HHsearch alignment for GI: 254780332 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=96.55  E-value=0.026  Score=37.10  Aligned_cols=170  Identities=19%  Similarity=0.254  Sum_probs=79.4

Q ss_pred             HHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEECCCCHHHHHHHHHHHHH
Q ss_conf             13776556416772677621310027699999999998510111233333212479758999585217999878999987
Q gi|254780332|r  207 QTLDKQMGGLQRSDLIIIAGRPGMGKTSLATNIAYNVADAYKAELQTDGSYKTINGGIVGFYSLEMSSEQLATRIISEQT  286 (504)
Q Consensus       207 ~~LD~~~gGl~~G~l~Viaarpg~GKTalalniA~~~A~~~~~~~~~~~~~~~~~g~~Vl~fSlEMs~~el~~R~is~~s  286 (504)
T Consensus        51 pVLk~Isf~I~~Ge~vaIVG~sGSGKSTLl~lL~-gl~~p~~G~I-------~~~g-~i~~v~Q~~---~lf~~--Tire  116 (282)
T cd03291          51 PVLKNINLKIEKGEMLAITGSTGSGKTSLLMLIL-GELEPSEGKI-------KHSG-RISFSSQFS---WIMPG--TIKE  116 (282)
T ss_pred             CEEECEEEEECCCCEEEEECCCCCHHHHHHHHHH-CCCCCCCCEE-------EECC-EEEEECCCC---CCCCC--CHHH
T ss_conf             6141648998499999999999981999999995-7872786589-------9999-999865744---22671--0999


Q ss_pred             HHCCCCCCCC-CCCHHHHHHHHHHH---HHHHHCCE----EEECC-CCCCHHH--HHHHHHHHCCCCCCCEEEECCHHHC
Q ss_conf             4101100012-13768899899999---99862780----78258-9988999--9998864022444746776713532
Q gi|254780332|r  287 EVPSSKIRRG-ELTRPDYEKIVACS---QVMQKLPL----YIDQT-GGISMSQ--LATRARRLKRQRGLDLLIVDYIQLM  355 (504)
Q Consensus       287 ~I~~~~i~~g-~l~~~e~~~i~~a~---~~l~~~~l----~I~d~-~~~ti~~--I~~~~r~~~~~~gi~~vvIDYLqli  355 (504)
T Consensus       117 NI-----~~g~~~~~~~~~~~~~~~~l~~~i~~lp~g~~t~vge~G~~LSGGQkQRlaiARALl~--~p~IliLD-----  184 (282)
T cd03291         117 NI-----IFGVSYDEYRYKSVVKACQLEEDITKFPEKDNTVLGEGGITLSGGQRARISLARAVYK--DADLYLLD-----  184 (282)
T ss_pred             HH-----HCCCCCCHHHHHHHHHHHCCHHHHHHCCCCCCCEECCCCCCCCHHHHHHHHHHHHHHC--CCCEEEEE-----
T ss_conf             97-----5168868899999999851499998463425523003677589999999999999842--89989986-----


Q ss_pred             CCCCCCCCHHHHHHHHHHHH-HHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCHHHHHCCEEEEEE
Q ss_conf             56644321137889999999-9999988279199977138220168999984010143242233138788972
Q gi|254780332|r  356 TTSKKIEENRVLEITGITMA-LKALAKELNIPIIALSQLSRQVENRDNKRPQLSDLRESGSIEQDADVVLFVI  427 (504)
Q Consensus       356 ~~~~~~~~~r~~~i~~is~~-lK~lA~e~~ipvi~lsQLnR~~e~r~~krP~lsDLr~Sg~IEqdAD~v~~l~  427 (504)
T Consensus       185 EpTS~L-D~~tE--~~I~~~~l~~~~~--~kTvI~ItH-------r---------L---~~i-~~aDrIiVL~  232 (282)
T cd03291         185 SPFGYL-DVFTE--KEIFESCVCKLMA--NKTRILVTS-------K---------M---EHL-KKADKILILH  232 (282)
T ss_pred             CCCCCC-CHHHH--HHHHHHHHHHHHC--CCEEEEEEC-------C---------H---HHH-HHCCEEEEEE
T ss_conf             877668-98789--9999999999868--998999937-------8---------8---889-8699999998