Pairwise Alignments

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

Subject, 521 a.a., RNA polymerase sigma-54 factor 2 from Xanthobacter sp. DMC5

 Score =  302 bits (773), Expect = 2e-86
 Identities = 194/520 (37%), Positives = 288/520 (55%), Gaps = 36/520 (6%)

Query: 1   MKPSLVLRMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALESNPMLERQEEGDDFDNAD 60
           M P L  R  Q L MTPQL QAI+LLQLS ++L   ++  LE NP+LER  EGD    +D
Sbjct: 3   MSPKLEFRQSQSLVMTPQLMQAIKLLQLSNMELVAYVEAELERNPLLERITEGDT-SGSD 61

Query: 61  PLADNIEQK--------------PNSDVQEPSYQETAPTVDNLEEGDWNERIPNELPVDT 106
           P  +  E +              P SD      +++   ++   + D     P+++P D 
Sbjct: 62  PQPEVRETRGEEMARGGLDGEPPPASDWTGNDNEQSRAAMETRLDTDLGNVFPDDVPADR 121

Query: 107 AWEDVYQTSASSLPSNDD--------DEWDFTTRTSVGESLQSHLLWQLNLAPMSDTDRL 158
                  T++S  PS  +        ++++     +   +L  HL  QL++A      RL
Sbjct: 122 GVTGGGSTASS--PSMGEWSGGGERGEDYNPEAFLTAETTLADHLEAQLSVAVSDPARRL 179

Query: 159 IAVTLIDCINNQGYLDETLEEILEAFDPELDIELDEIEAVLHRIQQFEPAGIGARTLSEC 218
           I + +I  I+  GY    L+ +   F     +   E+EAVL  IQ FEP+G+GAR L+EC
Sbjct: 180 IGINVIGLIDETGYFTGDLDLLAGQFG----VPRAEVEAVLKLIQTFEPSGVGARNLAEC 235

Query: 219 LLLQLRQLPAKTAWLTEAQRLVTDYIDLLGSRDYSQLMRRMKLKEDDLRQVIELVQSLNP 278
           L +QLR+   +  +    Q LV + ++LL   D + L R   +  +DL  +I  ++ L+P
Sbjct: 236 LAIQLRE---RDRFDPAMQALVAN-LELLARHDRNALKRVCGVDNEDLADMIGEIRRLDP 291

Query: 279 RPGSQIESSEAEYVVPDVIVRKDNE-RWLVELNQESVPRLRVNPQY-AGFVRRADTSADN 336
           +PG    S     +VPDV VR   +  WLVELN E++PR+ VN  Y A  V+ A +  + 
Sbjct: 292 KPGLAFGSGVVHPLVPDVYVRPGADGTWLVELNSETLPRVLVNQSYHATVVKHAKSQEEK 351

Query: 337 TFMRNQLQEARWFIKSLQSRNETLMKVATQIVEHQRGFLEYGDEAMKPLVLHDIAEAVGM 396
           +F+ + LQ A W  +SL  R  T++KVA++IV  Q  FL +G   ++PL L  +A+A+GM
Sbjct: 352 SFLADCLQSASWLTRSLDQRARTILKVASEIVRQQDAFLLHGVRFLRPLNLRTVADAIGM 411

Query: 397 HESTISRVTTQKFMHTPRGIYELKYFFSSHVSTSEGGEC-SSTAIRAIIKKLVAAENQKK 455
           HEST+SRVT+ K++ TPRG+ E+K+FFSS +S S GGE  S+ ++R  IK L+ AE  K 
Sbjct: 412 HESTVSRVTSNKYISTPRGVVEMKFFFSSAISASGGGEAHSAESVRHRIKMLIEAEAPKD 471

Query: 456 PLSDSKIAGLLEAQGIQVARRTVAKYRESLGIAPSSERKR 495
            LSD  +   L+  GI +ARRTVAKYRE + I  S +R+R
Sbjct: 472 VLSDDTLVQKLKDDGIDIARRTVAKYREGMNIPSSVQRRR 511