Pairwise Alignments

Query, 625 a.a., RNA polymerase sigma factor RpoD from Vibrio cholerae E7946 ATCC 55056

Subject, 613 a.a., RNA polymerase sigma factor (NCBI) from Escherichia coli BW25113

 Score =  937 bits (2422), Expect = 0.0
 Identities = 486/625 (77%), Positives = 542/625 (86%), Gaps = 12/625 (1%)

Query: 1   MDQNPQSQLKQLVLRGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAP 60
           M+QNPQSQLK LV RGKEQGYLTYAEVNDHLP +IVDS+Q+EDIIQMINDMGI+V+E AP
Sbjct: 1   MEQNPQSQLKLLVTRGKEQGYLTYAEVNDHLPEDIVDSDQIEDIIQMINDMGIQVMEEAP 60

Query: 61  DADDLALSDDTTITDEDAAEAAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEID 120
           DADDL L+++T   DEDAAEAAA  LSSVESEIGRTTDPVRMYMREMGTVELLTREGEID
Sbjct: 61  DADDLMLAENTA--DEDAAEAAAQVLSSVESEIGRTTDPVRMYMREMGTVELLTREGEID 118

Query: 121 IAKRIEDGINQVQSAIAEYPGTIPYILEQFDRVQAEELRLTDLISGFVDPNDMETEAPTA 180
           IAKRIEDGINQVQ ++AEYP  I Y+LEQ+DRV+AEE RL+DLI+GFVDPN  E  APTA
Sbjct: 119 IAKRIEDGINQVQCSVAEYPEAITYLLEQYDRVEAEEARLSDLITGFVDPNAEEDLAPTA 178

Query: 181 THIGSELSEADLADEDDAVVEDEDEDEDEDGDGESSDSEEEVGIDPELAREKFNELRGKF 240
           TH+GSELS+ DL D       DEDEDE EDGD +S+D +    IDPELAREKF ELR ++
Sbjct: 179 THVGSELSQEDLDD-------DEDEDE-EDGDDDSADDDNS--IDPELAREKFAELRAQY 228

Query: 241 QNLQLAVNEFGRDSHQASEASDLVLDIFREFRLTPKQFDHLVETLRTSMDRVRTQERLVM 300
              +  +   GR    A E    + ++F++FRL PKQFD+LV ++R  MDRVRTQERL+M
Sbjct: 229 VVTRDTIKAKGRSHATAQEEILKLSEVFKQFRLVPKQFDYLVNSMRVMMDRVRTQERLIM 288

Query: 301 KAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASDKPYVAKVREQEEEIRRSIQKLQMIE 360
           K  VE  KMPKK+FI LFTGNE+++ W +  +A +KP+  K+ +  EE+ R++QKLQ IE
Sbjct: 289 KLCVEQCKMPKKNFITLFTGNETSDTWFNAAIAMNKPWSEKLHDVSEEVHRALQKLQQIE 348

Query: 361 QETSLSVERIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG 420
           +ET L++E++KDI+RRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG
Sbjct: 349 EETGLTIEQVKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG 408

Query: 421 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISR 480
           NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISR
Sbjct: 409 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISR 468

Query: 481 QMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTL 540
           QMLQEMGREP PEELAERM MPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTL
Sbjct: 469 QMLQEMGREPTPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTL 528

Query: 541 ELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIR 600
           ELPLDSAT  SL+AAT DVLAGLT REAKVLRMRFGIDMNTD+TLEEVGKQFDVTRERIR
Sbjct: 529 ELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDYTLEEVGKQFDVTRERIR 588

Query: 601 QIEAKALRKLRHPSRSEVLRSFLDE 625
           QIEAKALRKLRHPSRSEVLRSFLD+
Sbjct: 589 QIEAKALRKLRHPSRSEVLRSFLDD 613