HHsearch alignment for GI: 254780346 and conserved domain: cd06279

>cd06279 PBP1_LacI_like_3 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors 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=93.80  E-value=0.64  Score=26.76  Aligned_cols=123  Identities=19%  Similarity=0.178  Sum_probs=76.1

Q ss_pred             CCEEEEEEE-----------------CHHHHHHHHHHHHHHHHHHHCCCCEEEEE--HHHHHHHHH---HHHHHHHHHHC
Q ss_conf             871799980-----------------31289999999999999998799555553--001442269---99999863311
Q gi|254780346|r    5 IPHVLIIEA-----------------RFYENLSAMLFEGCVNVLHSRAVQWSSIV--TPGVLEIPA---AVSMVMNAKTR   62 (149)
Q Consensus         5 ~~kI~IV~s-----------------~~~~~i~~~ll~ga~~~l~~~~~~~~~i~--VPGa~EiP~---a~~~~~~~~~~   62 (149)
T Consensus       116 h~~Ia~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~R~~G~~~al~~~gl~~~~~~i~~~~~~~~~~g~~~~~~ll~---~  192 (283)
T cd06279         116 HRRIGILGLRLGRDRNTGRVTDERLASATFSVARERLEGYLEALEEAGIDISDVPIWEIPENDRASGEEAARELLD---A  192 (283)
T ss_pred             CCEEEEEECCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEEECCCCCHHHHHHHHHHHHH---C
T ss_conf             9869999524556654443221013664247799999999999998599977205784599999999999999995---5


Q ss_pred             CCCCCEEEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHHCC-----CCCCCHHHHHHHH
Q ss_conf             37853566541200066524678999999999999974399705654255889999995065-----6574569999999
Q gi|254780346|r   63 SVTYDGIIVLGVVMRGKTAHCDVIAHAVTRGLVDLSINGSLPIGNGIVVVDSEQQAFDRVSP-----SHLDRGGCAARSA  137 (149)
Q Consensus        63 ~~~~D~vIaLG~VIkGeT~H~e~I~~~v~~gl~~lsl~~~~PI~~gILt~~n~~QA~~R~~~-----~~~nkG~eaa~Aa  137 (149)
T Consensus       193 ~~~ptai~~~----------nD~~A~g~~~~l~~~G--i~VP~DvsviGfDd~~~a~~~P~LTTI~q~~~~~G~~A~~~L  260 (283)
T cd06279         193 SPRPTAILCM----------SDVLALGALQVARELG--LRVPEDLSVVGFDGIPEARLRPGLTTVRQPSEEKGRLAARLL  260 (283)
T ss_pred             CCCCCEEEEC----------CHHHHHHHHHHHHHHC--CCCCCCEEEEEECCCHHHHCCCCCEEEECCHHHHHHHHHHHH
T ss_conf             9999669857----------7299999999999818--999996599958988899458997089619999999999999


Q ss_pred             HHHHH
Q ss_conf             99999
Q gi|254780346|r  138 LAMIE  142 (149)
Q Consensus       138 l~mi~  142 (149)
T Consensus       261 l~~i~  265 (283)
T cd06279         261 LDLLE  265 (283)
T ss_pred             HHHHC
T ss_conf             99964