Pairwise Alignments

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

Subject, 398 a.a., RNA polymerase sigma factor SigC from Synechococcus elongatus PCC 7942

 Score =  242 bits (617), Expect = 3e-68
 Identities = 126/278 (45%), Positives = 189/278 (67%), Gaps = 9/278 (3%)

Query: 348 EIRRSIQK-LQMIEQETSLSVERIKDISRRMSIGEAKARRAKKEMVEANLRLVISIAKKY 406
           E+R+++Q  L    +   L +E +K + +       + +RAK  M++ANLRLV+S+AKKY
Sbjct: 126 ELRQALQLGLHRWAEVCQLDLEELKQVCK-------EGQRAKDHMIKANLRLVVSVAKKY 178

Query: 407 TNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQARTIRIPV 466
            NRGL+ LDL+QEG +GL +AV+KF+  +GY+FSTYA WWIRQ ITR+IA Q+RTIR+PV
Sbjct: 179 QNRGLELLDLVQEGTLGLERAVEKFDPTKGYRFSTYAYWWIRQGITRAIATQSRTIRLPV 238

Query: 467 HMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPISMETPIGDD 526
           H+ E +N++ +  R++ Q  GR    EE+A+ ++M  D++R+VL    + IS+ET +G +
Sbjct: 239 HVTEKLNRIKKAQRKIAQTKGRTANLEEIAQELEMTPDQVREVLLRVPKSISLETRVGKE 298

Query: 527 EDSHLGDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLE 586
           +D+ LGD +E TT   P +  T  SL    + +L  L  RE  V+RMRFG+     ++L 
Sbjct: 299 KDTELGDLLE-TTDFTPEERLTQESLSNDLQRLLLELNHRERDVIRMRFGLRDGQIYSLA 357

Query: 587 EVGKQFDVTRERIRQIEAKALRKLRHPSRSEVLRSFLD 624
           E+G+  D++RER+RQIEAKAL+KLRHP R   +R +L+
Sbjct: 358 EIGQVLDLSRERVRQIEAKALQKLRHPRRRNQIRDYLE 395



 Score = 37.0 bits (84), Expect = 2e-06
 Identities = 19/59 (32%), Positives = 37/59 (62%), Gaps = 5/59 (8%)

Query: 68  SDDTTITDEDAAEAAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIE 126
           SD   +++  ++EA   A+SS +S     TD +R+Y++++G V LL R+ E+  A+ ++
Sbjct: 17  SDVANLSETPSSEAVETAVSSRQS-----TDLIRLYLQDIGRVRLLGRDEEVSEARWVQ 70