Pairwise Alignments

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

Subject, 620 a.a., RNA polymerase sigma-70 factor (RefSeq) from Shewanella amazonensis SB2B

 Score =  912 bits (2357), Expect = 0.0
 Identities = 471/625 (75%), Positives = 536/625 (85%), Gaps = 8/625 (1%)

Query: 1   MDQNPQSQLKQLVLRGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAP 60
           MD  PQSQLK L+ +GKEQGYLTYAEVNDHLPA++VDS+Q+EDIIQMINDMGI+V E AP
Sbjct: 4   MDHTPQSQLKMLLAKGKEQGYLTYAEVNDHLPADMVDSDQIEDIIQMINDMGIRVYEEAP 63

Query: 61  DADDLALSDDTTITDEDAAEAAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEID 120
           DAD++ +S+D T  DEDAAE AAAAL++VESE+GRTTDPVRMYMREMGTVELLTREGEI 
Sbjct: 64  DADEMMMSEDNT--DEDAAEEAAAALATVESELGRTTDPVRMYMREMGTVELLTREGEIV 121

Query: 121 IAKRIEDGINQVQSAIAEYPGTIPYILEQFDRVQAEELRLTDLISGFVDPNDMETEAPTA 180
           IAKRIE+GIN VQS++AEYP  I  ILEQFD+ +A+ +RL+D+ISGFVDPN+ E   PTA
Sbjct: 122 IAKRIEEGINTVQSSVAEYPQAISMILEQFDQFEADAIRLSDIISGFVDPNE-EDVGPTA 180

Query: 181 THIGSELSEADLADEDDAVVEDEDEDEDEDGDGESSDSEEEVGIDPELAREKFNELRGKF 240
           THIGSELSE +L DEDD      DEDE+ED DG+SSD +   G DPE+ARE+F  LR  +
Sbjct: 181 THIGSELSEEELEDEDDM-----DEDEEEDEDGDSSDDDGAKGPDPEVARERFAALRAAY 235

Query: 241 QNLQLAVNEFGRDSHQASEASDLVLDIFREFRLTPKQFDHLVETLRTSMDRVRTQERLVM 300
            N    +   GR   +++ A   + +IF+EFRL PKQFD LV+++R  MD+VR QERL+M
Sbjct: 236 DNALKVIEVKGRAHPESTRALFELGEIFKEFRLVPKQFDRLVKSMREMMDKVRVQERLIM 295

Query: 301 KAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASDKPYVAKVREQEEEIRRSIQKLQMIE 360
           K  VE AKMPKK+F+ LFTGNE++  W +K + + +PY A ++  +E+++R   KL+ IE
Sbjct: 296 KLCVEQAKMPKKNFVKLFTGNETDLTWFNKEIEAGRPYSADLKLVDEDVQRCRAKLEAIE 355

Query: 361 QETSLSVERIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG 420
            ET LS+E IKDI+RRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG
Sbjct: 356 VETGLSIESIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG 415

Query: 421 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISR 480
           NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISR
Sbjct: 416 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISR 475

Query: 481 QMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTL 540
           QMLQEMGREP PEELAERM MPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTL
Sbjct: 476 QMLQEMGREPSPEELAERMAMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTL 535

Query: 541 ELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIR 600
           ELPLDSAT+ SLK AT +VLAGLT REAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIR
Sbjct: 536 ELPLDSATSESLKQATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIR 595

Query: 601 QIEAKALRKLRHPSRSEVLRSFLDE 625
           QIEAKALRKLRHPSRSE+L+SFLD+
Sbjct: 596 QIEAKALRKLRHPSRSEILKSFLDD 620