>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=98.22 E-value=0.00017 Score=46.84 Aligned_cols=160 Identities=15% Similarity=0.152 Sum_probs=85.9 Q ss_pred EEEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCHHHCCCCCCCCHHHHHCCCCCHHHHHHHHHHHCCCC Q ss_conf 79997469887756899999999996269949999787989860334389987898886318456124337653202489 Q gi|254780725|r 163 SISFIGSRGGVGSSTIAHNCAFSIASVFAMETLLADLDLPYGTANINFDKDPINSISDAIYPVGRIDKAFVSRLPVFYAE 242 (427) Q Consensus 163 vIav~g~KGGvGkTTiA~nLA~~LA~~~~~~VlLvDlDl~~g~~~~~l~~~~~~~l~d~l~~~~rlD~~~l~~~l~~~~~ 242 (427) T Consensus 2 Vi~lvG-ptGvGKTTTiaKLA~~~~~-~~~kV~lit~Dt~R~gA~eQL-----------------------~~~a~~--l 54 (173) T cd03115 2 VILLVG-LQGVGKTTTAAKLALYLKK-KGKKVLLVAADTYRPAAIEQL-----------------------RVLGEQ--V 54 (173) T ss_pred EEEEEC-CCCCCHHHHHHHHHHHHHH-CCCEEEEEECCCCCHHHHHHH-----------------------HHHHHH--C T ss_conf 999989-9999889999999999997-699289997488757799999-----------------------999997--4 Q ss_pred CEEEEECCCCCCCHHCCCHHHHHHHHHHH-HHCCCEEEECCCCCC--CHHH----HHHHH--HCCCCCCCCCCCHHHHHH Q ss_conf 80687248761203207999999989998-512888997388888--9899----99986--201254357877688999 Q gi|254780725|r 243 NLSILTAPAMLSRTYDFDEKMIVPVLDIL-EQIFPLVILDVPHVW--NSWT----QEVLT--LSDKVVITTSLDLAGLRN 313 (427) Q Consensus 243 gL~lL~a~~~~~~~~~~~~~~l~~ll~~l-~~~yd~VIiD~p~~~--~~~~----~~~L~--~AD~vviV~~p~~~slr~ 313 (427) T Consensus 55 ~v~~~~~~~~~-~~----~~~~~~~~~~~~~~~~D~IlIDTaGr~~~d~~~~~el~~l~~~~~p~~~~LVl~a~~~--~~ 127 (173) T cd03115 55 GVPVFEEGEGK-DP----VSIAKRAIEHAREENFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTG--QD 127 (173) T ss_pred CCEEEECCCCC-CH----HHHHHHHHHHHHHCCCCEEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCEEECCCCCH--HH T ss_conf 98599227755-87----9999999999875689989997888787999999999999864489721574246550--65 Q ss_pred HHHHHHHHHHCCCCCCCCEEEEECCCCCCCCHHHHHHHHHHHCCCEE Q ss_conf 99999999981987675389995658987520059999998489537 Q gi|254780725|r 314 SKNLIDVLKKLRPADKPPYLVLNQVKTPKKPEISISDFCAPLGITPS 360 (427) Q Consensus 314 a~~ll~~l~~~~~~~~~~~iVlNr~~~~~~~~i~~~~~~~~lg~~~~ 360 (427) T Consensus 128 ~~~~~~~f~~~-~--~~~~~I~TKlDet~~~G~~l-s~~~~~~~Pi~ 170 (173) T cd03115 128 AVNQAKAFNEA-L--GITGVILTKLDGDARGGAAL-SIRAVTGKPIK 170 (173) T ss_pred HHHHHHHHHHC-C--CCCEEEEEEECCCCCCCHHH-HHHHHHCCCEE T ss_conf 89999998742-7--99789997143899757999-99999890908

HHsearch alignment for GI: 254780725 and conserved domain: cd03115