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 RpoD from Escherichia coli HS(pFamp)R (ATCC 700891)

 Score =  939 bits (2428), Expect = 0.0
 Identities = 487/625 (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 REAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIR
Sbjct: 529 ELPLDSATTESLRAATHDVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIR 588

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