HHsearch alignment for GI: 254780893 and conserved domain: pfam06490
>pfam06490 FleQ Flagellar regulatory protein FleQ. This domain is found at the N terminus of a subset of sigma54-dependent transcriptional activators that are involved in regulation of flagellar motility e.g. FleQ in Pseudomonas aeruginosa. It is clearly related to pfam00072, but lacks the conserved aspartate residue that undergoes phosphorylation in the classic two-component system response regulator (pfam00072).
Probab=98.02 E-value=1.1e-05 Score=54.66 Aligned_cols=104 Identities=17% Similarity=0.156 Sum_probs=75.2
Q ss_pred EEEEECCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCEECCCCC
Q ss_conf 59998699899999999999889899999998999999985799478831149874334311122223223310013332
Q gi|254780893|r 2 RILLIEDDKALAHSIELMLKSENFNVYVTDLGEDGIELCKFYEFDAIILDLGLTDIPGFEVLRALRVAKISTPVCILSGM 81 (236)
Q Consensus 2 kILivedd~~~~~~l~~~L~~~g~~v~~a~~~~eal~~~~~~~~DlvIlD~~lp~~~G~~~~~~ir~~~~~~pII~ls~~ 81 (236)
T Consensus 1 kILvIddd~~r~~~L~~ILeFlGE~~~~~~~~~~~~~~~~~~~~a~~v~~~~~~--~~~~~l~~l~~~~p~~Pvlllg~~ 78 (109)
T pfam06490 1 KILVIDDDAERRHDLSTILEFLGEQCEAVSSEDLSAALLSSRWEALAVILGSVS--GLADLLKALAKWDPHLPVLLLGEH 78 (109)
T ss_pred CEEEECCCHHHHHHHHHHHHHCCCCEEEECHHHHHHHHHHCCCCEEEEEECCCC--CHHHHHHHHHHHCCCCCEEEECCC
T ss_conf 989986888999979999986499649954889889886378852999967852--099999999964889999998788
Q ss_pred CCHHCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 1000001123221011122332221111122
Q gi|254780893|r 82 SSIEDKVRGLQSGADDYISKPFNKEELVARI 112 (236)
Q Consensus 82 ~~~~~~~~al~~GAddyi~KP~~~~eL~ari 112 (236)
T Consensus 79 ~~~~~~-----~nvvg~Le~Pl~Y~qL~daL 104 (109)
T pfam06490 79 DSAAEL-----ANVIGELEEPLNYPQLTDLL 104 (109)
T ss_pred CCHHHC-----CCEEEEECCCCCHHHHHHHH
T ss_conf 752120-----55258707889879999999