HHsearch alignment for GI: 254781049 and conserved domain: cd01538
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=90.78 E-value=1.3 Score=23.69 Aligned_cols=86 Identities=16% Similarity=0.183 Sum_probs=60.1
Q ss_pred CCCCHHHHHHHHHHHH-CCC-CCCEEEEECCCCHHHHHHHHHHHHHHHHHCCCC-CCEEEECCCCCHHHHHHHHHHCCCC
Q ss_conf 8889899999999986-199-865899963586132899999999999972999-8799974898589999999976995
Q gi|254781049|r 301 GGADQDKVAAAFKIIT-SDS-SVKGILINIFGGIMRCDVLVKGILSAVKEVKIN-IPLVMRLEGANVDIGNRLIAESGLN 377 (398)
Q Consensus 301 G~a~~e~~~~a~~~il-~~~-~vk~iliNifGGI~~cd~vA~gii~a~~~~~~~-~pivvRl~Gtn~~~g~~il~~~g~~ 377 (398)
T Consensus 169 ~~~~~~~a~~~~~~~L~~~~~~i~aI~-------a~nD~~A~Ga~~Al~~aG~~~~v~vvG~Dg~~--~~l~~I~~G~~~ 239 (288)
T cd01538 169 PDWDPETAQKRMENALTANYNKVDGVL-------AANDGTAGGAIAALKAAGLAGKPPVTGQDAEL--AAVQRIVEGTQT 239 (288)
T ss_pred CCCCHHHHHHHHHHHHHHCCCCCCEEE-------ECCCHHHHHHHHHHHHCCCCCCCEEEECCCCH--HHHHHHHCCCCE
T ss_conf 785778899999999984655575898-------55856779999999974999987398359989--999999739825
Q ss_pred EEEECCHHHHHHHHHHHH
Q ss_conf 899499899999999985
Q gi|254781049|r 378 VITAIDLDDAAQKIVHAV 395 (398)
Q Consensus 378 ~~~~~~~~~A~~~~v~~~ 395 (398)
T Consensus 240 ~tv~Q~p~~~G~~av~~a 257 (288)
T cd01538 240 MTVYKDIRELAEAAAELA 257 (288)
T ss_pred EEEECCHHHHHHHHHHHH
T ss_conf 999559999999999999