HHsearch alignment for GI: 254781049 and conserved domain: cd06284
>cd06284 PBP1_LacI_like_6 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group includes the ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors and 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.
Probab=94.27 E-value=0.45 Score=26.73 Aligned_cols=104 Identities=15% Similarity=0.095 Sum_probs=64.5
Q ss_pred HHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHH-CCCCCCEEEEECCCCHHHHHHHHHHHHHHHHHCCCCCCEEEECCC
Q ss_conf 9999965899624884278889899999999986-199865899963586132899999999999972999879997489
Q gi|254781049|r 283 MDIIKLYGGAPANFLDVGGGADQDKVAAAFKIIT-SDSSVKGILINIFGGIMRCDVLVKGILSAVKEVKINIPLVMRLEG 361 (398)
Q Consensus 283 mD~i~~~Gg~pANFlD~gG~a~~e~~~~a~~~il-~~~~vk~iliNifGGI~~cd~vA~gii~a~~~~~~~~pivvRl~G 361 (398)
T Consensus 138 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-------~~nD~~A~g~~~~l~~~g~~vP~di~vig 210 (267)
T cd06284 138 RQALAEAGLPADEELIQEGDFSLESGYAAARRLLALPDRPTAIF-------CFSDEMAIGAISALKELGLRVPEDISVVG 210 (267)
T ss_pred HHHHHHCCCCCCCEEEECCCCCHHHHHHHHHHHHHCCCCCCEEE-------ECCCHHHHHHHHHHHHCCCCCCCEEEEEE
T ss_conf 99999839985512773278767778899999996599998026-------57868899999999983999996279998
Q ss_pred CCHHHHHHHHHHCCCCEEEECCHHHHHHHHHHHH
Q ss_conf 8589999999976995899499899999999985
Q gi|254781049|r 362 ANVDIGNRLIAESGLNVITAIDLDDAAQKIVHAV 395 (398)
Q Consensus 362 tn~~~g~~il~~~g~~~~~~~~~~~A~~~~v~~~ 395 (398)
T Consensus 211 fd~~~~~~~~-~p~ltt-v~~~~~~~g~~a~~~l 242 (267)
T cd06284 211 FDDIDFARMT-TPPLTT-IRQPRYEIGRTAAELL 242 (267)
T ss_pred ECCHHHHHHC-CCCCEE-EEECHHHHHHHHHHHH
T ss_conf 7784899824-898339-9859999999999999