HHsearch alignment for GI: 254780276 and conserved domain: cd06289

>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which 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=92.16  E-value=1.2  Score=25.46  Aligned_cols=164  Identities=16%  Similarity=0.186  Sum_probs=80.9

Q ss_pred             CCHHHHHHHHHHHHHCCCCEEEECCCCCCHHCCCHHHHHHHHHHHHHC--CCCCCC--CCCCCCCCHHHHHHHHHHHHHH
Q ss_conf             689999999999997699899986723250108999999986543110--123443--0036741027899997534321
Q gi|254780276|r   19 IDEDAFVEHIEWQITEGSGGLVPAGTTGESSTLSHEEHCRIIELCVKT--VASRVP--VMAGIGSNNTRESVELAQYAHS   94 (292)
Q Consensus        19 iD~~~~~~~i~~l~~~gv~gi~~~G~tGE~~~Ls~~Er~~~~~~~~~~--~~~r~p--ii~gv~~~~~~~~i~~a~~a~~   94 (292)
T Consensus        39 ~~~~~e~~~i~~l~~~~vDGiIi~~~~~~~----~~~~~~l~~~~iPvV~i~~~~~~~~~~~V~~d~~~~~~~a~~~L~~  114 (268)
T cd06289          39 EDVERQEQLLSTMLEHGVAGIILCPAAGTS----PDLLKRLAESGIPVVLVAREVAGAPFDYVGPDNAAGARLATEHLIS  114 (268)
T ss_pred             CCHHHHHHHHHHHHHCCCCEEEEECCCCCC----HHHHHHHHHCCCCEEEECCCCCCCCCCEEEECHHHHHHHHHHHHHH
T ss_conf             998999999999996599989994688899----9999999975998998367679999878997779999999999997


Q ss_pred             CCCCCCCEEC-CCCCCCCHHHHHHHHHHHHHHHCCC---CEEEECHHHCCCCCCHHHHHHHHHHCCHHHHHHCCCCCHHH
Q ss_conf             0244320012-3433431788999999987530233---01210011111211106899974320302331001221135
Q gi|254780276|r   95 IGADALLVVI-PYYNKPNRRGLLAHFGEIATTVSSP---IYIYNNPSRTVIEMDVDTMAELAATYPNIVGVKDATGKIEL  170 (292)
Q Consensus        95 ~Gad~i~v~~-P~~~~~~~~~i~~~~~~i~~~~~~p---i~iYn~P~~~g~~~~~~~l~~L~~~~pni~giK~~~~~~~~  170 (292)
T Consensus       115 ~G~~~i~~i~~~~~~~~~~~R~-~Gf~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~ai-i~~~D~~A  190 (268)
T cd06289         115 LGHRRIAFIGGLEDSSTRRERL-AGYRAALAEAGLPFDSELVVEGPP--SRQGGAEAVAQLLDLPPRPTAI-VCFNDLVA  190 (268)
T ss_pred             HCCCEEEEECCCCCCCHHHHHH-HHHHHHHHHCCCCCCCCEEECCCC--CHHHHHHHHHHHHHCCCCCCEE-CCCCHHHH
T ss_conf             3987099952898870699999-999999997699866434531688--6556999999998469998620-35768999


Q ss_pred             H------HHHHHHCCCCEEECCCCCCC
Q ss_conf             8------99997359840320132210
Q gi|254780276|r  171 V------SEQRLSCGFDFIQLSGEDSS  191 (292)
Q Consensus       171 ~------~~~~~~~~~~~~v~~G~~~~  191 (292)
T Consensus       191 ~g~l~~l~~~gi~vp~disi-igfd~~  216 (268)
T cd06289         191 FGAMSGLRRAGLTPGRDIAV-VGFDDV  216 (268)
T ss_pred             HHHHHHHHHCCCCCCCCEEE-EEECCH
T ss_conf             99999999849999985499-995787