Structural Basis of Co-translational Quality Control by ArfA and RF2 Binding to Ribosome

2024-11-13 REL RCSB RCSB RCSB 2016-12-04 2017-01-04 2017-01-11 2024-11-13 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-8506 other EM volume 5u4i FULLOVERLAP 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 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 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 Escherichia coli 30S subunit 1 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 50S subunit 1 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 Alternative ribosome-rescue factor A 1 54 Escherichia coli 6.35 Peptide chain release factor 2 1 53 Escherichia coli 40.13 P-site or E-site fMet-tRNA(fMet) 1 55

fMet tRNA was in vitro transcribed

mRNA 1 56 23S rRNA 3 1 Escherichia coli 50S ribosomal protein L2 3 3 Escherichia coli 16S rRNA 2 32 Escherichia coli 30S ribosomal protein S2 2 33 Escherichia coli 30S ribosomal protein S3 2 34 Escherichia coli 30S ribosomal protein S4 2 35 Escherichia coli 30S ribosomal protein S5 2 36 Escherichia coli 30S ribosomal protein S6 2 37 Escherichia coli 30S ribosomal protein S7 2 38 Escherichia coli 30S ribosomal protein S8 2 39 Escherichia coli 30S ribosomal protein S9 2 40 Escherichia coli 30S ribosomal protein S10 2 41 Escherichia coli 30S ribosomal protein S11 2 42 Escherichia coli 30S ribosomal protein S12 2 43 Escherichia coli 30S ribosomal protein S13 2 44 Escherichia coli 30S ribosomal protein S14 2 45 Escherichia coli 30S ribosomal protein S15 2 46 Escherichia coli 30S ribosomal protein S16 2 47 Escherichia coli 30S ribosomal protein S17 2 48 Escherichia coli 30S ribosomal protein S18 2 49 Escherichia coli 30S ribosomal protein S19 2 50 Escherichia coli 30S ribosomal protein S20 2 51 Escherichia coli 30S ribosomal protein S21 2 52 Escherichia coli 50S ribosomal protein L3 3 4 Escherichia coli 50S ribosomal protein L4 3 5 Escherichia coli 50S ribosomal protein L5 3 6 Escherichia coli 50S ribosomal protein L6 3 7 Escherichia coli 50S ribosomal protein L9 3 8 Escherichia coli 50S ribosomal protein L11 3 9 Escherichia coli 50S ribosomal protein L13 3 10 Escherichia coli 50S ribosomal protein L14 3 11 Escherichia coli 50S ribosomal protein L15 3 12 Escherichia coli 50S ribosomal protein L16 3 13 Escherichia coli 50S ribosomal protein L17 3 14 Escherichia coli 50S ribosomal protein L18 3 15 Escherichia coli 50S ribosomal protein L19 3 16 Escherichia coli 50S ribosomal protein L20 3 Escherichia coli 50S ribosomal protein L21 3 18 Escherichia coli 50S ribosomal protein L22 3 19 Escherichia coli 50S ribosomal protein L23 3 20 Escherichia coli 50S ribosomal protein L24 3 21 Escherichia coli 50S ribosomal protein L25 3 22 Escherichia coli 50S ribosomal protein L27 3 23 Escherichia coli 50S ribosomal protein L28 3 24 Escherichia coli 50S ribosomal protein L29 3 25 Escherichia coli 50S ribosomal protein L30 3 26 Escherichia coli 50S ribosomal protein L32 3 27 Escherichia coli 50S ribosomal protein L33 3 28 Escherichia coli 50S ribosomal protein L34 3 29 Escherichia coli 50S ribosomal protein L35 3 30 Escherichia coli 50S ribosomal protein L36 3 31 Escherichia coli 5S rRNA 3 2 Escherichia coli 23S rRNA Escherichia coli 0.9417616249999999 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 CGCGGCAAGACGGAAAGACCCCGUGAACCUUUACUAUAGCUUGACACUGAACAUUGAGCCUUGAUGUGUAGGAUAGGUGG GAGGCUUUGAAGUGUGGACGCCAGUCUGCAUGGAGCCGACCUUGAAAUACCACCCUUUAAUGUUUGAUGUUCUAACGUUG ACCCGUAAUCCGGGUUGCGGACAGUGUCUGGUGGGUAGUUUGACUG(OMG)GGCGGUCUCCUCCUAAAGAGUAACGGAGG AGCACGAAGGUUGGCUAAUCCUGGUCGGACAUCAGGAGGUUAGUGCAAUGGCAUAAGCCAGCUUGACUGCGAGCGUGACG GCGCGAGCAGGUGCGAAAGCAGGUCAUAGUGAUCCGGUGGUUCUGAAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUAC UCCG(2MG)GGAUAACAGGC(PSU)GAUACCGCCCAAGAGUUCAUAUCGACGGCGGUGUUUGGCA(OMC)CUCGA(PSU) GUCGGCUCAUCACAUCCUGGGGCUGAAGUAGGUCCCAAGGGUAUGGC(OMU)GUUCGCCAUUUAAAGUGGUACGCGAGC (PSU)GGGUUUAGAACGUCGUGAGACAGU(PSU)CGGUCCCUAUCUGCCGUGGGCGCUGGAGAACUGAGGGGGGCUGCUC CUAGUACGAGAGGACCGGAGUGGACGCAUCACUGGUGUUCGGGUUGUCAUGCCAAUGGCACUGCCCGGUAGCUAAAUGCG GAAGAGAUAAGUGCUGAAAGCAUCUAAGCACGAAACUUGCCCCGAGAUGAGUUCUCCCUGACCCUUUAAGGGUCCUGAAG GAACGUUGAAGACGACGACGUUGAUAGGCCGGGUGUGUAAGCGCAGCGAUGCGUUGAGCUAACCGGUACUAAUGAACCGU GAGGCUUAACCUU V00331.1 5S rRNA Escherichia coli 0.038177762000000004 1 GCCUGGCGGCCGUAGCGCGGUGGUCCCACCUGACCCCAUGCCGAACUCAGAAGUGAAACGCCGUAGCGCCGAUGGUAGUG UGGGGUCUCCCCAUGCGAGAGUAGGGAACUGCCAGGCA CP016018.1 50S ribosomal protein L2 Escherichia coli (strain K12) K12 0.029923619

Gene Name(s): rplB b3317 JW3279

1 LEVO MAVVKCKPTSPGRRHVVKVVNPELHKGKPFAPLLEKNSKSGGRNNNGRITTRHIGGGHKQAYRIVDFKRNKDGIPAVVER LEYDPNRSANIALVLYKDGERRYILAPKGLKAGDQIQSGVDAAIKPGNTLPMRNIPVGSTVHNVEMKPGKGGQLARSAGT YVQIVARDGAYVTLRLRSGEMRKVEADCRATLGEVGNAEHMLRVLGKAGAARWRGVRPTVRGTAMNPVDHPHGGGEGRNF GKHPVTPWGVQTKGKKTRSNKRTDKFIVRRRSK P60422 50S ribosomal protein L3 Escherichia coli (strain K12) K12 0.022277534999999998

Gene Name(s): rplC b3320 JW3282

1 LEVO MIGLVGKKVGMTRIFTEDGVSIPVTVIEVEANRVTQVKDLANDGYRAIQVTTGAKKANRVTKPEAGHFAKAGVEAGRGLW EFRLAEGEEFTVGQSISVELFADVKKVDVTGTSKGKGFAGTVKRWNFRTQDATHGNSLSHRVPGSIGQNQTPGKVFKGKK MAGQMGNERVTVQSLDVVRVDAERNLLLVKGAVPGATGSDLIVKPAVKA P60438 50S ribosomal protein L4 Escherichia coli (strain K12) K12 0.022121566

Gene Name(s): rplD eryA b3319 JW3281

1 LEVO MELVLKDAQSALTVSETTFGRDFNEALVHQVVVAYAAGARQGTRAQKTRAEVTGSGKKPWRQKGTGRARSGSIKSPIWRS GGVTFAARPQDHSQKVNKKMYRGALKSILSELVRQDRLIVVEKFSVEAPKTKLLAQKLKDMALEDVLIITGELDENLFLA ARNLHKVDVRDATGIDPVSLIAFDKVVMTADAVKQVEEMLA P60723 50S ribosomal protein L5 Escherichia coli (strain K12) K12 0.020333611

Gene Name(s): rplE b3308 JW3270

1 LEVO MAKLHDYYKDEVVKKLMTEFNYNSVMQVPRVEKITLNMGVGEAIADKKLLDNAAADLAAISGQKPLITKARKSVAGFKIR QGYPIGCKVTLRGERMWEFFERLITIAVPRIRDFRGLSAKSFDGRGNYSMGVREQIIFPEIDYDKVDRVRGLDITITTTA KSDEEGRALLAAFDFPFRK P62399 50S ribosomal protein L6 Escherichia coli (strain K12) K12 0.018932791

Gene Name(s): rplF b3305 JW3267

1 LEVO MSRVAKAPVVVPAGVDVKINGQVITIKGKNGELTRTLNDAVEVKHADNTLTFGPRDGYADGWAQAGTARALLNSMVIGVT EGFTKKLQLVGVGYRAAVKGNVINLSLGFSHPVDHQLPAGITAECPTQTEIVLKGADKQVIGQVAADLRAYRRPEPYKGK GVRYADEVVRTKEAKKK P0AG55 50S ribosomal protein L9 Escherichia coli (strain K12) K12 0.01578902

Gene Name(s): rplI b4203 JW4161

1 LEVO MQVILLDKVANLGSLGDQVNVKAGYARNFLVPQGKAVPATKKNIEFFEARRAELEAKLAEVLAAANARAEKINALETVTI ASKAGDEGKLFGSIGTRDIADAVTAAGVEVAKSEVRLPNGVLRTTGEHEVSFQVHSEVFAKVIVNVVAE P0A7R1 50S ribosomal protein L11 Escherichia coli (strain K12) K12 0.014894361999999998

Gene Name(s): rplK relC b3983 JW3946

1 LEVO MAKKVQAYVKLQVAAGMANPSPPVGPALGQQGVNIMEFCKAFNAKTDSIEKGLPIPVVITVYADRSFTFVTKTPPAAVLL KKAAGIKSGSGKPNKDKVGKISRAQLQEIAQTKAADMTGADIEAMTRSIEGTARSMGLVVED P0A7J7 50S ribosomal protein L13 Escherichia coli (strain K12) K12 0.016050606

Gene Name(s): rplM b3231 JW3200

1 LEVO MKTFTAKPETVKRDWYVVDATGKTLGRLATELARRLRGKHKAEYTPHVDTGDYIIVLNADKVAVTGNKRTDKVYYHHTGH IGGIKQATFEEMIARRPERVIEIAVKGMLPKGPLGRAMFRKLKVYAGNEHNHAAQQPQVLDI P0AA10 50S ribosomal protein L14 Escherichia coli (strain K12) K12 0.013565066999999998

Gene Name(s): rplN b3310 JW3272

1 LEVO MIQEQTMLNVADNSGARRVMCIKVLGGSHRRYAGVGDIIKITIKEAIPRGKVKKGDVLKAVVVRTKKGVRRPDGSVIRFD GNACVLLNNNSEQPIGTRIFGPVTRELRSEKFMKIISLAPEVL P0ADY3 50S ribosomal protein L15 Escherichia coli (strain K12) K12 0.015008470999999999

Gene Name(s): rplO b3301 JW3263

1 LEVO MRLNTLSPAEGSKKAGKRLGRGIGSGLGKTGGRGHKGQKSRSGGGVRRGFEGGQMPLYRRLPKFGFTSRKAAITAEIRLS DLAKVEGGVVDLNTLKAANIIGIQIEFAKVILAGEVTTPVTVRGLRVTKGARAAIEAAGGKIEE P02413 50S ribosomal protein L16 Escherichia coli (strain K12) K12 0.015312269

Gene Name(s): rplP b3313 JW3275

1 LEVO MLQPKRTKFRKMHKGRNRGLAQGTDVSFGSFGLKAVGRGRLTARQIEAARRAMTRAVKRQGKIWIRVFPDKPITEKPLAV RMGKGKGNVEYWVALIQPGKVLYEMDGVPEELAREAFKLAAAKLPIKTTFVTKTVM P0ADY7 50S ribosomal protein L17 Escherichia coli (strain K12) K12 0.014393656999999999

Gene Name(s): rplQ b3294 JW3256

1 LEVO MRHRKSGRQLNRNSSHRQAMFRNMAGSLVRHEIIKTTLPKAKELRRVVEPLITLAKTDSVANRRLAFARTRDNEIVAKLF NELGPRFASRAGGYTRILKCGFRAGDNAPMAYIELVDRSEKAEAAAE P0AG44 50S ribosomal protein L18 Escherichia coli (strain K12) K12 0.012794667999999999

Gene Name(s): rplR b3304 JW3266

1 LEVO MDKKSARIRRATRARRKLQELGATRLVVHRTPRHIYAQVIAPNGSEVLVAASTVEKAIAEQLKYTGNKDAAAAVGKAVAE RALEKGIKDVSFDRSGFQYHGRVQALADAAREAGLQF P0C018 50S ribosomal protein L19 Escherichia coli (strain K12) K12 0.013159278

Gene Name(s): rplS b2606 JW2587

1 LEVO MSNIIKQLEQEQMKQDVPSFRPGDTVEVKVWVVEGSKKRLQAFEGVVIAIRNRGLHSAFTVRKISNGEGVERVFQTHSPV VDSISVKRRGAVRKAKLYYLRERTGKAARIKERLN P0A7K6 50S ribosomal protein L20 Escherichia coli (strain K12) K12 0.013528024

Gene Name(s): rplT pdzA b1716 JW1706

1 LEVO MARVKRGVIARARHKKILKQAKGYYGARSRVYRVAFQAVIKAGQYAYRDRRQRKRQFRQLWIARINAAARQNGISYSKFI NGLKKASVEIDRKILADIAVFDKVAFTALVEKAKAALA P0A7L3 50S ribosomal protein L21 Escherichia coli (strain K12) K12 0.011586374

Gene Name(s): rplU b3186 JW3153

1 LEVO MYAVFQSGGKQHRVSEGQTVRLEKLDIATGETVEFAEVLMIANGEEVKIGVPFVDGGVIKAEVVAHGRGEKVKIVKFRRR KHYRKQQGHRQWFTDVKITGISA P0AG48 50S ribosomal protein L22 Escherichia coli (strain K12) K12 0.012253359

Gene Name(s): rplV eryB b3315 JW3277

1 LEVO METIAKHRHARSSAQKVRLVADLIRGKKVSQALDILTYTNKKAAVLVKKVLESAIANAEHNDGADIDDLKVTKIFVDEGP SMKRIMPRAKGRADRILKRTSHITVVVSDR P61175 50S ribosomal protein L23 Escherichia coli (strain K12) K12 0.01122216

Gene Name(s): rplW b3318 JW3280

1 LEVO MIREERLLKVLRAPHVSEKASTAMEKSNTIVLKVAKDATKAEIKAAVQKLFEVEVEVVNTLVVKGKVKRHGQRIGRRSDW KKAYVTLKEGQNLDFVGGAE P0ADZ0 50S ribosomal protein L24 Escherichia coli (strain K12) K12 0.011339249999999999

Gene Name(s): rplX b3309 JW3271

1 LEVO MAAKIRRDDEVIVLTGKDKGKRGKVKNVLSSGKVIVEGINLVKKHQKPVPALNQPGGIVEKEAAIQVSNVAIFNAATGKA DRVGFRFEDGKKVRFFKSNSETIK P60624 50S ribosomal protein L25 Escherichia coli (strain K12) K12 0.010713465

Gene Name(s): rplY b2185 JW2173

1 LEVO MFTINAEVRKEQGKGASRRLRAANKFPAIIYGGKEAPLAIELDHDKVMNMQAKAEFYSEVLTIVVDGKEIKVKAQDVQRH PYKPKLQHIDFVRA P68919 50S ribosomal protein L27 Escherichia coli (strain K12) K12 0.00914654

Gene Name(s): rpmA b3185 JW3152

1 LEVO MAHKKAGGSTRNGRDSEAKRLGVKRFGGESVLAGSIIVRQRGTKFHAGANVGCGRDHTLFAKADGKVKFEVKGPKNRKFI SIEAE P0A7L8 50S ribosomal protein L28 Escherichia coli (strain K12) K12 0.009027550999999998

Gene Name(s): rpmB b3637 JW3612

1 LEVO MSRVCQVTGKRPVTGNNRSHALNATKRRFLPNLHSHRFWVESEKRFVTLRVSAKGMRVIDKKGIDTVLAELRARGEKY P0A7M2 50S ribosomal protein L29 Escherichia coli (strain K12) K12 0.0072864639999999994

Gene Name(s): rpmC b3312 JW3274

1 LEVO MKAKELREKSVEELNTELLNLLREQFNLRMQAASGQLQQSHLLKQVRRDVARVKTLLNEKAGA P0A7M6 50S ribosomal protein L30 Escherichia coli K12 0.006554819999999999

Gene Name(s): rpmD b3302 JW3264

1 LEVO MAKTIKITQTRSAIGRLPKHKATLLGLGLRRIGHTVEREDTPAIRGMINAVSFMVKVEE P0AG51 50S ribosomal protein L32 Escherichia coli K12 0.006463444999999999

Gene Name(s): rpmF b1089 JW1075

1 LEVO MAVQQNKPTRSKRGMRRSHDALTAVTSLSVDKTSGEKHLRHHITADGYYRGRKVIAK P0A7N4 50S ribosomal protein L33 Escherichia coli K12 0.006388631

Gene Name(s): rpmG b3636 JW3611

1 LEVO MAKGIREKIKLVSSAGTGHFYTTTKNKRTKPEKLELKKFDPVVRQHVIYKEAKIK P0A7N9 50S ribosomal protein L34 Escherichia coli K12 0.005397463

Gene Name(s): rpmH rimA ssaF b3703 JW3680

1 LEVO MKRTFQPSVLKRNRSHGFRARMATKNGRQVLARRRAKGRARLTVSK P0A7P5 50S ribosomal protein L35 Escherichia coli K12 0.007313032

Gene Name(s): rpmI b1717 JW1707

1 LEVO MPKIKTVRGAAKRFKKTGKGGFKHKHANLRHILTKKATKRKRHLRPKAMVSKGDLGLVIACLPYA P0A7Q1 50S ribosomal protein L36 Escherichia coli K12 0.00437739

Gene Name(s): rpmJ b3299 JW3261

1 LEVO MKVRASVKKLCRNCKIVKRDGVIRVICSAEPKHKQRQG P0A7Q6 16S rRNA Escherichia coli 0.49704475 1 AAUUGAAGAGUUUGAUCAUGGCUCAGAUUGAACGCUGGCGGCAGGCCUAACACAUGCAAGUCGAACGGUAACAGGAAGAA GCUUGCUUCUUUGCUGACGAGUGGCGGACGGGUGAGUAAUGUCUGGGAAACUGCCUGAUGGAGGGGGAUAACUACUGGAA ACGGUAGCUAAUACCGCAUAACGUCGCAAGACCAAAGAGGGGGACCUUCGGGCCUCUUGCCAUCGGAUGUGCCCAGAUGG GAUUAGCUAGUAGGUGGGGUAACGGCUCACCUAGGCGACGAUCCCUAGCUGGUCUGAGAGGAUGACCAGCCACACUGGAA CUGAGACACGGUCCAGACUCCUACGGGAGGCAGCAGUGGGGAAUAUUGCACAAUGGGCGCAAGCCUGAUGCAGCCAUGCC GCGUGUAUGAAGAAGGCCUUCGGGUUGUAAAGUACUUUCAGCGGGGAGGAAGGGAGUAAAGUUAAUACCUUUGCUCAUUG ACGUUACCCGCAGAAGAAGCACCGGCUAACUCCG(PSU)GCCAGCAGCCACGGUAAUACGGAGGGUGCAAGCGUUAAUCG GAAUUACUGGGCGUAAAGCGCACGCAGGCGGUUUGUUAAGUCAGAUGUGAAAUCCCCGGGCUCAACCUGGGAACUGCAUC UGAUACUGGCAAGCUUGAGUCUCGUAGAGGGGGGUAGAAUUCCAGGUGUAGCGGUGAAAUGCGUAGAGAUCUGGAGGAAU ACCGGUGGCGAAGGCGGCCCCCUGGACGAAGACUGACGCUCAGGUGCGAAAGCGUGGGGAGCAAACAGGAUUAGAUACCC UGGUAGUCCACGCCGUAAACGAUGUCGACUUGGAGGUUGUGCCCUUGAGGCGUGGCUUCCGGAGCUAACGCGUUAAGUCG ACCGCCUGGGGAGUACGGCCGCAAGGUUAAAACUCAAAUGAAUUGACGGGGGCCCGCACAAGCGGUGGAGCAUGUGGUUU AAUUCGAU(2MG)(5MC)AACGCGAAGAACCUUACCUGGUCUUGACAUCCACGGAAGUUUUCAGAGAUGAGAAUGUGCCU UCGGGAACCGUGAGACAGGUGCUGCAUGGCUGUCGUCAGCUCGUGUUGUGAAAUGUUGGGUUAAGUCCCGCAACGAGCGC AACCCUUAUCCUUUGUUGCCAGCGGUCCGGCCGGGAACUCAAAGGAGACUGCCAGUGAUAAACUGGAGGAAGGUGGGGAU GACGUCAAGUCAUCAUG(2MG)CCCUUACGACCAGGGCUACACACGUGCUACAAUGGCGCAUACAAAGAGAAGCGACCUC GCGAGAGCAAGCGGACCUCAUAAAGUGCGUCGUAGUCCGGAUUGGAGUCUGCAACUCGACUCCAUGAAGUCGGAAUCGCU AGUAAUCGUGGAUCAGAAUGCCACGGUGAAUACGUUCCCGGGCCUUGUACACACCG(4OC)CCGU(5MC)ACACCAUGGG AGUGGGUUGCAAAAGAAGUAGGUAGCUUAACCUUCGGGAGGGCGCUUACCACUUUGUGAUUCAUGACUGGGGUGAAGUCG (UR3)AACAAGGUAACCGUAGG(2MG)G(MA6)(MA6)CCUGCGGUUGGAUCA CP011320.1 30S ribosomal protein S2 Escherichia coli K12 0.026781669999999997

Gene Name(s): rpsB b0169 JW0164

1 LEVO MATVSMRDMLKAGVHFGHQTRYWNPKMKPFIFGARNKVHIINLEKTVPMFNEALAELNKIASRKGKILFVGTKRAASEAV KDAALSCDQFFVNHRWLGGMLTNWKTVRQSIKRLKDLETQSQDGTFDKLTKKEALMRTRELEKLENSLGGIKDMGGLPDA LFVIDADHEHIAIKEANNLGIPVFAIVDTNSDPDGVDFVIPGNDDAIRAVTLYLGAVAATVREGRSQDLASQAEESFVEA E P0A7V0 30S ribosomal protein S3 Escherichia coli K12 0.026031316

Gene Name(s): rpsC b3314 JW3276

1 LEVO MGQKVHPNGIRLGIVKPWNSTWFANTKEFADNLDSDFKVRQYLTKELAKASVSRIVIERPAKSIRVTIHTARPGIVIGKK GEDVEKLRKVVADIAGVPAQINIAEVRKPELDAKLVADSITSQLERRVMFRRAMKRAVQNAMRLGAKGIKVEVSGRLGGA EIARTEWYREGRVPLHTLRADIDYNTSEAHTTYGVIGVKVWIFKGEILGGMAAVEQPEKPAAQPKKQQRKGRK P0A7V3 30S ribosomal protein S4 Escherichia coli K12 0.023514199

Gene Name(s): rpsD ramA b3296 JW3258

1 LEVO MARYLGPKLKLSRREGTDLFLKSGVRAIDTKCKIEQAPGQHGARKPRLSDYGVQLREKQKVRRIYGVLERQFRNYYKEAA RLKGNTGENLLALLEGRLDNVVYRMGFGATRAEARQLVSHKAIMVNGRVVNIASYQVSPNDVVSIREKAKKQSRVKAALE LAEQREKPTWLEVDAGKMEGTFKRKPERSDLSADINEHLIVELYSK P0A7V8 30S ribosomal protein S5 Escherichia coli K12 0.017629398

Gene Name(s): rpsE spc b3303 JW3265

1 LEVO MAHIEKQAGELQEKLIAVNRVSKTVKGGRIFSFTALTVVGDGNGRVGFGYGKAREVPAAIQKAMEKARRNMINVALNNGT LQHPVKGVHTGSRVFMQPASEGTGIIAGGAMRAVLEVAGVHNVLAKAYGSTNPINVVRATIDGLENMNSPEMVAAKRGKS VEEILGK P0A7W1 30S ribosomal protein S6 Escherichia coli (strain K12) K12 0.015727512

Gene Name(s): rpsF b4200 JW4158

1 LEVO MRHYEIVFMVHPDQSEQVPGMIERYTAAITGAEGKIHRLEDWGRRQLAYPINKLHKAHYVLMNVEAPQEVIDELETTFRF NDAVIRSMVMRTKHAVTEASPMVKAKDERRERRDDFANETADDAEAGDSEEEEEE P02358 30S ribosomal protein S7 Escherichia coli (strain K12) K12 0.020055155999999998

Gene Name(s): rpsG b3341 JW3303

1 LEVO MPRRRVIGQRKILPDPKFGSELLAKFVNILMVDGKKSTAESIVYSALETLAQRSGKSELEAFEVALENVRPTVEVKSRRV GGSTYQVPVEVRPVRRNALAMRWIVEAARKRGDKSMALRLANELSDAAENKGTAVKKREDVHRMAEANKAFAHYRWLSLR SFSHQAGASSKQPALGYLN P02359 30S ribosomal protein S8 Escherichia coli K12 0.014015361

Gene Name(s): rpsH b3306 JW3268

1 LEVO SMQDPIADMLTRIRNGQAANKAAVTMPSSKLKVAIANVLKEEGFIEDFKVEGDTKPELELTLKYFQGKAVVESIQRVSRP GLRIYKRKDELPKVMAGLGIAVVSTSKGVMTDRAARQAGLGGEIICYVA P0A7W7 30S ribosomal protein S9 Escherichia coli K12 0.01488627

Gene Name(s): rpsI b3230 JW3199

1 LEVO MAENQYYGTGRRKSSAARVFIKPGNGKIVINQRSLEQYFGRETARMVVRQPLELVDMVEKLDLYITVKGGGISGQAGAIR HGITRALMEYDESLRSELRKAGFVTRDARQVERKKVGLRKARRRPQFSKR P0A7X3 30S ribosomal protein S10 Escherichia coli K12 0.011755597

Gene Name(s): rpsJ nusE b3321 JW3283

1 LEVO MQNQRIRIRLKAFDHRLIDQATAEIVETAKRTGAQVRGPIPLPTRKERFTVLISPHVNKDARDQYEIRTHLRLVDIVEPT EKTVDALMRLDLAAGVDVQISLG P0A7R5 30S ribosomal protein S11 Escherichia coli K12 0.0124872

Gene Name(s): rpsK b3297 JW3259

1 LEVO RKQVSDGVAHIHASFNNTIVTITDRQGNALGWATAGGSGFRGSRKSTPFAAQVAAERCADAVKEYGIKNLEVMVKGPGPG RESTIRALNAAGFRITNITDVTPIPHNGCRPPKKRRV P0A7R9 30S ribosomal protein S12 Escherichia coli K12 0.013636961

Gene Name(s): rpsL strA b3342 JW3304

1 LEVO ATVNQLVRKPRARKVAKSNVPALEACPQKRGVCTRVYTTTPKKPNSALRKVCRVRLTNGFEVTSYIGGEGHNLQEHSVIL IRGGRVKDLPGVRYHTVRGALDCSGVKDRKQARSKYGVKRPKA P0A7S3 30S ribosomal protein S13 Escherichia coli K12 0.013128467

Gene Name(s): rpsM b3298 JW3260

1 LEVO MARIAGINIPDHKHAVIALTSIYGVGKTRSKAILAAAGIAEDVKISELSEGQIDTLRDEVAKFVVEGDLRREISMSIKRL MDLGCYRGLRHRRGLPVRGQRTKTNARTRKGPRKPIKK P0A7S9 30S ribosomal protein S14 Escherichia coli K12 0.011475363999999998

Gene Name(s): rpsN b3307 JW3269

1 LEVO AKQSMKAREVKRVALADKYFAKRAELKAIISDVNASDEDRWNAVLKLQTLPRDSSPSRQRNRCRQTGRPHGFLRKFGLSR IKVREAAMRGEIPGLKKASW P0AG59 30S ribosomal protein S15 Escherichia coli K12 0.010159620999999999

Gene Name(s): rpsO secC b3165 JW3134

1 LEVO SLSTEATAKIVSEFGRDANDTGSTEVQVALLTAQINHLQGHFAEHKKDHHSRRGLLRMVSQRRKLLDYLKRKDVARYTQL IERLGLRR P0ADZ4 30S ribosomal protein S16 Escherichia coli K12 0.009207571999999999

Gene Name(s): rpsP b2609 JW2590

1 LEVO MVTIRLARHGAKKRPFYQVVVADSRNARNGRFIERVGFFNPIASEKEEGTRLDLDRIAHWVGQGATISDRVAALIKEVNK AA P0A7T3 30S ribosomal protein S17 Escherichia coli K12 0.009724491

Gene Name(s): rpsQ neaA b3311 JW3273

1 LEVO MTDKIRTLQGRVVSDKMEKSIVVAIERFVKHPIYGKFIKRTTKLHVHDENNECGIGDVVEIRECRPLSKTKSWTLVRVVE KAVL P0AG63 30S ribosomal protein S18 Escherichia coli K12 0.009063508

Gene Name(s): rpsR b4202 JW4160

1 LEVO MARYFRRRKFCRFTEEGVQEIDYKDIATLKNYITESGKIVPSRITGTRAKYQRQLARAIKRARYLSLLPYTDRHQ P0A7T7 30S ribosomal protein S19 Escherichia coli K12 0.009349939

Gene Name(s): rpsS b3316 JW3278

1 LEVO PRSLKKGPFIDLHLLKKVEKAVESGDKKPLRTWSRRSTIFPNMIGLTIAVHNGRQHVPVFVTDEMVGHKLGEFAPTRTYR GH P0A7U3 30S ribosomal protein S20 Escherichia coli K12 0.009577268

Gene Name(s): rpsT b0023 JW0022

1 LEVO ANIKSAKKRAIQSEKARKHNASRRSMMRTFIKKVYAAIEAGDKAAAQKAFNEMQPIVDRQAAKGLIHKNKAARHKANLTA QINKLA P0A7U7 30S ribosomal protein S21 Escherichia coli K12 0.008524039

Gene Name(s): rpsU b3065 JW3037

1 LEVO MPVIKVRENEPFDVALRRFKRSCEKAGVLAEVRRREFYEKPTTERKRAKASAVKRHAKKLARENARRTRLY P68679 Peptide chain release factor 2 Escherichia coli (strain K12) K12 0.043313871

Gene Name(s): prfB ECK2886 JW5847 supK

1 Escherichia coli LEVO HHHHHHSAALEVLFQGPGMFEINPVNNRIQDLTERSDVLRGYLDYDAKKERLEEVNAELEQPDVWNEPERAQALGKERSS LEAVVDTLDQMKQGLEDVSGLLELAVEADDEETFNEAVAELDALEEKLAQLEFRRMFSGEYDSADCYLDIQAGSGGTEAQ DWASMLERMYLRWAESRGFKTEIIEESEGEVAGIKSVTIKISGDYAYGWLRTETGVHRLVRKSPFDSGGRRHTSFSSAFV YPEVDDDIDIEINPADLRIDVYRTSGAGG(MEQ)HVNRTESAVRITHIPTGIVTQCQNDRSQHKNKDQAMKQMKAKLYEL EMQKKNAEKQAMEDNKSDIGWGSQIRSYVLDDSRIKDLRTGVETRNTQAVLDGSLDQFIEASLKAGL P07012 Alternative ribosome-rescue factor A Escherichia coli (strain K12) K12 0.006513395999999999 1 Escherichia coli LEVO GSMSRYQHTKGQIKDNAIEALLHDPLFRQRVEKNKKGKGSYMRKGKHGNRGNWEASG P36675 P-site or E-site fMet-tRNA(fMet) Escherichia coli 0.024802784999999997 2 CGCGGGGUGGAGCAGCCUGGUAGCUCGUCGGGCUCAUAACCCGAAGGUCGUCGGUUCAAAUCCGGCCCCCGCAACCA CP012693.1 mRNA Escherichia coli 0.005922644 1 GGCAAGGAGGUAAAAAUG MAGNESIUM ION 2.4305e-05 124 MG ZINC ION 6.5409e-05 1 ZN 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 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 EMD-1005 C1 3.5 FSC 0.143 CUT-OFF RELION 2.0 155440 ANGULAR RECONSTITUTION RELION 2.0 ANGULAR RECONSTITUTION RELION 2.0 emd_8505.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 -0.061812814 0.11835373 0.0000070680926 0.0042961156 1.193 1.193 1.193 0.02 AUTHOR ::::EMDATABANK.org::::D_1000225254:::: FLEXIBLE FIT Average FSC RECIPROCAL emd_8505_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 -0.029314937 0.046164118 0.0000034896793 0.0022473428 1.193 1.193 1.193 AUTHOR ::::EMDATABANK.org::::D_1000225254:::: emd_8505_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 -0.029314937 0.046164118 0.0000034896793 0.0022473428 1.193 1.193 1.193 AUTHOR ::::EMDATABANK.org::::D_1000225254::::