HHsearch alignment for GI: 254781049 and conserved domain: cd06297
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. 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.
Probab=90.05 E-value=1.5 Score=23.28 Aligned_cols=102 Identities=15% Similarity=0.148 Sum_probs=65.8
Q ss_pred HHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHHC-CCCCCEEEEECCCCHHHHHHHHHHHHHHHHHCCCCCCEEEECC
Q ss_conf 999999658996248842788898999999999861-9986589996358613289999999999997299987999748
Q gi|254781049|r 282 TMDIIKLYGGAPANFLDVGGGADQDKVAAAFKIITS-DSSVKGILINIFGGIMRCDVLVKGILSAVKEVKINIPLVMRLE 360 (398)
Q Consensus 282 tmD~i~~~Gg~pANFlD~gG~a~~e~~~~a~~~il~-~~~vk~iliNifGGI~~cd~vA~gii~a~~~~~~~~pivvRl~ 360 (398)
T Consensus 141 f~~al~~~g~~~~~~~~~~~~~~~~~g~~~~~~ll~~~~~p~Ai~-------~~nD~~A~g~l~~l~~~Gi~vP~Disvi 213 (269)
T cd06297 141 FQQALKDAGRPFSPDLLAITDHSEEGGRLAMRHLLEKASPPLAVF-------ASADQQALGALQEAVELGLTVGEDVRVV 213 (269)
T ss_pred HHHHHHHCCCCCCCCEEECCCCCHHHHHHHHHHHHHCCCCCCEEE-------ECCHHHHHHHHHHHHHCCCCCCCCEEEE
T ss_conf 999999829986622341378636569999999983699985899-------8978999999999998399889966999
Q ss_pred CCCH-HHHHHHHHHCCCCEEEECCHHHHHHHHHHHH
Q ss_conf 9858-9999999976995899499899999999985
Q gi|254781049|r 361 GANV-DIGNRLIAESGLNVITAIDLDDAAQKIVHAV 395 (398)
Q Consensus 361 Gtn~-~~g~~il~~~g~~~~~~~~~~~A~~~~v~~~ 395 (398)
T Consensus 214 GfDd~~~a----~~~~LTTv-~q~~~~~G~~A~~~L 244 (269)
T cd06297 214 GFDDHPFA----REAGLSTL-AQPVEAMGARAAQLL 244 (269)
T ss_pred EECCHHHH----HCCCCCEE-ECCHHHHHHHHHHHH
T ss_conf 98984897----24898679-639999999999999