2025-12-24 REL PDBe INITIAL_RELEASE REPOSITORY INITIAL_RELEASE REPOSITORY 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 DATABASE_REFERENCES chem_comp_atom chem_comp_bond database_2 _database_2.pdbx_DOI _database_2.pdbx_database_accession ATOMIC_MODEL atom_site STRUCTURE_SUMMARY chem_comp chem_comp_atom chem_comp_bond em_admin pdbx_entry_details _chem_comp.mon_nstd_flag _chem_comp_atom.atom_id _chem_comp_bond.atom_id_2 _em_admin.last_update _pdbx_entry_details.has_protein_modification PDBe PDBe 2019-08-15 2020-07-29 2020-07-29 2025-12-24 Matzov D Sas-Chen A T. kodakarensis, ac4C, Ribosome, cryo-EM Sas-Chen A Thomas JM Matzov D Taoka M Nance KD Nir R Bryson KM Shachar R Liman GLS Burkhart BW Gamage ST Nobe Y Briney CA Levy MJ Fuchs RT Robb GB Hartmann J Sharma S Lin Q Florens L Washburn MP Isobe T Santangelo TJ Shalev-Benami M Meier JL Schwartz S Nature UK 583 638 643 2020 32555463 doi:10.1038/s41586-020-2418-2 1476-4687 0006 NATUAS 6skf FULLOVERLAP EMDB EMD-10223 associated EM volume

Cryo-EM Structure of T. kodakarensis 70S ribosome

70S ribosome from Thermococcus kodakarensis 70S ribosome from Thermococcus kodakarensis 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 57 58 59 60 61 Thermococcus kodakarensis 16S rRNA Thermococcus kodakarensis 0.48823453099999997 1 AUUC(4AC)GG(OMU)UGAUCCUGCCGGAGGCCACUGCUAUGGGGGUC(4AC)GACUAAGCCA(OMU)GCGAGUCAUGGG GCGCGCUCUGCGCGCACCGGCGGACGGCUCAGUAACACGUCGGUAACCUACCCUCGGGAGGGGGAUAACCC(4AC)G (OMG)GAAACUGGGGCUAAUCCCCCAUAGGCCUGAGGUACUGGAAGGUCCUCAGGC(OMC)GAAAGGGGCAUCUGCCCGC CCGAGGAUGGGCCGGCGGC(LHH)GAUUAGGUAG(OMU)UGGUG(OMG)GGUAACGGCCCACCAAGCCGAAGAUCGGUAC GGGCCAUGAGAGUGGGAG(OMC)C(4AC)GGAGA(OMU)GGACACUGAGACACG(OMG)GUCCAGGCCCUACGGGGCGCA GCAGGCGCGA(A2M)ACCUC(4AC)GCAAUGCGGGCAAC(4AC)GCGACGG(OMG)(OMG)GGACCCCCAGUGCCGUGGC AUAGCCACGGCUUUUCCGGAGUGUAAAAAGCUCCGGGAAUAAGG(OMG)CUG(OMG)GCAAGG(5MC)(4AC)GGUGG (5MC)AGCCGCCGCGGUAA(OMU)ACCGGCGGCCCGAGUGGU(OMG)GC(4AC)GCUAUUAUUGGGCCUAAAGCGUC (4AC)GUAGCC(OMG)GG(OMC)CCGUAAGUCCCUGGCGAAAUCCCACGGCUCAAC(4AC)GUGGGGCUUGCUGGGGAUA CUGCGGGCCUUGGGAC(4AC)GGGAGAGGCCGGGGGUACCCCUGGGGUAGG(OMG)GUGAAAUCCUAUAAUCCCAGGG (OMG)GACCGCCAGU(2MG)G(5MC)GAAGGCGCC(4AC)GGCUGGAACGGGUC(4AC)GACGGUGAGGGACGAAGGCCA GGGGAGCGAAC(4AC)GGAUUAGAUACCCGGGUAGUC(OMC)UGGCUGUAAAGGAUGCGG(OMG)CUAGGUGUCGGGCGA GCUUCGAGCUCGCCCGGUGCCGGAGGGAAGC(4AC)GUUAAG(OMC)C(4AC)GCCGCCUGGGGAGUACGGC(4AC)GCA A(OMG)G(5MC)UGAAACUUAAAGGAAUUGGCG(OMG)GGGAGCACUACAAGG(OMG)GUGGAGCGUGCGGUUUAAUU (OMG)GAU(5MU)(LV2)AACGCCGGGAACCUCACCGGGGG(5MC)GACGGCAGGAUGAAGGCCAGGCUGAAGGUCUUGC CGGACACGCCGAGAGGA(OMG)GUGCAUGGC(5MC)GC(4AC)GUCAGCUCGUAC(LHH)GUGA(OMG)(OMG)CGUCCA CUUAAGUGUGGUAACGAG(B8T)GAGACCCGCGCCCCCAGUUGCCAGUCCUCCCCGCUGGGGAGGAGGCACUCUGGGG (OMG)GACCGCCGGCGAUAAGCCGGAGGAAGGAGCGGG(B8T)GACGGUAGGUCAGUAUGCCCCGAAACCCCCGGGCUAC ACGCGCGCUACAAUGGGCGGGACAAUGGGAUCCGACCC(4AC)GAAAGGGGAAGGGAAUCCCCUAAACCCGCCCUCAGUU CGGAUCG(B8T)GG(OMG)CUGCAACUC(OMG)(5MC)CCGCGUGAAGCUGGAAUCCCUAGUACCCGCGUGUCAUCAUCG CGCGGCGAAUACGUCCCUGCUCCUUGCACACAC(5MC)G(OMC)CCG(OMU)CA(OMC)UCCACCCGAGCGGGGUCCGGG UGAGGCCUGGUCUCCCUUCGGGGAGGCCGGGUCGAGCCUGGGCUCCGUGAG(OMG)GGGGAGAAGUCGUA(6MZ)CAAGG UAGC(4AC)GUAGGGG(MA6)(MA6)CCUACGG(5MC)U(5MC)GAUCACCUCCUAUCGCCGGA 30S ribosomal protein S2 Thermococcus kodakarensis 0.023039793 1 LEVO MEEYLVPLDQYLAAGVHIGTQQKTKDMKKFIYRVRQDGLYVLDVRKTDERLRVAGKFLAKFDPESILAVSVRLYGQRPVK KFGEVTGAKAIPGRFLPGTMTNPQVKNFIEPDVLIVTDPRADHQALKEAVEIGIPIVALVDTENFLSYVDIAIPTNNKGR KALALIYWILAREVLYNRKEIESREDFKIPVEDFEMRIIRT Q5JJD2 30S ribosomal protein S3 Thermococcus kodakarensis 0.02339016 1 LEVO MAIERYFIKEGVKEMLIDEFLEKELRRAGYGGLDIKKTPLGTKVTIFAANPGYVIGRGGRRIRELTRILEKQFGLENPQI EVEEIKNPYLNAKVQAVRLAQALERGIHFRRAAYSAIRAIMRNGARGVEIRLSGKLTGERAKSVRFYQGYLAKVGNPAET LVSRGYAQAQLKLGVIGVKVSIMPPDAKLPDEIEIKEIVEEEVSANEAQ Q5JDH5 30S ribosomal protein S3Ae Thermococcus kodakarensis 0.023064919999999996 1 LEVO MARGNPRKRAAAAKDKWKMKEWYIVYAPDFFGSKEIGLTPADDPEKVIGRVIETTLKDLTGDFTKGHVKLYFQVYDVKGQ NAYTKFKGHTLARSYIRSLVRRRTTRVDGIFNITTKDGYKLRVMGMVIAYRRIQTSQERAIRKIIQDIIYKKAEELNFAD FVLQSVNGQIASEIAKEARKIYPIKRAEVRKIKVLAEPSA Q5JGM4 30S ribosomal protein S4 Thermococcus kodakarensis 0.021240620999999998 1 LEVO MGDPKRQRKKYETPSHPWIKERLDRERVLKRNYALKNKKELWRHETQLKEFRRRARRLLAARGKQAEIERQQLLQRLYRL GLLPADAVLDDVLSLTVEDVLERRLQTIVYRKGLARTMKQARQLIVHGHIEVNGQVIRSPGYLVLREEEDTITYAKGSPF AKEGHPERMVIEQAKQGGEA Q5JJF2 30S ribosomal protein S4e Thermococcus kodakarensis 0.027820629 1 LEVO MARKGPKRHLKRLAAPTSWYIHRKAYKWAVRPSPGPHSMKTSIPLIYIVRDYLGYAKTAREARKILNEGKILVDGRVRKD YKFPVGIMDVVSIPETGEHYRVLPNRIGKLILHPISEEEAKLKPFRINNKRMVKGAKVQLNLHDGSNHLVSLAEKDAYKT SYTVIMQVPERQIVKVLPFEVGAYVFVTQGKNVARKGKIVEVRQFPMGWPDVVTIEDENGELFDTLKEYAFVIGKDKPEI SLP Q5JJG0 30S ribosomal protein S5 Thermococcus kodakarensis 0.026372613 1 LEVO MSDPREIAQRVLEEWEPKTKLGRLVKEGQITDIHEIFRKGYQIKEPEIVDVLLPEVNLRENQEVLDIALTVRMTDSGRRI RFRVLAAVGNRDGYVGLGIGHGREVGIAIRKAINYAKMNIIEIKRGCGSWECRCRRPHSIPFAVEGKEGSVRVKLMPGPR GLGLVIGDVGKKILTLAGVQDVWSQTLGETRTTVNFAKAVFNALYNTNRVAIKPEDIERYGIVVGRAMPTTFEVE Q5JJG8 30S ribosomal protein S6e Thermococcus kodakarensis 0.013760986 1 LEVO MATFKLVISNPKNGVAKQVEISGPEADKLIGRRIGEEIPASELGLNLSEIFGEEIPADAKLKITGGTDKDGFPMRPDVHG PRRVKILLSRGPGFRPRERGERRKKTVHGNTISPNIVQVNMKIVF Q5JDK8 30S ribosomal protein S7 Thermococcus kodakarensis 0.024573712999999997 1 LEVO MAKPLTERFFIPKEVKVMGRWSVEDVTVEDPSLKPYINLDARILPHSHGRYAKKPFGKANVHIVERLINKVMRSGASHYK AGGHFMRREHRSIMSKKMKAYEVVKEAFMIIERRTKQNPIQVLVKAIENSAPREDTTTIAFGGIRYHMSVDVSPLRRLDI ALKNIALGASIKCYRNKTTYAQALAEEIIAAANKDPKSFAYSKKEEIERIAQSSR Q5JE04 30S ribosomal protein S8 Thermococcus kodakarensis 0.014602109 1 LEVO MTLLDPLANALSHITNSERVGKKEVYIKPASKLIGEVLRVMLENGYIGEFELIDDGRAGIYRVQLIGKINKAGAIKPRFP VKARDYEKWEKRFLPAFEFGILIVSTSQGVMTHKEALEKGIGGRLIAYVY Q5JJG3 30S ribosomal protein S8e Thermococcus kodakarensis 0.014548031 1 LEVO MAIWQGRSLKKPSGGRIILARKKRKRELGREPANTKVGEDREKRKIIRTYGGNRKVRLVEALYANVFEGGKGKKVKILNV VENPANRQYARRNIITKGAIIETEIGKAIVTSRPGQDGVVNAVLIKEENA Q5JGF3 30S ribosomal protein S9 Thermococcus kodakarensis 0.015358942999999998 1 LEVO MRVIQTAGKRKTAVARATIREGKGRVRINHKPVEIIEPEIARFTIMEPLILAGEEIVSRVDIDVKVEGGGFMGQAEAARV AIARALVEWTNDMNLKEKFMKYDRTMLVGDSRRTEPHKPNRSTKGPRAKRQKSYR Q5JJE2 30S ribosomal protein S10 Thermococcus kodakarensis 0.011716665999999999 1 LEVO MQKARIKLASTNIKALNEVTDQIKQIAERTGVRMSGPIPLPTKRIRITTRKSPDGEGSATFDRFELRVHKRLVDIEADER AMRQIMRIRVPEDVTIEIELIS Q5JFZ5 30S ribosomal protein S11 Thermococcus kodakarensis 0.015111241 1 LEVO MSEEQTTQVNIKKKEKWGVAHIYSSYNNTIIHITDLTGAETISRWSGGMVVKADRDEPSPYAAMIAARRAAEEAMEKGIT GVHIKVRAPGGSKSKSPGPGAQAAIRALSRAGLRIGRVEDVTPIPHDGTRPKGGRRGRRV Q5JJF3 30S ribosomal protein S12 Thermococcus kodakarensis 0.016488537 1 LEVO MAGKKAPYGEFAGRKLKLKRKKFRWSDIRYKRRVLRLKEKSDPLEGAPQARGIVLEKIAVEAKQPNSAMRKAVRVQLIKN GKVVTAFTPGDGAINHIDEHDEVIIEGIGGPKGGSMGDIPGIRYKVVKVNRVSLKELVKGRKEKPRR Q5JE20 30S ribosomal protein S13 Thermococcus kodakarensis 0.017025875 1 LEVO MTENFRHIVRVAGVDIDGHKQVRWALTGIKGIGINFATMVLRVAGIDPFMKAGYLTDEQVKKIEEILADPVAHGIPAWAV NRPKDYETGKDMHLITAKLVMAWREDVNRLRRIRAYRGIRHELGLPVRGQRTRSNFRHGTTVGVSRRKK Q5JJF1 30S ribosomal protein S15 Thermococcus kodakarensis 0.017583784999999998 1 LEVO MARIHARKRGKSGSKRPPRTAPPAWVEYTAEEVEALVVKLRKEGYSTAMIGTILRDQYGIPSVKLITGKKITKILEENGL APEIPEDLMFLIRRAVNLRKHLEQHPKDKHSRRGLQLIESKIRRLVKYYRRTGKLPAKWRYDPEQAKLLVR Q5JGJ4 30S ribosomal protein S14 type Z Thermococcus kodakarensis 0.006634088 1 LEVO MAKADYNKRKPRKFGKGARRCMRCGQYGPIIRIHGLMLCRHCFREVAPKLGFKKYE Q5JJG2 30S ribosomal protein S17 Thermococcus kodakarensis 0.013219385 1 LEVO MREIGLRVQPPAEVCNDPKCPWHGNLKIHGRYVEGIVVSDKGKKTVVVERQYYHYLKKYERYELRKSKVHAHNPECINAK VGDKVLIAETRPISKTKSWVVVAVLQRAERAEEV Q5JDH9 30S ribosomal protein S17e Thermococcus kodakarensis 0.008036430999999998 1 LEVO MGNIKQTFIKRTARELFDRYPDKFTRDFEHNKKMVAELTNVTSKTIRNRIAGYITRLVRMKEEGKIL Q5JDC7 30S ribosomal protein S19 Thermococcus kodakarensis 0.015453373999999999 1 LEVO MARKKEFRYRGYTLDELLNMSLEEFAKLLPSRQRRSLKRGLSPEQKKLLRKIRLAKKGKYNKPIRTHSRDMIVLPEMVGM TIHVYNGKEFVPVEIKEEMIGHYLGEFAMTRKVVQHGSPGVGATRSSMFVAVK Q5JDH3 30S ribosomal protein S19e Thermococcus kodakarensis 0.017303976999999998 1 LEVO MATVYDVPGDLLVERVAKALKEVPEIKPPEWAPFVKTGRHKERLPEQEDWWYYRVASVFRKVYIDGPVGIERLRTWYGGR KNRGHAPEHFYKAGGSIIRKALQQLEAAGFVQKVPGEGRIVTPKGQSFLDKIATELKKELEEQIPELKKY Q5JGN5 30S ribosomal protein S24e Thermococcus kodakarensis 0.011458115999999999 1 LEVO MEIKVTEIRENKLLGRKEIYFDVLHEGEPTPSREAVKGKLVAMLDLDPNTTVIQYIRSYFGSNVSKGYAKAYETRERMLY IEPEYILVRDGLVQKQEE Q5JIY8 30S ribosomal protein S27e Thermococcus kodakarensis 0.007085514 1 LEVO MALPKNLIPMPRSRFLRVKCIDCGNEQIVFSHPATPVRCLVCGATLVEPTGGKGIIKAKVLEVEE Q5JE50 30S ribosomal protein S28e Thermococcus kodakarensis 0.007971243999999999 1 LEVO MSDEGYPAEVIEIVGRTGVTGGVTQVKVRILEGRDKGRVIRRNVKGPVRVGDIVILRETEREAREIRRRR Q5JGR4 Predicted zinc-ribbon RNA-binding protein involved in translation Thermococcus kodakarensis 0.007001247 1 LEVO MFAVEMKFEVPVCTSCGKEITPREHATHFVCPNCGEAIIWRCESCRVLSVPYKCPKCGWEGP Q5JFE2 23S rRNA Thermococcus kodakarensis 0.990337312 1 AACGUCCCGCCCGGUGGCAACUAAGC(4AC)GCCUGG(OMU)GGAUGGCUCGGCUCGGGGCGC(4AC)GACGAA(OMG) (OMG)GCGUGGCAAGCUGCGAUAAGCCCCGGCGAGGCGCAGGCAGCCGUCGAACCGGGGAUGCC(4AC)GAAUGGGACCU CCCGCGGCUUUUGCCGCACUCCCAGUCGGGAGGGGGAACGCGGGGAAUUGAAACAUCUUAGUACC(4AC)GCAGGAAAAG (A2M)AA(OMG)CAAAAGCGAUGCCGUUAGUAGGGGCGAC(4AC)GAAAG(OMC)GGCACAGGGCAAACUGAACCCCGGG CCGAAAGGUUCGGG(OMG)GAUGUGG(5MU)GUUGUAGGGCCCGCGGAGGAGCCCUGGGGGCGAAGC(4AC)GAAGUCCG CUGGAACGC(OMG)GCG(B8T)CGGAGAG(OMG)GUGAAAGCCC(4AC)GUAGGCGUAAGCCCCCGAGCUCCUGCGGUGU CCCUGAGUAC(4AC)(OMG)UCGGUCGGAUAUC(4AC)GGCGGGAAGCUGGGAGGCA(OMU)CGGCUCCCAACCCUAAAU ACGUCCCGAGACCGAU(A2M)GCGAACUAGUAC(4AC)GUG(A2M)GGGAAAGCUGAAAAGCACCC(LHH)GGGAGGGGG G(5MU)GAAAAGAGCCUGAA(OMG)CCAGGCGG(OMC)GAUAGGAGGG(5MU)GC(OMG)GCCCGAAAGGGUUGACCCUC CCCGAAGGAAACACGGGCGAC(LHH)G(OMU)GGAGUACGAGGGGAGGUGACCGGGGUUGCACCGUCCG(OMU)CUUGGA UCACGGGGCA(OMG)GGAGUUCACCCGAGCGGCGAGGUUAAGGGGGUCAACCC(4AC)GAAG(OMC)CGCA(OMG)GGAA AC(4AC)GACAGGUCCGCAGCCCGUAAGGG(OMC)G(A2M)GGGACG(OMG)GGUG(OMU)GAAAGCGCC(4AC)GGAGU CGCUCGGGUGAGACC(4AC)(OMG)AAGC(4AC)GGUCGAUCUAGCCCGGGGC(A2M)GGGUGAA(OMG)UCCCUCAACA GAGGG(A2M)UGGAGGCC(4AC)GCUAGGGGUG(OMC)UG(A2M)CG(5MU)GCA(A2M)UUCGCUCCCGUGACCCCGGG CUAGGGGUGAAA(OMG)GCCAAUCGAGGC(4AC)GGCGAU(A2M)GCUGGUUCCCG(5MC)CGAAUUAUCCCCCAGGAUA GCCCGGCCGGAGGUAGGCAGUGGGGUAGAGCACUGAUUGGGGGUUUAGGGGGCGAAAGCCUCCGGCUCCCUGUCAAACUC CGAACCCACUGCCGCCGUAGAUGGCCGGAGUAGGGGGGCGG(5MU)GUAAGCCGUCACCCGAGAGG(OMG)GAACAACCC AGACCGGGGUUAAGGCCCCAAAGUGCCGGCUAAGUGUUACUCCAAAGGGUGUCCCUGGCCUUAGACAGCGGGGAGGUAGG CUUAGAAGCAGCCAUCCUUUAAAGAGUGCGUAACAGCUCACCCGUCGAGGUCAGGGGCCCCGAAAAUGG(A2M)CGGGGC UUAAGCCGGCCGCCGAGACCCCGGCGCACGGAC(4AC)GAUUGGUCCGUGA(OMU)CGGGUAGGCGGGCGUGC(4AC)GA (OMU)GGGGCGGAAGCCGGGC(4AC)GUGAGGUCCGGUGGACC(4AC)GUCGGUAUUGCGGAUCCUGC(4AC)G(OMG)G (A2M)GUAGCAGCAUAGCCGGGUGAGAAUCC(4AC)GGC(4AC)GC(4AC)GUAGGGGCCAGGGUUCCACGGCAAUGUUC GUCAGC(4AC)GUGGGUUAG(OMU)CGGUCCUAACCCGACCCGUAACUCGGCGUCGGGGAA(A2M)GGGAAAC(OMG)GG UUUAUAUUCCCGUAC(4AC)GCGG(5MU)GG(OMU)AGGUGC(OMG)GCAACGCAAGCCCGAGGGGUGACGCCUCGGGGU AGGCGGACCGGUCCACAAGGCCGGCUAAGCGUAUAAGCCCGGGGAGUGC(4AC)GUAAUGGCGAGAACCGGGUGAAAGCG CGAAUGGCCUCCCGUAAGGGGGGUUCCG(5MC)CGAUCCCUGGGGCCCGUGAAAAGCCCCUCGGGAACGAUCCACCGCGA CCGUAC(OMC)GAGAACCGACACUGGUGCCCCUGGG(OMU)GAGAAGCCUAAGG(OMC)GUGUCGGG(OMG)GAAACCCA GC(4AC)GAGGGAACU(OMC)GGCAAAUUGGCCCCGUAACUUCGGGAGAAGGGGUGCCUGCGGGUGUGUAACCCGCAGGU CGCAGUGACUAG(OMG)GGGGCC(4AC)GACUG(5MU)UUAGUAAAAACACAGGUCCCAGCUAGCC(4AC)GAAAG (OMG)GUUUGUACUGGG(OMG)C(4AC)GACGCCUGC(5MC)CAG(OMU)GCCGGUAUGUGAAGCCCGGGUACAACCGGG UGAAGCACCG(OMG)UAAAC(OMG)G(OMC)(OMG)GGGGUAACUAUAACC(5MC)UCUUAAGGUAG(OMC)GAAAUUC (5MC)UUGUCGGUUAAAUG(5MC)CGAC(5MC)UGCAUGAAUGGCGUAACGAGGUCCCCACUGUCCCCGGCUGGGGCC (4AC)GG(OMC)GAAACCUCUGCCAGGCGCAUAUGCCUG(OMG)GACCUC(4AC)GGUGGGAA(OMG)CGAAGACCCCAU GGAGCUUUACUGCAGCCUGCCGUUGCCGUACGGCGGGGGGUGCGCAGCGUAGGCGGGAGGCGUCGAAGCCCGCCCUCCGG GGCGGGUGGAGCCGCCCAUGAGACACCGCCCACCCUCUGCCGUACGGCUAACCCGCGGAAGCG(OMG)GGACAGCGGUAG GUGGGCAGUUUGGCUG(OMG)GGCGGCACACCCUCGAAAAGGUAUC(OMG)AGGG(5MU)GCCC(OMU)AAGGUCGGCUC AGGCGGGUCAGGAAUCCGCCGUAGAGUGCAAGGGCAAAAGCCGGCCUGACUGGACC(LHH)GUAACAGAGGCGGGUCCAG CCGCGAAAGCGUGGCCUAGCGAACCCCUGUGCCUCCCCGGUGGG(OMG)GCCAG(OMG)(OMG)AUGACAGAAAAGC (OMU)AC(OMC)CUGG(OMG)GA(4SU)AACAGAGUCGUCUC(OMG)GG(OMC)GAGAGCCCA(4SU)AUCGACCC (4AC)GAGG(OMC)UUGCUACCU(5MC)GCUG(OMU)CGGCUCUUCCCAUCCUGGC(OMC)CUGCAGCAGGGGCCAAGGG UGGGGG(OMU)(OMG)UUCACCCAUUAAAG(OMG)GGAACGUGAGCUGGG(5MU)UUAGACCGUCGUG(A2M)GACAGGU CGGAUGCUAUCUACCGGA(OMG)GUGUUGGCCGCCUGAG(OMG)GGAAGGCUCCCCCAGUACGAGAGGAACAGGGAGC (4AC)GCGGCCUCUGGUCUAC(4AC)GGUUGUCCUACAGGGCAUAGCCGGGCAGCUACGC(4AC)GCAGC(4AC)GAUAA GGCCUGAAAGCAUCUAAGG(5MC)CGAAGCGGCCCCCGAAAACAGGCGGCCACUCCUGGGCGUUGGGCCUGGGCGACCGG UCCGUUGCCCAGGACGAGGGCCCGGGAAGAAGACC(LHH)GGUUGAUGGGGCGGGGAUGUAAGCGGGAAGGGAAAC (4AC)GACC(4AC)GUUCAGUCUGC(4AC)GCUCCCAACAGCC(4AC)GAGUGCUACCGGGC 5S rRNA Thermococcus kodakarensis 0.040744309 1 GGUACGGCGGCCAUAGCGGCGGGGCCACACCCGGUCUCGUUUCGACCCCGGAAGUUAAGCCCGCCAGCGUUCCCGGGUGU ACUGCCCUCCGAGAGGGGGCGGGAAACCGGGAACGCCGCCGGCCAC AP006878.1 50S ribosomal protein L2 Thermococcus kodakarensis 0.026092432 1 LEVO MGKSLIQQRRGKGTTTFRAPSHRYRGAVRYVPLNLVQERTLRGVVEEILHDPGRTAPVARVKFEDGTKKLIIAPEGVLVG QEIYIGPEAPIAIGNTLPLAKIPEGTYVYDIEGVPGDGGKYVRAGGTYALVVSREKDKVIVQLPSGELKAFNPMCRATIG VVAGGGRLEKPIVKAGKAYYIAKARNRFWPKPRGVKMNAVNHPHGGKEHHIGRPSTVSRRAPPGRKVGHIAARRTGRRK Q5JDH2 50S ribosomal protein L3 Thermococcus kodakarensis 0.039118637 1 LEVO MGKIHRPRRGSLAYSPRKRAKSIVPRIRSWPKDSEVRMLGFAGYKAGMTHILMIDDSPGLTKGKEIFVPVTIVEVPPLFV YGIRAYKQGYLGLETATEVWFHDLHKNVARRIKTLPKNYNEEAFQAKLGQLEDLVNDGEIADVRLLVHTQPWLIGLKKKP EVMEYAIGGDDVKAKFDYAKEKIGKELRAGEVLHEGELLDVIAVTKGKGTQGPVKRWGVKVQFHKAQRAGKGRHIGNLGP WHPARVMWTVPQAGQMGFHHRTEFNKRLIAIGENGKLVLDGNEIEITPKGGFPHYGIVRSDFLMIEGTIPGSFKRIIRVR PAIRPPKKKPPVERPQITYVSRESKQ Q5JDJ0 50S ribosomal protein L4 Thermococcus kodakarensis 0.028768604 1 LEVO MKVKVFNLEGEPVEEIELPKVFSTPFRPDLIRRAVIASWTHRIQPQGRDPQAGKRRVTENIGKGHGMARVERIKTSPRFA AFVPFAVGGRRTHPPKVEKIIWEDINKKERRLAIMSAIAATANYDLVRARGHVVDNVVQIPLVVTDDLQKVFKTAQTREI FKKLGVWDDIERAKKNTKIRAGKGKMRGRRYKKAKGPLIVVAKNEGIVQGARNHPGVDVVTVDNLGVEYLAPGTHPGRLT IWTKGAIERLREIYG Q5JDI0 50S ribosomal protein L5 Thermococcus kodakarensis 0.02102757 1 LEVO MQINREAILADWEAHPMRKPRIAKVTINIGVGESGERLTKAETMLEQLVGQKPIRRRAKQTNRDFGIRRGEPIAVKVTLR GEKAYQMLDRLLEAVDRKLKASNFDEHGNFCFGIQEHINIPGVEYDPEIGIFGMDVCVTLERPGFRVAKRKRQRRKIPTK HKLTKEEGIVFAMEELKAKVEGL Q5JJG1 50S ribosomal protein L6 Thermococcus kodakarensis 0.020888271 1 LEVO MPVDAWIREEIEIPEGVEVTVEGNTVKVKGPKGELQRELKYPGVQIFTEDGKVVIYKEFPRKKDVAIVRTFKAHINNMIK GVTEGFKYRLKVVYSHFPMTVKVQGDEVVIENFLGEKNPRRAKILPGVTVKVKGSEIEVEGIDKEAVGQTAANIEQATRI TKWDRRVFQDGIYIVEKAGKPIKF Q5JJG4 50S ribosomal protein L7Ae Thermococcus kodakarensis 0.013454622999999999 2 LEVO MAKPSYVKFEVPQELAEKALEAVEIARDTGRIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYVYV PSKKELGAAAGLEVPAASVAIIEPGKARELVEDIAMKVKELMK Q5JGR3 50S ribosomal protein L10e Thermococcus kodakarensis 0.021116596 1 LEVO MGLRPAKIDRDVDKPAYTRREYIRGAPGPKITIFDMGNLSAEFEYEVSLHAEQAMQIRQNALEAIRIQVNRYLQKNVGRS NYHFKIRVYPFQVLRENPMATGRKADRYGNGMRRPFGKPIGLAARVRKDQKILTVWVNGQHLKFALGAMHRAKMKLPYSA YYRIYDKEGNDVTTKVLSTMKL Q5JDI6 50S ribosomal protein L13 Thermococcus kodakarensis 0.016316173 1 LEVO MRIINAEGLILGRLASKVAKMLLEGEEVVIVNAEKAIITGNREDIFAKYKQRTELRTRTNPRRGPFYPKRSDEIVRRTVR GMLPWKTDRGRKAFKRLKVYVGVPKEFEGKEFETISEAHMSRLATPKYVTVGEVAKFLGGKF Q5JJF6 50S ribosomal protein L14 Thermococcus kodakarensis 0.015181888 1 LEVO MAKKGAGATRGISPVRPTRALPIGAYLKVADNSGAKVIQIIGVVGYKGTRRRLAAAGVGDMVVATVKKGRPDMRHQVVRA VVVRQRKEYRRLDGMRVKFEDNAAAIVTPEGVPRGTEIRGAIAREAAERWVRLGSIASIVL Q5JJF8 50S ribosomal protein L14e Thermococcus kodakarensis 0.008968527 2 LEVO MPAIEVGRIAVVIAGRRAGQKVVVADIIDKNFVLVTGAGLNKVKRRRMNVKHLEPLPERVNIQRGASDEEIKAALEGAGI SLE Q5JJE4 50S ribosomal protein L15 Thermococcus kodakarensis 0.016571436000000002 1 LEVO MIRRRKKVRKLRGSHTHGWGCKKKHRGGGSKGGRGMAGTGKRKDQKWTWTIKYAPDRLGKRGFHRPKAVQYIPKVINLND IDENFELFKDAGIIYEEDGKLVFDATALGVDKILGTGKLTRALVVKAYYVTPKAEEKIKAAGGEVLLA Q5JJH0 50S ribosomal protein L15e Thermococcus kodakarensis 0.022607863 1 LEVO MGMYKYIREAWKSPKKSYVGELLKKRMIQWRRDPVVKRIERPTRLDRARSLGYQAKQGYVVVRVRVRRGGRKRPRWKGGR KPSKMGMVKYSPKKSLQWIAEEKAARKFPNLEVLNSYWVGEDGMYKWFEVIMVDPHHPVIKSDPKIAWIAGKAHKGRVFR GLTSAGKRSRGLLNKGKGAEKVRPSIRAHQGKGK Q5JH43 50S ribosomal protein L18 Thermococcus kodakarensis 0.022895449 1 LEVO MAHGPRYRVPFRRRREGKTNYHKRLKLLKSKKPRLVVRKTLNHHIAQIVVYDPKGDKTLVSAHTMELMRDFGWKGHGGNT PSAYLLGLLIGYKAKQAGIEEAILDIGLHPPTRGSSIFAVLKGAVDAGLNVPHSEEIYPEDYRINGEHIANYAKALKEED EALYRKQFSGYLVKGLEPEKLPEHFEEVKAKIIEKFEGARE Q5JJG7 50S ribosomal protein L18e Thermococcus kodakarensis 0.013799151999999999 1 LEVO MVKRTGPTDINLRRLIRTLRKKSNEEGVKIWKDIAWRLERPRRQRAEVNISKINRYTKEGDVVIVPGSVLGAGRLEHKVV VAAWKFSEAARRKIIEAGGEAISIEELMERNPKGSGVIIME Q5JJF5 50S ribosomal protein L19e Thermococcus kodakarensis 0.017667176 1 LEVO MIMLKTQRRIAAELLKCGENRIWIDPERIEDVAAAITREDIKRLIHDGVIKKKPIKGQSRARARAFQEARKKGRHRGPGS KKGKKTARMGKKEVWMMTIRALRKELRKLKAEGKLDAHTYRRLYIRAKGGQFKNKRQLYMFMQEHGILKE Q5JJG6 50S ribosomal protein L18Ae Thermococcus kodakarensis 0.009227708 1 LEVO MEVKVFRVKGTFERLGKKQPFTKEYRALKEEHVRELVYSDIGSKHRVPRTKIWIESIEEIKPEEAEDPVVRRLSLEL Q5JGT3 50S ribosomal protein L21e Thermococcus kodakarensis 0.011290313 1 LEVO MVKKAHSFRRKTRGKLSKHPRRRGLPPLTRFLQEFEVGQKVHIVIEPSYHKGMPDPRFHGRTGTVVGKRGDAYIVQITDG GKVKTFFIHPVHLRPQKG Q5JI51 50S ribosomal protein L22 Thermococcus kodakarensis 0.017838776999999997 1 LEVO MSRGRFSYSFQNFDPERMARASGRDLRISPKHSVELLREIRGMMLNDALRYLDDVIAKKRPVPMKRFNDSQGHKPGKGFG PGRYPVKVAKAVKKILLNAKNNAEQKGLDVDRLKIIHAAAHRGPVLRGYIPRAFGRATPFNEQTTHIEIVVEEIRR Q5JDH4 50S ribosomal protein L23 Thermococcus kodakarensis 0.009915769 1 LEVO MDPYKVIIRPLVTEKAVSLIERENKLTFIVDRRATKQDIKRAVEEMFNVKVAKVNTLVTMKGEKKAYVKLKPEYDASEIA ARLGLF Q5JDH1 50S ribosomal protein L24 Thermococcus kodakarensis 0.014225808999999999 1 LEVO MKLDMKQPRKQRKFLYNAPLHLRGKIMSAPLSKELREKYGVRNLPIRVGDKVKVMRGDFKGVEGKVVEVDLRRYRIHVEG VTHKKTDGTEVFYPLHPSNVMIVELNLEDEKREKIIERRAA Q5JJF9 50S ribosomal protein L24e Thermococcus kodakarensis 0.008111552999999999 1 LEVO MARWNVCSYCGREFEPGTGKMFVRNDGRVLFFCSSKCEKYYFMGRNPRKLKWTKAFQEARLQRAKRK Q5JGR5 50S ribosomal protein L29 Thermococcus kodakarensis 0.007937538999999999 1 LEVO MKPSEIREMSIEEIDKKIRELRLELAKERGVLTMGASMENPMVIRNLRRDIARLLTIKREKLREKR Q5JDH6 50S ribosomal protein L30 Thermococcus kodakarensis 0.017856193 1 LEVO MAKLALIRLRSGIRARGEVRDTLAMLRLHRINHLVIVDDTPSYRGMIQKVKDYITWGEIDKETLAKLLRKRGRLIGNKPI TDEYVKEKLGMTIEEFAEKVVNGEMKLRDLPNIKPVFRLHPPRGGLKGSKKRSFKEGGALGYRGEKINELIERML Q5JJG9 50S ribosomal protein L30e Thermococcus kodakarensis 0.01097282 1 LEVO MVDFAFELRKVQDTGKIVMGAKKSIHLAKVGGAKLIIVARNARPDIKEDIYYYAKLSGIPVYEFEGTSVELGTLLGRPHT VSALAVIDPGESKILALAGGKE Q5JE35 50S ribosomal protein L31e Thermococcus kodakarensis 0.010354292999999999 1 LEVO MPIKPGEEVIFVVPINKIKKRVPRWKRAPRAARFVREWIARHAKADEVIIGTDVNEKIWERGAEKPPGKLRVKVVVEESE GKRIARVSLA Q5JGT5 50S ribosomal protein L32e Thermococcus kodakarensis 0.01465448 1 LEVO MNEKARLLRIRAKLKRKKPRFLRQEWWRYPKFKNDPKWRRPKGIDSKMRLKKKGKPRSPSIGWSSPKAVRGLHPSGYEEV LVHNVKELEAIDPTRQAARIAGTVGARKREMILARAKELGVKVLN Q5JJG5 50S ribosomal protein L34e Thermococcus kodakarensis 0.010558782999999999 1 LEVO MKPMYRSRSWRRKYVRTPGGRTVIHFERRKPKVAHCAMCGRPLNGVPRGRPSELRKLPKTKKRPERPYPNLCPSCMRKVM KAQVRASITA Q5JJF7 50S ribosomal protein L37Ae Thermococcus kodakarensis 0.00924004 1 LEVO MGRTTKVGSAGRFGPRYGLKIRRRVAAVEARMKQKHVCPVCGRKAVRRISTGIWQCQKCGATFAGGAYLPTTPAGKVAKR VTASKA Q5JDM6 50S ribosomal protein L37e Thermococcus kodakarensis 0.007470875 1 LEVO MGAGTAPKGKRNRTPTHIRCRRCGRRAFNVKKGYCAACGFGRSRRMRKYSWSHKWRKKRNLSY Q5JIE1 50S ribosomal protein L39e Thermococcus kodakarensis 0.006262679 1 LEVO MARNKPFAKKLRLAKAAKQNRRVPVWVIVKTNRKVITHPKRRHWRRTKLKE Q5JGT6 50S ribosomal protein L40e Thermococcus kodakarensis 0.0057819709999999995 1 LEVO MARFPEAEARIFRKLVCMRCGATNPWGAKKCRKCGYKGLRPKAREPRGGGR Q5JJD3 LSU ribosomal protein L41E Thermococcus kodakarensis 0.005051409 1 LEVO MKRRPRKWKKKGRMRWKWIKKRIRRLKRQRRKERGLI Q5JEV0 50S ribosomal protein L44e Thermococcus kodakarensis 0.011204441 1 LEVO MKYPKQIRTYCPFCKRHTIHKVEKVKKRPRSELSAGQRRFRRKLKGYTGFPRPNPAGREKPVKKLDLRFRCTVCGKAHTR GQGFRVKKFELVEV Q5JE51 ZINC ION 6.5409e-05 12 ZN water 1.8015e-05 2367 HOH singleParticle particle 0.25 7.5 Quantifoil R2/2 COPPER 200 CARBON CONTINUOUS 2.0 GLOW DISCHARGE ETHANE 100 277.15 FEI VITROBOT MARK IV FEI TITAN KRIOS FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 70.0 29000.0 FEI FALCON III (4k x 4k) COUNTING 34.0 1 CTFFIND 4 PHASE FLIPPING AND AMPLITUDE CORRECTION C1 2.95 FSC 0.143 CUT-OFF RELION 3 53737 MAXIMUM LIKELIHOOD MAXIMUM LIKELIHOOD RIGID BODY FIT emd_10223_additional_4.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 480 480 480 0 0 0 480 480 480 408.0 408.0 408.0 90.0 90.0 90.0 X Y Z -0.0471718 0.114419624 -0.00014367477 0.0031686341 0.85 0.85 0.85 AUTHOR ::::EMDATABANK.org::::EMD-10223:::: T. kodakarensis 30S body unsharpened map emd_10223_additional_5.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 480 480 480 0 0 0 480 480 480 408.0 408.0 408.0 90.0 90.0 90.0 X Y Z -0.14587143 0.23934324 0.00004745796 0.002976128 0.85 0.85 0.85 AUTHOR ::::EMDATABANK.org::::EMD-10223:::: T. kodakarensis 30S head map emd_10223_additional_6.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 480 480 480 0 0 0 480 480 480 408.0 408.0 408.0 90.0 90.0 90.0 X Y Z -0.04010859 0.08494106 -0.00025695076 0.0019305862 0.85 0.85 0.85 AUTHOR ::::EMDATABANK.org::::EMD-10223:::: T. kodakarensis 30S head unsharpened map emd_10223_additional_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 480 480 480 0 0 0 480 480 480 408.0 408.0 408.0 90.0 90.0 90.0 X Y Z -0.24538869 0.37018654 0.00023332746 0.009937867 0.85 0.85 0.85 AUTHOR ::::EMDATABANK.org::::EMD-10223:::: T. kodakarensis 50S map emd_10223_additional_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 480 480 480 0 0 0 480 480 480 408.0 408.0 408.0 90.0 90.0 90.0 X Y Z -0.05303823 0.11709171 -0.00005857674 0.0044850158 0.85 0.85 0.85 AUTHOR ::::EMDATABANK.org::::EMD-10223:::: T. kodakarensis 50S unsharpened map emd_10223_additional_3.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 480 480 480 0 0 0 480 480 480 408.0 408.0 408.0 90.0 90.0 90.0 X Y Z -0.1653356 0.29979575 0.00008943027 0.0052908957 0.85 0.85 0.85 AUTHOR ::::EMDATABANK.org::::EMD-10223:::: T. kodakarensis 30S body unsharpened map