HHsearch alignment for GI: 254780346 and conserved domain: cd06296

>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that 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=95.78  E-value=0.11  Score=31.52  Aligned_cols=126  Identities=16%  Similarity=0.080  Sum_probs=82.6

Q ss_pred             CCEEEEEEECHHHHHHHHHHHHHHHHHHHCCCCEEE-EEHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCCCCHH
Q ss_conf             871799980312899999999999999987995555-5300144226999999863311378535665412000665246
Q gi|254780346|r    5 IPHVLIIEARFYENLSAMLFEGCVNVLHSRAVQWSS-IVTPGVLEIPAAVSMVMNAKTRSVTYDGIIVLGVVMRGKTAHC   83 (149)
Q Consensus         5 ~~kI~IV~s~~~~~i~~~ll~ga~~~l~~~~~~~~~-i~VPGa~EiP~a~~~~~~~~~~~~~~D~vIaLG~VIkGeT~H~   83 (149)
T Consensus       117 ~~~I~~i~~~~~~~~~~~R~~Gf~~a~~~~~~~~~~~~i~~~~~~~~~~~~~~~~ll~~~~~~~aii~~----------~  186 (270)
T cd06296         117 HRRIGFITGPPDLLCSRARLDGYRAALAEAGIPVDPALVREGDFSTESGFRAAAELLALPERPTAIFAG----------N  186 (270)
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHEEECCCHHHHHHHHHHHHHHCCCCCCCEEEC----------C
T ss_conf             972888459988655999999999999986999885553306501789999999999549988620347----------8


Q ss_pred             HHHHHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHH------CCCCCCCHHHHHHHHHHHHH
Q ss_conf             789999999999999743997056542558899999950------65657456999999999999
Q gi|254780346|r   84 DVIAHAVTRGLVDLSINGSLPIGNGIVVVDSEQQAFDRV------SPSHLDRGGCAARSALAMIE  142 (149)
Q Consensus        84 e~I~~~v~~gl~~lsl~~~~PI~~gILt~~n~~QA~~R~------~~~~~nkG~eaa~Aal~mi~  142 (149)
T Consensus       187 D~~A~g~~~~l~~~g--i~vP~di~iigfd~~~~~~~~~p~lttI~~~~~~~g~~a~~~ll~~i~  249 (270)
T cd06296         187 DLMALGVYEAARERG--LRIPEDLSVVGFDDLPEARWVSPPLTTVRQPLREMGRAAVRLLLRLIE  249 (270)
T ss_pred             CHHHHHHHHHHHHCC--CCCCCCCEEEEECCHHHHHHCCCCEEEEEECHHHHHHHHHHHHHHHHC
T ss_conf             689999999999869--999998879997887899852898389982999999999999999965