>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. 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 represso

Probab=96.25 E-value=0.062 Score=33.04 Aligned_cols=125 Identities=11% Similarity=0.041 Sum_probs=80.1 Q ss_pred CEEEEEEECHHHHHHHHHHHHHHHHHHHCCCCEEEEE-HHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEECCCCCHHH Q ss_conf 7179998031289999999999999998799555553-001442269999998633113785356654120006652467 Q gi|254780346|r 6 PHVLIIEARFYENLSAMLFEGCVNVLHSRAVQWSSIV-TPGVLEIPAAVSMVMNAKTRSVTYDGIIVLGVVMRGKTAHCD 84 (149) Q Consensus 6 ~kI~IV~s~~~~~i~~~ll~ga~~~l~~~~~~~~~i~-VPGa~EiP~a~~~~~~~~~~~~~~D~vIaLG~VIkGeT~H~e 84 (149) T Consensus 121 ~~I~~i~~~~~~~~~~~R~~Gf~~al~~~gl~~~~~~~~~~~~~~~~~~~~~~~ll~~~~~p~Ai~~~----------nD 190 (268) T cd06271 121 RRIALLNPPEDLTFAQHRRAGYRRALAEAGLPLDPALIVSGDMTEEGGYAAAAELLALPDRPTAIVCS----------SE 190 (268) T ss_pred CEEEECCCCCCCHHHHHHHHHHHHHHHHCCCCCCCCEEEECCCCHHHHHHHHHHHHHCCCCCCEEEEC----------CH T ss_conf 74875488754607999999999999983999771136506875777999999999659998689977----------77 Q ss_pred HHHHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHH------CCCCCCCHHHHHHHHHHHHH Q ss_conf 89999999999999743997056542558899999950------65657456999999999999 Q gi|254780346|r 85 VIAHAVTRGLVDLSINGSLPIGNGIVVVDSEQQAFDRV------SPSHLDRGGCAARSALAMIE 142 (149) Q Consensus 85 ~I~~~v~~gl~~lsl~~~~PI~~gILt~~n~~QA~~R~------~~~~~nkG~eaa~Aal~mi~ 142 (149) T Consensus 191 ~~A~g~l~~l~~~g--~~vP~DisvigfD~~~~~~~~~p~LTti~~~~~~~g~~A~~~Ll~~i~ 252 (268) T cd06271 191 LMALGVLAALAEAG--LRPGRDVSVVGFDDSPPLLFFSPPLTTVRSDLRAAGRRLAELLLARIA 252 (268) T ss_pred HHHHHHHHHHHHCC--CCCCCCEEEEEECCCHHHHHCCCCEEEEECCHHHHHHHHHHHHHHHHC T ss_conf 99999999999829--998999799997882899827898089980999999999999999977

HHsearch alignment for GI: 254780346 and conserved domain: cd06271