20S Alpha 3 Deletion proteasome core particle in complex with Fub1 and Blm10

2026-08-05 REL RCSB INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY DATABASE_REFERENCES citation citation_author em_admin _citation.country _citation.journal_abbrev _citation.journal_id_ASTM _citation.journal_id_CSD _citation.journal_id_ISSN _citation.journal_volume _citation.page_first _citation.page_last _citation.pdbx_database_id_DOI _citation.pdbx_database_id_PubMed _citation.title _citation.year _citation_author.identifier_ORCID _citation_author.name _em_admin.last_update EXPERIMENTAL_SUMMARY citation citation_author em_admin _citation.country _citation.journal_abbrev _citation.journal_id_ASTM _citation.journal_id_CSD _citation.journal_id_ISSN _citation.journal_volume _citation.page_first _citation.page_last _citation.pdbx_database_id_DOI _citation.pdbx_database_id_PubMed _citation.title _citation.year _citation_author.identifier_ORCID _citation_author.name _em_admin.last_update RCSB RCSB 2026-01-29 2026-07-22 2026-07-22 2026-08-05 National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) R01GM144367 United States 20S Alpha 3 Deletion proteasome core particle in complex with Fub1 and Blm10 Walsh Jr RM Rawson S Fermin Perez E Venclovaite U Hanna J 20S Proteasome, Proteasome Regulator, Proteasome Inhibitor, HYDROLASE Fung D Rawson S Walsh Jr RM Fermin Perez E Venclovaite U Rajakumar T Velez B Hanna J Blm10 and PI31 comprise a failsafe mechanism for proteasome inhibition. Proc.Natl.Acad.Sci.USA US 123 e2611708123 e2611708123 2026 42485378 doi:10.1073/pnas.2611708123 1091-6490 0040 PNASA6 EMD-75294 other EM volume EMD-75163 other EM volume 10og FULLOVERLAP EMDB EMD-75294 other EM volume EMDB EMD-75163 other EM volume EMDB EMD-75334 associated EM volume

PDB 10MT unspecified PDB 10GX unspecified C2 symmetry expanded and subtracted 20S Proteasome, Blm10, Fub1 Complex Halfmer C2 symmetry expanded and subtracted 20S Proteasome, Blm10, Fub1 Complex Halfmer 0 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 Saccharomyces cerevisiae S288C 0.240 Proteasome subunit alpha type-1 Saccharomyces cerevisiae S288C 0.02803383

Proteasome subunit alpha type-1

2 LEVO MSGAAAASAAGYDRHITIFSPEGRLYQVEYAFKATNQTNINSLAVRGKDCTVVISQKKVPDKLLDPTTVSYIFCISRTIG MVVNGPIPDARNAALRAKAEAAEFRYKYGYDMPCDVLAKRMANLSQIYTQRAYMRPLGVILTFVSVDEELGPSIYKTDPA GYYVGYKATATGPKQQEITTNLENHFKKSKIDHINEESWEKVVEFAITHMIDALGTEFSKNDLEVGVATKDKFFTLSAEN IEERLVAIAEQD P21243 3.4.25.1 Proteasome subunit alpha type-2 Saccharomyces cerevisiae S288C 0.027191828 2 LEVO MTDRYSFSLTTFSPSGKLGQIDYALTAVKQGVTSLGIKATNGVVIATEKKSSSPLAMSETLSKVSLLTPDIGAVYSGMGP DYRVLVDKSRKVAHTSYKRIYGEYPPTKLLVSEVAKIMQEATQSGGVRPFGVSLLIAGHDEFNGFSLYQVDPSGSYFPWK ATAIGKGSVAAKTFLEKRWNDELELEDAIHIALLTLKESVEGEFNGDTIELAIIGDENPDLLGYTGIPTDKGPRFRKLTS QEINDRLEAL P23639 3.4.25.1 Proteasome subunit alpha type-6 Saccharomyces cerevisiae S288C 0.025634 2 LEVO MFRNNYDGDTVTFSPTGRLFQVEYALEAIKQGSVTVGLRSNTHAVLVALKRNADELSSYQKKIIKCDEHMGLSLAGLAPD ARVLSNYLRQQCNYSSLVFNRKLAVERAGHLLCDKAQKNTQSYGGRPYGVGLLIIGYDKSGAHLLEFQPSGNVTELYGTA IGARSQGAKTYLERTLDTFIKIDGNPDELIKAGVEAISQSLRDESLTVDNLSIAIVGKDTPFTIYDGEAVAKYI P40302 3.4.25.1 Proteasome subunit alpha type-7 Saccharomyces cerevisiae S288C 0.031575068 2 LEVO MTSIGTGYDLSNSVFSPDGRNFQVEYAVKAVENGTTSIGIKCNDGVVFAVEKLITSKLLVPQKNVKIQVVDRHIGCVYSG LIPDGRHLVNRGREEAASFKKLYKTPIPIPAFADRLGQYVQAHTLYNSVRPFGVSTIFGGVDKNGAHLYMLEPSGSYWGY KGAATGKGRQSAKAELEKLVDHHPEGLSAREAVKQAAKIIYLAHEDNKEKDFELEISWCSLSETNGLHKFVKGDLLQEAI DFAQKEINGDDDEDEDDSDNVMSSDDENAPVATNANATTDQEGDIHLE P21242 3.4.25.1 Proteasome subunit beta type-1 Saccharomyces cerevisiae S288C 0.023573603999999998 2 LEVO MNGIQVDINRLKKGEVSLGTSIMAVTFKDGVILGADSRTTTGAYIANRVTDKLTRVHDKIWCCRSGSAADTQAIADIVQY HLELYTSQYGTPSTETAASVFKELCYENKDNLTAGIIVAGYDDKNKGEVYTIPLGGSVHKLPYAIAGSGSTFIYGYCDKN FRENMSKEETVDFIKHSLSQAIKWDGSSGGVIRMVVLTAAGVERLIFYPDEYEQL P38624 3.4.25.1 Proteasome subunit beta type-2 Saccharomyces cerevisiae S288C 0.028299888999999998 2 LEVO MAGLSFDNYQRNNFLAENSHTQPKATSTGTTIVGVKFNNGVVIAADTRSTQGPIVADKNCAKLHRISPKIWCAGAGTAAD TEAVTQLIGSNIELHSLYTSREPRVVSALQMLKQHLFKYQGHIGAYLIVAGVDPTGSHLFSIHAHGSTDVGYYLSLGSGS LAAMAVLESHWKQDLTKEEAIKLASDAIQAGIWNDLGSGSNVDVCVMEIGKDAEYLRNYLTPNVREEKQKSYKFPRGTTA VLKESIVNICDIQEEQVDITA P25043 3.4.25.1 Proteasome subunit beta type-3 Saccharomyces cerevisiae S288C 0.022627842 2 LEVO MSDPSSINGGIVVAMTGKDCVAIACDLRLGSQSLGVSNKFEKIFHYGHVFLGITGLATDVTTLNEMFRYKTNLYKLKEER AIEPETFTQLVSSSLYERRFGPYFVGPVVAGINSKSGKPFIAGFDLIGCIDEAKDFIVSGTASDQLFGMCESLYEPNLEP EDLFETISQALLNAADRDALSGWGAVVYIIKKDEVVKRYLKMRQD P25451 3.4.25.1 Proteasome subunit beta type-4 Saccharomyces cerevisiae S288C 0.022545675999999997 2 LEVO MDIILGIRVQDSVILASSKAVTRGISVLKDSDDKTRQLSPHTLMSFAGEAGDTVQFAEYIQANIQLYSIREDYELSPQAV SSFVRQELAKSIRSRRPYQVNVLIGGYDKKKNKPELYQIDYLGTKVELPYGAHGYSGFYTFSLLDHHYRPDMTTEEGLDL LKLCVQELEKRMPMDFKGVIVKIVDKDGIRQVDDFQAQ P22141 3.4.25.1 Proteasome subunit beta type-5 Saccharomyces cerevisiae S288C 0.031670539 2 LEVO MQAIADSFSVPNRLVKELQYDNEQNLESDFVTGASQFQRLAPSLTVPPIASPQQFLRAHTDDSRNPDCKIKIAHGTTTLA FRFQGGIIVAVDSRATAGNWVASQTVKKVIEINPFLLGTMAGGAADCQFWETWLGSQCRLHELREKERISVAAASKILSN LVYQYKGAGLSMGTMICGYTRKEGPTIYYVDSDGTRLKGDIFCVGSGQTFAYGVLDSNYKWDLSVEDALYLGKRSILAAA HRDAYSGGSVNLYHVTEDGWIYHGNHDVGELFWKVKEEEGSFNNVIG P30656 3.4.25.1 Proteasome subunit beta type-6 Saccharomyces cerevisiae S288C 0.026905076 2 LEVO MATIASEYSSEASNTPIEHQFNPYGDNGGTILGIAGEDFAVLAGDTRNITDYSINSRYEPKVFDCGDNIVMSANGFAADG DALVKRFKNSVKWYHFDHNDKKLSINSAARNIQHLLYGKRFFPYYVHTIIAGLDEDGKGAVYSFDPVGSYEREQCRAGGA AASLIMPFLDNQVNFKNQYEPGTNGKVKKPLKYLSVEEVIKLVRDSFTSATERHIQVGDGLEILIVTKDGVRKEFYELKR D P23724 3.4.25.1 Proteasome subunit beta type-7 Saccharomyces cerevisiae S288C 0.029471288999999998 2 LEVO MNHDPFSWGRPADSTYGAYNTQIANAGASPMVNTQQPIVTGTSVISMKYDNGVIIAADNLGSYGSLLRFNGVERLIPVGD NTVVGISGDISDMQHIERLLKDLVTENAYDNPLADAEEALEPSYIFEYLATVMYQRRSKMNPLWNAIIVAGVQSNGDQFL RYVNLLGVTYSSPTLATGFGAHMANPLLRKVVDRESDIPKTTVQVAEEAIVNAMRVLYYRDARSSRNFSLAIIDKNTGLT FKKNLQVENMKWDFAKDIKGYGTQKI P30657 3.4.25.1 Proteasome subunit alpha type-4 Saccharomyces cerevisiae S288C 0.028478111 4 LEVO MSGYDRALSIFSPDGHIFQVEYALEAVKRGTCAVGVKGKNCVVLGCERRSTLKLQDTRITPSKVSKIDSHVVLSFSGLNA DSRILIEKARVEAQSHRLTLEDPVTVEYLTRYVAGVQQRYTQSGGVRPFGVSTLIAGFDPRDDEPKLYQTEPSGIYSSWS AQTIGRNSKTVREFLEKNYDRKEPPATVEECVKLTVRSLLEVVQTGAKNIEITVVKPDSDIVALSSEEINQYVTQIEQEK QEQQEQDKKKKSNH P40303 3.4.25.1 Proteasome activator BLM10 Saccharomyces cerevisiae S288C 0.24924367199999997 2 LEVO MHHHHHHHHHHHHTANNDDDIKSPMTANNDDDIKSPIPITNKTLSQLKRFERSPGRPSSSQGEIKRKKSRLYAADGRPHS PLRARSATPTLQDQKLFNGMDSTSLLNERLQHYTLDYVSDRAQHMKNIYDPSSRWFSRSVRPEFPIEEFLPYKTESHEDQ AKYLCHVLVNLYIAISSLDIQGLISISSKDLADLKKEVDDLALKTDLFRLSNNTAENDLLGNDIADYDDAEGLEDELDEY FDLAGPDFNATGKITAKSATIVNVNHWTNELKNCLHFDFPVALRKSLATVYYYLSLVQGQKVYRQMHVDMFERLVSLDDD RTNFTELLQKQGLLLDHQIMLNFLCEFLPYPDPDYARYELSSKEDLQLFRLLLKHAHNAKPFFDKSKESLLVDTMNFLLS SLAPSTMMAVMPIVTSVVPYHYHIHSKIIDYFPFCYSIWSSVSANVAIDTHMYDFVGSISKDVHNKILSSEHEKDVVGVE FGEFGIFTDDQMTFMFNRLQGHLRTDGQIHSYSRTVKPFVYAINGSKKDRFFEKLVSLAKAIETFIHPSNNGFWTKPNAK FVHAFIKSYHGRVKYEEDICARGVTNGICLTSFCHEEIVEIFLNIISLGSQNKNPDIANYYISCFAYLLELDPSNAYLIY DKILIDLYDTLADQFINSRHRIISSLKQFTRVIRFIVMDKLYRVHITNVLSMLVSKLDMNDTNLTSNLINGIVSIAAFIP IQDLTGEDDYISFESDTLPLVQQHFYHIKCGESSKTFRVDDELLNNAFKASTTVFQSMLKVYVEKIFQLVDVDLEDSLVT KINQTTMILQESMDDKIFNYFASLLQRNFWSNDSFKEKDPNYELVTIPLAALVRRNNGLSKELVRTLLFHIKEQIKRGAG SVRSTSEIQQRDVKLVLYLTALNDVLRQCHESLLEYSDELITFMKYLYDNVTNPPLDVITSIVIHSALATLCTTEITDCR LFPEDSKIPEKDRWGGLQFDPRRFDKQHLSFQWHVPSSDEITLSISILESLSEYCINNVEELMKAPRHDSEYGDMIQKYV LVMTHTLSGSSLLFDPDFNKYRTQSNLSYREKLILLKNIRENNCDPQELDIDIEQIRSGKDDEDYIESKDIEAGLNAGVS DVVQLRDEFPDELIVDEEVVSEMPSGVNTPIAGTHGTDNSAMSSDLAFRDLDIYTCNYYFGNTTEEKLQNPQYLQVHRVR ARIGHFFHKLYVFLSTNFENNTNMFQILLHGLKVWFTDLGQETVFNEDPNAFIDVDFLENVQSLSHVNEPFTRTNFAIRA NSLHQSRVLLHSTNRKASKLENLLLVDIIQLATSLYPDIYKPAQGTLVHCMKQLVGSYGVVINKIIPSLEKAIKDHDYMK IQVILNVLLIKKIHRKLMTDYKDIGRLIFLLIECCRVNELEIGMYADKILTDIVIGIKIPSSVCVISDQAFLPLAPPDGT INLQVEAVKLAKKKKREYYLSLLVDLQDKLLDKLDNEKDMGWKIRMFILRFVTQIQSNLESKPDKRAVFSIISQISTKHP EIIHLVVKSLLSTCNKIISLSDYEYDITRAYKNEFNPSFVEILDTSTTSFPKTFTEEMNNFDNPKYFIDLRAYVGWLCWG RLMYVMSPKALKLNLRENELEVLKTAGHLLTREFLRDVTMNLVQDNETRGVFSSGNVSFFSLVILLISSGFCELNMSDLF ELCESYYNKDDKASMIMSVEIVAGLVCGSKFMSVSDLDKRDTFIENFLAKCLDYELNHDAFEIWSTLAWWLPAVVDLRRS KTFFCHFINADGMFDRESDAATHQTSKIYMLRSILMSMEFRAPDVGKLFDELVFDHPYDQVRQAVAKLLTTLVQNQSNPS ISDPTTLLEAERNDPDGLGLPLKSVPEKVDAYIKKQFEIIKNLEDSVVGLNPQQFIKTDYFYRTSTIFYWIKEMARGPNK VLLVPYLVDYVLPFLIGLVKHKDVCALASLDPVRLYAGLGYMPIRKNHVAAIVDYVCSSNVALSSNQTKLQLAFIQHFLS AELLQLTEEEKNKILEFVVSNLYNEQFVEVRVRAASILSDIVHNWKEEQPLLSLIERFAKGLDVNKYTSKERQKLSKTDI KIHGNVLGLGAIISAFPYVFPLPPWIPKQLSNLSSWARTSGMTGQAAKNTISEFKKVRADTWKFDRASFNTEELEDLEGV LWRSYYA P43583 Proteasome subunit alpha type-5 Saccharomyces cerevisiae S288C 0.028649085999999997 2 LEVO MFLTRSEYDRGVSTFSPEGRLFQVEYSLEAIKLGSTAIGIATKEGVVLGVEKRATSPLLESDSIEKIVEIDRHIGCAMSG LTADARSMIEHARTAAVTHNLYYDEDINVESLTQSVCDLALRFGEGASGEERLMSRPFGVALLIAGHDADDGYQLFHAEP SGTFYRYNAKAIGSGSEGAQAELLNEWHSSLTLKEAELLVLKILKQVMEEKLDENNAQLSCITKQDGFKIYDNEKTAELI KELKEKEAAESPEEADVEMS P32379 3.4.25.1 Silencing boundary-establishment protein FUB1 Saccharomyces cerevisiae S288C 0.026780809 2 LEVO MIENKVELVAELVLESIGKTEVVSRHTEGTKSCQVSFRIKDSPSEKGSTSFLSELVVIQTLDDNDKYTVVIRHGTSITMA CVVGYSDFKLPTELKWPLERESLPVEPDLKPIMTQLKRQTAGSADMPKFDDEYQAQARQNQGTAPLNPYPGLTVTEPSFA NPAGGYADGDLYPVGTSHPDWSGGLPNPLGNPSSQGGMIFDPNRRPAPRREDMPPGWMPGSKYDEPFGPGSGGFGGSGSG GFGGSGSGFI P25659 singleParticle particle 1 7.5 50.0 Tris(hydroxymethyl)aminomethane Tris 100.0 NaCl sodium chloride 1.0 CH2N(CH2CO2H)2]2 EDTA

Sample was mixed with RvLEAMshort peptide to a final concentration of 1mg/ml sample and 30 micromolar RvLEAMshort immediately before preparation.

ETHANE 100 295.15 FEI VITROBOT MARK IV

wait time of 8 s, blot time of 12 s and a blot force of 8.

Sample was mixed with RvLEAMshort peptide to a final concentration of 1mg/ml sample and 30 micromolar RvLEAMshort immediately before preparation.

TFS KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 50.0 2.7 0.6 2.0 105000.0 FEI TITAN KRIOS AUTOGRID HOLDER NITROGEN TFS Selectris 10 TFS FALCON 4i (4k x 4k) 4096 4096 1 11278 6.32 50.253 1 2419467 CTFFIND 4.1.14-c7 PHASE FLIPPING AND AMPLITUDE CORRECTION ab intio model C1 4.1 FSC 0.143 CUT-OFF RELION 5.0.1_cu12.2 13428 MAXIMUM LIKELIHOOD RELION 5.0.1_cu12.2 MAXIMUM LIKELIHOOD RELION 5.0.1_cu12.2 RELION 5.0.1_cu12.2 emd_75334.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 480 480 480 0 0 0 480 480 480 571.2 571.2 571.2 90.0 90.0 90.0 X Y Z -0.036744982 0.057891406 0.000049482784 0.0012816825 1.19 1.19 1.19 0.00265 AUTHOR ::::EMDATABANK.org::::EMD-75334:::: Final Sharpened for 20S Alpha 3 Deletion proteasome core particle in complex with Fub1 and Blm10 Other experimental model

Model Angelo generated

FLEXIBLE FIT REAL emd_75334_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 480 480 480 0 0 0 480 480 480 571.2 571.2 571.2 90.0 90.0 90.0 X Y Z -0.015562997 0.036841232 0.0000012501031 0.0016633235 1.19 1.19 1.19 AUTHOR ::::EMDATABANK.org::::EMD-75334:::: Final Unsharpened for 20S Alpha 3 Deletion proteasome core particle in complex with Fub1 and Blm10 emd_75334_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 480 480 480 0 0 0 480 480 480 571.2 571.2 571.2 90.0 90.0 90.0 X Y Z -0.09654841 0.10701379 0.000002312011 0.0108804125 1.19 1.19 1.19 AUTHOR ::::EMDATABANK.org::::EMD-75334:::: Half Map 2 for 20S Alpha 3 Deletion proteasome core particle in complex with Fub1 and Blm10 emd_75334_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 480 480 480 0 0 0 480 480 480 571.2 571.2 571.2 90.0 90.0 90.0 X Y Z -0.0998867 0.1091428 0.0000009910624 0.0111150695 1.19 1.19 1.19 AUTHOR ::::EMDATABANK.org::::EMD-75334:::: Half Map 1 for 20S Alpha 3 Deletion proteasome core particle in complex with Fub1 and Blm10