HHsearch alignment for GI: 254781149 and conserved domain: cd03291

>cd03291 ABCC_CFTR1 The CFTR subfamily domain 1. The cystic fibrosis transmembrane regulator (CFTR), the product of the gene mutated in patients with cystic fibrosis, has adapted the ABC transporter structural motif to form a tightly regulated anion channel at the apical surface of many epithelia. Use of the term assembly of a functional ion channel implies the coming together of subunits, or at least smaller not-yet functional components of the active whole. In fact, on the basis of current knowledge only the CFTR polypeptide itself is required to form an ATP- and protein kinase A-dependent low-conductance chloride channel of the type present in the apical membrane of many epithelial cells. CFTR displays the typical organization (IM-ABC)2 and carries a characteristic hydrophilic R-domain that separates IM1-ABC1 from IM2-ABC2.
Probab=93.12  E-value=0.2  Score=30.20  Aligned_cols=116  Identities=16%  Similarity=0.133  Sum_probs=67.8

Q ss_pred             HHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHHHH-H------CCC------CEEEEC----------CCCCHHH
Q ss_conf             1377777655301683688706874148899999999963-0------223------236411----------6753489
Q gi|254781149|r  128 GLQSVDHLMGGVQLRELILIGARPSMGKTTFALSTALHMA-M------SGH------GVAFFS----------LEMDREK  184 (266)
Q Consensus       128 G~~~LD~~~gG~~~g~LiviaaRP~mGKTa~alnia~~~a-~------~g~------~Vl~fS----------lEMs~~q  184 (266)
T Consensus        49 ~~pVLk~Isf~I~~Ge~vaIVG~sGSGKSTLl~lL~gl~~p~~G~I~~~g~i~~v~Q~~~lf~~TireNI~~g~~~~~~~  128 (282)
T cd03291          49 GAPVLKNINLKIEKGEMLAITGSTGSGKTSLLMLILGELEPSEGKIKHSGRISFSSQFSWIMPGTIKENIIFGVSYDEYR  128 (282)
T ss_pred             CCCEEECEEEEECCCCEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEECCEEEEECCCCCCCCCCHHHHHHCCCCCCHHH
T ss_conf             89614164899849999999999998199999999578727865899999999865744226710999975168868899


Q ss_pred             HHHHHHHHHHCC--CCCCCCHHH---C-CCC-CCCHHHHHHHHHHHHHHHHCCCEEECCCCCCHHHHH
Q ss_conf             999999963022--323478555---0-178-899899999999999997299547479988989999
Q gi|254781149|r  185 LGARALSNLLYP--SSSRIPYLN---L-IRG-EINQEQYRISQGICEKLQDFPLIIDDRPSPGIMEFV  245 (266)
Q Consensus       185 l~~R~ls~~t~~--~~s~I~~~~---l-~~g-~l~~~e~~~i~~a~~~l~~~pl~IdD~~~~ti~~ir  245 (266)
T Consensus       129 -~~~~~~~~-~l~~~i~~lp~g~~t~vge~G~~LSGGQkQRlaiARALl~~p~IliLDEpTS~LD~~t  194 (282)
T cd03291         129 -YKSVVKAC-QLEEDITKFPEKDNTVLGEGGITLSGGQRARISLARAVYKDADLYLLDSPFGYLDVFT  194 (282)
T ss_pred             -HHHHHHHH-CCHHHHHHCCCCCCCEECCCCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCCHHH
T ss_conf             -99999985-1499998463425523003677589999999999999842899899868776689878