2026-06-24 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY EXPERIMENTAL_SUMMARY em_admin _em_admin.last_update DATABASE_REFERENCES citation citation_author _citation.journal_volume _citation.page_first _citation.page_last _citation_author.identifier_ORCID DERIVED_CALCULATIONS atom_site chem_comp_atom chem_comp_bond pdbx_struct_conn_angle pdbx_validate_torsion struct_conn _atom_site.auth_atom_id _atom_site.label_atom_id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_atom_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr2_label_atom_id DATA_COLLECTION chem_comp_atom chem_comp_bond _chem_comp_atom.atom_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.value_order STRUCTURE_SUMMARY atom_site chem_comp chem_comp_atom chem_comp_bond em_admin pdbx_entry_details pdbx_modification_feature pdbx_struct_conn_angle struct_conn _atom_site.auth_atom_id _atom_site.label_atom_id _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_update _pdbx_entry_details.has_protein_modification _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_atom_id _struct_conn.ptnr1_label_atom_id PDBe PDBe 2022-02-09 2023-02-22 2023-02-22 2026-06-24 Kay Kendall Leukaemia Fund United Kingdom Bloodwise 12048 United Kingdom Medical Research Council (MRC, United Kingdom) MC_U105161083 United Kingdom Wellcome Trust 100140 United Kingdom Pellegrino S Dent KC Spikes T Warren AJ Ribosome, rRNA modifications, post-translational modifications, cryo-EM Pellegrino S Dent KC Spikes T Warren AJ Nucleic Acids Res. UK 51 4043 4054 2023 36951107 doi:10.1093/nar/gkad194 1362-4962 0389 NARHAD EMD-14319 other EM volume EMD-14318 other EM volume 7r4x FULLOVERLAP EMDB EMD-14319 other EM volume EMDB EMD-14318 other EM volume EMDB EMD-14317 associated EM volume

Cryo-EM reconstruction of the human 40S ribosomal subunit - Full map

Human 40S ribosomal subunit Human 40S ribosomal subunit 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 Homo sapiens 60S ribosomal protein L41 Homo sapiens 0.003473451 1 LEVO MRAKWRKKRMRRLKRKRRKMRQRSK P62945 18S ribosomal RNA Homo sapiens 0.6031838749999999 1 UACCUGGUUGAUCCUGCCAGUAGCAU(A2M)UGCUUGUC(PSU)CAAAGAUUAAGCCAUGCAUGUCUAAGUACGCACGGC CGGUACAGUGAAACUGCGAA(PSU)GGCUC(A2M)UUAAA(PSU)CAG(PSU)UAUGGU(OMU)CC(PSU)U(OMU)GGU CGCUCGCUCCUCUCCCACUUGGAUAACUGUGGUA(A2M)UUCUAG(A2M)GCUAA(OMU)A(OMC)AUGCCGACGGGCGC UGACCCCCUUCGCGGGGGGGAUGCGUGCAUUUAUCAGAUCAAAACCAACCCGGUCAGCCCCUCUCCGGCCCCGGCCGGGG GGCGGGCCGCGGCGGCUUUGGUGACUC(PSU)AGAUAACCUCGGGCCGAUCGCACGCCCCCCGUGGCGGCGACGACCCAU UCGAACGUC(OMU)GCCCUAUCAACUUUCGAUGGUAGUCGCCGUGCCUACCAUGGUGACCACGGG(PSU)GACGGGGAAU CAGGGUUCGAU(OMU)CCGGAGA(OMG)GGAGCCUGAGAAACGGCUACCACAU(OMC)CAAGG(A2M)AGGCAGCAGGCG CGC(A2M)AAUUACCCACUCCCGACCCGGGGA(OMG)GU(A2M)GUGA(OMC)GAAAAAUAACAAUACAGGACUCUUUCG AGGCCCUGUAAUUGGAAUGAGUCCACU(PSU)UAA(A2M)UCCUUCCACGAGG(A2M)UCCAUUGGAG(OMG)GCAAGUC UGGUGCCAGCAGCCGCGGUAAUUCCAGCUCCAAUA(OMG)CGUA(PSU)A(PSU)UAAAGUUGCUGCAGUU(A2M)AAAA GCUCGUAG(PSU)U(OMG)GA(PSU)CUUGGGAGCGGGCGGGCGGUCCGCCGCGAGGCGAGCCACCGCCCGUCCCCGCCC CUUGCCUCUCGGCGCCCCCUCGAUGCUCUUAGCUGAGUGUCCCGCGGGGCCCGAAGCGUUUACUUUGAAAAAA(PSU) (PSU)AGAGUG(PSU)UCAAAGCAGGCCCGAGCCGCCUGGAUACCGCAGCUAGGAA(PSU)AAUGGAAUAGGACCGCGGU UCUAUUUUGUUGGUUUUCGGAACUGAGGCCAUGAUUAAGAGGGACGGCCGGGGGCAUUCGUAUUGCGCCGCUAGAGGUGA AAUUCUUGGACCGGCGCAAGACGGACCAGAGCGAAAGCAUUUGCCAAGAAUGUUUUCAUUAAUCAAGA(A2M)CGAAAGU CGGAGG(PSU)(PSU)CGAAGACGA(PSU)CAGAUACCGUCGUAGUUCCGACCA(PSU)AAACGAUGCCGACUGGCGAUG CGGCGGCGUUAUUCCCAUGACCCGCCGGGCAGC(PSU)UCCGGGAAACCAAAGUCUUUGGGUUCCGGGGGGAGUA(PSU) GG(PSU)UGCAAAGCUGAAACUUAAAGGAAUUGACGGAAGGGCACCACCAGGAGUGGAGCC(PSU)GCGGC(PSU)UAAU U(PSU)GAC(B8N)CAACACGGGAAACCUCACCCGGC(OMC)CGGACACGGACAGGA(OMU)UGACAGAUUGAUAGCUCU UUCUCGAUUCCGUGGGUGG(OMU)G(OMG)UGCAUGGC(4AC)GUUCUUAGU(PSU)GGUGGAGCGAUUUGUCUGGUUAA UUCCGAUAACGA(A2M)CGAGACU(OMC)UGGCAUGCUAACUAGUUACGCGACCCCCGAGCGGUCGGCGUCCCCCAACU (OMU)CU(PSU)A(OMG)AGGGACAAGUGGCGUUCAGCCACCCGAGAUUGAGCAAUAACA(OMG)GUCUGUGAUGCCCUU AGAUGUCCGGGGCUGCACGCGCGCUACACUGACUGGCUCAGCGUGUGCCUACCCUACGCCGGCAGGCGCGGGUAACCCGU UGAACCCCAUUCGUGAUGGGGAUCGGGGAUUGCAAUUAU(PSU)CCCCAUGAACGAG(7MG)AAU(PSU)CCCAGUAAGU GCGGGUCAUAAGCUUGCGUUGAUU(A2M)AGUCCCUGCCCUU(PSU)GUACACACCG(OMC)CCGUCGCUACUACCGAUU GGAUGGUUUAGUGAGGCCCUCGGAUCGGCCCCGCCGGGGUCGGCCCACGCCCUGGCGGAGCGCUGAGAAGACGGUCGAAC UUGACUAUCUAGAGGAAGUAAAAGUCGUA(6MZ)CAAGGUUUC(4AC)GUAGGUG(MA6)(MA6)CCUGCGGAAGGAUCA UUA 40S ribosomal protein S3a Homo sapiens 0.030002061 1 LEVO MAVGKNKRLTKGGKKGAKKKVVDPFSKKDWYDVKAPAMFNIRNIGKTLVTRTQGTKIASDGLKGRVFEVSLADLQNDEVA FRKFKLITEDVQGKNCLTNFHGMDLTRDKMCSMVKKWQTMIEAHVDVKTTDGYLLRLFCVGFTKKRNNQIRKTSYAQHQQ VRQIRKKMMEIMTREVQTNDLKEVVNKLIPDSIGKDIEKACQSIYPLHDVFVRKVKMLKKPKFELGKLMELHGEGSSSGK ATGDETGAKVERADGYEPPVQESV P61247 40S ribosomal protein S3 Homo sapiens 0.026729368999999996 1 LEVO MAVQISKKRKFVADGIFKAELNEFLTRELAEDGYSGVEVRVTPTRTEIIILATRTQNVLGEKGRRIRELTAVVQKRFGFP EGSVELYAEKVATRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFIMESGAKGCEVVVSGKLRGQRAKSMKFVDGLMIHS GDPVNYYVDTAVRHVLLRQGVLGIKVKIMLPWDPTGKIGPKKPLPDHVSIVEPKDEILPTTPISEQKGGKPEPPAMPQPV PTA P23396 4.2.99.18 40S ribosomal protein S4, X isoform Homo sapiens 0.029654868999999997 1 LEVO MARGPKKHLKRVAAPKHWMLDKLTGVFAPRPSTGPHKLRECLPLIIFLRNRLKYALTGDEVKKICMQRFIKIDGKVRTDI TYPAGFMDVISIDKTGENFRLIYDTKGRFAVHRITPEEAKYKLCKVRKIFVGTKGIPHLVTHDARTIRYPDPLIKVNDTI QIDLETGKITDFIKFDTGNLCMVTGGANLGRIGVITNRERHPGSFDVVHVKDANGNSFATRLSNIFVIGKGNKPWISLPR GKGIRLTIAEERDKRLAAKQSSG P62701 40S ribosomal protein S5 Homo sapiens 0.022913453 1 LEVO MTEWETAAPAVAETPDIKLFGKWSTDDVQINDISLQDYIAVKEKYAKYLPHSAGRYAAKRFRKAQCPIVERLTNSMMMHG RNNGKKLMTVRIVKHAFEIIHLLTGENPLQVLVNAIINSGPREDSTRIGRAGTVRRQAVDVSPLRRVNQAIWLLCTGARE AAFRNIKTIAECLADELINAAKGSSNSYAIKKKDELERVAKSNR P46782 40S ribosomal protein S7 Homo sapiens 0.022168914 1 LEVO MFSSSAKIVKPNGEKPDEFESGISQALLELEMNSDLKAQLRELNITAAKEIEVGGGRKAIIIFVPVPQLKSFQKIQVRLV RELEKKFSGKHVVFIAQRRILPKPTRKSRTKNKQKRPRSRTLTAVHDAILEDLVFPSEIVGKRIRVKLDGSRLIKVHLDK AQQNNVEHKVETFSGVYKKLTGKDVNFEFPEFQL P62081 40S ribosomal protein S8 Homo sapiens 0.024263386999999997 1 LEVO MGISRDNWHKRRKTGGKRKPYHKKRKYELGRPAANTKIGPRRIHTVRVRGGNKKYRALRLDVGNFSWGSECCTRKTRIID VVYNASNNELVRTKTLVKNCIVLIDSTPYRQWYESHYALPLGRKKGAKLTPEEEEILNKKRSKKIQKKYDERKKNAKISS LLEEQFQQGKLLACIASRPGQCGRADGYVLEGKELEFYLRKIKARKGK P62241 40S ribosomal protein S10 Homo sapiens 0.018933846 1 LEVO MLMPKKNRIAIYELLFKEGVMVAKKDVHMPKHPELADKNVPNLHVMKAMQSLKSRGYVKEQFAWRHFYWYLTNEGIQYLR DYLHLPPEIVPATLRRSRPETGRPRPKGLEGERPARLTRGEADRDTYRRSAVPPGADKKAEAGAGSATEFQFRGGFGRGR GQPPQ P46783 40S ribosomal protein S11 Homo sapiens 0.018468826 1 LEVO MADIQTERAYQKQPTIFQNKKRVLLGETGKEKLPRYYKNIGLGFKTPKEAIEGTYIDKKCPFTGNVSIRGRILSGVVTKM KMQRTIVIRRDYLHYIRKYNRFEKRHKNMSVHLSPCFRDVQIGDIVTVGECRPLSKTVRFNVLKVTKAAGTKKQFQKF P62280 40S ribosomal protein S15 Homo sapiens 0.017076206999999996 1 LEVO MAEVEQKKKRTFRKFTYRGVDLDQLLDMSYEQLMQLYSARQRRRLNRGLRRKQHSLLKRLRKAKKEAPPMEKPEVVKTHL RDMIILPEMVGSMVGVYNGKTFNQVEIKPEMIGHYLGEFSITYKPVKHGRPGIGATHSSRFIPLK P62841 40S ribosomal protein S16 Homo sapiens 0.016477377 1 LEVO MPSKGPLQSVQVFGRKKTATAVAHCKRGNGLIKVNGRPLEMIEPRTLQYKLLEPVLLLGKERFAGVDIRVRVKGGGHVAQ IYAIRQSISKALVAYYQKYVDEASKKEIKDILIQYDRTLLVADPRRCESKKFGGPGARARYQKSYR P62249 40S ribosomal protein S17 Homo sapiens 0.015578156000000001 1 LEVO MGRVRTKTVKKAARVIIEKYYTRLGNDFHTNKRVCEEIAIIPSKKLRNKIAGYVTHLMKRIQRGPVRGISIKLQEEERER RDNYVPEVSALDQEIIEVDPDTKEMLKLLDFGSLSNLQVTQPTVGMNFKTPRGPV P08708 40S ribosomal protein S18 Homo sapiens 0.017759776999999997 1 LEVO MSLVIPEKFQHILRVLNTNIDGRRKIAFAITAIKGVGRRYAHVVLRKADIDLTKRAGELTEDEVERVITIMQNPRQYKIP DWFLNRQKDVKDGKYSQVLANGLDNKLREDLERLKKIRAHRGLRHFWGLRVRGQHTKTTGRRGRTVGVSKKK P62269 40S ribosomal protein S19 Homo sapiens 0.016091562 1 LEVO MPGVTVKDVNQQEFVRALAAFLKKSGKLKVPEWVDTVKLAKHKELAPYDENWFYTRAASTARHLYLRGGAGVGSMTKIYG GRQRNGVMPSHFSRGSKSVARRVLQALEGLKMVEKDQDGGRKLTPQGQRDLDRIAGQVAAANKKH P39019 40S ribosomal protein S20 Homo sapiens 0.013398763000000001 1 LEVO MAFKDTGKTPVEPEVAIHRIRITLTSRNVKSLEKVCADLIRGAKEKNLKVKGPVRMPTKTLRITTRKTPCGEGSKTWDRF QMRIHKRLIDLHSPSEIVKQITSISIEPGVEVEVTIADA P60866 40S ribosomal protein S21 Homo sapiens 0.009166425999999998 1 LEVO (AME)QNDAGEFVDLYVPRKCSASNRIIGAKDHASIQMNVAEVDKVTGRFNGQFKTYAICGAIRRMGESDDSILRLAKAD GIVSKNF P63220 40S ribosomal protein S23 Homo sapiens 0.015860666 1 LEVO MGKCRGLRTARKLRSHRRDQKWHDKQYKKAHLGTALKANPFGGASHAKGIVLEKVGVEAKQ(HY3)NSAIRKCVRVQLIK NGKKITAFVPNDGCLNFIEENDEVLVAGFGRKGHAVGDIPGVRFKVVKVANVSLLALYKGKKERPRS A0A4W2DI10 40S ribosomal protein S26 Homo sapiens 0.013047531999999999 1 LEVO MTKKRRNNGRAKKGRGHVQPIRCTNCARCVPKDKAIKKFVIRNIVEAAAVRDISEASVFDAYVLPKLYVKLHYCVSCAIH SKVVRNRSREARKDRTPPPRFRPAGAAPRPPPKPM P62854 40S ribosomal protein S28 Homo sapiens 0.007855052 1 LEVO MDTSRVQPIKLARVTKVLGRTGSQGQCTQVRVEFMDDTSRSIIRNVKGPVREGDVLTLLESEREARRLR P62857 40S ribosomal protein S29 Homo sapiens 0.006690821 1 LEVO MGHQQLYWSHPRKFGQGSRSCRVCSNRHGLIRKYGLNMCRQCFRQYAKDIGFIKLD P62273 40S ribosomal protein S2 Homo sapiens 0.031376516 1 LEVO MADDAGAAGGPGGPGGPGMGNRGGFRGGFGSGIRGRGRGRGRGRGRGRGARGGKAEDKEWMPVTKLGRLVKDMKIKSLEE IYLFSLPIKESEIIDFFLGASLKDEVLKIMPVQKQTRAGQRTRFKAFVAIGDYNGHVGLGVKCSKEVATAIRGAIILAKL SIVPVRRGYWGNKIGKPHTVPCKVTGRCGSVLVRLIPAPRGTGIVSAPVPKKLLMMAGIDDCYTSARGCTATLGNFAKAT FDAISKTYSYLTPDLWKETVFTKSPYQEFTDHLVKTHTRVSVQRTQAPAVATT P15880 40S ribosomal protein S6 Homo sapiens 0.028751905999999997 1 LEVO MKLNISFPATGCQKLIEVDDERKLRTFYEKRMATEVAADALGEEWKGYVVRISGGNDKQGFPMKQGVLTHGRVRLLLSKG HSCYRPRRTGERKRKSVRGCIVDANLSVLNLVIVKKGEKDIPGLTDTTVPRRLGPKRASRIRKLFNLSKEDDVRQYVVRK PLNKEGKKPRTKAPKIQRLVTPRVLQHKRRRIALKKQRTKKNKEEAAEYAKLLAKRMKEAKEKRQEQIAKRRRLSSLRAS TSKSESSQK P62753 40S ribosomal protein S9 Homo sapiens 0.022641563999999996 1 LEVO MPVARSWVCRKTYVTPRRPFEKSRLDQELKLIGEYGLRNKREVWRVKFTLAKIRKAARELLTLDEKDPRRLFEGNALLRR LVRIGVLDEGKMKLDYILGLKIEDFLERRLQTQVFKLGLAKSIHHARVLIRQRHIRVRKQVVNIPSFIVRLDSQKHIDFS LRSPYGGGRPGRVKRKNAKKGQGGAGAGDDEEED P46781 40S ribosomal protein S12 Homo sapiens 0.014538986999999998 1 LEVO MAEEGIAAGGVMDVNTALQEVLKTALIHDGLARGIREAAKALDKRQAHLCVLASNCDEPMYVKLVEALCAEHQINLIKVD DNKKLGEWVGLCKIDREGKPRKVVGCSCVVVKDYGKESQAKDVIEEYFKCKK P25398 40S ribosomal protein S13 Homo sapiens 0.017259389 1 LEVO MGRMHAPGKGLSQSALPYRRSVPTWLKLTSDDVKEQIYKLAKKGLTPSQIGVILRDSHGVAQVRFVTGNKILRILKSKGL APDLPEDLYHLIKKAVAVRKHLERNRKDKDAKFRLILIESRIHRLARYYKTKRVLPPNWKYESSTASALVA P62277 40S ribosomal protein S14 Homo sapiens 0.016302772 1 LEVO MAPRKGKEKKEEQVISLGPQVAEGENVFGVCHIFASFNDTFVHVTDLSGKETICRVTGGMKVKADRDESSPYAAMLAAQD VAQRCKELGITALHIKLRATGGNRTKTPGPGAQSALRALARSGMKIGRIEDVTPIPS(IAS)STRRKGGRRGRRL P62263 40S ribosomal protein S15a Homo sapiens 0.014865554999999999 1 LEVO MVRMNVLADALKSINNAEKRGKRQVLIRPCSKVIVRFLTVMMKHGYIGEFEIIDDHRAGKIVVNLTGRLNKCGVISPRFD VQLKDLEKWQNNLLPSRQFGFIVLTTSAGIMDHEEARRKHTGGKILGFFF P62244 40S ribosomal protein S24 Homo sapiens 0.015463333 1 LEVO MNDTVTIRTRKFMTNRLLQRKQMVIDVLHPGKATVPKTEIREKLAKMYKTTPDVIFVFGFRTHFGGGKTTGFGMIYDSLD YAKKNEPKHRLARHGLYEKKKTSRKQRKERKNRMKKVRGTAKANVGAGKKPKE P62847 40S ribosomal protein S25 Homo sapiens 0.013776224 1 LEVO MPPKDDKKKKDAGKSAKKDKDPVNKSGGKAKKKKWSKGKVRDKLNNLVLFDKATYDKLCKEVPNYKLITPAVVSERLKIR GSLARAALQELLSKGLIKLVSKHRAQVIYTRNTKGGDAPAAGEDA P62851 40S ribosomal protein S27 Homo sapiens 0.009480186 1 LEVO MPLAKDLLHPSPEEEKRKHKKKRLVQSPNSYFMDVKCPGCYKITTVFSHAQTVVLCVGCSTVLCQPTGGKARLTEGCSFR RKQH P42677 40S ribosomal protein S30 Homo sapiens 0.006668938 1 LEVO KVHGSLARAGKVRGQTPKVAKQEKKKKKTGRAKRRMQYNRRFVNVVPTFGKKKGPNANS P62861 Ubiquitin-40S ribosomal protein S27a Homo sapiens 0.018004041000000002 1 LEVO MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGAKKR KKKSYTTPKKNKHKRKKVKLAVLKYYKVDENGKISRLRRECPSDECGAGVFMASHFDRHYCGKCCLTYCFNKPEDK P62979 Receptor of activated protein C kinase 1 Homo sapiens 0.035115652 1 LEVO MTEQMTLRGTLKGHNGWVTQIATTPQFPDMILSASRDKTIIMWKLTRDETNYGIPQRALRGHSHFVSDVVISSDGQFALS GSWDGTLRLWDLTTGTTTRRFVGHTKDVLSVAFSSDNRQIVSGSRDKTIKLWNTLGVCKYTVQDESHSEWVSCVRFSPNS SNPIIVSCGWDKLVKVWNLANCKLKTNHIGHTGYLNTVTVSPDGSLCASGGKDGQAMLWDLNEGKHLYTLDGGDIINALC FSPNRYWLCAATGPSIKIWDLEGKIIVDELKQEVISTSSKAEPPQCTSLAWSADGQTLFAGYTDNLVRVWQVTIGTR P63244 40S ribosomal protein SA Homo sapiens 0.032925973 1 LEVO M(SAC)GALDVLQMKEEDVLKFLAAGTHLGGTNLDFQMEQYIYKRKSDGIYIINLKRTWEKLLLAARAIVAIENPADVSV ISSRNTGQRAVLKFAAATGATPIAGRFTPGTFTNQIQAAFREPRLLVVTDPRADHQPLTEASYVNLPTIALCNTDSPLRY VDIAIPCNNKGAHSVGLMWWMLAREVLRMRGTISREHPWEVMPDLYFYRDPEEIEKEEQAAAEKAVTKEEFQGEWTAPAP EFTATQPEVADWSEGVQVPSVPIQQFPTEDWSAQPATEDWSAAPTAQATEWVGATTDWS P08865 POTASSIUM ION 3.9098e-05 82 K MAGNESIUM ION 2.4305e-05 88 MG ZINC ION 6.5409e-05 3 ZN water 1.8015e-05 4117 HOH singleParticle particle 7.5 Quantifoil R2/2 COPPER 300 CARBON CONTINUOUS 2.0 ETHANE 100 277 FEI VITROBOT MARK IV FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 1.0 2.8000000000000003 GATAN K3 (6k x 4k) 40.56 1 546717 CTFFIND PHASE FLIPPING AND AMPLITUDE CORRECTION 2.15 FSC 0.143 CUT-OFF RELION 474276 MAXIMUM LIKELIHOOD RELION MAXIMUM LIKELIHOOD RELION