>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=96.93 E-value=0.023 Score=34.71 Aligned_cols=129 Identities=25% Similarity=0.313 Sum_probs=69.1 Q ss_pred EEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCCEECCCC---HHHHHC------CCEEEEEEEE-------------EEE Q ss_conf 999854689877889999998396142322000003885---779870------9606467999-------------998 Q gi|254780233|r 22 IAIIAHVDHGKTTLVDELLKQSGVFRDNQRVSERVMDCN---DLEKER------GITILAKVTS-------------IVW 79 (624) Q Consensus 22 iaIiaHvDhGKTTL~d~LL~~sG~~~~~~~v~~~vmD~~---~~EreR------GITI~a~~~~-------------~~~ 79 (624) T Consensus 3 i~lvGptGvGKTTTiaKLA~~~--~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~~~~~~~~ 80 (173) T cd03115 3 ILLVGLQGVGKTTTAAKLALYL--KKKGKKVLLVAADTYRPAAIEQLRVLGEQVGVPVFEEGEGKDPVSIAKRAIEHARE 80 (173) T ss_pred EEEECCCCCCHHHHHHHHHHHH--HHCCCEEEEEECCCCCHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHHHHHHH T ss_conf 9998999998899999999999--97699289997488757799999999997498599227755879999999999875 Q ss_pred CCEEEEEECCCC--CCCC--HHHHHHHHHH--HCEEEEEEECCCCCCHHHHHHHHHHHHC--CCC-EEEEEECCCCCCCC Q ss_conf 997999972898--7540--7999999874--2178999976878864789999999972--997-89999754366740 Q gi|254780233|r 80 NDVRINIVDTPG--HADF--GGEVERILCM--VESVVVLVDAAEGPMPQTKFVVGKALKI--GLR-PIVVVNKVDRSDAR 150 (624) Q Consensus 80 ~~~~iNiiDTPG--H~DF--~gEVer~l~~--~DgaiLvVdA~eGv~~QT~~vl~~A~~~--~l~-~IvvINKiDr~~a~ 150 (624) T Consensus 81 ~~~D~IlIDTaGr~~~d~~~~~el~~l~~~~~p~~~~LVl~a~~~~~-~~----~~~~~f~~~~~~~~~I~TKlDe-t~~ 154 (173) T cd03115 81 ENFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQD-AV----NQAKAFNEALGITGVILTKLDG-DAR 154 (173) T ss_pred CCCCEEEEECCCCCCCCHHHHHHHHHHHHHHCCCCCEEECCCCCHHH-HH----HHHHHHHHCCCCCEEEEEEECC-CCC T ss_conf 68998999788878799999999999986448972157424655065-89----9999987427997899971438-997 Q ss_pred HHHHHHHH Q ss_conf 25689999 Q gi|254780233|r 151 ADEVINEV 158 (624) Q Consensus 151 ~~~v~~ei 158 (624) T Consensus 155 ~G~~ls~~ 162 (173) T cd03115 155 GGAALSIR 162 (173) T ss_pred CCHHHHHH T ss_conf 57999999

HHsearch alignment for GI: 254780233 and conserved domain: cd03115