Pairwise Alignments

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

Subject, 664 a.a., RNA polymerase, sigma 70 subunit, RpoD family (RefSeq) from Dinoroseobacter shibae DFL-12

 Score =  543 bits (1400), Expect = e-159
 Identities = 310/648 (47%), Positives = 420/648 (64%), Gaps = 35/648 (5%)

Query: 6   QSQLKQLVLRGKEQGYLTYAEVNDHLPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDL 65
           Q+ +K+++   + +GY+TY ++N  LP + V SEQ+ED++ M+++MGI ++E     D  
Sbjct: 24  QAAVKKMIAEARTRGYITYDQLNQVLPPDQVSSEQIEDVMSMLSEMGINIIEEDEAEDGD 83

Query: 66  ALSDDTTITDEDAAEAAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRI 125
           A ++ +T   E ++    A  +S    + RT DPVRMY+REMG+VELL+REGEI IAKRI
Sbjct: 84  APANASTQVVESSSSREVAVSTSSSETLDRTDDPVRMYLREMGSVELLSREGEIAIAKRI 143

Query: 126 EDGINQVQSAIAEYPGTIPYILEQFDRVQAEELRLTDLIS------GFVDPND------- 172
           E G N + + + E P T   I    D + +E++ L D+I       G +D ++       
Sbjct: 144 EAGRNTMIAGLCESPLTFQAITIWRDELLSEDILLRDVIDLEATMGGAMDEDEESSSVVE 203

Query: 173 METEAPTATHIGSELSEADLADEDDAVVEDEDEDEDEDGDGESSDSEEEVGIDP------ 226
           M   +P A    SE S+    D D   +   D+++DED     S +  E  + P      
Sbjct: 204 MAANSPAAP---SEKSDEPELDADGNPIAKTDDEDDEDDQANMSLAAMEAALKPKVLETL 260

Query: 227 ELAREKFNELRGKFQNLQLAVNEFGRDSHQASEASDL------VLDIFREFRLTPKQFDH 280
           +L    + +L  + Q+L+++      +S    + S+       ++ +  E  L   + + 
Sbjct: 261 DLIARDYAQL-SEMQDLRISATLNEDESFSVEDESNYQKLRAEIVLLVNELHLHNNRIEA 319

Query: 281 LVETLRTSMDRVRTQERLVMKAVVEVAKMPKKSFIALFTGNESNEEWLDKVLASDKP--- 337
           L++ L     R+   +  ++K + + A++ ++ F+  + G E +  WL+++  ++KP   
Sbjct: 320 LIDQLYGINRRIMAIDSSMVK-LADQARINRREFVEAYRGYELDPTWLERM--AEKPGRG 376

Query: 338 YVAKVREQEEEIRRSIQKLQMIEQETSLSVERIKDISRRMSIGEAKARRAKKEMVEANLR 397
           + A +     +I      +  +     + +   + I +++  GE +AR+AKKEMVEANLR
Sbjct: 377 WQAFIERSTTKIEELRSDMAQVGTYVGVDITEFRRIVQQVQKGEKEARQAKKEMVEANLR 436

Query: 398 LVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD 457
           LVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD
Sbjct: 437 LVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIAD 496

Query: 458 QARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPI 517
           QARTIRIPVHMIETINKL R  RQML E+GREP PEELAE++QMP +K+RKV+KIAKEPI
Sbjct: 497 QARTIRIPVHMIETINKLVRTGRQMLHEIGREPTPEELAEKLQMPLEKVRKVMKIAKEPI 556

Query: 518 SMETPIGDDEDSHLGDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFGI 577
           S+ETPIGD+EDS LGDFIED    LPLDSA   +LK  T  VLA LTPRE +VLRMRFGI
Sbjct: 557 SLETPIGDEEDSQLGDFIEDKNAVLPLDSAIQENLKETTTRVLASLTPREERVLRMRFGI 616

Query: 578 DMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLDE 625
            MNTDHTLEEVG+QF VTRERIRQIEAKALRKL+HPSRS  LRSFLD+
Sbjct: 617 GMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLKHPSRSRKLRSFLDQ 664