HHsearch alignment for GI: 254781049 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=90.77 E-value=1.3 Score=23.68 Aligned_cols=101 Identities=16% Similarity=0.168 Sum_probs=61.1
Q ss_pred HHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHHC-CCCCCEEEEECCCCHHHHHHHHHHHHHHHHHCCCCCC---EEEE
Q ss_conf 99999658996248842788898999999999861-9986589996358613289999999999997299987---9997
Q gi|254781049|r 283 MDIIKLYGGAPANFLDVGGGADQDKVAAAFKIITS-DSSVKGILINIFGGIMRCDVLVKGILSAVKEVKINIP---LVMR 358 (398)
Q Consensus 283 mD~i~~~Gg~pANFlD~gG~a~~e~~~~a~~~il~-~~~vk~iliNifGGI~~cd~vA~gii~a~~~~~~~~p---ivvR 358 (398)
T Consensus 140 ~~a~~~~~~~~~~~~i~~~~~~~~~~~~~~~~ll~~~~~~~aii-------~~~D~~A~g~~~~l~~~gi~vP~di~iig 212 (270)
T cd06296 140 RAALAEAGIPVDPALVREGDFSTESGFRAAAELLALPERPTAIF-------AGNDLMALGVYEAARERGLRIPEDLSVVG 212 (270)
T ss_pred HHHHHHCCCCCCHHHEEECCCHHHHHHHHHHHHHHCCCCCCCEE-------ECCCHHHHHHHHHHHHCCCCCCCCCEEEE
T ss_conf 99999869998855533065017899999999995499886203-------47868999999999986999999887999
Q ss_pred CCCCCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHHH
Q ss_conf 4898589999999976995899499899999999985
Q gi|254781049|r 359 LEGANVDIGNRLIAESGLNVITAIDLDDAAQKIVHAV 395 (398)
Q Consensus 359 l~Gtn~~~g~~il~~~g~~~~~~~~~~~A~~~~v~~~ 395 (398)
T Consensus 213 fd~~~~~---~~~-~p~ltt-I~~~~~~~g~~a~~~l 244 (270)
T cd06296 213 FDDLPEA---RWV-SPPLTT-VRQPLREMGRAAVRLL 244 (270)
T ss_pred ECCHHHH---HHC-CCCEEE-EEECHHHHHHHHHHHH
T ss_conf 7887899---852-898389-9829999999999999