HHsearch alignment for GI: 254780810 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=95.81 E-value=0.15 Score=29.24 Aligned_cols=85 Identities=21% Similarity=0.311 Sum_probs=48.7
Q ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCCCEEEEEECC-CCHHHHHH---HHHHHCCEEEECCCCCCHHHHHHHHHHHHHH
Q ss_conf 2220487787899999999998611886469999508-78789999---9984034278236678888999999999999
Q gi|254780810|r 177 SLIVAPPRTGKTILLQNIAHSIKKNHPECYLIVLLID-ERPEEVTD---MQRSVQGEVISSTFDESAARHVQVAEMVIAK 252 (423)
Q Consensus 177 ~~i~~~~~~gkt~ll~~ia~~~~~~~~~v~~i~~lig-Er~~ev~e---~~~~~~~~vv~st~d~~~~~~~~~a~~a~~~ 252 (423)
T Consensus 3 i~lvGptGvGKTTTiaKLA~~~~~~~~k--V~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~~~~---~~~~~~--- 74 (173)
T cd03115 3 ILLVGLQGVGKTTTAAKLALYLKKKGKK--VLLVAADTYRPAAIEQLRVLGEQVGVPVFEEGEGKDPV---SIAKRA--- 74 (173)
T ss_pred EEEECCCCCCHHHHHHHHHHHHHHCCCE--EEEEECCCCCHHHHHHHHHHHHHCCCEEEECCCCCCHH---HHHHHH---
T ss_conf 9998999998899999999999976992--89997488757799999999997498599227755879---999999---
Q ss_pred HHHHHHCCCCEEEEEECH
Q ss_conf 999997799289998163
Q gi|254780810|r 253 AKCLVEYGLDVVILLDSI 270 (423)
Q Consensus 253 a~~~~e~G~dVll~~Dsl 270 (423)
T Consensus 75 ~~~~~~~~~D~-IlIDTa 91 (173)
T cd03115 75 IEHAREENFDV-VIVDTA 91 (173)
T ss_pred HHHHHHCCCCE-EEEECC
T ss_conf 99987568998-999788