2024-11-20 REL PDBe PDBe PDBe 2024-07-23 2024-10-16 2024-10-16 2024-11-20 Max Planck Society Germany European Research Council (ERC) 740329 European Union European Research Council (ERC) 101054447 European Union German Research Foundation (DFG) SFB1035 Germany Novo Nordisk Foundation 31199 Denmark 80S-bound human Ski2-exosome complex Koegel A Keidel A Loukeri MJ Kuhn CC Langer LM Schaefer IB Conti E Ribosome, RNase, Helicase, RNA-binding, mRNA-degradation, cytoplasm Kogel A Keidel A Loukeri MJ Kuhn CC Langer LM Schafer IB Conti E Structural basis of mRNA decay by the human exosome-ribosome supercomplex. Nature UK 635 237 242 2024 39385025 doi:10.1038/s41586-024-08015-6 1476-4687 0006 NATUAS 9g8n FULLOVERLAP 80S-bound human Ski2-exosome complex 80S-bound human Ski2-exosome complex 0 1 2 3 4 5 6 7 8 9 10 11 12 13 Homo sapiens Exosome complex component RRP41 Homo sapiens 0.026416995999999998 1 Escherichia coli LEVO MAGLELLSDQGYRVDGRRAGELRKIQARMGVFAQADGSAYIEQGNTKALAVVYGPHEIRGSRARALPDRALVNCQYSSAT FSTGERKRRPHGDRKSCEMGLQLRQTFEAAILTQLHPRSQIDIYVQVLQADGGTYAACVNAATLAVLDAGIPMRDFVCAC SAGFVDGTALADLSHVEEAAGGPQLALALLPASGQIALLEMDARLHEDHLERVLEAAAQAARDVHTLLDRVVRQHVREAS ILLGD Q9NPD3 Exosome complex component RRP43 Homo sapiens 0.030429893 1 Escherichia coli LEVO GPDSMAAGFKTVEPLEYYRRFLKENCRPDGRELGEFRTTTVNIGSISTADGSALVKLGNTTVICGVKAEFAAPSTDAPDK GYVVPNVDLPPLCSSRFRSGPPGEEAQVASQFIADVIENSQIIQKEDLCISPGKLVWVLYCDLICLDYDGNILDACTFAL LAALKNVQLPEVTINEETALAEVNLKKKSYLNIRTHPVATSFAVFDDTLLIVDPTGEEEHLATGTLTIVMDEEGKLCCLH KPGGSGLTGAKLQDCMSRAVTRHKEVKKLMDEVIKSMKPK Q96B26 Exosome complex component RRP46 Homo sapiens 0.025636312 1 Escherichia coli LEVO GPDSMEEETHTDAKIRAENGTGSSPRGPGCSLRHFACEQNLLSRPDGSASFLQGDTSVLAGVYGPAEVKVSKEIFNKATL EVILRPKIGLPGVAEKSRERLIRNTCEAVVLGTLHPRTSITVVLQVVSDAGSLLACCLNAACMALVDAGVPMRALFCGVA CALDSDGTLVLDPTSKQEKEARAVLTFALDSVERKLLMSSTKGLYSDTELQQCLAAAQAASQHVFRFYRESLQRRYSKS Q9NQT4 Exosome complex component RRP42 Homo sapiens 0.032216761999999996 1 Escherichia coli LEVO GPDSMASVTLSEAEKVYIVHGVQEDLRVDGRGCEDYRCVEVETDVVSNTSGSARVKLGHTDILVGVKAEMGTPKLEKPNE GYLEFFVDCSASATPEFEGRGGDDLGTEIANTLYRIFNNKSSVDLKTLCISPREHCWVLYVDVLLLECGGNLFDAISIAV KAALFNTRIPRVRVLEDEEGSKDIELSDDPYDCIRLSVENVPCIVTLCKIGYRHVVDATLQEEACSLASLLVSVTSKGVV TCMRKVGKGSLDPESIFEMMETGKRVGKVLHASLQSVVHKEESLGPKRQKVGFLG Q15024 Exosome complex component RRP40 Homo sapiens 0.029940502 1 Escherichia coli LEVO GPDSMAEPASVAAESLAGSRARAARTVLGQVVLPGEELLLPEQEDAEGPGGAVERPLSLNARACSRVRVVCGPGLRRCGD RLLVTKCGRLRHKEPGSGSGGGVYWVDSQQKRYVPVKGDHVIGIVTAKSGDIFKVDVGGSEPASLSYLSFEGATKRNRPN VQVGDLIYGQFVVANKDMEPEMVCIDSCGRANGMGVIGQDGLLFKVTLGLIRKLLAPDCEIIQEVGKLHPLEIVFGMNGR IWVKAKTIQQTLILANILEACEHMTSDQRKQIFSRLAES Q9NQT5 Exosome complex component CSL4 Homo sapiens 0.021835099999999996 1 Escherichia coli LEVO GPDSMAPPVRYCIPGERLCNLEEGSPGSGTYTRHGYIFSSLAGCLMKSSENGALPVVSVVRETESQLLPDVGAIVTCKVS SINSRFAKVHILYVGSMPLKNSFRGTIRKEDVRATEKDKVEIYKSFRPGDIVLAKVISLGDAQSNYLLTTAENELGVVVA HSESGIQMVPISWCEMQCPKTHTKEFRKVARVQPEFLQT Q9Y3B2 CrPV-IRES RNA Cricket paralysis virus 0.013422398999999998 1 UUUUUUUUUUUUUUUUUUUUUUUUUUCUCCUCUUUUUUUUUUUU Helicase SKI2W Homo sapiens 0.13791368799999998 1 Escherichia coli LEVO MMETERLVLPPPDPLDLPLRAVELGCTGHWELLNLPGAPESSLPHGLPPCAPDLQQEAEQLFLSSPAWLPLHGVEHSARK WQRKTDPWSLLAVLGAPVPSDLQAQRHPTTGQILGYKEVLLENTNLSATTSLSLRRPPGPASQSLWGNPTQYPFWPGGMD EPTITDLNTREEAEEEIDFEKDLLTIPPGFKKGMDFAPKDCPTPAPGLLSLSCMLEPLDLGGGDEDENEAVGQPGGPRGD TVSASPCSAPLARASSLEDLVLKEASTAVSTPEAPEPPSQEQWAIPVDATSPVGDFYRLIPQPAFQWAFEPDVFQKQAIL HLERHDSVFVAAHTSAGKTVVAEYAIALAQKHMTRTIYTSPIKALSNQKFRDFRNTFGDVGLLTGDVQLHPEASCLIMTT EILRSMLYSGSDVIRDLEWVIFDEVHYINDVERGVVWEEVLIMLPDHVSIILLSATVPNALEFADWIGRLKRRQIYVIST VTRPVPLEHYLFTGNSSKTQGELFLLLDSRGAFHTKGYYAAVEAKKERMSKHAQTFGAKQPTHQGGPAQDRGVYLSLLAS LRTRAQLPVVVFTFSRGRCDEQASGLTSLDLTTSSEKSEIHLFLQRCLARLRGSDRQLPQVLHMSELLNRGLGVHHSGIL PILKEIVEMLFSRGLVKVLFATETFAMGVNMPARTVVFDSMRKHDGSTFRDLLPGEYVQMAGRAGRRGLDPTGTVILLCK GRVPEMADLHRMMMGKPSQLQSQFRLTYTMILNLLRVDALRVEDMMKRSFSEFPSRKDSKAHEQALAELTKRLGALEEPD MTGQLVDLPEYYSWGEELTETQHMIQRRIMESVNGLKSLSAGRVVVVKNQEHHNALGVILQVSSNSTSRVFTTLVLCDKP LSQDPQDRGPATAEVPYPDDLVGFKLFLPEGPCDHTVVKLQPGDMAAITTKVLRVNGEKILEDFSKRQQPKFKKDPPLAA VTTAVQELLRLAQAHPAGPPTLDPVNDLQLKDMSVVEGGLRARKLEELIQGAQCVHSPRFPAQYLKLRERMQIQKEMERL RFLLSDQSLLLLPEYHQRVEVLRTLGYVDEAGTVKLAGRVACAMSSHELLLTELMFDNALSTLRPEEIAALLSGLVCQSP GDAGDQLPNTLKQGIERVRAVAKRIGEVQVACGLNQTVEEFVGELNFGLVEVVYEWARGMPFSELAGLSGTPEGLVVRCI QRLAEMCRSLRGAARLVGEPVLGAKMETAATLLRRDIVFAASLYTQ Q15477 3.6.4.- Exosome complex component MTR3 Homo sapiens 0.028267127 1 Escherichia coli LEVO MPGDHRRIRGPEESQPPQLYAADEEEAPGTRDPTRLRPVYARAGLLSQAKGSAYLEAGGTKVLCAVSGPRQAEGGERGGG PAGAGGEAPAALRGRLLCDFRRAPFAGRRRRAPPGGCEERELALALQEALEPAVRLGRYPRAQLEVSALLLEDGGSALAA ALTAAALALADAGVEMYDLVVGCGLSLAPGPAPTWLLDPTRLEEERAAAGLTVALMPVLNQVAGLLGSGEGGLTESWAEA VRLGLEGCQRLYPVLQQSLVRAARRRGAAAQP Q5RKV6 Exosome complex component RRP4 Homo sapiens 0.033190355000000005 1 Escherichia coli LEVO GPDSMAMEMRLPVARKPLSERLGRDTKKHLVVPGDTITTDTGFMRGHGTYMGEEKLIASVAGSVERVNKLICVKALKTRY IGEVGDIVVGRITEVQQKRWKVETNSRLDSVLLLSSMNLPGGELRRRSAEDELAMRGFLQEGDLISAEVQAVFSDGAVSL HTRSLKYGKLGQGVLVQVSPSLVKRQKTHFHDLPCGASVILGNNGFIWIYPTPEHKEEEAGGFIANLEPVSLADREVISR LRNCIISLVTQRMMLYDTSILYCYEASLPHQIKDILKPEIMEEIVMETRQRLLEQEG Q13868 Isoform 2 of HBS1-like protein Homo sapiens 0.030196131 1 Escherichia coli LEVO GPDSSQCESPSLTELFQEHKENNISQCFTLSDLCNQSSASFTDLSLGSFPLSQLANRCQSSPGISELTGSLSSLAFHKAS PTRDLENLSLSELIAETIDVDNSQIKKESFEVSLSEVRSPGIDSNIDLSVLIKNPDFVPKPVVDPSIAPSSRTKVLSSKL GKNSNFAKDNKKNNKGSLTRKPPFSLSWTKALAARPSAFASTLCLRYPLKSCKRRTLDLYKTFLYSRQVQDVKDKEISPL VAITPFDFKSASPDDIVKANQKKAFTRELEVLFQ Q9Y450 3.6.5.- Exosome complex component RRP45 Homo sapiens 0.04937031199999999 1 Escherichia coli LEVO GPDSMKETPLSNCERRFLLRAIEEKKRLDGRQTYDYRNIRISFGTDYGCCIVELGKTRVLGQVSCELVSPKLNRATEGIL FFNLELSQMAAPAFEPGRQSDLLVKLNRLMERCLRNSKCIDTESLCVVAGEKVWQIRVDLHLLNHDGNIIDAASIAAIVA LCHFRRPDVSVQGDEVTLYTPEERDPVPLSIHHMPICVSFAFFQQGTYLLVDPNEREERVMDGLLVIAMNKHREICTIQS SGGIMLLKDQVLRCSKIAGVKVAEITELILKALENDQKVRKEGGKFGFAESIANQRITAFKMEKAPIDTSDVEEKAEEII AEAEPPSEVVSTPVLWTPGTAQIGEGVENSWGDLEDSEKEDDEGGGDQAIILDGIKMDTGVEVSDIGSQDAPIILSDSEE EEMIILEPDKNPKKIRTQTTSAKQEKAPSKKPVKRRKKKRAAN Q06265 DIS3-like exonuclease 1 Homo sapiens 0.12110855499999999 1 Escherichia coli LEVO GPMLQKREKVLLLRTFQGRTLRIVREHYLRPCVPCHSPLCPQPAACSHDGKLLSSDVTHYVIPDWKVVQDYLEILEFPEL KGIIFMQTACQAVQHQRGRRQYNKLRNLLKDARHDCILFANEFQQCCYLPRERGESMEKWQTRSIYNAAVWYYHHCQDRM PIVMVTEDEEAIQQYGSETEGVFVITFKNYLDNFWPDLKAAHELCDSILQSRRERENESQESHGKEYPEHLPLEVLEAGI KSGRYIQGILNVNKHRAQIEAFVRLQGASSKDSDLVSDILIHGMKARNRSIHGDVVVVELLPKNEWKGRTVALCENDCDD KASGESPSEPMPTGRVVGILQKNWRDYVVTFPSKEEVQSQGKNAQKILVTPWDYRIPKIRISTQQAETLQDFRVVVRIDS WESTSVYPNGHFVRVLGRIGDLEGEIATILVENSISVIPFSEAQMCEMPVNTPESPWKVSPEEEQKRKDLRKSHLVFSID PKGCEDVNDTLSVRTLNNGNLELGVHIADVTHFVAPNSYIDIEARTRATTYYLADRRYDMLPSVLSADLCSLLGGVDRYA VSIMWELDKASYEIKKVWYGRTIIRSAYKLFYEAAQELLDGNLSVVDDIPEFKDLDEKSRQAKLEELVWAIGKLTDIARH VRAKRDGCGALELEGVEVCVQLDDKKNIHDLIPKQPLEVHETVAECMILANHWVAKKIWESFPHQALLRQHPPPHQEFFS ELRECAKAKGFFIDTRSNKTLADSLDNANDPHDPIVNRLLRSMATQAMSNALYFSTGSCAEEEFHHYGLALDKYTHFTSP IRRYSDIVVHRLLMAAISKDKKMEIKGNLFSNKDLEELCRHINNRNQAAQHSQKQSTELFQCMYFKDKDPATEERCISDG VIYSIRTNGVLLFIPRFGIKGAAYLKNKDGLVISCGPDSCSEWKPGSLQRFQNKITSTTTDGESVTFHLFDHVTVRISIQ ASRCHSDTIRLEIISNKPYKIPNTELIHQSSPLLKSELVKEVTKSVEEAQLAQEVKVNIIQEEYQEYRQTKGRSLYTLLE EIRDLALLDVSNNYGI Q8TF46 3.1.13.1 singleParticle particle 7.5 Quantifoil R2/1 200 CARBON CONTINUOUS GLOW DISCHARGE ETHANE-PROPANE FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 0.6 2.4 GATAN K3 BIOQUANTUM (6k x 4k) 64.2 1 6D6Q 3.7 FSC 0.143 CUT-OFF 79353 MAXIMUM LIKELIHOOD MAXIMUM LIKELIHOOD emd_51133.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 832 832 832 0 0 0 832 832 832 708.19836 708.19836 708.19836 90.0 90.0 90.0 X Y Z -0.015523653 0.038076628 0.000021217098 0.0005251272 0.8512 0.8512 0.8512 0.01 AUTHOR emd_51133_msk_1.map emd_51133_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 832 832 832 0 0 0 832 832 832 708.19836 708.19836 708.19836 90.0 90.0 90.0 X Y Z -0.021972831 0.0396312 0.00000897662 0.00080572994 0.8512 0.8512 0.8512 AUTHOR halfB emd_51133_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 832 832 832 0 0 0 832 832 832 708.19836 708.19836 708.19836 90.0 90.0 90.0 X Y Z -0.018462887 0.04131077 0.000009041997 0.00077937153 0.8512 0.8512 0.8512 AUTHOR halfA