Pairwise Alignments

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

Subject, 616 a.a., RpoD family RNA polymerase sigma factor (RefSeq) from Shewanella loihica PV-4

 Score =  896 bits (2316), Expect = 0.0
 Identities = 468/625 (74%), Positives = 530/625 (84%), Gaps = 12/625 (1%)

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

Query: 61  DADDLALSDDTTITDEDAAEAAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEID 120
           DAD++ +S+D+T  DEDAAE AAAAL++VE+E+GRTTDPVRMYMREMGTVELLTREGEI 
Sbjct: 64  DADEIMMSEDST--DEDAAEEAAAALATVEAELGRTTDPVRMYMREMGTVELLTREGEIV 121

Query: 121 IAKRIEDGINQVQSAIAEYPGTIPYILEQFDRVQAEELRLTDLISGFVDPNDMETEAPTA 180
           IAKRIE+GIN VQ+++AEYP  I  ILEQ+DR +AEE+RL+D+ISGFVDPN  E  APTA
Sbjct: 122 IAKRIEEGINTVQASVAEYPQAIAMILEQYDRYEAEEVRLSDIISGFVDPN-AEDMAPTA 180

Query: 181 THIGSELSEADLADEDDAVVEDEDEDEDEDGDGESSDSEEEVGIDPELAREKFNELRGKF 240
           THIGSELS+ DL DEDD     E +DED+DGD E S      G DPE ARE+F +LR   
Sbjct: 181 THIGSELSDDDLDDEDD-----EGDDEDDDGDEEDSPK----GPDPEEARERFTQLREAH 231

Query: 241 QNLQLAVNEFGRDSHQASEASDLVLDIFREFRLTPKQFDHLVETLRTSMDRVRTQERLVM 300
           +     +   GR+  +A+ A   + +IF+EFRL PKQFD LV+ +R  MD+VR QERL+M
Sbjct: 232 EKALKVIELKGREHPEATAALFDIGEIFKEFRLVPKQFDRLVKNMREMMDKVRIQERLIM 291

Query: 301 KAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASDKPYVAKVREQEEEIRRSIQKLQMIE 360
           K  VE AKMPKK+F+ ++T NES+ EW ++ +A+ KPY   +    E+++R   KL  IE
Sbjct: 292 KLCVEQAKMPKKNFVKVYTSNESSIEWFNEEIAAKKPYAEGLEMVAEDVQRCRAKLDAIE 351

Query: 361 QETSLSVERIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG 420
            ET L++  IKDI+RRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG
Sbjct: 352 NETGLAIAAIKDINRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG 411

Query: 421 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISR 480
           NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISR
Sbjct: 412 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISR 471

Query: 481 QMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTL 540
           QMLQEMGREP PEELAERM MPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTL
Sbjct: 472 QMLQEMGREPSPEELAERMLMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTL 531

Query: 541 ELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIR 600
           ELPLDSAT  SLK AT +VLAGLT REAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIR
Sbjct: 532 ELPLDSATGESLKNATHEVLAGLTAREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIR 591

Query: 601 QIEAKALRKLRHPSRSEVLRSFLDE 625
           QIEAKALRKLRHPSRSE+L+SFLDE
Sbjct: 592 QIEAKALRKLRHPSRSEILKSFLDE 616