HHsearch alignment for GI: 254780594 and conserved domain: TIGR00862
>TIGR00862 O-ClC intracellular chloride channel protein; InterPro: IPR002946 Chloride (Cl^-) channels are known to be present in the plasma and intracellular membranes of many cell types. Whilst the molecular identity of plasma membrane Cl^- channels has been known for some time, only recently have intracellular Cl^- channels been characterised. Initially, a 64 kDa protein was purified from solubilised kidney cortical membranes, which, when reconstituted into phospholipid vesicles, gave rise to chloride channel activity . An antibody generated against this protein (p64) was subsequently used to identify and clone it. The predicted amino acid sequence for p64 shows that it contains two, or possibly four, putative transmembrane (TM) domains and a number of possible phosphorylation sites. Expression studies have revealed that it is targeted to intracellular organelles, not the plasma membrane . Subsequently, a number of homologous cDNAs have been identified, which, when expressed, give rise to Cl^- channels in the membranes of both cell nuclei and endoplasmic reticulum , . They do not show significant sequence similarity to the CLC family of plasma membrane voltage-gated Cl^- channels.; GO: 0005247 voltage-gated chloride channel activity, 0006821 chloride transport, 0016020 membrane.
Probab=99.06 E-value=4.4e-09 Score=71.44 Aligned_cols=184 Identities=14% Similarity=0.129 Sum_probs=116.1
Q ss_pred CCCHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHCCCCCCCHHHHCCHHHHCCCCHHHHHHHHHCCCCCCCCCCCCC
Q ss_conf 99868999999999869982999888677788999855687752011100011101210356777528872334335679
Q gi|254780594|r 8 PLSSSSRFIRLILSEYEFTTDMIEEFPWGKRREFLELNPSGTLPVYIDEHMQALCGVFVISEYLDETYGAIAQKNRLLST 87 (230)
Q Consensus 8 ~~sp~~~kvr~~L~e~gi~y~~~~~~~~~~~~~~~~lnP~g~vP~L~~~dg~~l~eS~aI~~yL~~~~~~~~~~~~L~p~ 87 (230)
T Consensus 17 GnCPf~qrlfm~lWlkGv~f~vttvd~~r~~~~~~~l~PG~~~Pfl~~-~~~~~td~~kieefle~~l~P~-~y~~l~~~ 94 (237)
T TIGR00862 17 GNCPFSQRLFMILWLKGVVFNVTTVDLKRKPEELKNLAPGTHPPFLVY-NKEVKTDVNKIEEFLEEVLAPP-KYPKLAAK 94 (237)
T ss_pred CCCCHHHHHHHHHHHCCEEEEEEEEECCCCHHHHHHHCCCCCCCEEEE-CCHHHHHHHHHHHHHHHHHCCH-HHHHHHCC
T ss_conf 577246788888764040466675421125688985068988752555-3214567999999998750761-12443002
Q ss_pred CHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHH--------------
Q ss_conf 999999999999998612342577899998877664212210233439999999999999985565--------------
Q gi|254780594|r 88 DPLQRAETRRMIEWFMYQMEQDVTRPLAHERVYKLHMTTEQGGGSPDSKVLRIARNNMREHIKYIT-------------- 153 (230)
Q Consensus 88 ~~~~ra~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~le-------------- 153 (230)
T Consensus 95 ~~es~~~G~~~f~kfsa--------------yikn~~~~------~n~~le~~l~k~l~~ld~yl~~Pl~~e~d~~~~~~ 154 (237)
T TIGR00862 95 HKESNTAGLDIFAKFSA--------------YIKNSKKE------ANEALEKGLLKALKKLDDYLNSPLPEEIDEDSAED 154 (237)
T ss_pred CCHHHHHHHHHHHHHHH--------------HHHHHHHH------HHHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCCH
T ss_conf 31124556789888889--------------87510588------89899889999999988874066502420010000
Q ss_pred HHHCCCCCCCCCCCCHHHHHHHHHHHHHHH----CCCCC-HHHCHHHHHHHHHHHCCHHHHHHHH
Q ss_conf 453479842667502899999999999996----18999-4567688999999970998898413
Q gi|254780594|r 154 WLIKSRSWIAGHHMSYADFAASATISILDY----LGEID-WDTAPIVKEWYQRMKSRPSFRPLLS 213 (230)
Q Consensus 154 ~~l~~~~fl~Gd~~s~ADi~~~~~l~~~~~----~~~~~-~~~~p~l~~w~~r~~~rps~~~~l~ 213 (230)
T Consensus 155 ~~~s~r~fldG~~ltladC~llPkl~~~~v~~kkyr~f~~P~~~~G~~ryl~nay~r~ef~~tC~ 219 (237)
T TIGR00862 155 EKVSRRKFLDGDELTLADCNLLPKLHIVKVVAKKYRNFDIPAEFTGVWRYLKNAYAREEFTNTCP 219 (237)
T ss_pred HHHHHHHCCCCCCHHHHHHHHCCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf 11112210265410233232144056777656652265650557899999876543556763066