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