HHsearch alignment for GI: 254780450 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=98.58  E-value=2.4e-06  Score=62.63  Aligned_cols=107  Identities=19%  Similarity=0.230  Sum_probs=82.8

Q ss_pred             EEEEECCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             69997698899999999999889899998998999899986599954899858788988899999999868998299990
Q gi|254780450|r  683 IVLLVEDEDSVRRGSKRMLETRGYTVHEAFSGTDALKVMEKLQGRVDIVISDVVMPEMDGPTLLRELRKTYPSLKFIFIS  762 (803)
Q Consensus       683 ~iLvvdD~~~~~~~~~~~L~~~g~~v~~a~~g~eal~~~~~~~~~~dlil~D~~mp~m~G~~~~~~ir~~~~~~~ii~~t  762 (803)
T Consensus         1 kILvIddd~~r~~~L~~ILeFlGE~~~~~~~~~~~~~~~-~~-~~~a~~v~~~~~~--~~~~~l~~l~~~~p~~Pvlllg   76 (109)
T pfam06490         1 KILVIDDDAERRHDLSTILEFLGEQCEAVSSEDLSAALL-SS-RWEALAVILGSVS--GLADLLKALAKWDPHLPVLLLG   76 (109)
T ss_pred             CEEEECCCHHHHHHHHHHHHHCCCCEEEECHHHHHHHHH-HC-CCCEEEEEECCCC--CHHHHHHHHHHHCCCCCEEEEC
T ss_conf             989986888999979999986499649954889889886-37-8852999967852--0999999999648899999987


Q ss_pred             CCCHHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHH
Q ss_conf             678589987676057980750797999999999998
Q gi|254780450|r  763 GYAEDAFSKNLPKDAKFSFLSKPFSLKQLATSVHEL  798 (803)
Q Consensus       763 ~~~~~~~~~~~~~~~~~~~l~KP~~~~~L~~~i~~~  798 (803)
T Consensus        77 ~~~~~~---~~--~nvvg~Le~Pl~Y~qL~daLh~c  107 (109)
T pfam06490        77 EHDSAA---EL--ANVIGELEEPLNYPQLTDLLHRC  107 (109)
T ss_pred             CCCCHH---HC--CCEEEEECCCCCHHHHHHHHHHH
T ss_conf             887521---20--55258707889879999999875