2026-09-23 REL RCSB INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY EXPERIMENTAL_SUMMARY em_admin _em_admin.last_update EXPERIMENTAL_SUMMARY em_admin _em_admin.last_update DATA_COLLECTION em_software pdbx_audit_support _em_software.name _pdbx_audit_support.funding_organization EXPERIMENTAL_PREPARATION em_sample_support em_software _em_sample_support.grid_type _em_software.name REFINEMENT_DESCRIPTION cell refine _cell.length_a _cell.length_b _cell.length_c OTHER atom_sites pdbx_audit_support _atom_sites.fract_transf_matrix[1][1] _atom_sites.fract_transf_matrix[2][1] _atom_sites.fract_transf_matrix[2][2] _atom_sites.fract_transf_matrix[3][2] _atom_sites.fract_transf_matrix[3][3] _pdbx_audit_support.funding_organization DATABASE_REFERENCES chem_comp_atom chem_comp_bond database_2 _database_2.pdbx_DOI _database_2.pdbx_database_accession STRUCTURE_SUMMARY chem_comp_atom chem_comp_bond em_admin em_entity_assembly_molwt pdbx_entry_details _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 _em_admin.last_update _em_entity_assembly_molwt.entity_assembly_id _em_entity_assembly_molwt.id DATA_COLLECTION chem_comp_atom chem_comp_bond em_admin _chem_comp_atom.atom_id _chem_comp_atom.pdbx_aromatic_flag _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.value_order _em_admin.last_update DATA_COLLECTION em_admin _em_admin.last_update RCSB RCSB 2016-12-04 2017-01-04 2017-01-11 2026-09-23 National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) R01GM120552 United States Structural Basis of Co-translational Quality Control by ArfA and RF2 Binding to Ribosome Zeng F Chen Y Ribosome, ArfA, RF2, nonstop translation Zeng F Chen Y Remis J Shekhar M Phillips JC Tajkhorshid E Jin H Structural basis of co-translational quality control by ArfA and RF2 bound to ribosome. Nature UK 541 554 557 2017 28077875 doi:10.1038/nature21053 1476-4687 0006 NATUAS EMD-8505 other EM volume 5u4j FULLOVERLAP EMDB EMD-8505 other EM volume EMDB EMD-8506 associated EM volume PDB 5U4I unspecified Non-stop ribosomal complex with ArfA and RF2 Non-stop ribosomal complex with ArfA and RF2 0 1 2 3 4 5 6 7 8 9 10 Escherichia coli 30S subunit 1 1 3 4 5 8 Escherichia coli 50S subunit 1 2 Escherichia coli Alternative ribosome-rescue factor A 1 10 Escherichia coli 6.35 Peptide chain release factor 2 1 9 Escherichia coli 40.13 P-site tRNA fMet 1 7
P-site tRNA (fMet) was in vitro transcribed.
Escherichia coli mRNA 1 6 23S rRNA 3 2 Escherichia coli 16S rRNA 2 1 Escherichia coli 30S ribosomal protein S3 2 3 Escherichia coli 30S ribosomal protein S4 2 4 Escherichia coli 30S ribosomal protein S5 2 Escherichia coli 30S ribosomal protein S12 2 Escherichia coli 16S rRNA Escherichia coli MRE600 0.49707581199999995 1 AAUUGAAGAGUUUGAUCAUGGCUCAGAUUGAACGCUGGCGGCAGGCCUAACACAUGCAAGUCGAACGGUAACAGGAAGAA GCUUGCUUCUUUGCUGACGAGUGGCGGACGGGUGAGUAAUGUCUGGGAAACUGCCUGAUGGAGGGGGAUAACUACUGGAA ACGGUAGCUAAUACCGCAUAACGUCGCAAGACCAAAGAGGGGGACCUUCGGGCCUCUUGCCAUCGGAUGUGCCCAGAUGG GAUUAGCUAGUAGGUGGGGUAACGGCUCACCUAGGCGACGAUCCCUAGCUGGUCUGAGAGGAUGACCAGCCACACUGGAA CUGAGACACGGUCCAGACUCCUACGGGAGGCAGCAGUGGGGAAUAUUGCACAAUGGGCGCAAGCCUGAUGCAGCCAUGCC GCGUGUAUGAAGAAGGCCUUCGGGUUGUAAAGUACUUUCAGCGGGGAGGAAGGGAGUAAAGUUAAUACCUUUGCUCAUUG ACGUUACCCGCAGAAGAAGCACCGGCUAACUCCG(PSU)GCCAGCAGCC(G7M)CGGUAAUACGGAGGGUGCAAGCGUUA AUCGGAAUUACUGGGCGUAAAGCGCACGCAGGCGGUUUGUUAAGUCAGAUGUGAAAUCCCCGGGCUCAACCUGGGAACUG CAUCUGAUACUGGCAAGCUUGAGUCUCGUAGAGGGGGGUAGAAUUCCAGGUGUAGCGGUGAAAUGCGUAGAGAUCUGGAG GAAUACCGGUGGCGAAGGCGGCCCCCUGGACGAAGACUGACGCUCAGGUGCGAAAGCGUGGGGAGCAAACAGGAUUAGAU ACCCUGGUAGUCCACGCCGUAAACGAUGUCGACUUGGAGGUUGUGCCCUUGAGGCGUGGCUUCCGGAGCUAACGCGUUAA GUCGACCGCCUGGGGAGUACGGCCGCAAGGUUAAAACUCAAAUGAAUUGACGGGGGCCCGCACAAGCGGUGGAGCAUGUG GUUUAAUUCGAU(2MG)(5MC)AACGCGAAGAACCUUACCUGGUCUUGACAUCCACGGAAGUUUUCAGAGAUGAGAAUGU GCCUUCGGGAACCGUGAGACAGGUGCUGCAUGGCUGUCGUCAGCUCGUGUUGUGAAAUGUUGGGUUAAGUCCCGCAACGA GCGCAACCCUUAUCCUUUGUUGCCAGCGGUCCGGCCGGGAACUCAAAGGAGACUGCCAGUGAUAAACUGGAGGAAGGUGG GGAUGACGUCAAGUCAUCAUG(2MG)CCCUUACGACCAGGGCUACACACGUGCUACAAUGGCGCAUACAAAGAGAAGCGA CCUCGCGAGAGCAAGCGGACCUCAUAAAGUGCGUCGUAGUCCGGAUUGGAGUCUGCAACUCGACUCCAUGAAGUCGGAAU CGCUAGUAAUCGUGGAUCAGAAUGCCACGGUGAAUACGUUCCCGGGCCUUGUACACACCG(4OC)CCGU(5MC)ACACCA UGGGAGUGGGUUGCAAAAGAAGUAGGUAGCUUAACCUUCGGGAGGGCGCUUACCACUUUGUGAUUCAUGACUGGGGUGAA GUCG(UR3)AACAAGGUAACCGUAGG(2MG)G(MA6)(MA6)CCUGCGGUUGGAUCA CP011320.1 23S rRNA Escherichia coli MRE600 0.941790625 1 GGUUAAGCGACUAAGCGUACACGGUGGAUGCCCUGGCAGUCAGAGGCGAUGAAGGACGUGCUAAUCUGCGAUAAGCGUCG GUAAGGUGAUAUGAACCGUUAUAACCGGCGAUUUCCGAAUGGGGAAACCCAGUGUGUUUCGACACACUAUCAUUAACUGA AUCCAUAGGUUAAUGAGGCGAACCGGGGGAACUGAAACAUCUAAGUACCCCGAGGAAAAGAAAUCAACCGAGAUUCCCCC AGUAGCGGCGAGCGAACGGGGAGCAGCCCAGAGCCUGAAUCAGUGUGUGUGUUAGUGGAAGCGUCUGGAAAGGCGCGCGA UACAGGGUGACAGCCCCGUACACAAAAAUGCACAUGCUGUGAGCUCGAUGAGUAGGGCGGGACACGUGGUAUCCUGUCUG AAUAUGGGGGGACCAUCCUCCAAGGCUAAAUACUCCUGACUGACCGAUAGUGAACCAGUACCGUGAGGGAAAGGCGAAAA GAACCCCGGCGAGGGGAGUGAAAAAGAACCUGAAACCGUGUACGUACAAGCAGUGGGAGCACGCUUAGGCGUGUGACUGC GUACCUUUUGUAUAAUGGGUCAGCGACUUAUAUUCUGUAGCAAGGUUAACCGAAUAGGGGAGCCGAAGGGAAACCGAGUC UUAACUGGGCGUUAAGUUGCAGGGUAUAGACCCGAAACCCGGUGAUCUAGCCAUGGGCAGGUUGAAGGUUGGGUAACACU AACUGGAGGACCGAACCGACUAAU(1MG)(PSU)(5MU)GAAAAAUUAGCGGAUGACUUGUGGCUGGGGGUGAAAGGCCA AUCAAACCGGGAGAUAGCUGGUUCUCCCCGAAAGCUAUUUAGGUAGCGCCUCGUGAAUUCAUCUCCGGGGGUAGAGCACU GUUUCGGCAAGGGGGUCAACCCGACUUACCAACCCGAUGCAAACUGCGAAUACCGGAGAAUGUUAUCACGGGAGACACAC GGCGGG(PSU)GCUAACGUCCGUCGUGAAGAGGGAAACAACCCAGACCGCCAGCUAAGGUCCCAAAGUCAUGGUUAAGUG GGAAACGAUGUGGGAAGGCCCAGACAGCCAGGAUGUUGGCUUAGAAGCAGCCAUCAUUUAAAGAAAGCGUAAUAGCUCAC UGGUCGAGUCGGCCUGCGCGGAAGAUGUAACGGGGCUAAACCAUGCACCGAAGCUGCGGCAGCGACGCUUAUGCGUUGUU GGGUAGGGGAGCGUUCUGUAAGCCUGCGAAGGUGUGCUGUGAGGCAUGCUGGAGGUAUCAGAAGUGCGAAUGCUGACAUA AGUAACGAUAAAGCGGGUGAAAAGCCCGCUCGCCGGAAGACCAAGGGUUCCUGUCCAACGUUAAUCGGGGCAGGGUGAGU CGACCCCUAAGGCGAGGCCGAAAGGCGUAGUCGAUGGGAAACAGGUUAAUAUUCCUGUACUUGGUGUUACUGCGAAGGGG GGACGGAGAAGGCUAUGUUGGCCGGGCGACGGUUGUCCCGGUUUAAGCGUGUAGGCUGGUUUUCCAGGCAAAUCCGGAAA AUCAAGGCUGAGGCGUGAUGACGAGGCACUACGGUGCUGAAGCAACAAAUGCCCUGCUUCCAGGAAAAGCCUCUAAGCAU CAGGUAACAUCAAAUCGUACCCCAAACCGACACAGGUGGUCAGGUAGAGAAUACCAAGGCGCUUGAGAGAACUCGGGUGA AGGAACUAGGCAAAAUGGUGCCGUAACUUCGGGAGAAGGCACGCUGAUAUGUAGGUGAGGUCCCUCGCGGAUGGAGCUGA AAUCAGUCGAAGAUACCAGCUGGCUGCAACUGUUUAUUAAAAACACAGCACUGUGCAAACACGAAAGUGGACGUAUACGG UGUGACGCCU(2MG)CCCGGUGCCGGAAGGUUAAUUGAUGGGGUUAGCGCAAGCGAAGCUCUUGAUCGAAGCCCCGGUAA ACGGCGGCCG(PSU)AACUA(PSU)AACGGUCCUAAGGUAGCGAAA(5MU)UCCUUGUCGGGUAAGUUCCGAC(5MC)UG CACGAAUGGCGUAAUGAUGGCCAGGCUGUCUCCACCCGAGACUCAGUGAAAUUGAACUCGCUGUGAAGAUGCAGUGUACC CGCGGCAAGACGGAAAGACCCCGU(G7M)AACCUUUACUAUAGCUUGACACUGAACAUUGAGCCUUGAUGUGUAGGAUAG GUGGGAGGCUUUGAAGUGUGGACGCCAGUCUGCAUGGAGCCGACCUUGAAAUACCACCCUUUAAUGUUUGAUGUUCUAAC GUUGACCCGUAAUCCGGGUUGCGGACAGUGUCUGGUGGGUAGUUUGACUG(OMG)GGCGGUCUCCUCCUAAAGAGUAACG GAGGAGCACGAAGGUUGGCUAAUCCUGGUCGGACAUCAGGAGGUUAGUGCAAUGGCAUAAGCCAGCUUGACUGCGAGCGU GACGGCGCGAGCAGGUGCGAAAGCAGGUCAUAGUGAUCCGGUGGUUCUGAAUGGAAGGGCCAUCGCUCAACGGAUAAAAG GUACUCCG(2MG)GGAUAACAGGC(PSU)GAUACCGCCCAAGAGUUCAUAUCGACGGCGGUGUUUGGCA(OMC)CUCG (2MA)(PSU)GUCGGCUCAUCACAUCCUGGGGCUGAAGUAGGUCCCAAGGGUAUGGC(OMU)GUUCGCCAUUUAAAGUGG UACGCGAGC(PSU)GGGUUUAGAACGUCGUGAGACAGU(PSU)CGGUCCCUAUCUGCCGUGGGCGCUGGAGAACUGAGGG GGGCUGCUCCUAGUACGAGAGGACCGGAGUGGACGCAUCACUGGUGUUCGGGUUGUCAUGCCAAUGGCACUGCCCGGUAG CUAAAUGCGGAAGAGAUAAGUGCUGAAAGCAUCUAAGCACGAAACUUGCCCCGAGAUGAGUUCUCCCUGACCCUUUAAGG GUCCUGAAGGAACGUUGAAGACGACGACGUUGAUAGGCCGGGUGUGUAAGCGCAGCGAUGCGUUGAGCUAACCGGUACUA AUGAACCGUGAGGCUUAACCUU V00331.1 30S ribosomal protein S3 Escherichia coli MRE600 0.026031316
Gene Name(s): rpsC b3314 JW3276
1 LEVO MGQKVHPNGIRLGIVKPWNSTWFANTKEFADNLDSDFKVRQYLTKELAKASVSRIVIERPAKSIRVTIHTARPGIVIGKK GEDVEKLRKVVADIAGVPAQINIAEVRKPELDAKLVADSITSQLERRVMFRRAMKRAVQNAMRLGAKGIKVEVSGRLGGA EIARTEWYREGRVPLHTLRADIDYNTSEAHTTYGVIGVKVWIFKGEILGGMAAVEQPEKPAAQPKKQQRKGRK P0A7V3 30S ribosomal protein S4 Escherichia coli MRE600 0.023514199
Gene Name(s): rpsD ramA b3296 JW3258
1 LEVO MARYLGPKLKLSRREGTDLFLKSGVRAIDTKCKIEQAPGQHGARKPRLSDYGVQLREKQKVRRIYGVLERQFRNYYKEAA RLKGNTGENLLALLEGRLDNVVYRMGFGATRAEARQLVSHKAIMVNGRVVNIASYQVSPNDVVSIREKAKKQSRVKAALE LAEQREKPTWLEVDAGKMEGTFKRKPERSDLSADINEHLIVELYSK P0A7V8 30S ribosomal protein S5 Escherichia coli MRE600 0.017629398
Gene Name(s): rpsE spc b3303 JW3265
1 LEVO MAHIEKQAGELQEKLIAVNRVSKTVKGGRIFSFTALTVVGDGNGRVGFGYGKAREVPAAIQKAMEKARRNMINVALNNGT LQHPVKGVHTGSRVFMQPASEGTGIIAGGAMRAVLEVAGVHNVLAKAYGSTNPINVVRATIDGLENMNSPEMVAAKRGKS VEEILGK P0A7W1 mRNA Escherichia coli 0.005922644 1 GGCAAGGAGGUAAAAAUG P-site tRNA fMet Escherichia coli 0.024786785 1 CGCGGGGUGGAGCAGCCUGGUAGCUCGUCGGGCUCAUAACCCGAAGAUCGUCGGUUCAAAUCCGGCCCCCGCAACCA LM993812.1 30S ribosomal protein S12 Escherichia coli MRE600 0.013768156999999998
Gene Name(s): rpsL strA b3342 JW3304
1 LEVO MATVNQLVRKPRARKVAKSNVPALEACPQKRGVCTRVYTTTPKKPNSALRKVCRVRLTNGFEVTSYIGGEGHNLQEHSVI LIRGGRVKDLPGVRYHTVRGALDCSGVKDRKQARSKYGVKRPKA P0A7S3 Peptide chain release factor 2 Escherichia coli MRE600 0.043299844
Gene Name(s): prfB ECK2886 JW5847 supK
1 Escherichia coli LEVO HHHHHHSAALEVLFQGPGMFEINPVNNRIQDLTERSDVLRGYLDYDAKKERLEEVNAELEQPDVWNEPERAQALGKERSS LEAVVDTLDQMKQGLEDVSGLLELAVEADDEETFNEAVAELDALEEKLAQLEFRRMFSGEYDSADCYLDIQAGSGGTEAQ DWASMLERMYLRWAESRGFKTEIIEESEGEVAGIKSVTIKISGDYAYGWLRTETGVHRLVRKSPFDSGGRRHTSFSSAFV YPEVDDDIDIEINPADLRIDVYRTSGAGGQHVNRTESAVRITHIPTGIVTQCQNDRSQHKNKDQAMKQMKAKLYELEMQK KNAEKQAMEDNKSDIGWGSQIRSYVLDDSRIKDLRTGVETRNTQAVLDGSLDQFIEASLKAGL P07012 Alternative ribosome-rescue factor A Escherichia coli MRE600 0.006513395999999999
Gene Name(s): arfA ECK3278 JW3253 yhdL
1 Escherichia coli LEVO GSMSRYQHTKGQIKDNAIEALLHDPLFRQRVEKNKKGKGSYMRKGKHGNRGNWEASG P36675 singleParticle particle 0.2 7.5 20.0 C8H18N2O4S 4-(2-hydroxyethyl)-1-piperazineethanesulfonic acid 15.0 Mg(CH3COO)2 magnesium acetate 150.0 CH3CO2K potassium acetate 4.0 HOCH2CH2SH 2-mercapthoethanol 2.0 C7H19N3 spermidine 0.05 C10H26N4 spermin C-flat-2/0.5 4C COPPER 400 GLOW DISCHARGE ETHANE 100 277 FEI VITROBOT MARK IV
Grids were blotted for 3.5 s.
JEOL 3200FSC FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 0.7000000000000001 3.0 83822.0 NITROGEN GATAN K2 SUMMIT (4k x 4k) SUPER-RESOLUTION 4-25 6.0 20.0 1 CTFFIND 4 PHASE FLIPPING AND AMPLITUDE CORRECTION EMD-1005 C1 3.7 FSC 0.143 CUT-OFF RELION 2.0 155440 ANGULAR RECONSTITUTION RELION 2.0 ANGULAR RECONSTITUTION RELION 2.0 emd_8506.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 0 0 0 384 384 384 458.112 458.112 458.112 90.0 90.0 90.0 X Y Z -0.19296288 0.23596789 0.0000067479664 0.005431493 1.193 1.193 1.193 0.03 AUTHOR FLEXIBLE FIT Average FSC RECIPROCAL 108.501000000000005 emd_8506_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 0 0 0 384 384 384 458.112 458.112 458.112 90.0 90.0 90.0 X Y Z -0.033385254 0.042264923 0.00000331108 0.0017733176 1.193 1.193 1.193 AUTHOR half map 1 emd_8506_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 384 384 384 0 0 0 384 384 384 458.112 458.112 458.112 90.0 90.0 90.0 X Y Z -0.03269864 0.040423367 0.0000034368863 0.0017751178 1.193 1.193 1.193 AUTHOR half map 2