Pairwise Alignments

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

Subject, 399 a.a., RNA polymerase sigma factor RpoD from Synechococcus elongatus PCC 7942

 Score = 65.1 bits (157), Expect = 2e-15
 Identities = 61/238 (25%), Positives = 106/238 (44%), Gaps = 23/238 (9%)

Query: 11  RAAKDAQYELIERYAPLVKRIAYHLLARLPANVQVEDLIQAGMIGLLEVANKYDASKGAS 70
           R AKD   ++++    LV  IA   + R    +  +DLIQ G +GL+  A K+D  KG  
Sbjct: 161 RRAKD---KMVQSNLRLVVSIAKKYMNR---GLSFQDLIQEGSLGLIRAAEKFDHEKGYK 214

Query: 71  FETYAGIRIRGAM---LDEVRKGDWAPRSVHRNTRMVSDAMRAVEARTGRDAKDHEVAAE 127
           F TYA   IR A+   + +  +    P  ++     +    + +    GR   + E+A  
Sbjct: 215 FSTYATWWIRQAITRAIADQSRTIRLPVHLYETISRIKKTTKLLSQEMGRKPTEEEIATR 274

Query: 128 LQLSLDDYYGILNDTLGSRLFSFDDLLQDGEHEGLHE----DGASGQVEPARGLEEERFQ 183
           ++++++    I          S +  +   E   L +    DG + + E A+ L  E  +
Sbjct: 275 MEMTIEKLRFIAKS--AQLPISLETPIGKEEDSRLGDFIEADGETPEDEVAKNLLREDLE 332

Query: 184 AALTEAIANLPERERLVLALYYDEE----LNLKEIGEVLGVSESRVSQLHSQCAARLR 237
             L    + L  RER VL L Y  +      L+EIG++  V+  R+ Q+ ++   +LR
Sbjct: 333 GVL----STLSPRERDVLRLRYGLDDGRMKTLEEIGQLFNVTRERIRQIEAKALRKLR 386