HHsearch alignment for GI: 254781112 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=2.9e-44 Score=293.35 Aligned_cols=232 Identities=30% Similarity=0.484 Sum_probs=208.3
Q ss_pred HHHHHCHHHHHHCCCEEEEECCCCCCEEEEEECCCCCEEEEEEEEHHHHHHHCC-------CCCCCCCCCHHHHHHHHHC
Q ss_conf 998417887885895899962899872487046998488988521678997629-------9855566898898864310
Q gi|254781112|r 28 YYFVIYPFRTEDQSALRVGTDGIYPPHSFHAQDGRGELTGFDIDLIKEVAHRLN-------LKVEFFETAVSGLITGLDT 100 (274)
Q Consensus 28 ~~~~~~~~~~~~~~~l~v~~~~~~pP~~~~~~d~~g~~~G~~~dl~~~i~~~lg-------~~~~~~~~~~~~~~~~l~~ 100 (274)
T Consensus 14 ~~~~a~~~a~~~~~~v~~gt~~~y~PF~~~--~a~G~~~GFDvDl~~alc~~~~gD~GWdh~~c~~~~~~~~~liPsL~~ 91 (333)
T TIGR01096 14 ASSAATAAAAKEKGSVRIGTETAYPPFEFK--DADGKLVGFDVDLANALCKEMKGDPGWDHAKCKFVEQAFDGLIPSLKA 91 (333)
T ss_pred HHHHCCHHHHHHCCCEEEEECCCCCCCCCC--CCCCCEEEHHHHHHHHHHHHHCCCCCCCCCEEEEECCCHHHHHHHHHC
T ss_conf 986215688852880799865787986551--889545632678999999984589996431488842756652025453
Q ss_pred CCCCCC-H-HCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCC-----------------------CC-CCCEEE
Q ss_conf 322110-0-003675675420023332222222221112222111112-----------------------33-432023
Q gi|254781112|r 101 NRYDVL-V-NVAITPERQKKYDFSIPYIAHRVLLVVRSDQQDIRSFKD-----------------------LT-DKTVAQ 154 (274)
Q Consensus 101 g~~D~~-~-~~~~t~eR~~~~~fs~p~~~~~~~~~~~~~~~~~~~~~d-----------------------L~-g~~V~~ 154 (274)
T Consensus 92 k~~Dai~an~~~It~~R~~~i~F~~~yy~~~~~f~v~~~~~~~~~~~~~E~~~Ld~~A~~~K~~~d~~~~~L~nG~~~gV 171 (333)
T TIGR01096 92 KKVDAIMANAMSITDERQKQIDFSDPYYATGAGFVVKKDSDLAKTLEDGENYSLDNQADAAKKEIDDVTKFLKNGKKVGV 171 (333)
T ss_pred CCEEEEEECCCCCCHHHHHHHCCCCCCCCCCCEEEEECCCCCCCCHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEE
T ss_conf 80689972665546656632114430000443022224887543145330367200037989989989998527548986
Q ss_pred ECCCHHHHHHHCC------CCCCEEECCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHCCCCCCCEEEC----CC-----C
Q ss_conf 1010122332013------4542133685577775544321003665589999998458766732623----67-----7
Q gi|254781112|r 155 ILGTDLSRFAKEL------KSHLVFSHNFEQSLQLLLSKRTDATMIPDIPFFNFLERRPHDGNLFKIA----DR-----M 219 (274)
Q Consensus 155 ~~g~~~~~~l~~~------~~~~~~~~~~~~~~~~l~~grvD~~~~~~~~~~~~~~~~~~~~~~~~~~----~~-----~ 219 (274)
T Consensus 172 ~~GTT~~~~~~~~~~~~Nl~v~~~~Y~~~~~~~~dL~~GR~Da~~~D~~~l~~~~~~~~~gkd~~~~g~~~~~~PLGP~~ 251 (333)
T TIGR01096 172 QSGTTHEQYLKDEFKPKNLGVDIVEYDSYDNANMDLKAGRIDAVLADASVLAEGFLKPPNGKDLKFVGPKVTDEPLGPVK 251 (333)
T ss_pred CCCCCHHHHHHHHCCCCCCEEEEEEECCHHHHHHHHHCCCCEEEECCHHHHHHHHHCCCCCCCEEECCCCCCCCCCCCCC
T ss_conf 26884899998624433742666640886799999757962177436588888873789888637728322688989855
Q ss_pred CCCCC------------------EEEEEEC-------------------CC---HHHHHHHHHHHHHHHHCCHHHHHHHH
Q ss_conf 68770------------------7999818-------------------99---89999999999999979859999987
Q gi|254781112|r 220 KDNSA------------------VAFMMRK-------------------GN---NKLTRSINEILCAIHLDGTYKKIFDR 259 (274)
Q Consensus 220 ~~~~~------------------~~~~~~k-------------------~~---~~L~~~in~~l~~l~~~G~~~~I~~k 259 (274)
T Consensus 252 ~FG~g~W~DiV~W~~YAL~~A~E~Gig~rk~de~~~s~Np~i~r~lg~~~Dt~G~eL~~~~n~Al~~~~adGtY~~i~~k 331 (333)
T TIGR01096 252 YFGDGYWFDIVRWSAYALVAAEEVGIGLRKVDEVKASTNPEIKRLLGSEGDTIGKELKAKFNKALKAIRADGTYQKISKK 331 (333)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHCCCCCCHHHHHCCCCCHHHHHHHHHHHHHHHHHHHCCCHHHHHHH
T ss_conf 57888300121446677763443212534558885188830232204556512189999999999999865874688865
Q ss_pred HC
Q ss_conf 67
Q gi|254781112|r 260 YF 261 (274)
Q Consensus 260 w~ 261 (274)
T Consensus 332 wf 333 (333)
T TIGR01096 332 WF 333 (333)
T ss_pred CC
T ss_conf 19