HHsearch alignment for GI: 254780323 and conserved domain: TIGR00898

>TIGR00898 2A0119 cation transport protein; InterPro: IPR004749 Organic cation transport proteins belong to this group. The protein from human is a sodium-dependent, high affinity carnitine transporter that also transports organic cations without the involvement of sodium. It is involved in the active cellular uptake of carnitine.; GO: 0015075 ion transmembrane transporter activity, 0006811 ion transport, 0016021 integral to membrane.
Probab=94.93  E-value=0.31  Score=27.54  Aligned_cols=336  Identities=11%  Similarity=0.047  Sum_probs=179.3

Q ss_pred             HHHHHHHHHC---CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCH
Q ss_conf             9877886512---4854467999999999999999999999963389999999999999999999999842100146523
Q gi|254780323|r   48 PIKDSLVVPH---MGAEIISFVKLWCVFPSAILFTILYMKLSNILETEKLFYVVVSFFVSFFAIFAFLLYPYRDFLHPSP  124 (491)
Q Consensus        48 ~~rd~l~~~~---~g~e~lp~l~~~~~l~~s~~~~~~y~~l~~~~~~~~l~~~~~~~f~~~~~~f~~~l~p~~~~~~~~~  124 (491)
T Consensus       123 ~~~stiv~EW~LvC~~~~~~~L~~s~~~~G~L~Gs~~~G~lsDrfGRk~~L~~s~l~~~~~g~~~a~S------------  190 (557)
T TIGR00898       123 TFSSTIVTEWDLVCEDAWKVDLTQSLFFVGVLLGSLVLGYLSDRFGRKKVLLLSTLVTAVSGVLTAFS------------  190 (557)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------
T ss_conf             44873588527430025776688999999999868888778635204899999999998878651275------------


Q ss_pred             HHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHH-HHHHHHHHHHHHHHHH
Q ss_conf             455553101013445787655579999999999999999999999999864098998999999-9989999999988999
Q gi|254780323|r  125 ESIRALASSWPYLKWFIYLAGKWSFALFYVFAELWGAVMINLMFWQFANRITKTEEATRFYAT-FGLVGNVGLIFAGGIV  203 (491)
Q Consensus       125 ~~~~~~~~~~~~~~~~~~~~~~w~~~~fYv~~e~~~~~vis~~FW~~~n~~f~~~qaKRlf~l-i~~g~~ig~i~gg~~~  203 (491)
T Consensus       191 -------------------P~~~~~~vfR~L~G~~~~g~~~-~~~~L~~E~~~~~~R~~~~~lG~~~~~~~G~~~L~l~A  250 (557)
T TIGR00898       191 -------------------PNYTVFLVFRLLVGMGIAGIWV-VAVVLNTEFLPKKQRAIVGILGIQVFFSLGLLLLPLVA  250 (557)
T ss_pred             -------------------HHHHHHHHHHHHHHHHHCCEEE-EEEEEEEEECCCCCCEEEEEEHHHHHHHHHHHHHHHHH
T ss_conf             -------------------6899999999996131002025-77776775327366157661035888887699987788


Q ss_pred             HHHHH--HCCCCCHHHHHHHHHHHHHHH-HHHH---HH-HH-----------HHCCCCCCC-----CCCCCC-----CCC
Q ss_conf             99963--012322489999999999999-9999---99-99-----------840245223-----320000-----112
Q gi|254780323|r  204 KTFSK--LTNELMIYYSMLTLILSSILL-MAVY---RW-MN-----------LYVLTDPQQ-----YSPKRG-----SVK  255 (491)
Q Consensus       204 ~~l~~--~~~~~~~~~~~~~~~~~~~~~-~~l~---~~-~~-----------~~~~~~~~~-----~~~~~~-----~~~  255 (491)
T Consensus       251 Y~~~~SgWR~--L~l~~s~P~~~~~~~~rw~vpESpRWL~~~gr~~~A~~~L~~~A~~Ng~~~eg~~~~~~~~~~~~~~~  328 (557)
T TIGR00898       251 YFIPDSGWRW--LQLAVSLPLFIFLLLSRWFVPESPRWLISQGRIEEALKILQRVAKINGKKEEGGKLPAEVLSLSLEKE  328 (557)
T ss_pred             HHCCCCHHHH--HHHHHHHHHHHHHHHHHHHHHCCHHHHHHCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHCCHHHHH
T ss_conf             6537855899--99999988999999987771013125642485789999999985337861553326603330025666


Q ss_pred             CCCCCCHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-------------HHH------HHHHHHH
Q ss_conf             345788899999983096799999999999999999999999999983299-------------899------9999999
Q gi|254780323|r  256 KKLKLSVLESLRMALNSKYLGYLVLLVICYGTAINLVEGPWKEKVRQLYPT-------------QNS------YAQFMGQ  316 (491)
Q Consensus       256 ~~~~~~~~~~~k~i~~s~yL~~l~~~v~~~~~~~tl~e~~~k~~~~~~~~~-------------~~~------~~af~g~  316 (491)
T Consensus       329 ~~~~k~~~~~~~~L~rtp~lr~~tl~l~~~Wf~~~f~YyGL~l~~~~l~~n~D~C~~~~~~~~~~~~~C~~L~~~~Y~~~  408 (557)
T TIGR00898       329 LSSKKAQKPSFLDLFRTPQLRKTTLILMMLWFTTAFSYYGLVLDLENLGGNGDVCSISLFKKAVEAKVCEYLSKEIYLDL  408 (557)
T ss_pred             HHHHHCCCCCHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEECCCCCCCCCHHHHCCHHHHHHHHHH
T ss_conf             54220014321554068789999999999999988999877753211478744002310004410022211008999999


Q ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHH
Q ss_conf             99999999999999978999973167899999999999999999998410123466678730020799999999999999
Q gi|254780323|r  317 FIQWTGIVTIVFMILGSNILKSFRWFTSAIITPLMILITGGGFFVFVIFEDALLPFTEDVIKLVPLALAVFLGSLQNVLS  396 (491)
Q Consensus       317 ~~~~v~i~tii~qll~~~ll~r~G~~~~l~i~Pi~~li~~~~ff~~~~~~~~~~~~~~~~~~~~~l~~~v~~~~i~~~~~  396 (491)
T Consensus       409 --~~~glve~Pa~~~~~l~i~~LgRr~~~a~~~~~ag~~~l~~~~~~---~~~~~-~~G~l-----~------t~L~~~g  471 (557)
T TIGR00898       409 --FISGLVELPAKLITLLLIDRLGRRYTMAASLLLAGVALLLLLFVP---EELYF-YNGWL-----R------TALAVLG  471 (557)
T ss_pred             --HHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHH---CCCCC-CCHHH-----H------HHHHHHH
T ss_conf             --999998889999889887621776799999999999999999863---12355-30699-----9------9999999


Q ss_pred             HHHHHHHHHHHHHHHHEECCHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf             987634464668777522697673657776788876466777
Q gi|254780323|r  397 KATKYTMFDSTKEMAFIPLDDEFRTKGKAVVDVIGGRMAKSG  438 (491)
Q Consensus       397 k~~kYsl~~p~~E~l~~pl~~~~R~k~K~~iD~~~~r~Gk~~  438 (491)
T Consensus       472 ----~~~~~~aF~~~ylyt~ELYPT~~Rn~G~g~~S~m~r~G  509 (557)
T TIGR00898       472 ----KAGITSAFQMVYLYTAELYPTVVRNLGVGVCSTMARVG  509 (557)
T ss_pred             ----HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf             ----99888872542220565015899999999999999875