Pairwise Alignments

Query, 497 a.a., RNA polymerase sigma-54 factor from Pseudomonas putida KT2440

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

 Score =  316 bits (810), Expect = 1e-90
 Identities = 201/520 (38%), Positives = 291/520 (55%), Gaps = 36/520 (6%)

Query: 1   MKPSLVLKMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALESNPMLERQEDGEDFDNSD 60
           M P L  +  Q L MTPQL QAI+LLQLS ++L   ++  LE NP+LER  +G D   SD
Sbjct: 3   MSPKLEFRQSQSLVMTPQLMQAIKLLQLSNMELVAYVEAELERNPLLERITEG-DTSGSD 61

Query: 61  PMADNAENK--------------PAAEVQDNSFQESTVSADNLEDGEWSERIPNELPVDT 106
           P  +  E +              PA++   N  ++S  + +   D +     P+++P D 
Sbjct: 62  PQPEVRETRGEEMARGGLDGEPPPASDWTGNDNEQSRAAMETRLDTDLGNVFPDDVPADR 121

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

Query: 159 IAVTLIDSINGQGYLEDTLEEICAGFDPELDIELDEVEAVLHRIQQFEPAGVGARNLGEC 218
           I + +I  I+  GY    L+ +   F     +   EVEAVL  IQ FEP+GVGARNL EC
Sbjct: 180 IGINVIGLIDETGYFTGDLDLLAGQFG----VPRAEVEAVLKLIQTFEPSGVGARNLAEC 235

Query: 219 LLLQLRQLPATTPWMTEAKRLVTDFIDLLGSRDYSQLMRRMKIKEDELRQVIELVQSLNP 278
           L +QLR+     P M   + LV + ++LL   D + L R   +  ++L  +I  ++ L+P
Sbjct: 236 LAIQLRERDRFDPAM---QALVAN-LELLARHDRNALKRVCGVDNEDLADMIGEIRRLDP 291

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

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

Query: 397 HESTISRVTTQKYMHTPRGIYELKYFFSSHVSTSEGGEC-SSTAIRAIIKKLVAAENQKK 455
           HEST+SRVT+ KY+ 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