HHsearch alignment for GI: 254780346 and conserved domain: cd06286

>cd06286 PBP1_CcpB_like Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. This group includes the ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. CcpB is 30% identical in sequence to CcpA which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. Like CcpA, the DNA-binding protein CcpB exerts its catabolite-repressing effect by a mechanism dependent on the presence of HPr(Ser-P), the small phosphocarrier proteins of the phosphoenolpyruvate-sugar phosphotransferase system, but with a less significant degree.
Probab=95.24  E-value=0.29  Score=28.85  Aligned_cols=123  Identities=13%  Similarity=0.004  Sum_probs=81.2

Q ss_pred             CCEEEEEEECHHHHHHHHHHHHHHHHHHHCCCCEEEEE-HHH--HHHHHHHH-HHHHHHHHCCCCCCEEEEEEEEECCCC
Q ss_conf             87179998031289999999999999998799555553-001--44226999-999863311378535665412000665
Q gi|254780346|r    5 IPHVLIIEARFYENLSAMLFEGCVNVLHSRAVQWSSIV-TPG--VLEIPAAV-SMVMNAKTRSVTYDGIIVLGVVMRGKT   80 (149)
Q Consensus         5 ~~kI~IV~s~~~~~i~~~ll~ga~~~l~~~~~~~~~i~-VPG--a~EiP~a~-~~~~~~~~~~~~~D~vIaLG~VIkGeT   80 (149)
T Consensus       114 ~~~i~~i~~~~~~~~~~~R~~Gf~~al~~~g~~~~~~~~~~~~~~~~~g~~~~~~~~---~~~~~p~ai~~~--------  182 (260)
T cd06286         114 YRKIAYCIGRKKSLNSQSRKKAYKDALEEYGLTPDEEWIFEGCFTIEDGERIGHQLL---KMKDRPDAIFTG--------  182 (260)
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCCEEEECCCCCHHHHHHHHHHHH---HCCCCCCEEEEC--------
T ss_conf             973999938988704999999999999977999773036446520667999999998---449998736736--------


Q ss_pred             CHHHHHHHHHHHHHHHHHHHCCCCCEEEEECCCCHHHHHHHH----CCCCCCCHHHHHHHHHHHHH
Q ss_conf             246789999999999999743997056542558899999950----65657456999999999999
Q gi|254780346|r   81 AHCDVIAHAVTRGLVDLSINGSLPIGNGIVVVDSEQQAFDRV----SPSHLDRGGCAARSALAMIE  142 (149)
Q Consensus        81 ~H~e~I~~~v~~gl~~lsl~~~~PI~~gILt~~n~~QA~~R~----~~~~~nkG~eaa~Aal~mi~  142 (149)
T Consensus       183 --nd~~A~g~~~al~~~--g~~vP~di~vigfdd~~~~~~p~lTtv~~~~~~~g~~A~~~ll~~i~  244 (260)
T cd06286         183 --SDEVAAGIITEAKKQ--GIRVPEDLAIIGFDNQPISELLGITTIDQPVKELGEKAFELLLNQLE  244 (260)
T ss_pred             --CHHHHHHHHHHHHHC--CCCCCCCEEEEEECCHHHHCCCCCCEEECCHHHHHHHHHHHHHHHHC
T ss_conf             --899999999999972--99999976999989849982899758935999999999999999976