2026-07-01RELRCSBINITIAL_RELEASEREPOSITORYINITIAL_RELEASEREPOSITORYINITIAL_RELEASEREPOSITORYINITIAL_RELEASEREPOSITORYINITIAL_RELEASEREPOSITORYINITIAL_RELEASEREPOSITORYINITIAL_RELEASEREPOSITORYINITIAL_RELEASEREPOSITORYOTHERem_adminpdbx_SG_projectpdbx_database_status_em_admin.last_update_pdbx_database_status.SG_entryEXPERIMENTAL_SUMMARYem_admin_em_admin.last_updateDATA_COLLECTIONchem_compchem_comp_atomchem_comp_bondem_admin_chem_comp.mon_nstd_flag_chem_comp_atom.atom_id_chem_comp_bond.atom_id_1_chem_comp_bond.atom_id_2_em_admin.last_updateEXPERIMENTAL_SUMMARYem_admin_em_admin.last_updateRCSBRCSB2025-03-112025-06-112025-06-112026-07-01Howard Hughes Medical Institute (HHMI)United StatesSARS-CoV-2 nsp1 bound to the Rhinolophus lepidus 40S ribosome (local refinement of the 40S head)Gen RSeattle Structural Genomics Center for Infectious Disease (SSGCID)Veesler DSARS-CoV-2, RIBOSOME, Seattle Structural Genomics Center for Infectious Disease, SSGCIDGen RAddetia AAsarnow DPark YJQuispe JChan MCBrown JTLee JCampbell MGLapointe CPVeesler DSARS-CoV-2 nsp1 mediates broad inhibition of translation in mammals.Cell RepUS44115696115696202540359110doi:10.1016/j.celrep.2025.1156962211-1247EMD-49635focused EM volume9npyFULLOVERLAPEMDBEMD-49635focused EM volumeEMDBEMD-49636associated EM volumeSARS-CoV-2 nsp1 bound to the Rhinolophus lepidus 40S ribosomeSARS-CoV-2 nsp1-Rhinolophus lepidus ribosome complex, head mapSARS-CoV-2 nsp1-Rhinolophus lepidus ribosome complex, head map012345678910111213141516Rhinolophus lepidus ribosome112345678910111213141516Rhinolophus lepidusSARS-CoV-2 nsp11Severe acute respiratory syndrome coronavirus 2Eukaryotic translation initiation factor 11Homo sapiens40S ribosomal protein uS3, RPS3Rhinolophus lepidus0.0267153441LEVOMAVQISKKRKFVADGIFKAELNEFLTRELAEDGYSGVEVRVTPTRTEIIILATRTQNVLGEKGRRIRELTAVVQKRFGFP
EGSVELYAEKVATRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVVVSGKLRGQRAKSMKFVDGLMIHS
GDPVNYYVDTAVRHVLLRQGVLGIKVKIMLPWDPSGKIGPKKPLPDHVSIVEPKDEILPTTPISEQKGGKPEPPAMPQPV
PTA40S ribosomal protein eS10, RPS10Rhinolophus lepidus0.0189338461LEVOMLMPKKNRIAIYELLFKEGVMVAKKDVHMPKHPELADKNVPNLHVMKAMQSLKSRGYVKEQFAWRHFYWYLTNEGIQYLR
DYLHLPPEIVPATLRRSRPETGRPRPKGLEGERPARLTRGEADRDTYRRSAVPPGADKKAEAGAGSATEFQFRGGFGRGR
GQPPQ40S ribosomal protein eS12, RPS12Rhinolophus lepidus0.0145389869999999981LEVOMAEEGIAAGGVMDVNTALQEVLKTALIHDGLARGIREAAKALDKRQAHLCVLASNCDEPMYVKLVEALCAEHQINLIKVD
DNKKLGEWVGLCKIDREGKPRKVVGCSCVVVKDYGKESQAKDVIEEYFKCKK40S ribosomal protein uS19, RPS15Rhinolophus lepidus0.0170762069999999961LEVOMAEVEQKKKRTFRKFTYRGVDLDQLLDMSYEQLMQLYSARQRRRLNRGLRRKQHSLLKRLRKAKKEAPPMEKPEVVKTHL
RDMIILPEMVGSMVGVYNGKTFNQVEIKPEMIGHYLGEFSITYKPVKHGRPGIGATHSSRFIPLK40S ribosomal protein uS9, RPS16Rhinolophus lepidus0.0164773771LEVOMPSKGPLQSVQVFGRKKTATAVAHCKRGNGLIKVNGRPLEMIEPRTLQYKLLEPVLLLGKERFAGVDIRVRVKGGGHVAQ
IYAIRQSISKALVAYYQKYVDEASKKEIKDILIQYDRTLLVADPRRCESKKFGGPGARARYQKSYR40S ribosomal protein eS17, RPS17Rhinolophus lepidus0.0155521191LEVOMGRVRTKTVKKAARVIIEKYYTRLGNDFHTNKRVCEEIAIIPSKKLRNKIAGYVTHLMKRIQRGPVRGISIKLQEEERER
RDNYVPEVSALDQEIIEVDPDTKEMLKLLDFGSLSNLQVTQPTVGMNFKTPRGAV40S ribosomal protein uS13, RPS18Rhinolophus lepidus0.0177597769999999971LEVOMSLVIPEKFQHILRVLNTNIDGRRKIAFAITAIKGVGRRYAHVVLRKADIDLTKRAGELTEDEVERVITIMQNPRQYKIP
DWFLNRQKDVKDGKYSQVLANGLDNKLREDLERLKKIRAHRGLRHFWGLRVRGQHTKTTGRRGRTVGVSKKK40S ribosomal protein eS19, RPS19Rhinolophus lepidus0.0161045789999999971LEVOMPGVTVKDVNQQEFVRALAAFLKKSGKLKVPEWVDTVKLAKHKELAPYDENWFYTRAASTARHLYL(NMM)GGAGVGSMT
KIYGGRQRNGVMPSHFSRGSKSVARRVLQALEGLKMVEKDQDGGRKLTPQGQRDLDRIAGQVAAANKKH40S ribosomal protein uS10, RPS20Rhinolophus lepidus0.0133987630000000011LEVOMAFKDTGKTPVEPEVAIHRIRITLTSRNVKSLEKVCADLIRGAKEKNLKVKGPVRMPTKTLRITTRKTPCGEGSKTWDRF
QMRIHKRLIDLHSPSEIVKQITSISIEPGVEVEVTIADA40S ribosomal protein eS25, RPS25Rhinolophus lepidus0.0137762241LEVOMPPKDDKKKKDAGKSAKKDKDPVNKSGGKAKKKKWSKGKVRDKLNNLVLFDKATYDKLCKEVPNYKLITPAVVSERLKIR
GSLARAALQELLSKGLIKLVSKHRAQVIYTRNTKGGDAPAAGEDA40S ribosomal protein eS31, RPS27aRhinolophus lepidus0.0180040410000000021LEVOMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGAKKR
KKKSYTTPKKNKHKRKKVKLAVLKYYKVDENGKISRLRRECPSDECGAGVFMASHFDRHYCGKCCLTYCFNKPEDK40S ribosomal protein eS28, RPS28Rhinolophus lepidus0.0078550521LEVOMDTSRVQPIKLARVTKVLGRTGSQGQCTQVRVEFMDDTSRSIIRNVKGPVREGDVLTLLESEREARRLR40S ribosomal protein uS14, RPS29Rhinolophus lepidus0.0066908211LEVOMGHQQLYWSHPRKFGQGSRSCRVCSNRHGLIRKYGLNMCRQCFRQYAKDIGFIKLD18S ribosomal RNARhinolophus lepidus0.60361118799999991UACCUGGUUGAUCCUGCCAGUAGCAU(A2M)UGCUUG(PSU)C(PSU)CAAAGAUUAAGCCAUGCAUGUCUAAGUACGCA
CGGCUGGUACAGUGAAACUGCGAA(PSU)GGCUC(A2M)UUAAA(PSU)CAG(PSU)UAUGGU(OMU)CC(PSU)U
(OMU)GGUCGCUCGCUCCUCUCCUACUUGGAUAACUGUGGUA(A2M)UUCUAG(A2M)GCUAA(OMU)A(OMC)AUGCCG
ACGGGCGCUGACCCCCCUCGCGGGGGGGAUGCGUGCA(PSU)UUAUCAGAUCAAAACCAACCCGGUCAGCCUCCCCUCGG
CCCCGGCCGGGGGGCGGGCGCCGGCGGCUUUGGUGACUCUAGAUAACCUCGGGCCGAUCGCACGCCCCCCGUGGCGGCGA
CGACCCAUUCGAACGUC(OMU)GCCCUAUCAACUUUCGAUGGUAGUCGCCGUGCCUACCAUGGUGACCACGGG(PSU)GA
CGGGGAAUCAGGGUUCGAU(OMU)CCGGAGA(OMG)GGAGCCUGAGAAACGGCUACCACAU(OMC)CAAGG(A2M)AGGC
AGCAGGCGCGC(A2M)AAUUACCCACUCCCGACCCGGGGA(OMG)GU(A2M)GUGA(OMC)GAAAAAUAACAAUACAGGA
CUCUUUCGAGGCCCUGUAAUUGGAAUGAGUCCACU(PSU)UAA(A2M)UCCUUUAACGAGG(A2M)UCCAUUGGAG
(OMG)GCAAGUC(PSU)GGUGCCAGCAGCCGCGG(OMU)AAUUCCAGCUCCAAUA(OMG)CGUA(PSU)A(PSU)UAAAG
UUGCUGCAGUU(A2M)AAAAGCUCGUAG(PSU)U(OMG)GA(PSU)CUUGGGAGCGGGCGGGCGGUCCGCCGCGAGGCGA
GCCACCGCCCGUCCCCGCCCCUUGCCUCUCGGCGCCCCCUCGAUGCUCUUAGCUGAGUGUCCCGCGGGGCCCGAAG
(OMC)G(OMU)UUACUUUGAAAAAA(PSU)(PSU)AGAGUG(PSU)UCAAAGCAGGCCCGAGCCGCCUGGAUACCGCAGC
UAGGAA(PSU)AA(PSU)GGAAUAGGACCGCGGUUCUAUUUUGUUGGUUUUCGGAACUGAGGCCAUGAUUAAGAGGGACG
GCCGGGGGCAUUCGUAUUGCGCCGCUAGAGGUGAAAU(PSU)CUUGGACCGGCGCAAGACGGACCAGAGCGAAAGCAUU
(PSU)GCCAAGAAUGUUUUCAUUAAUCAAGA(A2M)CGAAAGUCGGAGG(PSU)(PSU)CGAAGACGA(PSU)CAGAUAC
CGUCGUAGUUCCGACCA(PSU)AAACGAUGCCGACUGGCGAUGCGGCGGCGUUAUUCCCAUGACCCGCCGGGCAGC
(PSU)UCCGGGAAACCAAAGUCUUUGGGUUCCGGGGGGAGUA(PSU)GG(PSU)UGCAAAGCUGAAACUUAAAGGAAUUG
ACGGAAGGGCACCACCAGGAGUGGAGCC(PSU)GCGGC(PSU)UAAUU(PSU)GAC(B8N)CAACACGGGAAACCUCACC
CGGC(OMC)CGGACACGGACAGGA(OMU)UGACAGAUUGAUAGCUCUUUUUCGAUUCCGUGGGUGG(OMU)G(OMG)UGC
AUGGC(4AC)GUUCUUAGU(PSU)GGUGGAGCGAUUUGUCUGG(PSU)UAAUUCCGAUAACGA(A2M)CGAGACU(OMC)
UGGCAUGCUAACUAGUUACGCGACCCCCGAGCGGUCGGCGUCCCCCAACU(OMU)CU(PSU)A(OMG)AGGGACAAGUGG
CGUUCAGCCACCCGAGAUUGAGCAAUAACA(OMG)GUCUGUGAUGCCCUUAGAUGUCCGGGGCUGCACGCGCGCUACACU
GACUGGCUCAGCGUGUGCCUACCCUACGCCGGCAGGCGCGGGUAACCCGUUGAACCCCAUUCGUGAUGGGGAUCGGGGAU
UGCAAUUAUUCCCCAUGAACGAG(G7M)AAUUCCCAGUAAGUGCGGGUCAUAAGCUUGCGUUGAUU(A2M)AGUCCCUGC
CCUU(PSU)GUACACACCG(OMC)CCGUCGCUACUACCGAUUGGAUGGUUUAGUGAGGCCCUCGGAUCGGCCCCGCCGGG
GUCGGCCCACGGCCCUGGCGGAGCGCUGAGAAGACGGUCGAACU(OMU)GACUAUCUAGAGGAAGUAAAAGUCGUA
(6MZ)CAAGGUUUC(4AC)GUAGGUG(MA6)(MA6)CCUGCGGAAGGAUCAUUA40S ribosomal protein uS7, RPS5Rhinolophus lepidus0.0229134531LEVOMTEWETAAPAVAETPDIKLFGKWSTDDVQINDISLQDYIAVKEKYAKYLPHSAGRYAAKRFRKAQCPIVERLTNSMMMHG
RNNGKKLMTVRIVKHAFEIIHLLTGENPLQVLVNAIINSGPREDSTRIGRAGTVRRQAVDVSPLRRVNQAIWLLCTGARE
AAFRNIKTIAECLADELINAAKGSSNSYAIKKKDELERVAKSNRRACK1Rhinolophus lepidus0.0351156521LEVOMTEQMTLRGTLKGHNGWVTQIATTPQFPDMILSASRDKTIIMWKLTRDETNYGIPQRALRGHSHFVSDVVISSDGQFALS
GSWDGTLRLWDLTTGTTTRRFVGHTKDVLSVAFSSDNRQIVSGSRDKTIKLWNTLGVCKYTVQDESHSEWVSCVRFSPNS
SNPIIVSCGWDKLVKVWNLANCKLKTNHIGHTGYLNTVTVSPDGSLCASGGKDGQAMLWDLNEGKHLYTLDGGDIINALC
FSPNRYWLCAATGPSIKIWDLEGKIIVDELKQEVISTSSKAEPPQCTSLAWSADGQTLFAGYTDNLVRVWQVTIGTRMAGNESIUM ION2.4305e-0521MGZINC ION6.5409e-052ZNPOTASSIUM ION3.9098e-059Kwater1.8015e-05827HOHsingleParticleparticle7.4ETHANETFS KRIOSFLOOD BEAMBRIGHT FIELDFIELD EMISSION GUN3000.61.6GATAN K3 (6k x 4k)30.71NONEAb initio2.1FSC 0.143 CUT-OFF1205667PROJECTION MATCHINGPROJECTION MATCHINGemd_49636_additional_1.map.gz1IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
512
512512
0
00512512512424.448424.448424.44890.090.090.0XYZ-0.397612360.90306650.000335810760.0161231570.8290.8290.829AUTHORemd_49636_half_map_2.map.gz1IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
512
512512
0
00512512512424.448424.448424.44890.090.090.0XYZ-0.0882376950.305565950.00038056470.0123577330.8290.8290.829AUTHORemd_49636_half_map_1.map.gz1IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)