HHsearch alignment for GI: 254780351 and conserved domain: pfam04297

>pfam04297 UPF0122 Putative helix-turn-helix protein, YlxM / p13 like. Members of this family are predicted to contain a helix-turn-helix motif, for example residues 37-55 in Mycoplasma mycoides p13. Genes encoding family members are often part of operons that encode components of the SRP pathway, and this protein may regulate the expression of an operon related to the SRP pathway.
Probab=91.45  E-value=0.45  Score=26.79  Aligned_cols=42  Identities=14%  Similarity=-0.056  Sum_probs=37.1

Q ss_pred             CCHHHHHHHHHHHCCCCCHHHHHHHHCCCCCHHHHHHHHHHH
Q ss_conf             999999999993217968899999854771056799999997
Q gi|254780351|r   55 VNAVQALLLFNIGDLELTAGELRSRGYYLGSNVSYNLKKLID   96 (171)
Q Consensus        55 l~~~q~~~L~~~~~~~~t~~eLa~~l~i~~~tvs~~i~~Le~   96 (171)
T Consensus        18 LT~KQ~~~~~lyy~eDlSL~EIAe~~~iSRQaV~D~ikR~~~   59 (101)
T pfam04297        18 LTDKQKNYFELYYLDDLSLSEIAEEFNVSRQAVYDNIKRTEK   59 (101)
T ss_pred             CCHHHHHHHHHHHHCCCCHHHHHHHHCCCHHHHHHHHHHHHH
T ss_conf             659999999999876398999998819859999999999999