Pairwise Alignments

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

Subject, 324 a.a., RpoD family RNA polymerase sigma factor (RefSeq) from Shewanella loihica PV-4

 Score =  207 bits (526), Expect = 7e-58
 Identities = 113/281 (40%), Positives = 171/281 (60%), Gaps = 11/281 (3%)

Query: 339 VAKVREQEEEIRRSIQK--------LQMIEQETSLSVERIKDISRRMSIGEAKARRAKKE 390
           V K  E E++++  +QK        L  I     LS E     SR+   G  K+R     
Sbjct: 31  VLKDAELEQQVQDDLQKNLDATQLYLSEIGFSPLLSAEEEVYFSRKALKGCEKSRN---R 87

Query: 391 MVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWWIRQA 450
           M+E+NLRLV+ IA++Y NRGL  LDLI+EGN+GL++AV+KF+  RG++FSTYATWWIRQ 
Sbjct: 88  MIESNLRLVVKIARRYNNRGLALLDLIEEGNLGLIRAVEKFDPERGFRFSTYATWWIRQT 147

Query: 451 ITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPLPEELAERMQMPEDKIRKVL 510
           I R+I +Q RTIR+P+H+++ +N   R +R++  ++  EP  EE+AE++ +P   + K+L
Sbjct: 148 IERAIMNQTRTIRLPIHVVKELNVYLRTARELAHKLDHEPTAEEIAEQLDLPSSDVSKML 207

Query: 511 KIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATATSLKAATRDVLAGLTPREAKV 570
           K+ +   S++TP+G D D  L D + D     P        +  +    L  L  ++ +V
Sbjct: 208 KLNERITSVDTPLGGDNDKALLDVLADDDCVGPDYKVQDDDMSKSVVRWLDELNSKQREV 267

Query: 571 LRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 611
           L  RFG+      TLE VGK+  +TRER+RQI+ +AL++LR
Sbjct: 268 LARRFGLLGYEPSTLENVGKEIGLTRERVRQIQVEALKRLR 308



 Score = 30.8 bits (68), Expect = 9e-05
 Identities = 20/95 (21%), Positives = 44/95 (46%), Gaps = 2/95 (2%)

Query: 70  DTTITDEDAAEAAAAALSSVESEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDGI 129
           D ++T+       A     V+ ++ +  D  ++Y+ E+G   LL+ E E+  +++   G 
Sbjct: 22  DLSVTNSKEVLKDAELEQQVQDDLQKNLDATQLYLSEIGFSPLLSAEEEVYFSRKALKGC 81

Query: 130 NQVQSAIAEYPGTIPYILEQFDRVQAEELRLTDLI 164
            + ++ + E    +  +++   R     L L DLI
Sbjct: 82  EKSRNRMIE--SNLRLVVKIARRYNNRGLALLDLI 114