Pairwise Alignments

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

Subject, 335 a.a., RNA polymerase, sigma S (sigma 38) factor from Pseudomonas putida KT2440

 Score =  201 bits (512), Expect = 3e-56
 Identities = 110/299 (36%), Positives = 178/299 (59%), Gaps = 18/299 (6%)

Query: 328 LDKVLASDKPYVAKVREQEE-----------EIRRSIQKLQMIEQETS----LSVERIKD 372
           L+  + SD+P V+ VR + +           +  R++   Q+   E      LS E    
Sbjct: 25  LETDVVSDEPAVSSVRTRAKSGSSLKQHKYIDYSRALDATQLYLNEIGFSPLLSPEEEVH 84

Query: 373 ISRRMSIGEAKARRAKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFE 432
            +R    G+   R   K M+E+NLRLV+ IA++Y NRGL  LDLI+EGN+GL++AV+KF+
Sbjct: 85  FARLSQKGDPAGR---KRMIESNLRLVVKIARRYVNRGLSLLDLIEEGNLGLIRAVEKFD 141

Query: 433 YRRGYKFSTYATWWIRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPLP 492
             RG++FSTYATWWIRQ I R+I +Q RTIR+P+H+++ +N   R +R++ Q++  EP P
Sbjct: 142 PERGFRFSTYATWWIRQTIERAIMNQTRTIRLPIHVVKELNVYLRAARELTQKLDHEPSP 201

Query: 493 EELAERMQMPEDKIRKVLKIAKEPISMETPIGDDEDSHLGDFIEDTTLELPLDSATATSL 552
           EE+A  ++ P  +++++L + +   S++  +G D D  L D + D     P +      L
Sbjct: 202 EEIATLLEKPVAEVKRMLGLNERVSSVDVSLGPDSDKTLLDTLTDDRPTDPCELLQDDDL 261

Query: 553 KAATRDVLAGLTPREAKVLRMRFGIDMNTDHTLEEVGKQFDVTRERIRQIEAKALRKLR 611
             +    L  LT ++ +V+  RFG+  +   TLE+VG +  +TRER+RQI+ + L++LR
Sbjct: 262 SQSIDQWLGELTDKQREVVVRRFGLRGHESSTLEDVGLEIGLTRERVRQIQVEGLKRLR 320



 Score = 30.0 bits (66), Expect = 2e-04
 Identities = 25/98 (25%), Positives = 49/98 (50%), Gaps = 8/98 (8%)

Query: 31  LPAEIVDSEQVEDIIQMINDMGIKVVETAPDADDLALSDDTTITDEDAAEAAAAALSSVE 90
           L  E+ + +  +D++ M  + GI V+ET   +D+ A+S   T      A++ ++      
Sbjct: 3   LSKEVPEFDIDDDVLLM--ETGI-VLETDVVSDEPAVSSVRT-----RAKSGSSLKQHKY 54

Query: 91  SEIGRTTDPVRMYMREMGTVELLTREGEIDIAKRIEDG 128
            +  R  D  ++Y+ E+G   LL+ E E+  A+  + G
Sbjct: 55  IDYSRALDATQLYLNEIGFSPLLSPEEEVHFARLSQKG 92