2026-06-17 REL RCSB INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY EXPERIMENTAL_SUMMARY citation citation_author em_admin _em_admin.last_update DATABASE_REFERENCES citation citation_author em_admin _em_admin.last_update RCSB RCSB 2024-10-01 2024-12-25 2024-12-25 2026-06-17 Howard Hughes Medical Institute (HHMI) HHMI Helen Hay Whitney Postdoctoral Fellowship United States Wilkinson ME Hoskins AA spliceosome, snRNA, yeast, ribonucleoprotein complex, SPLICING Senn KA Lipinski KA Zeps NJ Griffin AF Wilkinson ME Hoskins AA Elife US 13 2024 39688371 doi:10.7554/eLife.100449 2050-084X Senn KA Lipinski KA Zeps NJ Griffin AF Wilkinson ME Hoskins AA Biorxiv US 2024 38746449 doi:10.1101/2024.05.04.592262 2692-8205 9dtr FULLOVERLAP EMDB EMD-47157 associated EM volume

Structure of the yeast post-catalytic P complex spliceosome at 2.3 Angstrom resolution

Yeast post-catalytic P complex spliceosome Yeast post-catalytic P complex spliceosome 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 Saccharomyces cerevisiae 2.27 U2 snRNA Saccharomyces cerevisiae 0.376267406 1 ACGAAUCUCUUUGCCUUUUGGCUUAGAUCAAGUGUAGUAUCUGUUCUUUUCAGUGUAACAACUGAAAUGACCUCAAUGAG GCUCAUUACCUUUUAAUUUGUUACAAUACACAUUUUUUGGCACCCAAAAUAAUAAAAUGGACGGGAAGAGACUUUUUAAG CAAGUUGUUUUCCGCUAAUGUCAGGUCUCACUACUUUUUGCUGCUAUUUUUCUUCGCUCAUGGUUUCUUCAUAAGGCGUU UUUAUGAUGGUUUUUCGAAAUUGGUUUUUGAGACGACGGUUGCUCAAGGUUAUUGUUUUUGUUUUCUUCUGGUUGUUUUC UAUUUUCUUUUUUUUAGCUUUCUGUUUCUCCCUUAGUUUGGCUUUUUGCUUCAUACUCUUCCCUGUCUUUCCGAGCCGUU UAUGUCCAACGCGGGAUUUGGUUUUUCUUUAUCGAUGGGAAGAAAUGGUGCUAUAGUAGGUUGGGAGAUAAUAUUUAUGG UAUGGGGUGCUAGUGCGGAUGGGGCGCUCUUAUUGUUGAUUUCUUCGCUCGUCUUCUUUUUCUGGUGGCGCUGCAAGAGG AAGUUUUUCGACUUUGUUAUGAUUUUUGGUUUGCAAGGAAAGGUGUCUUACGAUUCUUUUUUUGAUGUAAUAGGAUAAGC UUGCUUAUCCCCCAAGUAUCGGCCAAAGUUGUUGAUUUUCCUUUUGAAGUGUCCUCGGUUUGAGGGGGUGUAGGGUGGGG UUGGUCUACAAUAAGAGUGUUCCAUUGUUAACGUGCUGGCGUCUUUUACUAUAUUUUUUUUCCCAGUUUAUUUUGUGCUU AUUUUCUCAUUGAGGAGAAGGAGCUCUUCUCGCAGGAUAUAAAUGGAGGUUUGCUAAAGGGGAGGAGAUGUGUUUGUGAG AAUACUGCUGAGAGAGUUCUGGAAGAGAAAAAAAGGAGGCAAUGGAAGGCGUUUGCUGGGAAAAGAGAAGAGCCAUGACU GCAUCUGUUGUUUCAAGGCCAGUUUUAUUAACCGCCUAUGUCAUAGAGGCGUUUUUUUUGGAGGGAUUUGAAGAAUGCCG GCGGCAUCAAGAAACGGACUUGAUGGUUGACGCCUGUUUUUAAAGUUAGAGACGUCGCGACCCUCGCACUUGUGGAGUCG UUCUUGACUUUUACUUUGGUCGCUUGAUGUUUCUCUCGUCUUCCCGUUCGCUCUU NR_132154.1 U5 snRNA Saccharomyces cerevisiae 0.068643344 1 AAGCAGCUUUACAGAUCAAUGGCGGAGGGAGGUCAACAUCAAGAACUGUGGGCCUUUUAUUGCCUAUAGAACUUAUAACG AACAUGGUUCUUGCCUUUUACCAGAACCAUCCGGGUGUUGUCUCCAUAGAAACAGGUAAAGCUGUCCGUUACUGUGGGCU UGCCAUAUUUUUUGGAACUUUUCUGCCCUUUUUCUCAAUGAGUAAGGAGGGCGU NR_132184.1 U6 snRNA Saccharomyces cerevisiae 0.035883175999999996 1 GUUCGCGAAGUAACCCUUCGUGGACAU(PSU)UGGUCAAUUUGAAACAAUACAGAGAUGAUCAGCAGUUCCCCUGCAUAA GGAUGAACCGUUUUACAAAGAGAUUUAUUUCGUUUU NR_132206.1 Pre-mRNA-splicing factor 8 Saccharomyces cerevisiae 0.279867469 1 LEVO MSGLPPPPPGFEEDSDLALPPPPPPPPGYEIEELDNPMVPSSVNEDTFLPPPPPPPSNFEINAEEIVDFTLPPPPPPPGL DELETKAEKKVELHGKRKLDIGKDTFVTRKSRKRAKKMTKKAKRSNLYTPKAEMPPEHLRKIINTHSDMASKMYNTDKKA FLGALKYLPHAILKLLENMPHPWEQAKEVKVLYHTSGAITFVNETPRVIEPVYTAQWSATWIAMRREKRDRTHFKRMRFP PFDDDEPPLSYEQHIENIEPLDPINLPLDSQDDEYVKDWLYDSRPLEEDSKKVNGTSYKKWSFDLPEMSNLYRLSTPLRD EVTDKNYYYLFDKKSFFNGKALNNAIPGGPKFEPLYPREEEEDYNEFNSIDRVIFRVPIRSEYKVAFPHLYNSRPRSVRI PWYNNPVSCIIQNDEEYDTPALFFDPSLNPIPHFIDNNSSLNVSNTKENGDFTLPEDFAPLLAEEEELILPNTKDAMSLY HSPFPFNRTKGKMVRAQDVALAKKWFLQHPDEEYPVKVKVSYQKLLKNYVLNELHPTLPTNHNKTKLLKSLKNTKYFQQT TIDWVEAGLQLCRQGHNMLNLLIHRKGLTYLHLDYNFNLKPTKTLTTKERKKSRLGNSFHLMRELLKMMKLIVDTHVQFR LGNVDAFQLADGIHYILNHIGQLTGIYRYKYKVMHQIRACKDLKHIIYYKFNKNLGKGPGCGFWQPAWRVWLNFLRGTIP LLERYIGNLITRQFEGRSNEIVKTTTKQRLDAYYDLELRNSVMDDILEMMPESIRQKKARTILQHLSEAWRCWKANIPWD VPGMPAPIKKIIERYIKSKADAWVSAAHYNRERIKRGAHVEKTMVKKNLGRLTRLWIKNEQERQRQIQKNGPEITPEEAT TIFSVMVEWLESRSFSPIPFPPLTYKNDTKILVLALEDLKDVYASKVRLNASEREELALIEEAYDNPHDTLNRIKKYLLT QRVFKPVDITMMENYQNISPVYSVDPLEKITDAYLDQYLWYEADQRKLFPNWIKPSDSEIPPLLVYKWTQGINNLSEIWD VSRGQSAVLLETTLGEMAEKIDFTLLNRLLRLIVDPNIADYITAKNNVVINFKDMSHVNKYGLIRGLKFASFIFQYYGLV IDLLLLGQERATDLAGPANNPNEFMQFKSKEVEKAHPIRLYTRYLDRIYMLFHFEEDEGEELTDEYLAENPDPNFENSIG YNNRKCWPKDSRMRLIRQDVNLGRAVFWEIQSRVPTSLTSIKWENAFVSVYSKNNPNLLFSMCGFEVRILPRQRMEEVVS NDEGVWDLVDERTKQRTAKAYLKVSEEEIKKFDSRIRGILMASGSTTFTKVAAKWNTSLISLFTYFREAIVATEPLLDIL VKGETRIQNRVKLGLNSKMPTRFPPAVFYTPKELGGLGMISASHILIPASDLSWSKQTDTGITHFRAGMTHEDEKLIPTI FRYITTWENEFLDSQRVWAEYATKRQEAIQQNRRLAFEELEGSWDRGIPRISTLFQRDRHTLAYDRGHRIRREFKQYSLE RNSPFWWTNSHHDGKLWNLNAYRTDVIQALGGIETILEHTLFKGTGFNSWEGLFWEKASGFEDSMQFKKLTHAQRTGLSQ IPNRRFTLWWSPTINRANVYVGFLVQLDLTGIFLHGKIPTLKISLIQIFRAHLWQKIHESIVFDICQILDGELDVLQIES VTKETVHPRKSYKMNSSAADITMESVHEWEVSKPSLLHETNDSFKGLITNKMWFDVQLRYGDYDSHDISRYVRAKFLDYT TDNVSMYPSPTGVMIGIDLAYNMYDAYGNWFNGLKPLIQNSMRTIMKANPALYVLRERIRKGLQIYQSSVQEPFLNSSNY AELFNNDIKLFVDDTNVYRVTVHKTFEGNVATKAINGCIFTLNPKTGHLFLKIIHTSVWAGQKRLSQLAKWKTAEEVSAL VRSLPKEEQPKQIIVTRKAMLDPLEVHMLDFPNIAIRPTELRLPFSAAMSIDKLSDVVMKATEPQMVLFNIYDDWLDRIS SYTAFSRLTLLLRALKTNEESAKMILLSDPTITIKSYHLWPSFTDEQWITIESQMRDLILTEYGRKYNVNISALTQTEIK DIILGQNIKAPSVKRQKMAELEAARSEKQNDEEAAGASTVMKTKTINAQGEEIVVVASADYESQTFSSKNEWRKSAIANT LLYLRLKNIYVSADDFVEEQNVYVLPKNLLKKFIEISDVKIQVAAFIYGMSAKDHPKVKEIKTVVLVPQLGHVGSVQISN IPDIGDLPDTEGLELLGWIHTQTEELKFMAASEVATHSKLFADKKRDCIDISIFSTPGSVSLSAYNLTDEGYQWGEENKD IMNVLSEGFEPTFSTHAQLLLSDRITGNFIIPSGNVWNYTFMGTAFNQEGDYNFKYGIPLEFYNEMHRPVHFLQFSELAG DEELEAEQIDVFS P33334 Pre-mRNA-splicing factor SNU114 Saccharomyces cerevisiae 0.114174008 1 LEVO MEGDDLFDEFGNLIGVDPFDSDEEESVLDEQEQYQTNTFEGSGNNNEIESRQLTSLGSKKELGISLEHPYGKEVEVLMET KNTQSPQTPLVEPVTERTKLQEHTIFTQLKKNIPKTRYNRDYMLSMANIPERIINVGVIGPLHSGKTSLMDLLVIDSHKR IPDMSKNVELGWKPLRYLDNLKQEIDRGLSIKLNGSTLLCTDLESKSRMINFLDAPGHVNFMDETAVALAASDLVLIVID VVEGVTFVVEQLIKQSIKNNVAMCFVINKLDRLILDLKLPPMDAYLKLNHIIANINSFTKGNVFSPIDNNIIFASTKLGF TFTIKEFVSYYYAHSIPSSKIDDFTTRLWGSVYYHKGNFRTKPFENVEKYPTFVEFILIPLYKIFSYALSMEKDKLKNLL RSNFRVNLSQEALQYDPQPFLKHVLQLIFRQQTGLVDAITRCYQPFELFDNKTAHLSIPGKSTPEGTLWAHVLKTVDYGG AEWSLVRIYSGLLKRGDTVRILDTSQSESRQKRQLHDISKTETSNEDEDEDDETPSCEVEEIGLLGGRYVYPVHEAHKGQ IVLIKGISSAYIKSATLYSVKSKEDMKQLKFFKPLDYITEAVFKIVLQPLLPRELPKLLDALNKISKYYPGVIIKVEESG EHVILGNGELYMDCLLYDLRASYAKIEIKISDPLTVFSESCSNESFASIPVSNSISRLGEENLPGLSISVAAEPMDSKMI QDLSRNTLGKGQNCLDIDGIMDNPRKLSKILRTEYGWDSLASRNVWSFYNGNVLINDTLPDEISPELLSKYKEQIIQGFY WAVKEGPLAEEPIYGVQYKLLSISVPSDVNIDVMKSQIIPLMKKACYVGLLTAIPILLEPIYEVDITVHAPLLPIVEELM KKRRGSRIYKTIKVAGTPLLEVRGQVPVIESAGFETDLRLSTNGLGMCQLYFWHKIWRKVPGDVLDKDAFIPKLKPAPIN SLSRDFVMKTRRRKGISTGGFMSNDGPTLEKYISAELYAQLRENGLVP P36048 Protein FYV6 Saccharomyces cerevisiae 0.020066937999999996 1 LEVO MSSTSDNNANSAREKKPLKFVSEGVGNVEAQRIREQVEQKKYEAEYKRKTRKSLRDQLRSNAISKQKQYNGLVRDRESFT RLSKEDLEFYQKSKNELLKKEKELNNYLDVKAINFEKKKKALLMENDSTTNTEKYLETGTSLGSKTQIKGVKTSSPKPKI KVSIKKLGRKLEN P53913 UBC4 mRNA spliced exons Saccharomyces cerevisiae 0.01344003 1 GAACUAAGUGAUCUAGAAAGAGAUCCACCUACUUCAUGUUGC NM_001178430.1 Pre-mRNA-splicing factor ISY1 Saccharomyces cerevisiae 0.028073835999999998 1 LEVO MSRNVDKANSVLVRFQEQQAESAGGYKDYSRYQRPRNVSKVKSIKEANEWKRQVSKEIKQKSTRIYDPSLNEMQIAELND ELNNLFKEWKRWQWHIDHTLMEKKTKRKRLEDSHVLMNSGKLINGKRYFGRALELPEVKEWLKQSQRQNDGGSINTKCIP KDRNDFYYHGKVTAALTEFEANWTSILKAHYNVPVNEDEEEMSRQTQEIHVPTLADMEHWLVQRRKKKLMDELNL P21374 Pre-mRNA-splicing factor CWC22 Saccharomyces cerevisiae 0.067386062 1 LEVO MSTATIQDEDIKFQRENWEMIRSHVSPIISNLTMDNLQESHRDLFQVNILIGRNIICKNVVDFTLNKQNGRLIPALSALI ALLNSDIPDIGETLAKELMLMFVQQFNRKDYVSCGNILQCLSILFLYDVIHEIVILQILLLLLEKNSLRLVIAVMKICGW KLALVSKKTHDMIWEKLRYILQTQELSSTLRESLETLFEIRQKDYKSGSQGLFILDPTSYTVHTHSYIVSDEDEANKELG NFEKCENFNELTMAFDTLRQKLLINNTSDTNEGSNSQLQIYDMTSTNDVEFKKKIYLVLKSSLSGDEAAHKLLKLKIANN LKKSVVDIIIKSSLQESTFSKFYSILSERMITFHRSWQTAYNETFEQNYTQDIEDYETDQLRILGKFWGHLISYEFLPMD CLKIIKLTEEESCPQGRIFIKFLFQELVNELGLDELQLRLNSSKLDGMFPLEGDAEHIRYSINFFTAIGLGLLTEDMRSR LTIIQEVEDAEEEEKKLREEEELEKLRKKARESQPTQGPKIHESRLFLQKDTRENSRSRSPFTVETRKRARSRTPPRGSR NHRNRSRTPPARRQRHR P53333 UBC4 lariat-intron Saccharomyces cerevisiae 0.03020073 1 GUAUGUCUAAAGUUAUGGCCACGUUUCAAAUGCGUGCUUUUUUUUUAAAACUUAUGCUCUUAUUUACUAACAAAAUCAAC AUGCUAUUGAACUAG CP059523.2 Pre-mRNA-splicing factor PRP46 Saccharomyces cerevisiae 0.050771289 1 LEVO MDGNDHKVENLGDVDKFYSRIRWNNQFSYMATLPPHLQSEMEGQKSLLMRYDTYRKESSSFSGEGKKVTLQHVPTDFSEA SQAVISKKDHDTHASAFVNKIFQPEVAEELIVNRYEKLLSQRPEWHAPWKLSRVINGHLGWVRCVAIDPVDNEWFITGSN DTTMKVWDLATGKLKTTLAGHVMTVRDVAVSDRHPYLFSVSEDKTVKCWDLEKNQIIRDYYGHLSGVRTVSIHPTLDLIA TAGRDSVIKLWDMRTRIPVITLVGHKGPINQVQCTPVDPQVVSSSTDATVRLWDVVAGKTMKVLTHHKRSVRATALHPKE FSVASACTDDIRSWGLAEGSLLTNFESEKTGIINTLSINQDDVLFAGGDNGVLSFYDYKSGHKYQSLATREMVGSLEGER SVLCSTFDKTGLRLITGEADKSIKIWKQDETATKESEPGLAWNPNLSAKRF Q12417 Pre-mRNA-processing protein 45 Saccharomyces cerevisiae 0.042548726999999995 1 LEVO MFSNRLPPPKHSQGRVSTALSSDRVEPAILTDQIAKNVKLDDFIPKRQSNFELSVPLPTKAEIQECTARTKSYIQRLVNA KLANSNNRASSRYVTETHQAPANLLLNNSHHIEVVSKQMDPLLPRFVGKKARKVVAPTENDEVVPVLHMDGSNDRGEADP NEWKIPAAVSNWKNPNGYTVALERRVGKALDNENNTINDGFMKLSEALENADKKARQEIRSKMELKRLAMEQEMLAKESK LKELSQRARYHNGTPQTGAIVKPKKQTSTVARLKELAYSQGRDVSEKIILGAAKRSEQPDLQYDSRFFTRGANASAKRHE DQVYDNPLFVQQDIESIYKTNYEKLDEAVNVKSEGASGSHGPIQFTKAESDDKSDNYGA P28004 Pre-mRNA-splicing factor BUD31 Saccharomyces cerevisiae 0.018484502 1 LEVO MPRIKTRRSKPAPDGFEKIKPTLTDFEIQLRDAQKDKSSKLAAKSNEQLWEIMQLHHQRSRYIYTLYYKRKAISKDLYDW LIKEKYADKLLIAKWRKTGYEKLCCLRCIQKNETNNGSTCICRVPRAQLEEEARKKGTQVSFHQCVHCGCRGCASTD P25337 Pre-mRNA-splicing factor CWC2 Saccharomyces cerevisiae 0.038486561999999995 1 LEVO MTSWRDKSAKVQVKESELPSSIPAQTGLTFNIWYNKWSQGFAGNTRFVSPFALQPQLHSGKTRGDNDGQLFFCLFFAKGM CCLGPKCEYLHHIPDEEDIGKLALRTEVLDCFGREKFADYREDMGGIGSFRKKNKTLYVGGIDGALNSKHLKPAQIESRI RFVFSRLGDIDRIRYVESKNCGFVKFKYQANAEFAKEAMSNQTLLLPSDKEWDDRREGTGLLVKWANEDPDPAAQKRLQE ELKLESLNMMVHLINNNTNSAGTEVNNKNNERLDRTFPEASVDNVKKRLLPLDNGMESDDFIEKLKKVKKNISRENISSK PSVGKLGGPLLDYLSSDED Q12046 Pre-mRNA-splicing factor SLT11 Saccharomyces cerevisiae 0.04098858999999999 1 LEVO MNDEINEPPPNICEQCLGDEANIRMTKIPQGSECKICTLPFTLYHFKTSKRSNNIIKTLICVRCATQRNICQCCMLDSRW HIPIQLRDHLISLVNEENVMTEEAKNDMMKRFLSLKNVKLGGAQITSDPSEADNIVDKLKNILLRATSDGPSTPLIKNTT ALYKNEKGANEVKNLEKYASVDISHILKKLPLNESFLKNPSTKSFFLYNIDASIPEWKITDTVSQLLGIKKWKDGNSLSL IVNHKAKCGGLRFQSSELGERFVSKISETLVTPKGLKRGVLLIDRFRIFIIPWSSGFSAASFGTNTAENIKLSLSLNKLI QLELGLSFPTKSTDNAKNDKKKTSKKVHKDRSKKSKPRANKLTI P38241 Pre-mRNA-splicing factor CEF1 Saccharomyces cerevisiae 0.067837773 1 LEVO MPPVPIYVKGGVWTNVEDQILKAAVQKYGTHQWSKVASLLQKKTARQSELRWNEYLNPKLNFTEFSKEEDAQLLDLAREL PNQWRTIADMMARPAQVCVERYNRLLESEDSGGAALSTGVTDLKAGDINPNAETQMARPDNGDLEDEEKEMLAEARARLL NTQGKKATRKIRERMLEESKRIAELQKRRELKQAGINVAIKKPKKKYGTDIDYNEDIVYEQAPMPGIYDTSTEDRQIKKK FEQFERKVNRKGLDGNKDKPSKKNKDKKRKHDENEHVEKAALGESTTLTDEYKKPKLILSAPGTKQGKVTYKKKLESKRQ KLIEAQATGTVLTPKELLPHDSGQEDNERSNIKSGKQLKSRIRKFLVQMFASLPSPKNDFEIVLSEDEKEEDAEIAEYEK EFENERAMNEEDNFIEPPSQNDAPRVSLVAVPLAYSTLPIPEFKNNPQSAIDNKYNLLVANAINKEPHMVPEDTVDFLKE VESRMQHITQGRTSMKIQFKTAMPPTEVLLESIQSKVESIEQLQRKLQHVQPLEQQNNEMCSTLCHHSLPALIEGQRKYY ADYYAYRQEIRSLEGRRKRLQAMLNSSSSI Q03654 Pre-mRNA-splicing factor CWC15 Saccharomyces cerevisiae 0.019975194999999998 1 LEVO MTTSHRPQLEARSGAKAAAYTPTGIEHARLLPGHTTLKYRKFKEEENLRANCAQEDRSNDKSLEEAVMNEEKQDVVGSGN LQETRSEKDQKDSLQELLVTQKNKVEDKAELEGNEQLKGGNSSRRSWRKGTAFGRHKVTKETNIKEHATKKSASGYINDM TKSEYHQEFLHKHVR Q03772 Pre-mRNA-splicing factor CWC21 Saccharomyces cerevisiae 0.015793596 1 LEVO MSYNGIGLKSAKGSSTSGHVQRSLASNNRRRPQGSQQQRQQRQNAIKKASHDKASRPLAVQKQIETHMEKREIEVQVSEL RDRLEEEETLSEEQIDKKCEALRAKLTNEWQEQQRMSSLYTPRKARLTEEQHRHE Q03375 Pre-mRNA-splicing factor CLF1 Saccharomyces cerevisiae 0.082555859 1 LEVO MDTLEPTAVDTHVSAEQILRDVYKKGQKARGSTNIDILDLEELREYQRRKRTEYEGYLKRNRLDMGQWIRYAQFEIEQHD MRRARSIFERALLVDSSFIPLWIRYIDAELKVKCINHARNLMNRAISTLPRVDKLWYKYLIVEESLNNVEIVRSLYTKWC SLEPGVNAWNSFVDFEIRQKNWNGVREIYSKYVMAHPQMQTWLKWVRFENRHGNTEFTRSVYSLAIDTVANLQNLQIWSD MEVAKLVNSFAHWEAAQQEYERSSALYQIAIEKWPSNQLLKAGLLDFEKQFGDINSIEETISYKRKMEYETILSNNAYDY DTWWLYLDLISESFPKQIMQTFEKAIVDSRPKELSKNVQWKRYIYLWMRYICYVELELENSLLEEELFQRLIDDIIPHKH FTFSKIWLMYAKFLIRHDDVPKARKILGKAIGLCPKAKTFKGYIELEVKLKEFDRVRKIYEKFIEFQPSDLQIWSQYGEL EENLGDWDRVRGIYTIALDENSDFLTKEAKIVLLQKYITFETESQEFEKARKLYRRYLELNQYSPQSWIEFAMYQTSTPT EQQLLDLAKLQSENVDEDIEFEITDENKLEARKVFEEAIVFFKEKDDKQGRLSILEALKDYEETYGTELDQETVKKRFPK VIKKVRLQNGVEEEFVDYIFPDDIDDDKPKPSKFLELAKKWKQEQAL Q12309 Pre-mRNA-splicing factor SYF1 Saccharomyces cerevisiae 0.100344016 1 LEVO MSAYIAMKGVITNVDENIRNDEDVAFEYEIQKTPQNILTWKRYIEYWKEEGRTDKQIRWLYERFCSQFVTDTSIWEDYIR WESTKEVVETSRIFWLFQRCLKSCVRDCDRICLSYLELAIEQYDLAMIRHALASSLMKMEREMHRKVWDPVIKFVEEKVL PLTQLDSTQEDEEESTDEAELINVLLVKGFTKGGFISEEISENGSRGDIWSSHILERYLKVAPQQKRNESLATLALTRDN ITIKSVYEKYLPQDENSGKYLPSSELPFELNFNYLASLEKLGLDNQYEEFMRQMNGIYPDKWLFLILSLAKYYISRGRLD SCGDLLKKSLQQTLRYSDFDRIYNFYLLFEQECSQFILGKLKENDSKFFNQKDWTEKLQAHMATFESLINLYDIYLNDVA LRQDSNLVETWMKRVSLQKSAAEKCNVYSEAILKIDPRKVGTPGSFGRLWCSYGDLYWRSNAISTARELWTQSLKVPYPY IEDLEEIYLNWADRELDKEGVERAFSILEDALHVPTNPEILLEKYKNGHRKIPAQTVLFNSLRIWSKYIDYLEAYCPKDA NSSDKIFNKTKMAYNTVIDLRLITPAMAENFALFLQNHYEVMESFQVYEKTIPLFPPEIQYELWIEYLEVATSHQLSSLS PEHIRFLFEKALKNLCSNGIDCKTIFIAYSVFEERISGLISKSIEILRRGAVIGTVSVSTHLESRLQLWRMCISKAESTL GPSVTRELYQECIQILPNSKAVEFVIKFSDFESSIGETIRAREILAYGAKLLPPSRNTELWDSFEIFELKHGDKETYKDM LKMKKVLESNMLIDSASVSHEEGNINFVAAATSHAPNSHTLTQSTSSYSINPDEIELDI Q04048 Pre-mRNA-splicing factor ATP-dependent RNA helicase PRP22 Saccharomyces cerevisiae 0.130171359 1 Saccharomyces cerevisiae LEVO MSDISKLIGAIVGSDDPVIIEFVLNIINKSGNLQEFIRNIQKLDAGISYEDSIKMYNAFLGKQEEEKVRNKVKSSPLSQK INQVLKDDVNLDDPVVTEFVLSILNKSKSITEFQEQLNLMQSGLDNETIFKIYQIASPPVMKEEVSVLPSTKIPAKIEAK IEEEVQKIESLDPSPVLHKVYEGKVRNITTFGCFVQIFGTRMKNCDGLVHISEMSDQRTLDPHDVVRQGQHIFVEVIKIQ NNGKISLSMKNIDQHSGEIRKRNTESVEDRGRSNDAHTSRNMKNKIKRRALTSPERWEIRQLIASGAASIDDYPELKDEI PINTSYLTAKRDDGSIVNGNTEKVDSKLEEQQRDETDEIDVELNTDDGPKFLKDQQVKGAKKYEMPKITKVPRGFMNRSA INGSNAIRDHREEKLRKKREIEQQIRKQQSFDDPTKNKKDSRNEIQMLKNQLIVTEWEKNRMNESISYGKRTSLPISAQR QTLPVYAMRSELIQAVRDNQFLVIVGETGSGKTTQITQYLDEEGFSNYGMIGCTQPRRVAAVSVAKRVAEEVGCKVGHDV GYTIRFEDVTGPDTRIKYMTDGMLQREALLDPEMSKYSVIMLDEAHERTVATDVLFALLKKAAIKRPELKVIVTAATLNS AKFSEYFLNCPIINIPGKTFPVEVLYSQTPQMDYIEAALDCVIDIHINEGPGDILVFLTGQEEIDSCCEILYDRVKTLGD SIGELLILPVYSALPSEIQSKIFEPTPKGSRKVVFATNIAETSITIDGIYYVVDPGFAKINIYNARAGIEQLIVSPISQA QANQRKGRAGRTGPGKCYRLYTESAFYNEMLENTVPEIQRQNLSHTILMLKAMGINDLLKFDFMDPPPKNLMLNALTELY HLQSLDDEGKLTNLGKEMSLFPMDPTLSRSLLSSVDNQCSDEIVTIISMLSVQNVFYRPKDRQLEADSKKAKFHHPYGDH LTLLNVYTRWQQANYSEQYCKTNFLHFRHLKRARDVKSQISMIFKKIGLKLISCHSDPDLIRKTFVSGFFMNAAKRDSQV GYKTINGGTEVGIHPSSSLYGKEYEYVMYHSIVLTSREYMSQVTSIEPQWLLEVAPHFYKAGDAESQSRKKAKIIPLHNK FAKDQNSWRLSSIRQSRERALGIKR P24384 3.6.4.13 U2 small nuclear ribonucleoprotein A' Saccharomyces cerevisiae 0.027232252 1 LEVO MKFTPSIVIDAPQYYVDHFNGKYNVDKCVILRDLQLETDSESMPSSLKHLTKPTHILDLTNNDLIMIPDLSRRDDIHTLL LGRNNIVEVDGRLLPMNVQNLTLSNNSIRRFEDLQRLRRAPRTLKNLTLIGNQVCHLANYREHVLRLVPHLETLDFQNVT AEERKSAMSFPRQADGDTLGPVNTAIRDNGSRDKTMEIMNLVVSKMTVERRNELKKQLAEATSLEEIARLEKLLSGGV Q08963 U2 small nuclear ribonucleoprotein B'' Saccharomyces cerevisiae 0.012850944 1 LEVO MVEPARKKQRIDRDTHHTVAEPVTEAKNTLYVSQLNEKINMQRLRVNLFLLFATFGEVLKVSMNFKKQRGQAFITMRTID QASLAQISLNGERFFGKPLKVEFSKSETKTL P40567 Pre-mRNA-splicing factor NTC20 Saccharomyces cerevisiae 0.015992927 1 LEVO MPSLRDLSLERDQELNQLRARINQLGKTGKEEANDFVGLNISNEPVYDTVIQTGQSSNATNSFVQETIQKTKQKESGQPY IIPQKNEHQRYIDKVCETSDLKAKLAPIMEVLEKKTNEKIKGIIRKRVLQEPDRDNDDSG P38302 Pre-mRNA-splicing factor 18 Saccharomyces cerevisiae 0.028414390999999997 1 LEVO MDLDLASILKGEISKKKKELANSKGVQPPCTEKFQPHESANIDETPRQVEQESTDEENLSDNQSDDIRTTISKLENRPER IQEAIAQDKTISVIIDPSQIGSTEGKPLLSMKCNLYIHEILSRWKASLEAYHPELFLDTKKALFPLLLQLRRNQLAPDLL ISLATVLYHLQQPKEINLAVQSYMKLSIGNVAWPIGVTSVGIHARSAHSKIQGGRNAANIMIDERTRLWITSIKRLITFE EWYTSNHDSLA P33411 Small nuclear ribonucleoprotein-associated protein B Saccharomyces cerevisiae 0.02242699 2 LEVO MSKIQVAHSSRLANLIDYKLRVLTQDGRVYIGQLMAFDKHMNLVLNECIEERVPKTQLDKLRPRKDSKDGTTLNIKVEKR VLGLTILRGEQILSTVVEDKPLLSKKERLVRDKKEKKQAQKQTKLRKEKEKKPGKIAKPNTANAKHTSSNSREIAQPSSS RYNGGNDNIGANRSRFNNEAPPQTRKFQPPPGFKRK P40018 Pre-mRNA-splicing factor SLU7 Saccharomyces cerevisiae 0.044722874999999995 1 LEVO MNNNSRNNENRSTINRNKRQLQQAKEKNENIHIPRYIRNQPWYYKDTPKEQEGKKPGNDDTSTAEGGEKSDYLVHHRQKA KGGALDIDNNSEPKIGMGIKDEFKLIRPQKMSVRDSHSLSFCRNCGEAGHKEKDCMEKPRKMQKLVPDLNSQKNNGTVLV RATDDDWDSRKDRWYGYSGKEYNELISKWERDKRNKIKGKDKSQTDETLWDTDEEIELMKLELYKDSVGSLKKDDADNSQ LYRTSTRLREDKAAYLNDINSTESNYDPKSRLYKTETLGAVDEKSKMFRRHLTGEGLKLNELNQFARSHAKEMGIRDEIE DKEKVQHVLVANPTKYEYLKKKREQEETKQPKIVSIGDLEARKVDGTKQSEEQRNHLKDLYG Q02775 Small nuclear ribonucleoprotein Sm D3 Saccharomyces cerevisiae 0.011240138999999998 2 LEVO MTMNGIPVKLLNEAQGHIVSLELTTGATYRGKLVESEDSMNVQLRDVIATEPQGAVTHMDQIFVRGSQIKFIVVPDLLKN APLFKKNSSRPMPPIRGPKRR P43321 Small nuclear ribonucleoprotein E Saccharomyces cerevisiae 0.010385097999999999 2 LEVO MSNKVKTKAMVPPINCIFNFLQQQTPVTIWLFEQIGIRIKGKIVGFDEFMNVVIDEAVEIPVNSADGKEDVEKGTPLGKI LLKGDNITLITSAD Q12330 Small nuclear ribonucleoprotein F Saccharomyces cerevisiae 0.009669945 2 LEVO MSESSDISAMQPVNPKPFLKGLVNHRVGVKLKFNSTEYRGTLVSTDNYFNLQLNEAEEFVAGVSHGTLGEIFIRCNNVLY IRELPN P54999 Small nuclear ribonucleoprotein G Saccharomyces cerevisiae 0.008490808999999998 2 LEVO MVSTPELKKYMDKKILLNINGSRKVAGILRGYDIFLNVVLDDAMEINGEDPANNHQLGLQTVIRGNSIISLEALDAI P40204 Small nuclear ribonucleoprotein Sm D1 Saccharomyces cerevisiae 0.016296798 2 LEVO MKLVNFLKKLRNEQVTIELKNGTTVWGTLQSVSPQMNAILTDVKLTLPQPRLNKLNSNGIAMASLYLTGGQQPTASDNIA SLQYINIRGNTIRQIILPDSLNLDSLLVDQKQLNSLRRSGQIANDPSKKRRRDFGAPANKRPRRGL Q02260 Small nuclear ribonucleoprotein Sm D2 Saccharomyces cerevisiae 0.012876066 2 LEVO MSSQIIDRPKHELSRAELEELEEFEFKHGPMSLINDAMVTRTPVIISLRNNHKIIARVKAFDRHCNMVLENVKELWTEKK GKNVINRERFISKLFLRGDSVIVVLKTPVE Q06217 Pre-mRNA-processing factor 17 Saccharomyces cerevisiae 0.052128762 1 LEVO MGLVDGYDTSSDSDLNFDEGKSVHEKKNGNLHEDTSYEPSSNNIHKRKSHFTKSELKRRRKTRKGDGPWGSWSSSDDETS QASETQKEDQDIFVHALAEDNLDSEQIEVEEVSHFYGKSEKDYQGRGYLYPPNDVDVDLREERISFRCYLPKKVIRNYPG HPEGTTALKFLPKTGHLILSGGNDHTIKIWDFYHDYECLRDFQGHNKPIKALRFTEDCQSFLSSSFDRSVKIWDTETGKV KTRLHLNSTPADVESRPTNPHEFIVGLSNSKILHYDDRVSENQGLVQTYDHHLSSILALKYFPDGSKFISSSEDKTVRIW ENQINVPIKQISDTAQHSMPFLNVHPSQNYFCAQSMDNRIYSFSLKPKYKRHPKKIFKGHSSAGYGISLAFSGDGRYICS GDSKSRLFTWDWNTSRLLNNIKIPGNKPITQVDWHPQETSKVICSGAAGKIYVCD P40968 Pre-mRNA-splicing factor SNT309 Saccharomyces cerevisiae 0.020741455000000002 1 LEVO MDGLSFVDKGKIPDGYKNEIDQLVKKEFANIKREPVHPEIRGILAKRKGADNSVSTLTNALYTEYLKQRNNKKRRTPDFN DDDDTLFLEEYRRKYPRIDTSRYIPNESSEVSLLGIVDSYLKHQEIVLDTLLPQTVSNQWRINNDYIRQTCTIVEEMNIQ QRKQINDLEIYRKRL Q06091 Pre-mRNA-processing factor 19 Saccharomyces cerevisiae 0.056629777 4 LEVO MLCAISGKVPRRPVLSPKSRTIFEKSLLEQYVKDTGNDPITNEPLSIEEIVEIVPSAQQASLTESTNSATLKANYSIPNL LTSLQNEWDAIMLENFKLRSTLDSLTKKLSTVMYERDAAKLVAAQLLMEKNEDSKDLPKSSQQAVAITREEFLQGLLQSS RDFVARGKLKAPKWPILKNLELLQAQNYSRNIKTFPYKELNKSMYYDKWVCMCRCEDGALHFTQLKDSKTITTITTPNPR TGGEHPAIISRGPCNRLLLLYPGNQITILDSKTNKVLREIEVDSANEIIYMYGHNEVNTEYFIWADNRGTIGFQSYEDDS QYIVHSAKSDVEYSSGVLHKDSLLLALYSPDGILDVYNLSSPDQASSRFPVDEEAKIKEVKFADNGYWMVVECDQTVVCF DLRKDVGTLAYPTYTIPEFKTGTVTYDIDDSGKNMIAYSNESNSLTIYKFDKKTKNWTKDEESALCLQSDTADFTDMDVV CGDGGIAAILKTNDSFNIVALTP P32523 2.3.2.27 Pre-mRNA-splicing factor SYF2 Saccharomyces cerevisiae 0.024850719 1 LEVO MDFYKLDEKLKELKRKRVDVSIKSRKLADREIQEVSANRKPRVYSMEDVNDADESVGDTESPEKEKAFHYTVQEYDAWER RHPQGKTGQSQRGGISYDQLAKLSYEKTLRNLATQTQNSSKQDSSADEEDNKNVPKKGRIGKVQKDTKTGKITIADDDKL VNKLAVSLQSESKKRYEARKRQMQNAKTLYGVESFINDKNKQFNEKLSRESKGSE P53277 MAGNESIUM ION 2.4305e-05 2 MG POTASSIUM ION 3.9098e-05 4 K INOSITOL HEXAKISPHOSPHATE 0.0006600349999999999 2 IHP GUANOSINE-5'-TRIPHOSPHATE 0.0005231799999999999 1 GTP ZINC ION 6.5409e-05 7 ZN water 1.8015e-05 1 HOH singleParticle particle 0.1 7.9 20.0 HEPES 75.0 potassium chloride 0.25 EDTA Quantifoil R2/2 COPPER 300 CARBON CONTINUOUS 2.0 GLOW DISCHARGE 12 AIR ETHANE 100 277 FEI VITROBOT MARK IV TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 50.0 2.7 1.3 3.1 130000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN GATAN K3 BIOQUANTUM (6k x 4k) 2 51113 0.72 40.0 1 1820457 CTFFIND 4.1 PHASE FLIPPING AND AMPLITUDE CORRECTION EMD-10140 1 C1 2.31 FSC 0.143 CUT-OFF RELION 5.0 Blush regularization used 209005 MAXIMUM LIKELIHOOD RELION 5.0 MAXIMUM LIKELIHOOD RELION 5.0 4 102236.0 RELION 5.0 6EXN PDB experimental model FLEXIBLE FIT

After fixing in ISOLDE, the model was refined in phenix.real_space_refine with the following non-default flags: refinement { run = *minimization_global rigid_body local_grid_search morphing simulated_annealing *adp } reference_model { enabled = True use_starting_model_as_reference = True fix_outliers = False strict_rotamer_matching = True } pdb_interpretation { reference_coordinate_restraints { enabled = True exclude_outliers = False top_out = True } automatic_linking { link_metals = True } peptide_link { restrain_rama_outliers = False restrain_rama_allowed = False } ramachandran_plot_restraints { enabled = False } }

REAL emd_47157_msk_1.map emd_47157_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 480 480 480 0 0 0 480 480 480 464.63998 464.63998 464.63998 90.0 90.0 90.0 X Y Z -0.022362152 0.07566687 -0.00023917662 0.0026269464 0.968 0.968 0.968 AUTHOR ::::EMDATABANK.org::::EMD-47157:::: P-complex spliceosome state I core refinement half-map 1 emd_47157_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 480 480 480 0 0 0 480 480 480 464.63998 464.63998 464.63998 90.0 90.0 90.0 X Y Z -0.02257496 0.07990323 -0.00023805788 0.0026076674 0.968 0.968 0.968 AUTHOR ::::EMDATABANK.org::::EMD-47157:::: P-complex spliceosome state I core refinement half-map 2