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