HHsearch alignment for GI: 254780827 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=97.54 E-value=0.00026 Score=48.99 Aligned_cols=45 Identities=33% Similarity=0.467 Sum_probs=34.1
Q ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHH
Q ss_conf 99952786667337999999999733898689995088758826887
Q gi|254780827|r 85 VVGITGSVAVGKSTFARILCILLQQISNFKVSLITTDGFLFPNAVLT 131 (311)
Q Consensus 85 IIGIAG~~asGKST~Ar~L~~lL~~~~~~~V~lis~DgF~~~n~~l~ 131 (311)
T Consensus 2 Vi~lvGptGvGKTTTiaKLA~~~~~-~~~kV~lit~Dt~-R~gA~eQ 46 (173)
T cd03115 2 VILLVGLQGVGKTTTAAKLALYLKK-KGKKVLLVAADTY-RPAAIEQ 46 (173)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHH-CCCEEEEEECCCC-CHHHHHH
T ss_conf 9999899999889999999999997-6992899974887-5779999