>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=98.84 E-value=4.7e-09 Score=72.33 Aligned_cols=176 Identities=23% Similarity=0.308 Sum_probs=91.8 Q ss_pred CCCEEEEEECCCCCCCHHHHHHHHHHH--HHHCCCCEEEEECCCCCCCCHHHCCCCCCCCCCEEEEEECCCCHHHCCCCC Q ss_conf 687499998088988889999999999--998799599998787768011212463334541167630257712102444 Q gi|254780806|r 4 KKSRIITIANQKGGVGKTTTAINLSTA--LAAIGENVLLIDLDPQGNASTGLGIELYDRKYSSYDLLIEEKNINQILIQT 81 (265) Q Consensus 4 ~~~kvI~v~s~KGGvGKTT~a~nlA~~--la~~g~rVllID~D~q~~~~~~l~~~~~~~~~ti~~~l~~~~~l~~~i~~~ 81 (265) T Consensus 100 ~~P~vilm-vGLQGsGKTTt~gKLA~~ll~kk~~~kvLLva~D~yRPAA~~-----------------QL~~Lg~---Q~ 158 (439) T TIGR00959 100 KRPTVILM-VGLQGSGKTTTAGKLALYLLKKKEGKKVLLVACDLYRPAAIE-----------------QLKVLGE---QV 158 (439) T ss_pred CCCEEEEE-ECCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEHHCCCHHHHH-----------------HHHHHHH---HC T ss_conf 86838997-313788578899999999999863897034032103478999-----------------9999767---52 Q ss_pred CCCCEEECC-CCCCCCCCCCCCCCCC-CCCHHHHHHHHHHHHCCCCCCEEEECCCCCC--CCCCHHH------HHHHCCC Q ss_conf 444200014-8874577500012322-2210233322476510278203310133322--2210112------3310011 Q gi|254780806|r 82 AIPNLSIIP-STMDLLGIEMILGGEK-DRLFRLDKALSVQLTSDFSYIFLDCPPSFNL--LTMNAMA------AADSILV 151 (265) Q Consensus 82 ~~~~l~iip-a~~~~~~~~~~l~~~~-~~~~~l~~~l~~~l~~~yD~IiiD~pp~~~~--~~~~al~------aad~vii 151 (265) T Consensus 159 ---gVpvf~h~~~~---------~~p~~Pv~ia~~Al~~Ak~~~~D~vI~DTAGRL~ID~~LM~EL~~iK~~~nP~EiLl 226 (439) T TIGR00959 159 ---GVPVFAHLGKG---------QSPDDPVEIARQALEEAKENGFDVVIVDTAGRLQIDEELMEELAEIKEILNPDEILL 226 (439) T ss_pred ---CCCCCCCCCCC---------CCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCHHHHHHHHHHHHHHHHHHCCCEEEE T ss_conf ---88711004788---------898877899999999999748978997267512555999999999988868870541 Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCEEECCCHHHHHHHHHHHHHHCCCCCCCCCCCCHHHH Q ss_conf 11123113788875335777655432026774310020231253100112689998808520156267868898 Q gi|254780806|r 152 PLQCEFFALEGLSQLLETVEEVRRTVNSALDIQGIILTMFDSRNSLSQQVVSDVRKNLGGKVYNTVIPRNVRIS 225 (265) Q Consensus 152 p~~p~~~s~~~~~~~~~~i~~~~~~~~~~~~~~~iv~N~~~~~~~~~~~~~~~l~~~~~~~v~~~~Ip~~~~i~ 225 (265) T Consensus 227 VvDa--M~GQ------dAv-n~A~~F~e~lgltG~vltK~DGDaRGGA--ALS~~~~tg~PI-K-FiG~GEK~~ 287 (439) T TIGR00959 227 VVDA--MTGQ------DAV-NTAKTFNERLGLTGVVLTKLDGDARGGA--ALSVRSVTGKPI-K-FIGVGEKIE 287 (439) T ss_pred CCHH--CCHH------HHH-HHHHHHCCCCCCCEEEEECCCCCCHHHH--HHHHHHHHCCCE-E-EEECCCCCC T ss_conf 2201--0216------999-9998636600135478854756605789--999999968961-8-884177723

HHsearch alignment for GI: 254780806 and conserved domain: TIGR00959