>TIGR01425 SRP54_euk signal recognition particle protein SRP54; InterPro: IPR006325 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes , . SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor . In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. This entry represents the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species.; GO: 0005525 GTP binding, 0008312 7S RNA binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0048500 signal recognition particle.

Probab=97.98 E-value=4.9e-05 Score=50.97 Aligned_cols=170 Identities=14% Similarity=0.146 Sum_probs=95.7 Q ss_pred EEEEECCCCCCCHHHHHHHHHHHHHCCCCCCEECCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHHHHHCCC Q ss_conf 29998358987479999999999840486120138873806899999855787311443001451034788999850235 Q gi|254780487|r 4 RLVIVGTDTSVGKTIFASALVHALNAYYWKPIQSGMYEETDSKTIHRIGRIPKSHIIPEKWKLRTPASPHLAAEIDGVII 83 (217) Q Consensus 4 ~i~I~GT~t~vGKT~vs~~L~~~l~~~~~KPv~~G~~~~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i 83 (217) T Consensus 123 ViMfVGL-QGaGKTTtctKLA~YYk~rGfK~~lvCA-DTFRAGAFdQ-LkqNA~kA~iPFY----------Gsy~E~DPV 189 (453) T TIGR01425 123 VIMFVGL-QGAGKTTTCTKLAYYYKRRGFKPALVCA-DTFRAGAFDQ-LKQNATKAKIPFY----------GSYLESDPV 189 (453) T ss_pred EEEEEEC-CCCCHHHHHHHHHHHHHCCCCCEEEECC-CCCCCCHHHH-HHHHHHHCCCCCC----------CCCCCCCCE T ss_conf 5888621-4887156687877776326643256517-7542324899-9874764489712----------010489870 Q ss_pred HHHHHH----HHHHCCEEEEECCCCCCCCCCCCCCHHHHHHHHCCC-EEEEECCCCCHHHHHHHHHHHHHHCCCEEEEEE Q ss_conf 078864----223288799922765556676753089999974794-489705776504579999999984799079999 Q gi|254780487|r 84 DPATIN----PPDINDSIIIEGIGGLLVPLTTEYLFIDLIERWQFP-IILCARTSLGTINHSLLSLETLRNRNINIIGIA 158 (217) Q Consensus 84 ~~~~~~----~~~~~D~viIEGagg~~~~~~~~~~~~dla~~l~~~-vILV~~~~~g~i~~~~l~~~~~~~~g~~i~GiI 158 (217) T Consensus 190 kiA~EGv~~Fk~E~~diIivDTSGRHkQe~~LF~Em~qv~~Ai~Pd~iifVMD---GsIGQAA~~QAkAFK~~~~vGSvI 266 (453) T TIGR01425 190 KIASEGVEKFKKEKFDIIIVDTSGRHKQEEELFEEMVQVAEAIKPDSIIFVMD---GSIGQAAFSQAKAFKDSVEVGSVI 266 (453) T ss_pred EEECCCHHHHHCCCCCEEEEECCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEC---CCHHHHHHHHHHHHHHCCCCEEEE T ss_conf 78002011322127847998379873225888899876863349983699806---616678899999863003500388 Q ss_pred ECC-CCCCCHHHHHH--HHCCCCEE--EEECCCCCC Q ss_conf 769-77800599999--86199899--994788888 Q gi|254780487|r 159 FIG-DSMPKVEETIV--KIGRIPHL--GRLPKIDPI 189 (217) Q Consensus 159 lN~-~~~~~~~~~le--~~~~ipvL--G~iP~~~~~ 189 (217) T Consensus 267 iTKLDGHAkGGGALSAVAATKsPiiFIGTGEhv~d~ 302 (453) T TIGR01425 267 ITKLDGHAKGGGALSAVAATKSPIIFIGTGEHVDDF 302 (453) T ss_pred EECCCCCCCCCHHHHHHHHHCCCEEEECCCCCCCCC T ss_conf 751567767623788987535977981377502760

HHsearch alignment for GI: 254780487 and conserved domain: TIGR01425