>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=98.20 E-value=8.1e-06 Score=58.75 Aligned_cols=162 Identities=23% Similarity=0.350 Sum_probs=82.1 Q ss_pred CEECCCCCCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCCCEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCC Q ss_conf 01024466654257899998987235775069882246787653100024563112334457663223032233343552 Q gi|254780831|r 97 FVAVASGKGGVGKSTTVVNIACALKNKGKNVAILDADVYGPSIPKLLKISGKVEISDKKFLKPKENYGIKIMSMASLVDE 176 (341) Q Consensus 97 iiav~SgKGGVGKSt~s~nLa~ala~~G~~V~liDaDi~~ps~~~~lg~~~~~~~~~~~~i~p~~~~gi~~~s~g~l~~~ 176 (341) T Consensus 2 Vi~lv-GptGvGKTTTiaKLA~~~~~~~~kV~lit~Dt~R~gA~eQL-----~~~a--------~~l~v~~~~~~--~~~ 65 (173) T cd03115 2 VILLV-GLQGVGKTTTAAKLALYLKKKGKKVLLVAADTYRPAAIEQL-----RVLG--------EQVGVPVFEEG--EGK 65 (173) T ss_pred EEEEE-CCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCHHHHHHH-----HHHH--------HHCCCEEEECC--CCC T ss_conf 99998-99999889999999999997699289997488757799999-----9999--------97498599227--755 Q ss_pred CCCCCCCCCCHHHHHHHHHHHHCCCCCCEEEEECCCCCC--CCCC-----HHHHCCCCCCEEEEECCCCCHHHHHHHHHH Q ss_conf 210001342024789998675213777589974556444--2100-----000002234026742144311345666777 Q gi|254780831|r 177 NVAMIWRGPMVQSAIMHMLHNVVWGQLDFLLIDMPPGTG--DAHL-----TIAQKIPLSGVVIVSTPQDLALIDVKRAIS 249 (341) Q Consensus 177 ~~~~~~rg~~~~~~l~~~l~~~~w~~~D~liiD~ppG~g--d~~l-----sl~~~~~~~~~iiVttP~~~s~~da~r~~~ 249 (341) T Consensus 66 ~---------~~~~~~~~~~~~~~~~~D~IlIDTa-Gr~~~d~~~~~el~~l~~~~~p~~~~LVl~a--~~~~~~~~~~~ 133 (173) T cd03115 66 D---------PVSIAKRAIEHAREENFDVVIVDTA-GRLQIDENLMEELKKIKRVVKPDEVLLVVDA--MTGQDAVNQAK 133 (173) T ss_pred C---------HHHHHHHHHHHHHHCCCCEEEEECC-CCCCCCHHHHHHHHHHHHHHCCCCCEEECCC--CCHHHHHHHHH T ss_conf 8---------7999999999987568998999788-8787999999999999864489721574246--55065899999 Q ss_pred HHHCCCCCHHHHHHHHCCCCCCCCCCEEECCCCCHHHHHHHHHCCCEE Q ss_conf 640012211445544202458778866512477658999998479789 Q gi|254780831|r 250 MYQKMNIPIIGMIENMSYFLASDTGKKYDLFGNGGARFEAEKIGIPFL 297 (341) Q Consensus 250 ~~~~~~~~i~GiV~NMs~~~~~~~~~~~~~fg~~~~~~~a~~~~i~~l 297 (341) T Consensus 134 ~f~~-~~~~~~~I~T-------KlDet~~---~G~~ls~~~~~~~Pi~ 170 (173) T cd03115 134 AFNE-ALGITGVILT-------KLDGDAR---GGAALSIRAVTGKPIK 170 (173) T ss_pred HHHH-CCCCCEEEEE-------EECCCCC---CCHHHHHHHHHCCCEE T ss_conf 9874-2799789997-------1438997---5799999999890908

HHsearch alignment for GI: 254780831 and conserved domain: cd03115