Pairwise Alignments

Query, 246 a.a., RNA polymerase sigma 28 (sigma F) factor for class III flagellar operons from Pseudomonas putida KT2440

Subject, 679 a.a., RNA polymerase sigma factor RpoD from Sphingobium sp. HT1-2

 Score = 62.4 bits (150), Expect = 2e-14
 Identities = 61/240 (25%), Positives = 106/240 (44%), Gaps = 23/240 (9%)

Query: 11  RAAKDAQYELIERYAPLVKRIAYHLLARLPANVQVEDLIQAGMIGLLEVANKYDASKGAS 70
           R A+ A+ E++E    LV  IA     R    +Q  DLIQ G IGL++  +K++  +G  
Sbjct: 436 REARIAKKEMVEANLRLVISIAKKYTNR---GLQFLDLIQEGNIGLMKAVDKFEYRRGYK 492

Query: 71  FETYAGIRIRGAMLDEVRKGDWAPRSVHRNTRMVSDAMRAVEA------RTGRDAKDHEV 124
           F TYA   IR A+   +   D A R++     M+    + V          GR+    E+
Sbjct: 493 FSTYATWWIRQAITRSI--ADQA-RTIRIPVHMIETINKLVRTSRQFLHEQGREPTPEEM 549

Query: 125 AAELQLSLDDYYGILNDTLGSRLFSFDDLLQDGEHEGLH---EDGASGQVEPARGLEEER 181
           A  L + L+    ++   +     S +  + D E   L    ED     + P     +  
Sbjct: 550 AERLSMPLEKVRKVMK--IAKEPISLETPIGDEEDSHLGDFIED--KNAIIPVDAAIQAN 605

Query: 182 FQAALTEAIANLPERERLVLALYYDEELN----LKEIGEVLGVSESRVSQLHSQCAARLR 237
            +  +T  +A+L  RE  VL + +   +N    L+E+G+   V+  R+ Q+ ++   +L+
Sbjct: 606 LKETVTRVLASLTPREERVLRMRFGIGMNTDHTLEEVGQQFSVTRERIRQIEAKALRKLK 665



 Score = 28.5 bits (62), Expect = 4e-04
 Identities = 42/175 (24%), Positives = 72/175 (41%), Gaps = 32/175 (18%)

Query: 10  SRAAKDAQYELIERYAPLVKRIAYH--LLARLPANVQVEDLIQAGMIG-LLEVANKYDAS 66
           S+ A+D+ +EL E+    V+ + +H   +  L   +   +     + G +L +A ++  S
Sbjct: 305 SQKAEDSYHELREQLTAEVESVQFHQQKIEYLVDQLYAYNRRLTALGGQMLRLAERHKVS 364

Query: 67  KGASFETYAGIRIRGAMLDEVRKGD--WAP------RSVHRNTRMVSDAMRAV------- 111
           +    E Y G  +  A L++V+  D  WA       R+V R    VS+  +A        
Sbjct: 365 RKDFLERYMGHELDDAWLEKVQGLDKKWAAFAAAEGRAVERIRNEVSEIAQATGMSLSEF 424

Query: 112 ---------EARTGRDAKDHEVAAELQLSLDDYYGILNDTLGSRLFSFDDLLQDG 157
                      R  R AK   V A L+L +      +     +R   F DL+Q+G
Sbjct: 425 RRIVNMVQKGEREARIAKKEMVEANLRLVIS-----IAKKYTNRGLQFLDLIQEG 474