRQLPAKTAWLTEAQRLVTDYIDLLGSRDYSQLMRRMKLKEDDLRQVIELVQSLNPRPG 281

Query: 286 AGYDSMVSETIVPDIIVRPSSTGGWLVEINPDTLPRVLINQSYFAEVSKHKARAGEDQDF 345
           +  +S  +E +VPD+IVR  +   WLVE+N +++PR+ +N  Y   V   +A    D  F
Sbjct: 282 SQIESSEAEYVVPDVIVRKDNER-WLVELNQESVPRLRVNPQYAGFV--RRADTSADNTF 338

Query: 346 LSECMQTAHWLTRSLDQRARTIMKVASEIVRQQDAFLINGVDQLRPLNLKTVADAIKMHE 405
           +   +Q A W  +SL  R  T+MKVA++IV  Q  FL  G + ++PL L  +A+A+ MHE
Sbjct: 339 MRNQLQEARWFIKSLQSRNETLMKVATQIVEHQRGFLEYGDEAMKPLVLHDIAEAVGMHE 398

Query: 406 STVSRVTSKKYMLTPRGLFELKYFFSVSISAVEGGDSHSAEAVRHRIKAMIAQEAAEAVL 465
           ST+SRVT++K+M TPRG++ELKYFFS  +S  EGG+  S+ A+R  IK ++A E  +  L
Sbjct: 399 STISRVTTQKFMHTPRGIYELKYFFSSHVSTSEGGEC-SSTAIRAIIKKLVAAENQKKPL 457

Query: 466 SDDDIVDNLKKTGIDIARRTVAKYREAMNIPSSVQRRR 503
           SD  I   L+  GI +ARRTVAKYRE++ I  S +R+R
Sbjct: 458 SDSKIAGLLEAQGIQVARRTVAKYRESLGIAPSSERKR 495