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