>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=100.00 E-value=0 Score=390.07 Aligned_cols=173 Identities=57% Similarity=0.849 Sum_probs=169.2 Q ss_pred EEEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHH Q ss_conf 18996234433346889999999986148950782054221004779999851034742223321036899999999997 Q gi|254780711|r 101 LVIMLVGLQGSGKTTTTAKIAYHLKTLKKKKILMASLDVHRPAAQEQLRYLGEQIQVDTLEVIPEQSPEKIAIRATQSAR 180 (461) Q Consensus 101 ~vIllvGl~GsGKTTT~aKLA~~~~~~~~~kV~lv~~Dt~R~aA~eQL~~~a~~~~v~~~~~~~~~dp~~i~~~a~~~a~ 180 (461) T Consensus 1 ~Vi~lvGptGvGKTTTiaKLA~~~~~-~~~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~~~~~~~ 79 (173) T cd03115 1 TVILLVGLQGVGKTTTAAKLALYLKK-KGKKVLLVAADTYRPAAIEQLRVLGEQVGVPVFEEGEGKDPVSIAKRAIEHAR 79 (173) T ss_pred CEEEEECCCCCCHHHHHHHHHHHHHH-CCCEEEEEECCCCCHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHH T ss_conf 99999899999889999999999997-69928999748875779999999999749859922775587999999999987 Q ss_pred HCCCCEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHCCHHHHHHHHHHHHHCCCCCEEEEECCCCCCCCHHH Q ss_conf 41588699833442221124689999998513851100031011122568888988763584407764115766330367 Q gi|254780711|r 181 DGGYDAVILDTAGRNHINDSLMQEISEIKSLTNPHEILLVADALTGQDAVHLARNFDKIVDLTGIILTRMDGDGRGGAAL 260 (461) Q Consensus 181 ~~~~D~iiiDTaGR~~~d~~lm~El~~i~~~~~p~e~~lV~da~~Gq~a~~~a~~F~~~~~i~giIlTKlD~~akgG~al 260 (461) T Consensus 80 ~~~~D~IlIDTaGr~~~d~~~~~el~~l~~~~~p~~~~LVl~a~~~~~~~~~~~~f~~~~~~~~~I~TKlDet~~~G~~l 159 (173) T cd03115 80 EENFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQDAVNQAKAFNEALGITGVILTKLDGDARGGAAL 159 (173) T ss_pred HCCCCEEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCEEECCCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHH T ss_conf 56899899978887879999999999998644897215742465506589999998742799789997143899757999 Q ss_pred HHHHHHCCCHHHEE Q ss_conf 77888478730261 Q gi|254780711|r 261 SMRTVTGKPIKAIG 274 (461) Q Consensus 261 s~~~~~~~PI~fig 274 (461) T Consensus 160 s~~~~~~~Pi~fig 173 (173) T cd03115 160 SIRAVTGKPIKFIG 173 (173) T ss_pred HHHHHHCCCEEEEC T ss_conf 99999890908509

HHsearch alignment for GI: 254780711 and conserved domain: cd03115