HHsearch alignment for GI: 254780170 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=97.80 E-value=0.00017 Score=48.80 Aligned_cols=165 Identities=16% Similarity=0.088 Sum_probs=99.4
Q ss_pred EEEEEC--CCCCCCHHHHCCC---CEEEEECCCHHHHHHHH--------HHHCCCCCCEEEECCHHHHHHHHHCCC-EEE
Q ss_conf 346302--1134753641786---20343134269999999--------986299850787479899999987396-029
Q gi|254780170|r 128 GFIMHK--KKGISSVSQLSGA---SICVQAGTTTELTLADY--------FKAHNMKYHPIVFERVEEIDAAYRAHR-CDA 193 (342)
Q Consensus 128 ~~lVrk--~~~i~s~~dL~G~---~I~v~~GTT~e~~l~~~--------~~~~~~~~~~v~~~~~~~a~~al~~Gr-~DA 193 (342)
T Consensus 91 a~Lt~~~~~~~I~~i~dL~~~~~~~~g~~~~~~~~~~f~~s~~~~~~~~~~~~~~~~~~~~~~~~~egi~~v~~g~~~~A 170 (270)
T pfam00060 91 AFLTVERMQSPIQSLEDLAKQNKIGYGTLRGGSTFEFFKESKNPTYRRMWEYMISFKGEVNVESYEEGVQRVRKGNGLYA 170 (270)
T ss_pred HHHHCCCCCCCCCCHHHHHHCCCCCEEEECCCCHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCHHHHHHHHHCCCCCEE
T ss_conf 99731334777578999986798731114076167777861430688999998750666777899999999865886289
Q ss_pred EEECCHHHHHHHHHCCCCHHHCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHHCCCCHHH
Q ss_conf 98250479999983678001002564442371010002777579999887744331121233015208988622671778
Q gi|254780170|r 194 YTGDISALYALKLTNDRPSEHVILPDIISKSPLAPAIIQGDTEWYNIVSWTHYAMVTAEELGITQKNINQVSKDTTNPDV 273 (342)
Q Consensus 194 ~~~D~s~La~~~~~~~~p~~~~il~e~iskEPlg~avr~gD~~w~d~V~W~~~ali~Aee~git~~nv~~~~~~s~~p~i 273 (342)
T Consensus 171 ~i~e~~~l~~~~~--~~~c~l~~vg~~f~~~~~g~a~~k~-Sp~~~~~s~---~il~l~E~G~l~~l~~kW~~--~~~~C 242 (270)
T pfam00060 171 FLMESAYLEYEVA--RDCCKLTTVGEVFGTKGYGIAFPKG-SPLRDKLSR---AILELRESGELQKLENKWWK--KKGEC 242 (270)
T ss_pred EEECHHHHHHHHH--HCCCCCEEECCCCCCCCEEEEECCC-CCHHHHHHH---HHHHHHHCCHHHHHHHHHCC--CCCCC
T ss_conf 9952588999997--0487627805311457546885189-930999999---99998726789999986458--99999
Q ss_pred HHHHCCCCCCCCHHHCCCCHHHHHHHHHHCC
Q ss_conf 8762358876503337998679999999718
Q gi|254780170|r 274 QRFLGIDKSSNIGEALGLTKDWTYRIIRHMG 304 (342)
Q Consensus 274 ~r~lg~~~~~~~g~~lgl~~~~~~~~i~~vG 304 (342)
T Consensus 243 ----~~~~~~~~~~~l~l~~~~GlF~il~~G 269 (270)
T pfam00060 243 ----SSKSTAVSSSQLGLESFAGLFLILGIG 269 (270)
T ss_pred ----CCCCCCCCCCCCCHHHHHHHHHHHCCC
T ss_conf ----998877778852747767568774155