HHsearch alignment for GI: peg_409 and conserved domain: pfam00158
>pfam00158 Sigma54_activat Sigma-54 interaction domain.
Probab=90.46 E-value=0.28 Score=28.73 Aligned_cols=34 Identities=15% Similarity=0.249 Sum_probs=25.0
Q ss_pred CHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHH
Q ss_conf 489999827688879984888996799999999998
Q 537021.9.peg.4 21 KSEQLLASDPTRSAWVSANAGSGKTHILVQRVLRLL 56 (242)
Q Consensus 21 ~~qq~~a~~~~~~~lV~A~aGSGKT~tL~~rv~~ll 56 (242)
T Consensus 12 ~~~i~~~a~~~~pVLI~GE~GtGK~~--lAr~IH~~ 45 (168)
T pfam00158 12 LELAKRVAPTDATVLITGESGTGKEL--FARAIHQL 45 (168)
T ss_pred HHHHHHHHCCCCCEEEECCCCCCHHH--HHHHHHHH
T ss_conf 99999995889988998999888899--99999985