HHsearch alignment for GI: 254780615 and conserved domain: cd03115
>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes. SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.
Probab=93.46 E-value=0.57 Score=25.25 Aligned_cols=109 Identities=21% Similarity=0.201 Sum_probs=57.1
Q ss_pred EECCCCCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCEEEEEEECCCCC
Q ss_conf 00367566662489999999885057885268762164345999999854244200122234443323169997176689
Q gi|254780615|r 152 IGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTREGNDLYHEMIDSKVNIDPRKNNGSAVGSKCSLLYGQMNEP 231 (478)
Q Consensus 152 ~gIfgg~GvGKT~l~~~~i~n~~~~~~~v~V~~~iGER~rEv~e~~~e~~~~~~~~~~~~~~~~~~~~~tv~v~~~~~~~ 231 (478)
T Consensus 3 i~lvGptGvGKTTTiaKLA~~~~~~~~kV~lit~Dt~R~gA~eQL~~-~a~--------------~l~v~~~~~~~~~~~ 67 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLALYLKKKGKKVLLVAADTYRPAAIEQLRV-LGE--------------QVGVPVFEEGEGKDP 67 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHHHH-HHH--------------HCCCEEEECCCCCCH
T ss_conf 99989999988999999999999769928999748875779999999-999--------------749859922775587
Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCCEEEEEECHHHHHHHHHHHHHHHCCCCHHHHCCHHHHHHHHHHHHHH
Q ss_conf 6787777777877689998669967999715599987601245531144101101223566657888763
Q gi|254780615|r 232 PGARSRVALTGLTVAEHFRDQGQDVLFFVDNIFRFTQANSEISALLGRIPSAVGYQSTLALEMGELQERI 301 (478)
Q Consensus 232 ~~~r~~~~~~a~tiAEyfrd~g~dVll~~Dsltr~a~A~rEisl~~g~~P~~~gYp~~~f~~~~~l~ERa 301 (478)
T Consensus 68 ~-~~------~~~~~~~~~~~~~D~IlI-DT------------------aGr~~~d~~~~~el~~l~~~~ 111 (173)
T cd03115 68 V-SI------AKRAIEHAREENFDVVIV-DT------------------AGRLQIDENLMEELKKIKRVV 111 (173)
T ss_pred H-HH------HHHHHHHHHHCCCCEEEE-EC------------------CCCCCCCHHHHHHHHHHHHHH
T ss_conf 9-99------999999987568998999-78------------------887879999999999998644