>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=96.98 E-value=0.0091 Score=36.49 Aligned_cols=123 Identities=24% Similarity=0.280 Sum_probs=66.0 Q ss_pred EEEECCCCCCHHHHHHHHHHHCCCCCCCCEECCCCEECCCHH---HHHHHCCCEEEEEEEEEE-CCC------------- Q ss_conf 999868788977899999998087321422017956137808---898708537640799996-077------------- Q gi|254780264|r 13 FGIMAHIDAGKTTTTERILYYAGKSHKIGEVHDGSATMDWME---QEQERGITITSASTTVFW-PGR------------- 75 (701) Q Consensus 13 v~iiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~g~~~~D~~~---~E~eRgITi~ss~~sl~~-~~~------------- 75 (701) T Consensus 3 i~lvGptGvGKTTTiaKLA~~~~---~~~~-kV~lit~Dt~R~gA~eQL~~~a~~l~-v~~~~~~~~~~~~~~~~~~~~~ 77 (173) T cd03115 3 ILLVGLQGVGKTTTAAKLALYLK---KKGK-KVLLVAADTYRPAAIEQLRVLGEQVG-VPVFEEGEGKDPVSIAKRAIEH 77 (173) T ss_pred EEEECCCCCCHHHHHHHHHHHHH---HCCC-EEEEEECCCCCHHHHHHHHHHHHHCC-CEEEECCCCCCHHHHHHHHHHH T ss_conf 99989999988999999999999---7699-28999748875779999999999749-8599227755879999999999 Q ss_pred -CCCCEEEEEEECCC--CCCCH--HHHHHHHHH--HCEEEEEEECCCCCCHHHHHHHHHHHHC--CCCE-EEEECCCCCC Q ss_conf -78713899981798--75528--999999986--0456999955888883479999999873--9978-9998176765 Q gi|254780264|r 76 -DGGQKKLTIIDTPG--HVDFT--MEVERSIRV--TDGAIALLDSNAGVEPQTETVWRQADKY--SVPR-VIFCNKMDKM 145 (701) Q Consensus 76 -~~~~~~iNlIDTPG--H~DF~--~Ev~~aL~~--~DgailvVDa~eGv~~qT~~vlr~~~~~--~lp~-ilvINKiDr~ 145 (701) T Consensus 78 ~~~~~~D~IlIDTaGr~~~d~~~~~el~~l~~~~~p~~~~LVl~a~~~-----~~~~~~~~~f~~~~~~~~~I~TKlDet 152 (173) T cd03115 78 AREENFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTG-----QDAVNQAKAFNEALGITGVILTKLDGD 152 (173) T ss_pred HHHCCCCEEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCEEECCCCCH-----HHHHHHHHHHHHCCCCCEEEEEEECCC T ss_conf 875689989997888787999999999999864489721574246550-----658999999874279978999714389

HHsearch alignment for GI: 254780264 and conserved domain: cd03115