HHsearch alignment for GI: 255764510 and conserved domain: cd06291
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that 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
Probab=90.94 E-value=1.1 Score=23.30 Aligned_cols=179 Identities=14% Similarity=0.166 Sum_probs=92.3
Q ss_pred HHHHHHHHCCCCEEEECCEEEECCCC-CCCCCCCCCCCEEEEECHH-HHHHHHHHHCCCCCEECCCHHHHHHHHHHCCCC
Q ss_conf 99999998798299942100000785-2001644758799984846-799988620013630004158999976410122
Q gi|255764510|r 14 RTQEKIQKMGYIPVMMPLSYFIHDRE-SVFLAMQQSYGAIAITSSE-SLSTLPANFCRHTPIFAIGEASACLARQKGFTQ 91 (232)
Q Consensus 14 ~~~~~L~~~G~~~i~~Pli~i~~~~~-~~~~~~~~~~d~iiftS~~-av~~~~~~~~~~~~~~~vg~~t~~~~~~~~~~~ 91 (232)
T Consensus 20 gi~~~~~~~Gy~l~i~~s~~~~~~e~~~l~~l~~~~vDGiI~~~~~~~~~---~~~~~~iPvV~~d~~~~-----~~~~~ 91 (265)
T cd06291 20 AVEKELYKKGYKLILCNSDNDPEKEREYLEMLRQNQVDGIIAGTHNLGIE---EYENIDLPIVSFDRYLS-----ENIPI 91 (265)
T ss_pred HHHHHHHHCCCEEEEEECCCCHHHHHHHHHHHHHCCCCEEEECCCCCCHH---HHHHCCCCEEEEECCCC-----CCCCE
T ss_conf 99999998799899996899989999999999856998587417884099---99977999999705579-----99998
Q ss_pred CCCCCCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCC--------CHHHHHHHCCCEEEEEEEEEECCCCCCHHHHHHH
Q ss_conf 35444545678999864220127775389721567562--------0146898469825676887504689998899986
Q gi|255764510|r 92 IFHGKDNSINLAKIIVEQKVLFTPQKPLIYLGGKPRNF--------HFEDYLIEHKIPLRVIDCYYSQDIAYPETTMKNL 163 (232)
Q Consensus 92 ~~~~~~~~~~~~~ll~~~~~~~~~~~~vl~~~g~~~~~--------~l~~~L~~~g~~v~~~~vY~~~~~~~~~~~~~~~ 163 (232)
T Consensus 92 V~~---Dn~~~~~~a~~~L~-~~Ghr~I~~i~~~~~~~~~~~~R~~Gf~~al~~~g~~~~~~~~~~~~~~~~~~~~~~~~ 167 (265)
T cd06291 92 VSS---DNYEGGRLAAEELI-ERGCKHIAHIGGPNNTVSPTNLRYEGFLDVLKENGLEVRIIEIQENFDDAEKKEEIKEL 167 (265)
T ss_pred EEE---CHHHHHHHHHHHHH-HCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHCCCCCEEEEECCCCCHHHHHHHHHHH
T ss_conf 997---76999999999999-73996499996688887489999999999999769996089976889869999999999
Q ss_pred H---CCCCEEEEECHHHHHHHHHHCCHHHC----CEEEEECCHHHHHH
Q ss_conf 2---37838998078999999971354405----80399718899999
Q gi|255764510|r 164 L---QNADAILFYARSSVLYFFSLPLPAKI----SAAFLCLSNNIASA 204 (232)
Q Consensus 164 ~---~~~d~i~f~S~~~v~~~~~~~~~~~~----~~~~~~ig~~tA~~ 204 (232)
T Consensus 168 l~~~~~~~Ai~~~nD~~A~g~~~al~~~g~~vP~disvigfDd~~~~~ 215 (265)
T cd06291 168 LEEYPDIDGIFASNDLTAILVLKEAQQRGIRVPEDLQIIGYDGTKLTR 215 (265)
T ss_pred HHCCCCCCEEECCCHHHHHHHHHHHHHCCCCCCCCEEEEEECCHHHHH
T ss_conf 855999884321668999999999998199999986999988809998