Pairwise Alignments

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

Subject, 327 a.a., RNA polymerase sigma-38 factor (RefSeq) from Shewanella amazonensis SB2B

 Score =  199 bits (505), Expect = 2e-55
 Identities = 103/273 (37%), Positives = 172/273 (63%), Gaps = 7/273 (2%)

Query: 343 REQEEEIRRSIQKLQMIEQETS----LSVERIKDISRRMSIGEAKARRAKKEMVEANLRL 398
           ++ +++++R++   Q+   E      L+ E     SR+   G  K+R     M+E+NLRL
Sbjct: 42  QQVQDDLQRNLDATQLYLSEIGFSPLLTAEEEVYYSRKALRGCEKSRN---RMIESNLRL 98

Query: 399 VISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQAITRSIADQ 458
           V+ IA++Y NRGL  LDLI+EGN+GL++AV+KF+  RG++FSTYATWWIRQ I R+I +Q
Sbjct: 99  VVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQTIERAIMNQ 158

Query: 459 ARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVLKIAKEPIS 518
            RTIR+P+H+++ +N   R +R++  ++  EP  EE+A ++ +P  ++ ++LK+ ++  S
Sbjct: 159 TRTIRLPIHVVKELNVYLRTARELAHKLDHEPTAEEIAAKLNLPSVEVSRMLKLNEKITS 218

Query: 519 METPIGDDEDSHLGDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKVLRMRFGID 578
           ++ P+G D D  L D + D     P        +  +  + L  L  ++ +VL  RFG+ 
Sbjct: 219 VDVPLGGDNDKALLDVLPDDDSVGPDYKVQDEDISNSVVNWLNELNTKQREVLARRFGLL 278

Query: 579 MNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 611
                TLE+VG +  +TRER+RQI+ +AL++LR
Sbjct: 279 GYEPSTLEDVGAEIGLTRERVRQIQVEALKRLR 311



 Score = 32.3 bits (72), Expect = 3e-05
 Identities = 26/111 (23%), Positives = 48/111 (43%), Gaps = 3/111 (2%)

Query: 55  VVETAPDADDLALSDDTTITDEDAAEAAAAALSS-VESEIGRTTDPVRMYMREMGTVELL 113
           V E   D        DT +  E+ +      L   V+ ++ R  D  ++Y+ E+G   LL
Sbjct: 9   VAEKLVDFSGKEADTDTNMDGEEVSLVQDLELEQQVQDDLQRNLDATQLYLSEIGFSPLL 68

Query: 114 TREGEIDIAKRIEDGINQVQSAIAEYPGTIPYILEQFDRVQAEELRLTDLI 164
           T E E+  +++   G  + ++ + E    +  +++   R     L L DLI
Sbjct: 69  TAEEEVYYSRKALRGCEKSRNRMIE--SNLRLVVKIARRYNNRGLALLDLI 117