HHsearch alignment for GI: 254780332 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=96.16 E-value=0.066 Score=33.97 Aligned_cols=159 Identities=16% Similarity=0.215 Sum_probs=75.7
Q ss_pred HHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHHH
Q ss_conf 37765564167726776213100276999999999985101112333332124797589995852179998789999874
Q gi|254780332|r 208 TLDKQMGGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTINGGIVGFYSLEMSSEQLATRIISEQTE 287 (504)
Q Consensus 208 ~LD~~~gGl~~G~l~Viaarpg~GKTalalniA~~~A~~~~~~~~~~~~~~~~~g~~Vl~fSlEMs~~el~~R~is~~s~ 287 (504)
T Consensus 19 vL~~isf~I~~Ge~vaIvG~sGsGKSTLl~lL~-gl~~~-~G-------~I~idg~~i----~~~~~~~~r~~-i~~vpQ 84 (275)
T cd03289 19 VLENISFSISPGQRVGLLGRTGSGKSTLLSAFL-RLLNT-EG-------DIQIDGVSW----NSVPLQKWRKA-FGVIPQ 84 (275)
T ss_pred CEECEEEEECCCCEEEEECCCCCCHHHHHHHHH-HHCCC-CC-------EEEECCEEC----CCCCHHHHHHH-EEEECC
T ss_conf 242507998799999999999997999999996-03578-95-------399998806----73689999763-899665
Q ss_pred HC-------CCCCC-CCCCCHHHHHHHHHHH---HHHHHCC----EEEECCC-CCCHH--HHHHHHHHHCCCCCCCEEEE
Q ss_conf 10-------11000-1213768899899999---9986278----0782589-98899--99998864022444746776
Q gi|254780332|r 288 VP-------SSKIR-RGELTRPDYEKIVACS---QVMQKLP----LYIDQTG-GISMS--QLATRARRLKRQRGLDLLIV 349 (504)
Q Consensus 288 I~-------~~~i~-~g~l~~~e~~~i~~a~---~~l~~~~----l~I~d~~-~~ti~--~I~~~~r~~~~~~gi~~vvI 349 (504)
T Consensus 85 ~~~lf~~Ti~eNl~~~~~~~~~~i~~~~~~~~l~~~i~~lp~~ld~~~~~~g~~LSgGqkQrl~lARaLl~--~p~IllL 162 (275)
T cd03289 85 KVFIFSGTFRKNLDPYGKWSDEEIWKVAEEVGLKSVIEQFPGQLDFVLVDGGCVLSHGHKQLMCLARSVLS--KAKILLL 162 (275)
T ss_pred CCCCCCCCHHHHCCCCCCCCHHHHHHHHHHHCHHHHHHHCCCCCCEEECCCCCCCCHHHHHHHHHHHHHHC--CCCEEEE
T ss_conf 56326741999703212228899999999976699998573667403268887239999999999999951--9998999
Q ss_pred CCHHHCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEEE
Q ss_conf 7135325664432113788999999999999882791999771
Q gi|254780332|r 350 DYIQLMTTSKKIEENRVLEITGITMALKALAKELNIPIIALSQ 392 (504)
Q Consensus 350 DYLqli~~~~~~~~~r~~~i~~is~~lK~lA~e~~ipvi~lsQ 392 (504)
T Consensus 163 D-----EpTs~-LD~~t--e~~i~~~l~~~~~--~~TvI~itH 195 (275)
T cd03289 163 D-----EPSAH-LDPIT--YQVIRKTLKQAFA--DCTVILSEH 195 (275)
T ss_pred E-----CCCCC-CCHHH--HHHHHHHHHHHCC--CCEEEEEEC
T ss_conf 7-----97668-99999--9999999999729--998999943