HHsearch alignment for GI: 254781049 and conserved domain: cd06308
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=93.13 E-value=0.71 Score=25.44 Aligned_cols=91 Identities=12% Similarity=0.150 Sum_probs=61.3
Q ss_pred CCCCCHHHHHHHHHHH-HCCCCCCEEEEECCCCHHHHHHHHHHHHHHHHHCCCC-CCEEEECCCCC-HHHHHHHHHHCCC
Q ss_conf 7888989999999998-6199865899963586132899999999999972999-87999748985-8999999997699
Q gi|254781049|r 300 GGGADQDKVAAAFKII-TSDSSVKGILINIFGGIMRCDVLVKGILSAVKEVKIN-IPLVMRLEGAN-VDIGNRLIAESGL 376 (398)
Q Consensus 300 gG~a~~e~~~~a~~~i-l~~~~vk~iliNifGGI~~cd~vA~gii~a~~~~~~~-~pivvRl~Gtn-~~~g~~il~~~g~ 376 (398)
T Consensus 161 ~~~~~~~~a~~~~~~~L~~~pdi~aI~-------a~nD~~A~Ga~~Al~~aG~~~~i~vvg~D~~~~~~~~l~~i~~g~~ 233 (270)
T cd06308 161 DGDWLKEKAEEKMEELLQANPDIDLVY-------AHNDPMALGAYLAAKRAGREKEIKFIGIDGLPGPGGGIEAVRDGEL 233 (270)
T ss_pred CCCCCHHHHHHHHHHHHHHCCCCCEEE-------ECCCHHHHHHHHHHHHCCCCCCCEEEEECCCCCHHHHHHHHHCCCC
T ss_conf 176679999999999985088888899-------7786589999999997699999589988899336999999873861
Q ss_pred CEEEE-CCH-HHHHHHHHHHHHC
Q ss_conf 58994-998-9999999998506
Q gi|254781049|r 377 NVITA-IDL-DDAAQKIVHAVKG 397 (398)
Q Consensus 377 ~~~~~-~~~-~~A~~~~v~~~k~ 397 (398)
T Consensus 234 ~~t~~~p~~G~~av~~a~~~l~G 256 (270)
T cd06308 234 DATFLYPTGGKEAIEVAMKILNG 256 (270)
T ss_pred EEEEECHHHHHHHHHHHHHHHCC
T ss_conf 69998837899999999999777