HHsearch alignment for GI: 254780606 and conserved domain: cd03289
>cd03289 ABCC_CFTR2 The CFTR subfamily domain 2. 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=95.94 E-value=0.043 Score=33.33 Aligned_cols=195 Identities=12% Similarity=0.130 Sum_probs=83.9
Q ss_pred EEECCCCCEEECCH----HHCCCEEEEECCCCCHHHHHHHHHHHHHHHCCHHHEEEEEECCCCCEECCCC-------CCC
Q ss_conf 42057887321120----1148469970787534479999999999856801107999723421000125-------775
Q gi|254780606|r 396 LGKTISGESVIADL----ANMPHILVAGTTGSGKSVAINTMIMSLLYRLRPDECRMIMVDPKMLELSVYD-------GIP 464 (744)
Q Consensus 396 ~g~~~~g~~~~~dl----~~~PH~lvaG~TgsGKS~~l~~~i~sl~~~~~p~~~~~~liD~k~~~~~~~~-------~~p 464 (744)
T Consensus 10 ~~Y~~~~~~vL~~isf~I~~Ge~vaIvG~sGsGKSTLl~lL~-gl~~--~~G~I~idg~~i~~~~~~~~r~~i~~vpQ~~ 86 (275)
T cd03289 10 AKYTEGGNAVLENISFSISPGQRVGLLGRTGSGKSTLLSAFL-RLLN--TEGDIQIDGVSWNSVPLQKWRKAFGVIPQKV 86 (275)
T ss_pred EEECCCCCCCEECEEEEECCCCEEEEECCCCCCHHHHHHHHH-HHCC--CCCEEEECCEECCCCCHHHHHHHEEEECCCC
T ss_conf 996899966242507998799999999999997999999996-0357--8953999988067368999976389966556
Q ss_pred CEEEEEE-ECH--------HHHHHHHHHH-----HHHHHHHHHHHHHCCCCCH-HHHHHHHHHHHCCCCCCCCCCCCCCC
Q ss_conf 2000044-441--------7876899999-----9866769999998077867-99999886420267766654323386
Q gi|254780606|r 465 HLLTPVV-TNP--------KKAVMALKWA-----VREMEERYRKMSHLSVRNI-KSYNERISTMYGEKPQGCGDDMRPMP 529 (744)
Q Consensus 465 h~~~~v~-~~~--------~~~~~~l~~~-----~~em~~r~~~~~~~~~~~i-~~~n~~~~~~~~~~~~~~~~~~~~~p 529 (744)
T Consensus 87 ~lf~~Ti~eNl~~~~~~~~~~i~~~~~~~~l~~~i~~lp~~ld~~~~~~g~~LSgGqkQrl~lARaLl~---------~p 157 (275)
T cd03289 87 FIFSGTFRKNLDPYGKWSDEEIWKVAEEVGLKSVIEQFPGQLDFVLVDGGCVLSHGHKQLMCLARSVLS---------KA 157 (275)
T ss_pred CCCCCCHHHHCCCCCCCCHHHHHHHHHHHCHHHHHHHCCCCCCEEECCCCCCCCHHHHHHHHHHHHHHC---------CC
T ss_conf 326741999703212228899999999976699998573667403268887239999999999999951---------99
Q ss_pred EEEEEHHHHHHHHHHCCHHHHHHHHHHHHHHHCCEEEEEEEECCCCCCCCHHHHHHCCCCEEEEECCCHHHCCHHCCCCC
Q ss_conf 79998445687675310358999999999642013589998516544441467885056305720368111003267631
Q gi|254780606|r 530 YIVIIVDEMADLMMVAGKEIEGAIQRLAQMARAAGIHLIMATQRPSVDVITGTIKANFPIRISFQVTSKIDSRTILGEHG 609 (744)
Q Consensus 530 ~ivvviDE~a~l~~~~~~~~e~~~~~la~~~ra~GihlilatQrp~~~vi~~~ik~n~~~ri~~~v~~~~dsr~il~~~g 609 (744)
T Consensus 158 ~-IllLDEpTs~LD~---~te~~i~~~l~~-~~~~~TvI~itHrl~------~~~~-~-DrIlvl-----d~G~Ive~Gt 219 (275)
T cd03289 158 K-ILLLDEPSAHLDP---ITYQVIRKTLKQ-AFADCTVILSEHRIE------AMLE-C-QRFLVI-----EENKVRQYDS 219 (275)
T ss_pred C-EEEEECCCCCCCH---HHHHHHHHHHHH-HCCCCEEEEEECCHH------HHHH-C-CEEEEE-----ECCEEEEECC
T ss_conf 9-8999797668999---999999999999-729998999943888------8986-9-999999-----8999999789
Q ss_pred HHHHCCCCCEE
Q ss_conf 68856898468
Q gi|254780606|r 610 AEQLLGRGDML 620 (744)
Q Consensus 610 ae~l~g~gd~l 620 (744)
T Consensus 220 ~eeLl~~~~~y 230 (275)
T cd03289 220 IQKLLNEKSHF 230 (275)
T ss_pred HHHHHHCCCCH
T ss_conf 89998678915