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