HHsearch alignment for GI: 254780346 and conserved domain: cd06281

>cd06281 PBP1_LacI_like_5 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=95.28  E-value=0.29  Score=28.92  Aligned_cols=123  Identities=11%  Similarity=0.034  Sum_probs=77.4

Q ss_pred             CCEEEEEEECHHHHHHHHHHHHHHHHHHHCCCCEEE--EEHHHHHHHHHH-HHHHHHHHHCCCCCCEEEEEEEEECCCCC
Q ss_conf             871799980312899999999999999987995555--530014422699-99998633113785356654120006652
Q gi|254780346|r    5 IPHVLIIEARFYENLSAMLFEGCVNVLHSRAVQWSS--IVTPGVLEIPAA-VSMVMNAKTRSVTYDGIIVLGVVMRGKTA   81 (149)
Q Consensus         5 ~~kI~IV~s~~~~~i~~~ll~ga~~~l~~~~~~~~~--i~VPGa~EiP~a-~~~~~~~~~~~~~~D~vIaLG~VIkGeT~   81 (149)
T Consensus       116 ~~~I~~i~~~~~~~~~~~R~~G~~~al~~~g~~~~~~~~~~~~~~~~~~~~~~~ll---~~~~~p~ai~~~---------  183 (269)
T cd06281         116 HRRIALVGGGSNTRPGRERLEGYKAAFAAAGLPPDPALVRLSTPAASGFDATRALL---ALPDRPTAIIAG---------  183 (269)
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCHHHHHHHHHHHH---HCCCCCCEEEEC---------
T ss_conf             98668980788776799999999999997799999439977997489999999998---079999656512---------


Q ss_pred             HHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHH------CCCCCCCHHHHHHHHHHHHH
Q ss_conf             46789999999999999743997056542558899999950------65657456999999999999
Q gi|254780346|r   82 HCDVIAHAVTRGLVDLSINGSLPIGNGIVVVDSEQQAFDRV------SPSHLDRGGCAARSALAMIE  142 (149)
Q Consensus        82 H~e~I~~~v~~gl~~lsl~~~~PI~~gILt~~n~~QA~~R~------~~~~~nkG~eaa~Aal~mi~  142 (149)
T Consensus       184 -~d~~A~g~l~~l~~~--g~~VP~disviGfD~~~~~~~~~P~LTTi~~~~~~~g~~A~~~Ll~~i~  247 (269)
T cd06281         184 -GTQVLVGVLRALREA--GLRIPRDLSVISIGDSDLAELMDPPITALRRDREAVGRTAAELMLDRLE  247 (269)
T ss_pred             -CHHHHHHHHHHHHHC--CCCCCCCEEEEEECCHHHHHHCCCCCEEEECCHHHHHHHHHHHHHHHHC
T ss_conf             -338899999999981--9999998699998887999835899679974999999999999999966