HHsearch alignment for GI: 254780342 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=97.02  E-value=0.011  Score=37.26  Aligned_cols=261  Identities=16%  Similarity=0.114  Sum_probs=145.9

Q ss_pred             HHHHHHHHHHHHHHHHHCC--CCCCCCCEEEEC----CCCCHHHHH-----------HHHHHHHHHHCCC---CEEEEEE
Q ss_conf             5799999999999863035--834588379942----588699999-----------9999999961069---8489985
Q gi|254780342|r    2 YKILAVCLFLTTFSISYAR--DADSCTPVRFAD----TGWTDIAAT-----------TAMTSVILEEILG---YKTNIKL   61 (309)
Q Consensus         2 kk~~~~~~~~~~~~~~~~~--~~~~~~~I~ig~----~~wte~~v~-----------a~i~~~iLE~~lG---y~Ve~~~   61 (309)
T Consensus         1 k~~l~~~L~ag~~~~~~a~~~a~~~~~~v~~gt~~~y~PF~~~~a~G~~~GFDvDl~~alc~~~~gD~-GWdh~~c~~~~   79 (333)
T TIGR01096         1 KLVLLAALVAGGDASSAATAAAAKEKGSVRIGTETAYPPFEFKDADGKLVGFDVDLANALCKEMKGDP-GWDHAKCKFVE   79 (333)
T ss_pred             CHHHHHHHHHHHHHHHHCCHHHHHHCCCEEEEECCCCCCCCCCCCCCCEEEHHHHHHHHHHHHHCCCC-CCCCCEEEEEC
T ss_conf             85899999999999862156888528807998657879865518895456326789999999845899-96431488842


Q ss_pred             CCHHHHHHHHHCCCCEEEEE-EECCCCHHHHHHHHHCCCEEEECCCCCCCEEEEEEEHHHHHC---------CCCCHHH-
Q ss_conf             64057888851498139998-404641356666553047023013566853567863446412---------3455356-
Q gi|254780342|r   62 LAVPVTFRSLKNKGIDIFMG-YWYPSLEKFIAPYLEEGSIKLVAENLQGAKYMLAVNDVGFAL---------GIKSYQD-  130 (309)
Q Consensus        62 ~~~~~~~~al~~G~iD~~~e-~w~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~---------~i~~~~d-  130 (309)
T Consensus        80 ~~~~~liPsL~~k~~Dai~an~~-~It~~R~~-------~i~F~~~yy~~~~~f~v~~~~~~~~~~~~~E~~~Ld~~A~~  151 (333)
T TIGR01096        80 QAFDGLIPSLKAKKVDAIMANAM-SITDERQK-------QIDFSDPYYATGAGFVVKKDSDLAKTLEDGENYSLDNQADA  151 (333)
T ss_pred             CCHHHHHHHHHCCCEEEEEECCC-CCCHHHHH-------HHCCCCCCCCCCCEEEEECCCCCCCCHHHHCCCCCCCCCHH
T ss_conf             75665202545380689972665-54665663-------21144300004430222248875431453303672000379


Q ss_pred             ----HHHHHHHHH-HCCCCCCCCCCCCHHHHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHHHCCCCEEEEEECCC--HH
Q ss_conf             ----555566544-20135785432005558766403545221001036652018999999965993699941242--23
Q gi|254780342|r  131 ----IAKYKKELG-AKIYGIEPGNEGNQRILDMINNNKFSLKGFRLIEASELASFSQIRRDQRNNIPAVFLSWEPH--PI  203 (309)
Q Consensus       131 ----l~~~~~~~~-~~~~g~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~s~~~~~a~l~~A~~~~~~~v~~~wsp~--~~  203 (309)
T Consensus       152 ~K~~~d~~~~~L~nG~~~gV~~GTT~~~~~~~~~~~~Nl~v~~~~Y~------~~~~~~~dL~~GR~Da~~~D~~~l~~~  225 (333)
T TIGR01096       152 AKKEIDDVTKFLKNGKKVGVQSGTTHEQYLKDEFKPKNLGVDIVEYD------SYDNANMDLKAGRIDAVLADASVLAEG  225 (333)
T ss_pred             HHHHHHHHHHHHHCCCEEEECCCCCHHHHHHHHCCCCCCEEEEEEEC------CHHHHHHHHHCCCCEEEECCHHHHHHH
T ss_conf             89989989998527548986268848999986244337426666408------867999997579621774365888888


Q ss_pred             HHCC----CCEEECC--------CCCCCCCC---------------HHHHHHHHCH--H-HHHHCHHHHHHHHHC-C-CC
Q ss_conf             2015----8514007--------86546778---------------6583544277--7-787488999998740-8-99
Q gi|254780342|r  204 NSDL----NIHYLPG--------GEEISGFG---------------EASVYTVVRS--D-YLDKCPNISRLLKNI-K-FS  251 (309)
Q Consensus       204 ~~~~----dl~~Led--------p~~~~~~p---------------~~~~~~vv~~--~-~~~~~P~~~~~L~~~-~-ls  251 (309)
T Consensus       226 ~~~~~~gkd~~~~g~~~~~~PLGP~~~FG~g~W~DiV~W~~YAL~~A~E~Gig~rk~de~~~s~Np~i~r~lg~~~Dt~G  305 (333)
T TIGR01096       226 FLKPPNGKDLKFVGPKVTDEPLGPVKYFGDGYWFDIVRWSAYALVAAEEVGIGLRKVDEVKASTNPEIKRLLGSEGDTIG  305 (333)
T ss_pred             HHCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHCCCCCCHHHHHCCCCCHHH
T ss_conf             73789888637728322688989855578883001214466777634432125345588851888302322045565121


Q ss_pred             HHHHHHHHHHHH--HCCCCHHHHHHHHH
Q ss_conf             899999999998--45999899999999
Q gi|254780342|r  252 VALENEMMKLIL--NNKQDRQFVGRTML  277 (309)
Q Consensus       252 ~~~~~~l~~~v~--~~g~~~~~vA~~wL  277 (309)
T Consensus       306 ~eL~~~~n~Al~~~~adGtY~~i~~kwf  333 (333)
T TIGR01096       306 KELKAKFNKALKAIRADGTYQKISKKWF  333 (333)
T ss_pred             HHHHHHHHHHHHHHHHCCCHHHHHHHCC
T ss_conf             8999999999999986587468886519