>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of 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=95.97 E-value=0.16 Score=30.55 Aligned_cols=126 Identities=13% Similarity=0.070 Sum_probs=78.2 Q ss_pred CCEEEEEEECHHHHHHHHHHHHHHHHHHHCCCCEEEEEH-HHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCCCCHH Q ss_conf 871799980312899999999999999987995555530-0144226999999863311378535665412000665246 Q gi|254780346|r 5 IPHVLIIEARFYENLSAMLFEGCVNVLHSRAVQWSSIVT-PGVLEIPAAVSMVMNAKTRSVTYDGIIVLGVVMRGKTAHC 83 (149) Q Consensus 5 ~~kI~IV~s~~~~~i~~~ll~ga~~~l~~~~~~~~~i~V-PGa~EiP~a~~~~~~~~~~~~~~D~vIaLG~VIkGeT~H~ 83 (149) T Consensus 122 hr~I~~i~~~~~~~~~~~R~~Gf~~al~~~g~~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~tai~~~----------n 191 (270) T cd06294 122 HKKIAFVGGDLDLEVTQDRLQGYKQALEDHGIPDRNEVIISLDFSEEGGYKALKKLLEQHPRPTAIVAT----------D 191 (270) T ss_pred CCEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCCCCEEECCCCCHHHHHHHHHHHHHCCCCCCEEEEC----------C T ss_conf 956999818998658999999999999986999773333137766788999999998469998489987----------7 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 192 D~~A~g~~~al~~~g--~~iP~disvvgfDd~~~~~~~~P~LTtv~q~~~~~G~~A~~~Ll~~i~ 254 (270) T cd06294 192 DLLALGVLKVLNELG--LKVPEDLSIIGFNNSILSELAHPPLTSVDINPRELGYEAAELLIDLIE 254 (270) T ss_pred HHHHHHHHHHHHHCC--CCCCCCEEEEEECCHHHHHHCCCCCEEEECCHHHHHHHHHHHHHHHHC T ss_conf 499999999999839--999998499998972899842898179973999999999999999966

HHsearch alignment for GI: 254780346 and conserved domain: cd06294