HHsearch alignment for GI: 254780476 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=98.60  E-value=1.3e-06  Score=58.74  Aligned_cols=107  Identities=8%  Similarity=0.151  Sum_probs=82.6

Q ss_pred             EEEEECCCHHHHHHHHHHHHHCCCEEEEECCHHHHHHHHHHCCCCEEEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEEE
Q ss_conf             78995399899999999999789899998897999999982799899995041296959999999828576899599999
Q gi|254780476|r    4 KVMIVEDNELNMKLFRDLIETSGYIALQTRNGMEALELARQHKPDVIIMDIQLQEISGLEITKQIKEDSELQEIPVIAVT   83 (123)
Q Consensus         4 kiLiVDD~~~~~~~l~~~l~~~g~~v~~a~~g~eal~~l~~~~~dlillD~~mp~~dG~el~~~ir~~~~~~~ipii~~t   83 (123)
T Consensus         1 kILvIddd~~r~~~L~~ILeFlGE~~~~~~~~~~~~~~~~~~~~a~~v~~~~~~--~~~~~l~~l~~--~~p~~Pvlllg   76 (109)
T pfam06490         1 KILVIDDDAERRHDLSTILEFLGEQCEAVSSEDLSAALLSSRWEALAVILGSVS--GLADLLKALAK--WDPHLPVLLLG   76 (109)
T ss_pred             CEEEECCCHHHHHHHHHHHHHCCCCEEEECHHHHHHHHHHCCCCEEEEEECCCC--CHHHHHHHHHH--HCCCCCEEEEC
T ss_conf             989986888999979999986499649954889889886378852999967852--09999999996--48899999987


Q ss_pred             ECCCHHHHHHHHHCCCCEEEECCCCHHHHHHHHHHH
Q ss_conf             249989999999769988998798989999999997
Q gi|254780476|r   84 AFAMKGDEERIRKGGCEAYISKPISLSIFMETIKKY  119 (123)
Q Consensus        84 ~~~~~~~~~~~~~~g~~~~l~KPi~~~~L~~~i~~~  119 (123)
T Consensus        77 ~~~~~~~-----~~nvvg~Le~Pl~Y~qL~daLh~c  107 (109)
T pfam06490        77 EHDSAAE-----LANVIGELEEPLNYPQLTDLLHRC  107 (109)
T ss_pred             CCCCHHH-----CCCEEEEECCCCCHHHHHHHHHHH
T ss_conf             8875212-----055258707889879999999875