Pairwise Alignments

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

Subject, 738 a.a., RNA polymerase sigma factor RpoD from Hydrogenophaga sp. GW460-11-11-14-LB1

 Score =  635 bits (1639), Expect = 0.0
 Identities = 335/624 (53%), Positives = 441/624 (70%), Gaps = 20/624 (3%)

Query: 3   QNPQSQLKQLVLRGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDA 62
           +N + +LK L+  GK +GYLT+ E+NDHLP ++V++E +E ++ ++NDMG+ V E  PDA
Sbjct: 131 RNRRERLKTLIKLGKTRGYLTHGEINDHLPDKLVEAETLEVVVSLLNDMGVAVYEQTPDA 190

Query: 63  DDLALSDD--TTITDEDAAEAAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEID 120
           + L L++   T  T+E+A E A AALS+V+SE GRTTDPVRMYMREMGTVELLTREGEI+
Sbjct: 191 ETLLLNNTGPTAATEEEAEEEAEAALSTVDSEFGRTTDPVRMYMREMGTVELLTREGEIE 250

Query: 121 IAKRIEDGINQVQSAIAEYPGTIPYILEQFDRVQAEELRLTDLISGFVDPNDMETEAPTA 180
           IAKRIE G+N + +AI+E P TI  IL   + ++  ++ ++ ++ GF D ++ +      
Sbjct: 251 IAKRIEGGLNDMMAAISESPATIAEILVMAEDIREGKVVISTVVDGFADADEAD------ 304

Query: 181 THIGSELSEADLADEDDAVVEDEDEDEDEDGDGESSDSEEEVGIDPELAREKFNELRGKF 240
                     D   E+D   +D DE +D+DG G S     ++      A  +F+ +R  F
Sbjct: 305 ----------DYVAEED--FDDYDEADDDDGKGGSKALTRKLEELKREALSRFDNMRTLF 352

Query: 241 QNLQLAVNEFGRDSHQASEASDLVLDIFREFRLTPKQFDHLVETLRTSMDRVRTQERLVM 300
           + L    ++ G  +    +    + +     R T K  + L  T+R+ +D VR +ER + 
Sbjct: 353 EKLHKIYDKEGYGTPGYLKTQTSITETLMSIRFTAKAIEKLCGTMRSQVDDVRKKERELR 412

Query: 301 KAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASDKPYVAKVREQEEEIRRSIQKLQMIE 360
           + +V+   MP+++FI  F  N  N +W++K  A+ KP+   +      ++   Q L  I+
Sbjct: 413 RIIVDKCGMPQETFIKEFPPNLLNLKWVEKQAAAGKPWSVVIERNIPPVQELQQGLINIQ 472

Query: 361 QETSLSVERIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEG 420
               + +  +KDI +RM+ GE+ +R AKKEM+EANLRLVISIAKKYTNRGLQFLDLIQEG
Sbjct: 473 ASVVVPLTHLKDIHKRMNQGESTSRDAKKEMIEANLRLVISIAKKYTNRGLQFLDLIQEG 532

Query: 421 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISR 480
           NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINK+NRISR
Sbjct: 533 NIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKMNRISR 592

Query: 481 QMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTL 540
           Q LQE G EP    LAE+M+MPEDKIRK++KIAKEPISMETPIGDD+DSHLGDFIED   
Sbjct: 593 QHLQEFGFEPDASILAEKMEMPEDKIRKIMKIAKEPISMETPIGDDDDSHLGDFIEDQAN 652

Query: 541 ELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIR 600
             P+++A    L+   +++L  LTPREAKVLRMRFGI+M+TDHTLEEVGKQFDVTRERIR
Sbjct: 653 TAPIEAAMQAGLREVVKEILDSLTPREAKVLRMRFGIEMSTDHTLEEVGKQFDVTRERIR 712

Query: 601 QIEAKALRKLRHPSRSEVLRSFLD 624
           QIE+KA+RKL+HPSRS+ LRSF+D
Sbjct: 713 QIESKAVRKLKHPSRSDKLRSFID 736