>TIGR00959 ffh signal recognition particle protein; InterPro: IPR004780 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 various SRP subunits.; GO: 0008312 7S RNA binding, 0006614 SRP-dependent cotranslational protein targeting to membrane, 0048500 signal recognition particle.

Probab=93.39 E-value=0.6 Score=25.35 Aligned_cols=94 Identities=30% Similarity=0.356 Sum_probs=60.0 Q ss_pred CEEEECCCCCCHHHHHHHHHHH-HH-HCCCCCEEEEEECCCCHHHHHHHH---HHHCCEEEE-CCCCCCHHHHHHHHHHH Q ss_conf 1222048778789999999999-86-118864699995087878999999---840342782-36678888999999999 Q gi|254780810|r 176 RSLIVAPPRTGKTILLQNIAHS-IK-KNHPECYLIVLLIDERPEEVTDMQ---RSVQGEVIS-STFDESAARHVQVAEMV 249 (423) Q Consensus 176 r~~i~~~~~~gkt~ll~~ia~~-~~-~~~~~v~~i~~ligEr~~ev~e~~---~~~~~~vv~-st~d~~~~~~~~~a~~a 249 (423) T Consensus 104 vilmvGLQGsGKTTt~gKLA~~ll~kk~~~k-vLLva~D~yRPAA~~QL~~Lg~Q~gVpvf~h~~~~~~p~~Pv~ia~~A 182 (439) T TIGR00959 104 VILMVGLQGSGKTTTAGKLALYLLKKKEGKK-VLLVACDLYRPAAIEQLKVLGEQVGVPVFAHLGKGQSPDDPVEIARQA 182 (439) T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHHCCCC-EEEEEHHCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHH T ss_conf 8997313788578899999999999863897-034032103478999999976752887110047888988778999999 Q ss_pred HHHHHHHHHCCCCEEEEEECHHHHH Q ss_conf 9999999977992899981638987 Q gi|254780810|r 250 IAKAKCLVEYGLDVVILLDSITRLC 274 (423) Q Consensus 250 ~~~a~~~~e~G~dVll~~DslTR~A 274 (423) T Consensus 183 l~~Ak---~~~~D~vI-~DTAGRL~ 203 (439) T TIGR00959 183 LEEAK---ENGFDVVI-VDTAGRLQ 203 (439) T ss_pred HHHHH---HCCCCEEE-EECCCCHH T ss_conf 99999---74897899-72675125

HHsearch alignment for GI: 254780810 and conserved domain: TIGR00959