Pairwise Alignments

Query, 477 a.a., RNA polymerase factor sigma-54 from Escherichia coli ECRC99

Subject, 542 a.a., RNA polymerase sigma-54 factor RpoN from Hydrogenophaga sp. GW460-11-11-14-LB1

 Score =  335 bits (858), Expect = 3e-96
 Identities = 215/547 (39%), Positives = 303/547 (55%), Gaps = 76/547 (13%)

Query: 1   MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRE 60
           +KQGL LR+SQ LA+TPQLQQ+IRLLQLSTLE+ QE++Q L+ NP LE+    EEI  RE
Sbjct: 1   VKQGLSLRVSQHLALTPQLQQSIRLLQLSTLEMAQEVEQMLDENPFLER---SEEIAERE 57

Query: 61  TQDSETLDT-----------------------------------ADALEQKEMPEELPLD 85
           T   E  D                                     D LE K +    P++
Sbjct: 58  TFGLEQTDVPVSAGEQIAEAAVPDAPAPLSSSPESTSASTDSGDGDGLEGK-LDGATPVE 116

Query: 86  ASW-----------DTIYTAGTPSGTSGDYIDDELPVYQ--GETTQTLQDYLMWQVELTP 132
            SW           D+ +    P+  SG    DE            +LQD+L  Q     
Sbjct: 117 ESWEGDGTVEMSPDDSEWGGDAPARNSGSGDSDETASAADLARAPVSLQDHLHDQARCLR 176

Query: 133 FSDTDRAIATSIVDAVDDTGYLTVPLEDILESM----------GDEEIDIDEVEAVLKRI 182
            SD DRA    ++++++D GYL   L D+ ++           GD    ++  EA+ +R+
Sbjct: 177 LSDEDRAALYFLIESLNDDGYLEENLSDLADAWLHLSGMPQLAGDPNEALEAREALEQRL 236

Query: 183 -------QRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTL 235
                  Q  +P GV A+DL +CL +Q+ +  + T     A  I +  L+L+A  D + L
Sbjct: 237 AVALQLLQHMEPSGVGARDLGECLRLQILEL-RNTAEARAALAICNQPLELMAKRDVKRL 295

Query: 236 MRVTRLKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIP 295
             +  L ++ ++ A+ LI  L+P+PG+     E   V+PDV+V +    + V LN D +P
Sbjct: 296 CNLCGLDDETVRAALGLIARLEPKPGRRFVDVERNVVVPDVIVTRAGRGFKVILNPDVMP 355

Query: 296 RLQINQHYASMCNNARNDGDS------QFIRSNLQDAKWLIKSLESRNDTLLRVSRCIVE 349
           RL+++  YA+     R   DS        ++  LQ+A+W IK+++ R DT+LRVS  IVE
Sbjct: 356 RLRVHDVYANAMRQNRGGRDSGGEAGHAAMQQRLQEARWFIKNIQQRFDTILRVSSAIVE 415

Query: 350 QQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELKYFFSSHVNT 409
           +Q+ FF  GE  M+P+VL +IA  + +HESTISRVTT KY+ +P G +ELKYFF S + T
Sbjct: 416 RQRNFFMHGELAMRPLVLREIADELGLHESTISRVTTAKYMATPFGTYELKYFFGSSLGT 475

Query: 410 EGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPP 469
           E GG ASSTA+RAL+K+ IA+E PAKPLSD++L+ LL EQGI  ARRTVAKYRE+L I P
Sbjct: 476 ETGGNASSTAVRALLKQFIASEEPAKPLSDNQLSDLLREQGIECARRTVAKYREALRIAP 535

Query: 470 SNQRKQL 476
           +N RK L
Sbjct: 536 ANLRKAL 542