HHsearch alignment for GI: 254780170 and conserved domain: TIGR01096

>TIGR01096 3A0103s03R lysine-arginine-ornithine-binding periplasmic protein; InterPro: IPR005768 Bacterial high affinity transport systems are involved in active transport of solutes across the cytoplasmic membrane. The protein components of these traffic systems include one or two transmembrane protein components, one or two membrane-associated ATP-binding proteins (ABC transporters; see IPR003439 from INTERPRO) and a high affinity periplasmic solute-binding protein. The later are thought to bind the substrate in the vicinity of the inner membrane, and to transfer it to a complex of inner membrane proteins for concentration into the cytoplasm. In Gram-positive bacteria which are surrounded by a single membrane and have therefore no periplasmic region the equivalent proteins are bound to the membrane via an N-terminal lipid anchor. These homolog proteins do not play an integral role in the transport process per se, but probably serve as receptors to trigger or initiate translocation of the solute through the membrane by binding to external sites of the integral membrane proteins of the efflux system. In addition at least some solute-binding proteins function in the initiation of sensory transduction pathways. On the basis of sequence similarities, the vast majority of these solute-binding proteins can be grouped into eight families of clusters, which generally correlate with the nature of the solute bound. Family 3 groups together specific amino acids and opine-binding periplasmic proteins and a periplasmic homolog with catalytic activity. ; GO: 0005215 transporter activity, 0006810 transport, 0030288 outer membrane-bounded periplasmic space.
Probab=100.00  E-value=0  Score=529.04  Aligned_cols=288  Identities=28%  Similarity=0.483  Sum_probs=274.1

Q ss_pred             CCCHHHHHHHHCCEEEEEEECCCCCCEEECCCCCEEEEHHHHHHHHHHHHCCCC----CEEEEEECCCCCCHHHHHCCCE
Q ss_conf             442168999857949998717898830688989880150999999999967982----2025998143100267743962
Q gi|254780170|r   22 TNASILGDIKKRGFLKCGINTGLVGFAEVKANGDWKGFDVDFCRALSSAIFDDP----SKIQYLPLNAKERFLALQSKQI   97 (342)
Q Consensus        22 a~a~tLd~Vk~rG~L~vGv~~~~ppfs~~d~~G~~~GfDVDl~raiAaal~gd~----~kVe~v~~~~~~rf~aL~sG~v   97 (342)
T Consensus        15 ~~~a~~~a~~~~~~v~~gt~~~y~PF~~~~a~G~~~GFDvDl~~alc~~~~gD~GWdh~~c~~~~~~~~~liPsL~~k~~   94 (333)
T TIGR01096        15 SSAATAAAAKEKGSVRIGTETAYPPFEFKDADGKLVGFDVDLANALCKEMKGDPGWDHAKCKFVEQAFDGLIPSLKAKKV   94 (333)
T ss_pred             HHHCCHHHHHHCCCEEEEECCCCCCCCCCCCCCCEEEHHHHHHHHHHHHHCCCCCCCCCEEEEECCCHHHHHHHHHCCCE
T ss_conf             86215688852880799865787986551889545632678999999984589996431488842756652025453806


Q ss_pred             EEEEE-CCCCCCCCHHCCCCCCCCCCCCCCEEEEEECCCCC-CCHHH-----------------------HC-CCCEEEE
Q ss_conf             79981-24325320110278435322344023463021134-75364-----------------------17-8620343
Q gi|254780170|r   98 DILSR-NTDWTLLREISLGLAFRPITYFDGQGFIMHKKKGI-SSVSQ-----------------------LS-GASICVQ  151 (342)
Q Consensus        98 Dil~~-~~T~T~~Rd~~~~v~Fs~~~~~dgq~~lVrk~~~i-~s~~d-----------------------L~-G~~I~v~  151 (342)
T Consensus        95 Dai~an~~~It~~R--~~~i~F~~~yy~~~~~f~v~~~~~~~~~~~~~E~~~Ld~~A~~~K~~~d~~~~~L~nG~~~gV~  172 (333)
T TIGR01096        95 DAIMANAMSITDER--QKQIDFSDPYYATGAGFVVKKDSDLAKTLEDGENYSLDNQADAAKKEIDDVTKFLKNGKKVGVQ  172 (333)
T ss_pred             EEEEECCCCCCHHH--HHHHCCCCCCCCCCCEEEEECCCCCCCCHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEC
T ss_conf             89972665546656--6321144300004430222248875431453303672000379899899899985275489862


Q ss_pred             ECCCHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHCCCEEEEEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEECC
Q ss_conf             13426999999998629985078747989999998739602998250479999983678001002564442371010002
Q gi|254780170|r  152 AGTTTELTLADYFKAHNMKYHPIVFERVEEIDAAYRAHRCDAYTGDISALYALKLTNDRPSEHVILPDIISKSPLAPAII  231 (342)
Q Consensus       152 ~GTT~e~~l~~~~~~~~~~~~~v~~~~~~~a~~al~~Gr~DA~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~avr  231 (342)
T Consensus       173 ~GTT~~~~~~~~~~~~Nl~v~~~~Y~~~~~~~~dL~~GR~Da~~~D~~~l~~~~~~~~~gkd~~~~g~~~~~~PLGP~~~  252 (333)
T TIGR01096       173 SGTTHEQYLKDEFKPKNLGVDIVEYDSYDNANMDLKAGRIDAVLADASVLAEGFLKPPNGKDLKFVGPKVTDEPLGPVKY  252 (333)
T ss_pred             CCCCHHHHHHHHCCCCCCEEEEEEECCHHHHHHHHHCCCCEEEECCHHHHHHHHHCCCCCCCEEECCCCCCCCCCCCCCC
T ss_conf             68848999986244337426666408867999997579621774365888888737898886377283226889898555


Q ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHHHHHHCCCCCCC-CHHHCCCCHHHHHHHHHHCCCHHHHH
Q ss_conf             77757999988774433112123301520898862267177887623588765-03337998679999999718699987
Q gi|254780170|r  232 QGDTEWYNIVSWTHYAMVTAEELGITQKNINQVSKDTTNPDVQRFLGIDKSSN-IGEALGLTKDWTYRIIRHMGNYGEMF  310 (342)
Q Consensus       232 ~gD~~w~d~V~W~~~ali~Aee~git~~nv~~~~~~s~~p~i~r~lg~~~~~~-~g~~lgl~~~~~~~~i~~vGNYgei~  310 (342)
T Consensus       253 FG~g~W~DiV~W~~YAL~~A~E~Gig~rk~de~~~-s~Np~i~r~lg~~--~Dt~G~eL~~~~n~Al~~~~adGtY~~i~  329 (333)
T TIGR01096       253 FGDGYWFDIVRWSAYALVAAEEVGIGLRKVDEVKA-STNPEIKRLLGSE--GDTIGKELKAKFNKALKAIRADGTYQKIS  329 (333)
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHC-CCCCCHHHHHCCC--CCHHHHHHHHHHHHHHHHHHHCCCHHHHH
T ss_conf             78883001214466777634432125345588851-8883023220455--65121899999999999998658746888


Q ss_pred             HHHC
Q ss_conf             8864
Q gi|254780170|r  311 DRNL  314 (342)
Q Consensus       311 ~rnl  314 (342)
T Consensus       330 ~kwf  333 (333)
T TIGR01096       330 KKWF  333 (333)
T ss_pred             HHCC
T ss_conf             6519