HHsearch alignment for GI: 254780170 and conserved domain: cd00134
>cd00134 PBPb Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic ions. PBPs have two cell-membrane translocation functions: bind substrate, and interact with the membrane bound complex. A diverse group of periplasmic transport receptors for lysine/arginine/ornithine (LAO), glutamine, histidine, sulfate, phosphate, molybdate, and methanol are included in the PBPb CD.
Probab=100.00 E-value=1.2e-33 Score=233.55 Aligned_cols=207 Identities=26% Similarity=0.307 Sum_probs=179.0
Q ss_pred EEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHCCCEEEEEECCCCCCCCHHCCC
Q ss_conf 99987178988306889898801509999999999679822025998143100267743962799812432532011027
Q gi|254780170|r 36 LKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDPSKIQYLPLNAKERFLALQSKQIDILSRNTDWTLLREISLG 115 (342)
Q Consensus 36 L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~~kVe~v~~~~~~rf~aL~sG~vDil~~~~T~T~~Rd~~~~ 115 (342)
T Consensus 1 l~Vg~~~~~pP~~~~~~~G~~~G~~~dl~~~i~~~lg---~~~~~~~~~~~~~~~~l~~g~~D~~~~~~~~t~~R~~--~ 75 (218)
T cd00134 1 LTVGTAGTYPPFSFRDANGELTGFDVDLAKAIAKELG---VKVKFVEVDWDGLITALKSGKVDLIAAGMTITPERAK--Q 75 (218)
T ss_pred CEEEECCCCCCCEEECCCCCEEEEHHHHHHHHHHHHC---CCEEEEECCHHHHHHHHHCCCCCEEEEEECCCHHHHC--C
T ss_conf 9899489989906899999788839999999999969---9669997588999999857997768885025856614--1
Q ss_pred CCCCCCCCCCCEEEEEECCCCCCCHHHHCCCCEEEEECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEE
Q ss_conf 84353223440234630211347536417862034313426999999998629985078747989999998739602998
Q gi|254780170|r 116 LAFRPITYFDGQGFIMHKKKGISSVSQLSGASICVQAGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYT 195 (342)
Q Consensus 116 v~Fs~~~~~dgq~~lVrk~~~i~s~~dL~G~~I~v~~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~ 195 (342)
T Consensus 76 ~~fs~p~~~~~~~~~~~~~~~~~~~~dl~g~~i~v~~g~~~~~~l~~~----~~~~~~~~~~~~~~~~~~l~~G~vD~~v 151 (218)
T cd00134 76 VDFSDPYYKSGQVILVKKGSPIKSVKDLKGKKVAVQKGSTAEKYLKKA----LPEAKVVSYDDNAEALAALENGRADAVI 151 (218)
T ss_pred CCCCCCEECCCEEEEEECCCCCCCHHHHCCCEEEEECCCHHHHHHHHH----HCCCEEEEECCHHHHHHHHHCCCCEEEE
T ss_conf 455764441570799986899999899779626795898899999973----1575499969999999999859946999
Q ss_pred ECCHHHHHHHHHCCCCHHHCCCCCCCCC--CCEEEECCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf 2504799999836780010025644423--710100027775799998877443311212
Q gi|254780170|r 196 GDISALYALKLTNDRPSEHVILPDIISK--SPLAPAIIQGDTEWYNIVSWTHYAMVTAEE 253 (342)
Q Consensus 196 ~D~s~La~~~~~~~~p~~~~il~e~isk--EPlg~avr~gD~~w~d~V~W~~~ali~Aee 253 (342)
T Consensus 152 ~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~n~~l~~l~~~G~ 209 (218)
T cd00134 152 VDEIALAALLKK--HPPELKIVGPSIDLEPLGFGVAVGKDNKELLDAVNKALKELRADGE 209 (218)
T ss_pred ECHHHHHHHHHH--CCCCCEEECCCCCCCCEEEEEEECCCCHHHHHHHHHHHHHHHHCHH
T ss_conf 769999999986--7998199635667673489999749999999999999999986829