HHsearch alignment for GI: 254781112 and conserved domain: pfam00060
>pfam00060 Lig_chan Ligand-gated ion channel. This family includes the four transmembrane regions of the ionotropic glutamate receptors and NMDA receptors.
Probab=99.18 E-value=1.9e-10 Score=84.36 Aligned_cols=126 Identities=17% Similarity=0.228 Sum_probs=94.8
Q ss_pred CCCCCCCCCCCCCCCCC---CEEEECCCHHHHHHHCCCC--------------CCEEECCHHHHHHHHHHHH-HHCCCCC
Q ss_conf 11122221111123343---2023101012233201345--------------4213368557777554432-1003665
Q gi|254781112|r 134 VRSDQQDIRSFKDLTDK---TVAQILGTDLSRFAKELKS--------------HLVFSHNFEQSLQLLLSKR-TDATMIP 195 (274)
Q Consensus 134 ~~~~~~~~~~~~dL~g~---~V~~~~g~~~~~~l~~~~~--------------~~~~~~~~~~~~~~l~~gr-vD~~~~~ 195 (274)
T Consensus 95 ~~~~~~~I~~i~dL~~~~~~~~g~~~~~~~~~~f~~s~~~~~~~~~~~~~~~~~~~~~~~~~egi~~v~~g~~~~A~i~e 174 (270)
T pfam00060 95 VERMQSPIQSLEDLAKQNKIGYGTLRGGSTFEFFKESKNPTYRRMWEYMISFKGEVNVESYEEGVQRVRKGNGLYAFLME 174 (270)
T ss_pred CCCCCCCCCCHHHHHHCCCCCEEEECCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHCCCCCEEEEEC
T ss_conf 13347775789999867987311140761677778614306889999987506667778999999998658862899952
Q ss_pred HHHHHHHHHHCCCCCCCEEECCCCCCCCCEEEEEECCCHHHHHHHHHHHHHHHHCCHHHHHHHHHCCC
Q ss_conf 58999999845876673262367768770799981899899999999999999798599999876788
Q gi|254781112|r 196 DIPFFNFLERRPHDGNLFKIADRMKDNSAVAFMMRKGNNKLTRSINEILCAIHLDGTYKKIFDRYFDK 263 (274)
Q Consensus 196 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~L~~~in~~l~~l~~~G~~~~I~~kw~g~ 263 (274)
T Consensus 175 ~~~l~~~~~~~~c---~l~~vg~~f~~~~~g~a~~k~Sp-~~~~~s~~il~l~E~G~l~~l~~kW~~~ 238 (270)
T pfam00060 175 SAYLEYEVARDCC---KLTTVGEVFGTKGYGIAFPKGSP-LRDKLSRAILELRESGELQKLENKWWKK 238 (270)
T ss_pred HHHHHHHHHHCCC---CCEEECCCCCCCCEEEEECCCCC-HHHHHHHHHHHHHHCCHHHHHHHHHCCC
T ss_conf 5889999970487---62780531145754688518993-0999999999987267899999864589