Pairwise Alignments

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

Subject, 320 a.a., RNA polymerase sigma factor SigD from Synechococcus elongatus PCC 7942

 Score =  211 bits (538), Expect = 3e-59
 Identities = 104/249 (41%), Positives = 171/249 (68%), Gaps = 6/249 (2%)

Query: 370 IKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVD 429
           I+++ ++  +GE    +AK++M+EANLRLV+S+AKKY  R +  LDLIQEG IG+ + V+
Sbjct: 72  IEELRQQQHLGE----QAKRKMIEANLRLVVSVAKKYLKRNMDLLDLIQEGTIGMQRGVE 127

Query: 430 KFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGRE 489
           KF+  +GY+FSTYA WWIRQAITR+IA++ARTIR+P+H+ E +NK+ ++ RQ+ Q++GR 
Sbjct: 128 KFDPTKGYRFSTYAYWWIRQAITRAIAEKARTIRLPIHITEKLNKIKKMQRQLSQQLGRT 187

Query: 490 PLPEELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATA 549
               ELA  + +   ++R  L+ A+ P+S++  +GD++D+ LGD +E T    P +    
Sbjct: 188 ATLPELAAALDLTPAQVRDYLEKARHPLSLDLRVGDNQDTELGDLLE-TDCTTPEEFTLQ 246

Query: 550 TSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRK 609
            S++     +L  LT ++ +V+ +R+G++     TL  +G +  ++RER+RQ+E +AL  
Sbjct: 247 ASMRRDIDRLLDQLTEQQRQVIALRYGLEDGQVMTLASIGDRLQISRERVRQLEREALHT 306

Query: 610 LRHPSRSEV 618
           LR  +RS+V
Sbjct: 307 LRQ-ARSQV 314



 Score = 36.6 bits (83), Expect = 2e-06
 Identities = 16/31 (51%), Positives = 23/31 (74%)

Query: 96  TTDPVRMYMREMGTVELLTREGEIDIAKRIE 126
           T+D VR Y+RE+G V LLT E E+ + KR++
Sbjct: 8   TSDLVRTYLREIGRVPLLTHEEEVVLGKRVQ 38