2024-04-24 REL PDBe PDBe PDBe 2019-11-18 2020-07-29 2020-07-29 2024-04-24 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 6th6 FULLOVERLAP 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 ribosomal RNA Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.486944844 1 AUUC(4AC)GG(OMU)UGAUCCUGCCGGAGGCCACUGCUAUGGGGGUCCGACUAAGCCAUGCGAGUCAUGGGGCGCGCUC UGCGCGCACCGGCGGACGGCUCAGUAACACGUCGGUAACCUACCCUCGGGAGGGGGAUAACCCCGGGAAACUGGGGCUAA UCCCCCAUAGGCCUGAGGUACUGGAAGGUCCUCAGGCCGAAAGGGGCAUCUGCCCGCCCGAGGAUGGGCCGGCGGCCGAU UAGGUAGUUGGUGGGGUAACGGCCCACCAAGCCGAAGAUCGGUACGGGCCAUGAGAGUGGGAGCCCGGAGAUGGACACUG AGACACGGGUCCAGGCCCUACGGGGCGCAGCAGGCGCGA(A2M)ACCUCCGCAAUGCGGGCAACCGCGACGGGGGGACCC CCAGUGCCGUGGCAUAGCCACGGCUUUUCCGGAGUGUAAAAAGCUCCGGGAAUAAGG(OMG)CUG(OMG)GCAAGGC (4AC)GGUGGCAGCCGCCGCGGUAAUACCGGCGGCCCGAGUGGU(OMG)GCCGCUAUUAUUGGGCCUAAAGCGUCCGUA (OMG)CCGGGCCCGUAAGUCCCU(OMG)GCGAAAUCCCACGGCUCAACCGUGGGGCUUGCUGGGGAUACUGCGGGCCUUG GGACCGGGAGAGGCCGGGGGUACCCCUGGGGUAGGGGUGAAAUCCUAUAAUCCCAGG(OMG)(OMG)GACCGCCAGUGG (5MC)GAAGGCGCCCGGCUGGAACGGGUCCGACGGUGAGGGACGAAGGCCAGGGGAGCGAAC(4AC)GGAUUAGAUACCC GGGUAGUCCUGGCUGUAAAGGAUGCGGGCUAGGUGUCGGGCGAGCUUCGAGCUCGCCCGGUGCCGGAGGGAAGCCGUUAA GCCCGCCGCCUGGGGAGUACGGCCGCAA(OMG)G(5MC)UGAAACUUAAAGGAAUUGGCGGGGGAGCACUACAAGGGGUG GAGCGUGCGGUUUAAUU(OMG)GAU(5MU)(LV2)AACGCCGGGAACCUCACCGGGGGCGACGGCAGGAUGAAGGCCAGG CUGAAGGUCUUGCCGGACACGCCGAGAGGAGGUGCAUGGCCGCCGUCAGCUCGUACCGUGAGGCGUCCACUUAAGUGUGG UAACGAGCGAGACCCGCGCCCCCAGUUGCCAGUCCUCCCCGCUGGGGAGGAGGCACUCUGGGGGGACCGCCGGCGAUAAG CCGGAGGAAGGAGCGGGCGACGGUAGGUCAGUAUGCCCCGAAACCCCCGGGCUACACGCGCGCUACAAUGGGCGGGACAA UGGGAUCCGACCCCGAAAGGGGAAGGGAAUCCCCUAAACCCGCCCUCAGUUCGGAUCGCGGGCUGCAACUCGCCCGCGUG AAGCUGGAAUCCCUAGUACCCGCGUGUCAUCAUCGCGCGGCGAAUACGUCCCUGCUCCUUGCACACAC(5MC)G(OMC)C CGUCACUCCACCCGAGCGGGGUCCGGGUGAGGCCUGGUCUCCCUUCGGGGAGGCCGGGUCGAGCCUGGGCUCCGUGAGGG GGGAGAAGUCGUA(6MZ)CAAGGUAGC(4AC)GUAGGGG(MA6)(MA6)CCUACGGCUCGAUCACCUCCUAUCGCCGGA 30S ribosomal protein S2 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.023039793 1 LEVO MEEYLVPLDQYLAAGVHIGTQQKTKDMKKFIYRVRQDGLYVLDVRKTDERLRVAGKFLAKFDPESILAVSVRLYGQRPVK KFGEVTGAKAIPGRFLPGTMTNPQVKNFIEPDVLIVTDPRADHQALKEAVEIGIPIVALVDTENFLSYVDIAIPTNNKGR KALALIYWILAREVLYNRKEIESREDFKIPVEDFEMRIIRT Q5JJD2 30S ribosomal protein S3 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.02339016 1 LEVO MAIERYFIKEGVKEMLIDEFLEKELRRAGYGGLDIKKTPLGTKVTIFAANPGYVIGRGGRRIRELTRILEKQFGLENPQI EVEEIKNPYLNAKVQAVRLAQALERGIHFRRAAYSAIRAIMRNGARGVEIRLSGKLTGERAKSVRFYQGYLAKVGNPAET LVSRGYAQAQLKLGVIGVKVSIMPPDAKLPDEIEIKEIVEEEVSANEAQ Q5JDH5 30S ribosomal protein S3Ae Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.023064919999999996 1 LEVO MARGNPRKRAAAAKDKWKMKEWYIVYAPDFFGSKEIGLTPADDPEKVIGRVIETTLKDLTGDFTKGHVKLYFQVYDVKGQ NAYTKFKGHTLARSYIRSLVRRRTTRVDGIFNITTKDGYKLRVMGMVIAYRRIQTSQERAIRKIIQDIIYKKAEELNFAD FVLQSVNGQIASEIAKEARKIYPIKRAEVRKIKVLAEPSA Q5JGM4 30S ribosomal protein S4 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.021240620999999998 1 LEVO MGDPKRQRKKYETPSHPWIKERLDRERVLKRNYALKNKKELWRHETQLKEFRRRARRLLAARGKQAEIERQQLLQRLYRL GLLPADAVLDDVLSLTVEDVLERRLQTIVYRKGLARTMKQARQLIVHGHIEVNGQVIRSPGYLVLREEEDTITYAKGSPF AKEGHPERMVIEQAKQGGEA Q5JJF2 30S ribosomal protein S4e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.027820629 1 LEVO MARKGPKRHLKRLAAPTSWYIHRKAYKWAVRPSPGPHSMKTSIPLIYIVRDYLGYAKTAREARKILNEGKILVDGRVRKD YKFPVGIMDVVSIPETGEHYRVLPNRIGKLILHPISEEEAKLKPFRINNKRMVKGAKVQLNLHDGSNHLVSLAEKDAYKT SYTVIMQVPERQIVKVLPFEVGAYVFVTQGKNVARKGKIVEVRQFPMGWPDVVTIEDENGELFDTLKEYAFVIGKDKPEI SLP Q5JJG0 30S ribosomal protein S5 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.026372613 1 LEVO MSDPREIAQRVLEEWEPKTKLGRLVKEGQITDIHEIFRKGYQIKEPEIVDVLLPEVNLRENQEVLDIALTVRMTDSGRRI RFRVLAAVGNRDGYVGLGIGHGREVGIAIRKAINYAKMNIIEIKRGCGSWECRCRRPHSIPFAVEGKEGSVRVKLMPGPR GLGLVIGDVGKKILTLAGVQDVWSQTLGETRTTVNFAKAVFNALYNTNRVAIKPEDIERYGIVVGRAMPTTFEVE Q5JJG8 30S ribosomal protein S6e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.013760986 1 LEVO MATFKLVISNPKNGVAKQVEISGPEADKLIGRRIGEEIPASELGLNLSEIFGEEIPADAKLKITGGTDKDGFPMRPDVHG PRRVKILLSRGPGFRPRERGERRKKTVHGNTISPNIVQVNMKIVF Q5JDK8 30S ribosomal protein S7 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.024573712999999997 1 LEVO MAKPLTERFFIPKEVKVMGRWSVEDVTVEDPSLKPYINLDARILPHSHGRYAKKPFGKANVHIVERLINKVMRSGASHYK AGGHFMRREHRSIMSKKMKAYEVVKEAFMIIERRTKQNPIQVLVKAIENSAPREDTTTIAFGGIRYHMSVDVSPLRRLDI ALKNIALGASIKCYRNKTTYAQALAEEIIAAANKDPKSFAYSKKEEIERIAQSSR Q5JE04 30S ribosomal protein S8 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.014602109 1 LEVO MTLLDPLANALSHITNSERVGKKEVYIKPASKLIGEVLRVMLENGYIGEFELIDDGRAGIYRVQLIGKINKAGAIKPRFP VKARDYEKWEKRFLPAFEFGILIVSTSQGVMTHKEALEKGIGGRLIAYVY Q5JJG3 30S ribosomal protein S8e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.014548031 1 LEVO MAIWQGRSLKKPSGGRIILARKKRKRELGREPANTKVGEDREKRKIIRTYGGNRKVRLVEALYANVFEGGKGKKVKILNV VENPANRQYARRNIITKGAIIETEIGKAIVTSRPGQDGVVNAVLIKEENA Q5JGF3 30S ribosomal protein S9 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.015358942999999998 1 LEVO MRVIQTAGKRKTAVARATIREGKGRVRINHKPVEIIEPEIARFTIMEPLILAGEEIVSRVDIDVKVEGGGFMGQAEAARV AIARALVEWTNDMNLKEKFMKYDRTMLVGDSRRTEPHKPNRSTKGPRAKRQKSYR Q5JJE2 30S ribosomal protein S10 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.011716665999999999 1 LEVO MQKARIKLASTNIKALNEVTDQIKQIAERTGVRMSGPIPLPTKRIRITTRKSPDGEGSATFDRFELRVHKRLVDIEADER AMRQIMRIRVPEDVTIEIELIS Q5JFZ5 30S ribosomal protein S11 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.015111241 1 LEVO MSEEQTTQVNIKKKEKWGVAHIYSSYNNTIIHITDLTGAETISRWSGGMVVKADRDEPSPYAAMIAARRAAEEAMEKGIT GVHIKVRAPGGSKSKSPGPGAQAAIRALSRAGLRIGRVEDVTPIPHDGTRPKGGRRGRRV Q5JJF3 30S ribosomal protein S12 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.016488537 1 LEVO MAGKKAPYGEFAGRKLKLKRKKFRWSDIRYKRRVLRLKEKSDPLEGAPQARGIVLEKIAVEAKQPNSAMRKAVRVQLIKN GKVVTAFTPGDGAINHIDEHDEVIIEGIGGPKGGSMGDIPGIRYKVVKVNRVSLKELVKGRKEKPRR Q5JE20 30S ribosomal protein S13 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.017025875 1 LEVO MTENFRHIVRVAGVDIDGHKQVRWALTGIKGIGINFATMVLRVAGIDPFMKAGYLTDEQVKKIEEILADPVAHGIPAWAV NRPKDYETGKDMHLITAKLVMAWREDVNRLRRIRAYRGIRHELGLPVRGQRTRSNFRHGTTVGVSRRKK Q5JJF1 30S ribosomal protein S15 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.017583784999999998 1 LEVO MARIHARKRGKSGSKRPPRTAPPAWVEYTAEEVEALVVKLRKEGYSTAMIGTILRDQYGIPSVKLITGKKITKILEENGL APEIPEDLMFLIRRAVNLRKHLEQHPKDKHSRRGLQLIESKIRRLVKYYRRTGKLPAKWRYDPEQAKLLVR Q5JGJ4 30S ribosomal protein S14 type Z Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.006634088 1 LEVO MAKADYNKRKPRKFGKGARRCMRCGQYGPIIRIHGLMLCRHCFREVAPKLGFKKYE Q5JJG2 30S ribosomal protein S17 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.013219385 1 LEVO MREIGLRVQPPAEVCNDPKCPWHGNLKIHGRYVEGIVVSDKGKKTVVVERQYYHYLKKYERYELRKSKVHAHNPECINAK VGDKVLIAETRPISKTKSWVVVAVLQRAERAEEV Q5JDH9 30S ribosomal protein S17e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.008036430999999998 1 LEVO MGNIKQTFIKRTARELFDRYPDKFTRDFEHNKKMVAELTNVTSKTIRNRIAGYITRLVRMKEEGKIL Q5JDC7 30S ribosomal protein S19 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.015453373999999999 1 LEVO MARKKEFRYRGYTLDELLNMSLEEFAKLLPSRQRRSLKRGLSPEQKKLLRKIRLAKKGKYNKPIRTHSRDMIVLPEMVGM TIHVYNGKEFVPVEIKEEMIGHYLGEFAMTRKVVQHGSPGVGATRSSMFVAVK Q5JDH3 30S ribosomal protein S19e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.017303976999999998 1 LEVO MATVYDVPGDLLVERVAKALKEVPEIKPPEWAPFVKTGRHKERLPEQEDWWYYRVASVFRKVYIDGPVGIERLRTWYGGR KNRGHAPEHFYKAGGSIIRKALQQLEAAGFVQKVPGEGRIVTPKGQSFLDKIATELKKELEEQIPELKKY Q5JGN5 30S ribosomal protein S24e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.011458115999999999 1 LEVO MEIKVTEIRENKLLGRKEIYFDVLHEGEPTPSREAVKGKLVAMLDLDPNTTVIQYIRSYFGSNVSKGYAKAYETRERMLY IEPEYILVRDGLVQKQEE Q5JIY8 30S ribosomal protein S27e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.007069558 1 LEVO MALPKNLIPMPRSRFLRVKCIDCGNEQIVFSHPATPVRCLVCGATLVEPTGGKGIIKAKVLEVEL Q5JE50 30S ribosomal protein S28e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.007971243999999999 1 LEVO MSDEGYPAEVIEIVGRTGVTGGVTQVKVRILEGRDKGRVIRRNVKGPVRVGDIVILRETEREAREIRRRR Q5JGR4 Predicted zinc-ribbon RNA-binding protein involved in translation Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.007001247 1 LEVO MFAVEMKFEVPVCTSCGKEITPREHATHFVCPNCGEAIIWRCESCRVLSVPYKCPKCGWEGP Q5JFE2 23S ribosomal RNA Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.9876689379999999 1 AACGUCCCGCCCGGUGGCAACUAAGCCGCCUGGUGGAUGGCUCGGCUCGGGGCGCCGACG(A2M)A(OMG)G(OMG)CGU GGCAAGCUGCGAUAAGCCCCGGCGAGGCGCAGGCAGCCGUCGAACCGGGGAUGCCCGAAUGGGACCUCCCGCGGCUUUUG CCGCACUCCCAGUCGGGAGGGGGAACGCGGGGAAUUGAAACAUCUUAGUACCCGCAGGAAAAGAAA(OMG)CAAAAGCGA UGCCGUUAGUAGGGGCGACCGAAAGCGGCACAGGGCAAACUGAACCCCGGGCCGAAAGGUUCGGGGGAUGUGGUGUUGUA GGGCCCGCGGAGGAGCCCUGGGGGCGAAGCCGAAGUC(5MC)GCUGGAACGCGGCGCCGGAGAGGGUGAAAGCCCCGUAG GCGUAAGCCCCCGAGCUCCUGCGGUGUCCCUGAGUACCGUCGGUCGGAUAUCCGGCGGGAAGCUGGGAGGCA(OMU)CGG CUCCCAACCCUAAAUACGUC(OMC)CGAGACCGAUAGC(OMG)AACUAGUAC(LHH)GUG(A2M)GGGAAAGCUGAAAAG CACCCCGGGAGGGGGGUGAAAAGAGCCUGAAACCAGGCGGCGAUAGGAGGGUGCGGCCCGAAAGGGUUGACCCUCCCCGA AGGAAACACGGGCGACCGUGGAGUACGAGGGGAGGUGACCGGGGUUGCACCGUCCG(OMU)CUUGGAUCAC(OMG)GGGC A(OMG)GGAGUUCACCCGAGCGGCGAGGUUAAGGGGGUCAACCCCGAAGCCGCAGGGAAACCGACAGGUCCGCAGCCCGU AAGGGCGAGGGACGGGGUGUGAAAGCGCCCGGAGUCGCUCGGGUGAGACCC(OMG)AAGCCGGUCGAUCUAGCCCGGGGC AGGGUGAA(OMG)UCCCUCAACAGAGGG(A2M)UGGAGGCCCGCUAGGGGUG(OMC)UG(A2M)CG(5MC)GCA(A2M)U UCGCUCCCGUGACCCCGGGCUAGGGGUGAAA(OMG)GCCAAUCGAGGCCGGCGAU(A2M)GCUGGUUCCC(OMG)CCGAA UUAUCCCCCAGGAUAGCCCGGCCGGAGGUAGGCAGUGGGGUAGAGCACUGAUUGGGGGUUUAGGGGGCGAAAGCCUCCGG CUCCCUGUCAAACUCCGAACCCACUGCCGCCGUAGAUGGCCGGAGUAGGGGGGCGGUGUAAGCCGUCACCCGAGAGGGGA (A2M)CAACCCAGACCGGGGUUAA(OMG)GCCCCAAAGUGCCGGCUAAGUGUUACUCCAAAGGGUGUCCCUGGCCUUAGA CAGCGGGGAGGUAGGCUUAGAAGCAGCCAUCCUUUAAAGAGUGCGUAACAGCUCACCCGUCGAGGUCAGGGGCCCCGAAA AUGGACGGGGCUUAAGCCGGCCGCCGAGACCCCGGCGCACGGACCGAUUGGUCCGUGAUCGGGUAGGCGGGCGUGCCGAU GGGGCGGAAGCCGGGCCGUGAGGUCCGGUGGACCCGUCGGUAUUGCGGAUCCUGCCGGGAGUAGCAGCAUAGCCGGGUGA GAAUCCCGGCCGCCGUAGGGGCCAGGGUUCCACGGCAAUGUUCGUCAGCCGUGGGUUAGUCGGUCCUAACCCGACCCGUA ACUCGGCGUCGGGGAAAGGGAAACGGGUUUAUAUUCCCGUACCGCGGUGGUAGGUGCGGCAACGCAAGCCCGAGGGGUGA CGCCUCGGGGUAGGCGGACCGGUCCACAAGGCCGGCUAAGCG(OMU)AUAAGCCCGGGGAGUGCCGUAAUGGCGAGAACC GGGUGAAAGCGCGAAUGGCCUCCCGUAAGGGGGGUUCCGCCGAUCCCUGGGG(OMC)CCGUGAAAAGC(OMC)CCUCGGG AACGAUCCACCGCGACCGUACCGAGAACCGACACUGGUGCCCCUGGG(OMU)GAGAAGCCUAAGGCGUGUCGGGGGAAAC CCAGCCGAGGGAACU(OMC)GGCAAAUUGGCCCCGUAACUUCGGGAGAAGGGGUGCCUGCGGGUGUGUAACCCGCAGGUC GCAGUGACUAGGGGGGCCCGACUG(OMU)UUAGUAAAAACACAGGUCCCAGCUAGCCCGAAAGGGUUU(OMG)UAC (OMU)GGG(OMG)CCGACGCCUGC(5MC)CAG(OMU)GCCGGUAUGUGAAGCCCGGGUACAACCGGGUGAAGCACCG (OMG)UAAAC(OMG)GCGGGGGUAACUAUAACCCUCUUAAGGUAG(OMC)GAAAUUC(5MC)UUGUCGGUUAAAUGCCGA C(5MC)UGCAUGAAUGGCGUAACGAGGUCCCCACUGUCCCCGGCU(OMG)GGGC(5MC)CGGCGAAACCUCUGCCAGGCG CAU(A2M)UGCCUGGGACCUCCGGUGGGAAGCGAAGACCCCAUGGAGCUUUACUGCAGCCUGCCGUUGCCGUACGGCGGG GGGUGCGCAGCGUAGGCGGGAGGCGUCGAAGCCCGCCCUCCGGGGCGGGUGGAGCCGCCCAUGAGACACCGCCCACCCUC UGCCGUACGGCUAACCCGCGGAAGCGGGGACAGCGGUAGGUGGGCAGUUUGGCUG(OMG)GGCGGCACACCCUCGAAAAG GUAUC(OMG)AGGGUGCCCUAAGGUCGGCUCAGGCGGGUCAGGAAUCCGCCGUAGAGUGCAAGGGCAAAAGCCGGCCUGA CUGGACCCGUAACAGAGGCGGGUCCAGCCGCGAAAGCGUGGCCUAGCGAACCCCUGUGCCUCCCCGGUGGGGGCCAGG (OMG)AUGACAGAAAAGC(OMU)AC(OMC)CUGG(OMG)GA(4SU)AACAGAGUCGUCUCGGGCGAGAGCCCAUAUCGAC CCCGAGGCUUGCUACCUCGCUGUCG(OMG)CUCUUCCCAUCCUGGCCCUGCAGCAGGGGCCAAGGGUGGGGG(OMU)GUU CACCCAUUAAAG(OMG)GGAACGUGAGCUGGGUUUAGACCGUCGUGAGACAGGUCGGAUGCUAUCUACCGGAGGUGUUGG CCGCCUGAG(OMG)GGAAGGCUCCCCCAGUACGAGAGGAACAGGGAGCCGCGGC(OMC)UCUGGUCUACCGGUUGUCCUA CAGGGCAUAGCCGGGCAGCUACGCCGCAGCCGAUAAGGCCUGAAAGCAUCUAAGGCCGAAGCGGCCCC(OMC)GAAAACA GGCGGCCACUCCUGGGCGUUGGGCCUGGGCGACCGGUCCGUUGCCCAGGACGAGGGCCCGGGAAGAAGACCCGGUUGAUG GGGCGGGGAUGUAAGCGGGAAGGGAAACCGACCCGUUCAGUCUGCCGCUCCCAACAGCCCGAGUGCUACCGGGC 5S ribosomal RNA Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.040744309 1 GGUACGGCGGCCAUAGCGGCGGGGCCACACCCGGUCUCGUUUCGACCCCGGAAGUUAAGCCCGCCAGCGUUCCCGGGUGU ACUGCCCUCCGAGAGGGGGCGGGAAACCGGGAACGCCGCCGGCCAC AP006878.1 50S ribosomal protein L2 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.026092432 1 LEVO MGKSLIQQRRGKGTTTFRAPSHRYRGAVRYVPLNLVQERTLRGVVEEILHDPGRTAPVARVKFEDGTKKLIIAPEGVLVG QEIYIGPEAPIAIGNTLPLAKIPEGTYVYDIEGVPGDGGKYVRAGGTYALVVSREKDKVIVQLPSGELKAFNPMCRATIG VVAGGGRLEKPIVKAGKAYYIAKARNRFWPKPRGVKMNAVNHPHGGKEHHIGRPSTVSRRAPPGRKVGHIAARRTGRRK Q5JDH2 50S ribosomal protein L3 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.039118637 1 LEVO MGKIHRPRRGSLAYSPRKRAKSIVPRIRSWPKDSEVRMLGFAGYKAGMTHILMIDDSPGLTKGKEIFVPVTIVEVPPLFV YGIRAYKQGYLGLETATEVWFHDLHKNVARRIKTLPKNYNEEAFQAKLGQLEDLVNDGEIADVRLLVHTQPWLIGLKKKP EVMEYAIGGDDVKAKFDYAKEKIGKELRAGEVLHEGELLDVIAVTKGKGTQGPVKRWGVKVQFHKAQRAGKGRHIGNLGP WHPARVMWTVPQAGQMGFHHRTEFNKRLIAIGENGKLVLDGNEIEITPKGGFPHYGIVRSDFLMIEGTIPGSFKRIIRVR PAIRPPKKKPPVERPQITYVSRESKQ Q5JDJ0 50S ribosomal protein L4 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.028768604 1 LEVO MKVKVFNLEGEPVEEIELPKVFSTPFRPDLIRRAVIASWTHRIQPQGRDPQAGKRRVTENIGKGHGMARVERIKTSPRFA AFVPFAVGGRRTHPPKVEKIIWEDINKKERRLAIMSAIAATANYDLVRARGHVVDNVVQIPLVVTDDLQKVFKTAQTREI FKKLGVWDDIERAKKNTKIRAGKGKMRGRRYKKAKGPLIVVAKNEGIVQGARNHPGVDVVTVDNLGVEYLAPGTHPGRLT IWTKGAIERLREIYG Q5JDI0 50S ribosomal protein L5 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.02102757 1 LEVO MQINREAILADWEAHPMRKPRIAKVTINIGVGESGERLTKAETMLEQLVGQKPIRRRAKQTNRDFGIRRGEPIAVKVTLR GEKAYQMLDRLLEAVDRKLKASNFDEHGNFCFGIQEHINIPGVEYDPEIGIFGMDVCVTLERPGFRVAKRKRQRRKIPTK HKLTKEEGIVFAMEELKAKVEGL Q5JJG1 50S ribosomal protein L6 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.020888271 1 LEVO MPVDAWIREEIEIPEGVEVTVEGNTVKVKGPKGELQRELKYPGVQIFTEDGKVVIYKEFPRKKDVAIVRTFKAHINNMIK GVTEGFKYRLKVVYSHFPMTVKVQGDEVVIENFLGEKNPRRAKILPGVTVKVKGSEIEVEGIDKEAVGQTAANIEQATRI TKWDRRVFQDGIYIVEKAGKPIKF Q5JJG4 50S ribosomal protein L7Ae Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.013454622999999999 2 LEVO MAKPSYVKFEVPQELAEKALEAVEIARDTGRIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEIPYVYV PSKKELGAAAGLEVPAASVAIIEPGKARELVEDIAMKVKELMK Q5JGR3 50S ribosomal protein L10e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.021116596 1 LEVO MGLRPAKIDRDVDKPAYTRREYIRGAPGPKITIFDMGNLSAEFEYEVSLHAEQAMQIRQNALEAIRIQVNRYLQKNVGRS NYHFKIRVYPFQVLRENPMATGRKADRYGNGMRRPFGKPIGLAARVRKDQKILTVWVNGQHLKFALGAMHRAKMKLPYSA YYRIYDKEGNDVTTKVLSTMKL Q5JDI6 50S ribosomal protein L13 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.016316173 1 LEVO MRIINAEGLILGRLASKVAKMLLEGEEVVIVNAEKAIITGNREDIFAKYKQRTELRTRTNPRRGPFYPKRSDEIVRRTVR GMLPWKTDRGRKAFKRLKVYVGVPKEFEGKEFETISEAHMSRLATPKYVTVGEVAKFLGGKF Q5JJF6 50S ribosomal protein L14 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.015181888 1 LEVO MAKKGAGATRGISPVRPTRALPIGAYLKVADNSGAKVIQIIGVVGYKGTRRRLAAAGVGDMVVATVKKGRPDMRHQVVRA VVVRQRKEYRRLDGMRVKFEDNAAAIVTPEGVPRGTEIRGAIAREAAERWVRLGSIASIVL Q5JJF8 50S ribosomal protein L14e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.008968527 2 LEVO MPAIEVGRIAVVIAGRRAGQKVVVADIIDKNFVLVTGAGLNKVKRRRMNVKHLEPLPERVNIQRGASDEEIKAALEGAGI SLE Q5JJE4 50S ribosomal protein L15 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.016571436000000002 1 LEVO MIRRRKKVRKLRGSHTHGWGCKKKHRGGGSKGGRGMAGTGKRKDQKWTWTIKYAPDRLGKRGFHRPKAVQYIPKVINLND IDENFELFKDAGIIYEEDGKLVFDATALGVDKILGTGKLTRALVVKAYYVTPKAEEKIKAAGGEVLLA Q5JJH0 50S ribosomal protein L15e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.022607863 1 LEVO MGMYKYIREAWKSPKKSYVGELLKKRMIQWRRDPVVKRIERPTRLDRARSLGYQAKQGYVVVRVRVRRGGRKRPRWKGGR KPSKMGMVKYSPKKSLQWIAEEKAARKFPNLEVLNSYWVGEDGMYKWFEVIMVDPHHPVIKSDPKIAWIAGKAHKGRVFR GLTSAGKRSRGLLNKGKGAEKVRPSIRAHQGKGK Q5JH43 50S ribosomal protein L18 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.022895449 1 LEVO MAHGPRYRVPFRRRREGKTNYHKRLKLLKSKKPRLVVRKTLNHHIAQIVVYDPKGDKTLVSAHTMELMRDFGWKGHGGNT PSAYLLGLLIGYKAKQAGIEEAILDIGLHPPTRGSSIFAVLKGAVDAGLNVPHSEEIYPEDYRINGEHIANYAKALKEED EALYRKQFSGYLVKGLEPEKLPEHFEEVKAKIIEKFEGARE Q5JJG7 50S ribosomal protein L18e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.013799151999999999 1 LEVO MVKRTGPTDINLRRLIRTLRKKSNEEGVKIWKDIAWRLERPRRQRAEVNISKINRYTKEGDVVIVPGSVLGAGRLEHKVV VAAWKFSEAARRKIIEAGGEAISIEELMERNPKGSGVIIME Q5JJF5 50S ribosomal protein L19e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.017667176 1 LEVO MIMLKTQRRIAAELLKCGENRIWIDPERIEDVAAAITREDIKRLIHDGVIKKKPIKGQSRARARAFQEARKKGRHRGPGS KKGKKTARMGKKEVWMMTIRALRKELRKLKAEGKLDAHTYRRLYIRAKGGQFKNKRQLYMFMQEHGILKE Q5JJG6 50S ribosomal protein L18Ae Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.009227708 1 LEVO MEVKVFRVKGTFERLGKKQPFTKEYRALKEEHVRELVYSDIGSKHRVPRTKIWIESIEEIKPEEAEDPVVRRLSLEL Q5JGT3 50S ribosomal protein L21e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.011290313 1 LEVO MVKKAHSFRRKTRGKLSKHPRRRGLPPLTRFLQEFEVGQKVHIVIEPSYHKGMPDPRFHGRTGTVVGKRGDAYIVQITDG GKVKTFFIHPVHLRPQKG Q5JI51 50S ribosomal protein L22 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.017838776999999997 1 LEVO MSRGRFSYSFQNFDPERMARASGRDLRISPKHSVELLREIRGMMLNDALRYLDDVIAKKRPVPMKRFNDSQGHKPGKGFG PGRYPVKVAKAVKKILLNAKNNAEQKGLDVDRLKIIHAAAHRGPVLRGYIPRAFGRATPFNEQTTHIEIVVEEIRR Q5JDH4 50S ribosomal protein L23 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.009915769 1 LEVO MDPYKVIIRPLVTEKAVSLIERENKLTFIVDRRATKQDIKRAVEEMFNVKVAKVNTLVTMKGEKKAYVKLKPEYDASEIA ARLGLF Q5JDH1 50S ribosomal protein L24 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.014225808999999999 1 LEVO MKLDMKQPRKQRKFLYNAPLHLRGKIMSAPLSKELREKYGVRNLPIRVGDKVKVMRGDFKGVEGKVVEVDLRRYRIHVEG VTHKKTDGTEVFYPLHPSNVMIVELNLEDEKREKIIERRAA Q5JJF9 50S ribosomal protein L24e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.008111552999999999 1 LEVO MARWNVCSYCGREFEPGTGKMFVRNDGRVLFFCSSKCEKYYFMGRNPRKLKWTKAFQEARLQRAKRK Q5JGR5 50S ribosomal protein L29 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.007937538999999999 1 LEVO MKPSEIREMSIEEIDKKIRELRLELAKERGVLTMGASMENPMVIRNLRRDIARLLTIKREKLREKR Q5JDH6 50S ribosomal protein L30 Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.017856193 1 LEVO MAKLALIRLRSGIRARGEVRDTLAMLRLHRINHLVIVDDTPSYRGMIQKVKDYITWGEIDKETLAKLLRKRGRLIGNKPI TDEYVKEKLGMTIEEFAEKVVNGEMKLRDLPNIKPVFRLHPPRGGLKGSKKRSFKEGGALGYRGEKINELIERML Q5JJG9 50S ribosomal protein L30e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.01097282 1 LEVO MVDFAFELRKVQDTGKIVMGAKKSIHLAKVGGAKLIIVARNARPDIKEDIYYYAKLSGIPVYEFEGTSVELGTLLGRPHT VSALAVIDPGESKILALAGGKE Q5JE35 50S ribosomal protein L31e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.010354292999999999 1 LEVO MPIKPGEEVIFVVPINKIKKRVPRWKRAPRAARFVREWIARHAKADEVIIGTDVNEKIWERGAEKPPGKLRVKVVVEESE GKRIARVSLA Q5JGT5 50S ribosomal protein L32e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.01465448 1 LEVO MNEKARLLRIRAKLKRKKPRFLRQEWWRYPKFKNDPKWRRPKGIDSKMRLKKKGKPRSPSIGWSSPKAVRGLHPSGYEEV LVHNVKELEAIDPTRQAARIAGTVGARKREMILARAKELGVKVLN Q5JJG5 50S ribosomal protein L34e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.010558782999999999 1 LEVO MKPMYRSRSWRRKYVRTPGGRTVIHFERRKPKVAHCAMCGRPLNGVPRGRPSELRKLPKTKKRPERPYPNLCPSCMRKVM KAQVRASITA Q5JJF7 50S ribosomal protein L37Ae Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.00924004 1 LEVO MGRTTKVGSAGRFGPRYGLKIRRRVAAVEARMKQKHVCPVCGRKAVRRISTGIWQCQKCGATFAGGAYLPTTPAGKVAKR VTASKA Q5JDM6 50S ribosomal protein L37e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.007470875 1 LEVO MGAGTAPKGKRNRTPTHIRCRRCGRRAFNVKKGYCAACGFGRSRRMRKYSWSHKWRKKRNLSY Q5JIE1 50S ribosomal protein L39e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.006262679 1 LEVO MARNKPFAKKLRLAKAAKQNRRVPVWVIVKTNRKVITHPKRRHWRRTKLKE Q5JGT6 50S ribosomal protein L40e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.0057819709999999995 1 LEVO MARFPEAEARIFRKLVCMRCGATNPWGAKKCRKCGYKGLRPKAREPRGGGR Q5JJD3 LSU ribosomal protein L41E Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.005051409 1 LEVO MKRRPRKWKKKGRMRWKWIKKRIRRLKRQRRKERGLI Q5JEV0 50S ribosomal protein L44e Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1) 0.011204441 1 LEVO MKYPKQIRTYCPFCKRHTIHKVEKVKKRPRSELSAGQRRFRRKLKGYTGFPRPNPAGREKPVKKLDLRFRCTVCGKAHTR GQGFRVKKFELVEV Q5JE51 ZINC ION 6.5409e-05 12 ZN water 1.8015e-05 2129 HOH singleParticle particle 0.25 7.5 Quantifoil R2/2 COPPER 200 CARBON CONTINUOUS 2.0 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 C1 2.55 FSC 0.143 CUT-OFF RELION 3 283424 MAXIMUM LIKELIHOOD MAXIMUM LIKELIHOOD RIGID BODY FIT emd_10503_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 -0.030821545 0.08511344 0.00006263176 0.0021373797 0.85 0.85 0.85 AUTHOR ::::EMDATABANK.org::::EMD-10503:::: unsharpened cryo-EM map of Thermococcus ribosomal SSU-head ribosome grown at 65 degC emd_10503_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 -0.033763364 0.09473933 0.00009261083 0.0031492875 0.85 0.85 0.85 AUTHOR ::::EMDATABANK.org::::EMD-10503:::: unsharpened cryo-EM map of Thermococcus ribosomal SSU-body ribosome grown at 65 degC emd_10503_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 -0.0458419 0.13497642 -0.000041431627 0.0042959005 0.85 0.85 0.85 AUTHOR ::::EMDATABANK.org::::EMD-10503:::: unsharpened cryo-EM map of Thermococcus ribosomal LSU ribosome grown at 65 degC emd_10503_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 -0.19154008 0.35873818 0.000078263816 0.0050398502 0.85 0.85 0.85 AUTHOR ::::EMDATABANK.org::::EMD-10503:::: cryo-EM map of Thermococcus kodakarensis ribosomal SSU-body grown at 65 degC emd_10503_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 -0.26934272 0.5060867 0.00022482357 0.010144418 0.85 0.85 0.85 AUTHOR ::::EMDATABANK.org::::EMD-10503:::: cryo-EM map of Thermococcus kodakarensis ribosomal LSU grown at 65 degC emd_10503_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 -0.10440209 0.2150201 0.000039723225 0.002328422 0.85 0.85 0.85 AUTHOR ::::EMDATABANK.org::::EMD-10503:::: cryo-EM map of Thermococcus kodakarensis ribosomal LSU grown at 65 degC