2024-05-15 REL PDBj PDBj PDBj 2023-03-14 2024-02-21 2024-02-21 2024-05-15 Japan Society for the Promotion of Science (JSPS) JP19H05637 Japan Yokoyama T Tanaka M Saito H Nishimoto M Tsuda K Sotta N Shigematsu H Shirouzu M Iwasaki S Ito T Fujiwara T ribosome, TRANSLATION Tanaka M Yokoyama T Saito H Nishimoto M Tsuda K Sotta N Shigematsu H Shirouzu M Iwasaki S Ito T Fujiwara T Nat.Chem.Biol. US 20 605 614 2024 38267667 doi:10.1038/s41589-023-01513-0 1552-4469 8ip9 FULLOVERLAP Wheat 40S ribosome in complex with a tRNAi Wheat 40S ribosome in complex with a tRNAi 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 Triticum aestivum 18S ribosomal RNA Triticum aestivum 0.583613562 1 UACCUGGUUGAUCCUGCCAGUAGUCAUAUGCUUGUCUCAAAGAUUAAGCCAUGCAUGUGCAAGUAUGAACCAAUUUGAAC UGUGAAACUGCGAAUGGCUCAUUAAAUCAGUUAUAGUUUGUUUGAUGGUACGUGCUACUCGGAUAACCGUAGUAAUUCUA GAGCUAAUACGUGCAACAAACCCCGACUUCUGGGAGGGGCGCAUUUAUUAGAUAAAAGGCUGACGCGGGCUCUGCUCGCU GAUCCGAUGAUUCAUGAUAACUCGACGGAUCGCACGGCCUUCGUGCCGGCGACGCAUCAUUCAAAUUUCUGCCCUAUCAA CUUUCGAUGGUAGGAUAGGGGCCUACCAUGGUGGUGACGGGUGACGGAGAAUUAGGGUUCGAUUCCGGAGAGGGAGCCUG AGAAACGGCUACCACAUCCAAGGAAGGCAGCAGGCGCGCAAAUUACCCAAUCCUGACACGGGGAGGUAGUGACAAUAAAU AACAAUACCGGGCGCAUUAGUGUCUGGUAAUUGGAAUGAGUACAAUCUAAAUCCCUUAACGAGGAUCCAUUGGAGGGCAA GUCUGGUGCCAGCAGCCGCGGUAAUUCCAGCUCCAAUAGCGUAUAUUUAAGUUGUUGCAGUUAAAAAGCUCGUAGUUGGA CCUUGGGCCGGGUCGGCCGGUCCGCCUCACGGCGAGCACCGACCUACUCGACCCUUCGGCCGGCAUCGCGCUCCUAGCCU UAAUUGGCCGGGUCGUGUUUCCGGCAUCGUUACUUUGAAGAAAUUAGAGUGCUCAAAGCAAGCCAUCGCUCUGGAUACAU UAGCAUGGGAUAACAUCAUAGGAUUCCGGUCCUAUUGUGUUGGCCUUCGGGAUCGGAGUAAUGAUUAAUAGGGACAGUCG GGGGCAUUCGUAUUUCAUAGUCAGAGGUGAAAUUCUUGGAUUUAUGAAAGACGAACAACUGCGAAAGCAUUUGCCAAGGA UGUUUUCAUUAAUCAAGAACGAAAGUUGGGGGCUCGAAGACGAUCAGAUACCGUCCUAGUCUCAACCAUAAACGAUGCCG ACCAGGGAUCGGCGGAUGUUGCUUAUAGGACUCCGCCGGCACCUUAUGAGAAAUCAAAGUCUUUGGGUUCCGGGGGGAGU AUGGUCGCAAGGCUGAAACUUAAAGGAAUUGACGGAAGGGCACCACCAGGCGUGGAGCCUGCGCUUAAUUUGACUCAACA CGGGGAAACUUACCAGGUCCAGACAUAGCAAGGAUUGACAGACUGAGAGCUCUUUCUUGAUUCUAUGGGUGGUGGUGCAU GGCCGUUCUUAGUUGGUGGAGCGAUUUGUCUGGUUAAUUCCGUUAACGAACGAGACCUCAGCCUGCUAACUAGCUAUGCG GAGCCAUCCCUCCGCAGCUAGCUUCUUAGAGGGACUAUGGCCGUUUAGGCCACGGAAGUUUGAGGCAAUAACAGGUCUGU CAUGCCCUUAGAUGUUCUGGGCCGCACGCGCGCUACACUGAUGUAUUCAACGAGUAUAUAGCCUUGGCCGACAGGCCCGG GUAAUCUUGGGAAAUUUCAUCGUGAUGGGGAUAGAUCAUUGCAAUUGUUGGUCUUCAACGAGGAAUGCCUAGUAAGCGCG AGUCAUCAGCUCGCGUUGACUACGUCCCUGCCCUUUGUACACACCGCCCGUCGCUCCUACCGAUUGAAUGGUCCGGUGAA GUGUUCGGAUCGCGGCGACGGGGGCGGUUCGCCGCCCCCGACGUCGCGAGAAGUCCAUUGAACCUUAUCAUUUAGAGGAA GCAGAAGUCGUAACAAGGUUUCCGUAGGUGAACCUGCGGAAGGAUCAUUG XR_006476226.1 40S ribosomal protein eS24 Triticum aestivum 0.015739685 1 LEVO MADAKTAPAVTLRTRKFMTNRLLSRKQFVLEVIHPGRANVSKADLKERLAKIYEVKDSNCIFVFKFRTHFGGGKSTGFGL IYDNLEAAKKFEPKYRLIRNGLATKVEKSRKQIKERKNRTKKIRGVKKTKAGDAKKK A0A3B6PK86 40S ribosomal protein eS8 Triticum aestivum 0.025341096 1 LEVO MGISRDSMHKRRATGGKQKAWRKKRKYELGRQPANTKLSSNKTVRRVRVRGGNVKWRALRLDTGNFSWGSEAVTRKTRLL DVVYNSSNNELVRTQTLVKNAIVQVDAAPFKQWYLTHYGVEIGRKKKAAAAAKKEPAEGQEAEVAAAATEEAKKSNNVQR KLEKRQQGRTLDSHIEEQFSGGRLLACISSRPGQCGRADGYILEGKELEFYMRKLQKKKGKGATA A0A3B6AYT7 40S ribosomal protein eS10 Triticum aestivum 0.020463965 1 LEVO MIISKKNRNEICKYLFQEGVLYAKKDYNLAKHPQIDVPNLQVIKLMQSFKSKEYVRETFSWQHYYWYLTNDGIEFLRNFL NLPSEIVPATLKKSARPPGRPLGSGPPGDRPRGPPRFEGDRPRYGDRDGYRGGPRGAPGDFGGEKGGAPAEFQPSFRSSG GGGFGRGGGGGFGRGGGGGGGFGASPME W5AUH7 40S ribosomal protein S23 Triticum aestivum 0.015696476 1 LEVO MGKTRGMGAGRKLKTHRRNQRWADKAYKKSHLGNEWKKPFAGSSHAKGIVLEKIGIEAKQPNSAIRKCARVQLVKNGKKI AAFVPNDGCLNFIEENDEVLIAGFGRKGHAVGDIPGVRFKVVKVSGVSLLALFKEKKEKPRS W5FV77 RACK1 Triticum aestivum 0.036200527 1 LEVO MAGAQESLVYAGVMRGHNDVVTAIATPIDNSPFIVSSSRDKSLLVWDLTNPIQATQDSSSEYGVPFRRLTGHGHFVQDVV LSSDGQFALSGSWDGELRLWDLSTGVTTRRFVGHEKDVLSVAFSIDNRQIVSASRDRTIKLWNTLGECKYTIGGDLGGGE GHTGWVSCVRFSPNNFAPTIVSGSWDRSVKVWNLTNCKLRCTLDGHGGYVSAVAVSPDGSLCASGGKDGVTLLWDLTEGK RLYSLDAGSIINSLCFSPNRYWLCAATQDSIKIWDLESKHIVQDLRPEVPVSTKQMLYCTCLSWSADGSTLYAGYTDGTI RIYKISGFSYSS W5D4F5 40S ribosomal protein uS3 Triticum aestivum 0.025413787 1 LEVO MATQISKKKKFVSDGVFYAELNEMLTRELAEDGYSGVEVRVTPMRTEIIIRATRTQNVLGEKGRRIRELTSVVQKRFNFL ENGVELYAEKVVNRGLCAIAQAESLRYKLLGGLAVRRACYGVLRFVMESGAKGCEVIVSGKLRAQRAKSMKFKDGYMISS GQPVNEYIDAAVRHVLLRQGVLGIKVKIMLDWDPKGKLGPTTPLPDLVTIHPPKEENELRPPALVEV Q8L804 40S ribosomal protein eS4 Triticum aestivum 0.030008111 1 LEVO MARGLKKHLKRLNAPSHWMLDKLGGAFAPKPSSGPHKARECLPLILILRNRLKYALTYREVQSILMQRHIMVDGKVRTDK TYPAGFMDIISIPKTGENYRLLYDTKGRFRLHSVRDEDAKFKLCKVRSVQFGQKGIPYLNTYDGRTIRYPDPLIKANDTI KLDLETNKIVDFIKFDVGNVVMVTGGRNTGRVGVIKNREKHKGTFETIHVEDAQGHQFATRLGNVFTIGKGTKPWVSLPK GKGIKLTIIEEQRKRDAAAQAAAKA A0A1D5SLI4 40S ribosomal protein uS7 Triticum aestivum 0.022350879 1 LEVO MAVVEPVPGGDVKLFNRWTFEDVQVSDISLNDYLAVTSMKHYTFLPHSAGRYSAKRFRKAQCPIIERLTNSLMMHGRNNG KKIMAVRIIKHTMEIIHLLTDANPIQIIVDAIINSGPREDATRIGSAGVVRRQAVDISPLRRVNQAIYLLTTGARESAFR NVKTIAECLADELINAAKGSSNSYAIKKKDEIERVAKANR W5D067 40S ribosomal protein uS9 Triticum aestivum 0.016870991999999998 1 LEVO MAAVLTRPTPGTVQCFGRKKTAVAVAYCKPGRGLIKVNGAPIELIRPEMLRLKAFEPILLAGRSRFKDIDMRIRVRGGGK TSQIYSIRQAIAKSLVAYYQKYVDEAAKKEVKEIFARYDRTLLVADPRRCEPKKFGGRGARARFQKSYR A0A3B6HX49 40S ribosomal protein uS10 Triticum aestivum 0.014128448 1 LEVO MATELAYAPPMKSGKLGFEGTQEVQHRIRITLSSKSVKNLEKVCSDLVKGAKEKQLKVKGPVRMPTKVLNITTRKSPCGE GTNTWDRFEMRVHKRVIDLVSSPDVVKQITSITIEPGVEVEVTISDQ U5HTD8 40S ribosomal protein uS11 Triticum aestivum 0.016398818 1 LEVO MSSKRKTREPKEENVTLGPAVREGEHVFGVAHIFASFNDTFIHVTDLSGRETLVRITGGMKVKADRDESSPYAAMLASQD VATRCKELGITALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIEDVTPVPTDSTRRKGGRRGRRL A0A3B6SS17 40S ribosomal protein uS13 Triticum aestivum 0.017702686000000002 1 LEVO MSLIAGEEFQHILRVLNTNVDGKQKIMFALTSIKGVGRRFSNIVCKKADIDMNKRAGELSAEEMDRLMAVVHNPRQFKVP DWFLNRKKDYKDGRFSQVVSNAVDMKLRDDLERLKKIRNHRGLRHYWGVRVRGQHTKTTGRRGKTVGVSKKR Q8L806 40S ribosomal protein uS15 Triticum aestivum 0.017102277 1 LEVO MGRMHSRGKGISSSALPYKRTPPSWVKTAVADVDELITKAAKKGQMPSQIGVLLRDQHGIPLVKSVTGSKILRILKAHGL APEIPEDLYFLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKRTKKLPPTWKYESATASTLVA Q5XUU9 40S ribosomal protein eS17 Triticum aestivum 0.016523143 1 LEVO MGRVRTKTVKKTSRQVIEKYYSRMTLDFHTNKKVLEEVSILQSKRLRNKVAGFTTHLMRRIQRGPVRGISLKLQEEERER RMDFVPEKSALEVDEIRVDKETMDMLAFLGMADLPGVERAPEVTSSAAPYRQPFNGPRGGNRA A0A3B5YWZ3 40S ribosomal protein eS19 Triticum aestivum 0.017097604 1 LEVO MATVPAPAAETAASTARTVKDVNPHEFVKAYSAHLKRSGKMELPEWVDIVKTARFKELPPSDADWYYIRAASMARKIYLR QGIGIGGFQKIYGGRQRNGSRPPHFCKSSGAVSRNILQELQKMGIIDVDPKGGRLITSQGRRDLDQVAGTVPAEF W5FWF5 40S ribosomal protein uS19 Triticum aestivum 0.017424557 1 LEVO MADVDVDTEVAAGAQPKKRTFRKFSYRGVDLDALLDMSTDDLVQMFPARARRRFKRGLKRKPMALVKKLRKAKKDAPAGE KPEPVRTHLRNMIIVPEMIGSLIGVYNGKTFNQVEIKPEMIGHYLAEFSISYKPVKHGRPGIGATHSSRFIPLK W5ASA4 40S ribosomal protein eS25 Triticum aestivum 0.012094187999999999 1 LEVO MAPKKEKAPAASSKPAKSGGGKQKKKKWSKGKQKEKVNNAVLFDQATYDKLLTEVPKYKQITPSVLSERLRINGSLARRA IKDLMERGLIRMVSIHSSQQIFTRATNT W5EP45 40S ribosomal protein eS28 Triticum aestivum 0.009815345 1 LEVO RGRLHRCSRSSDPPSPTPQESMDTQVKLAVVVKVMGRTGSRGQVTQVRVKFLDDQNRLIMRNVKGPVREGDILTLLESER EARRLR Q7X9K4 40S ribosomal protein uS8 Triticum aestivum 0.014924325999999998 1 LEVO MGRRILNDALRTMVNAERRGKATAQLQPISGVMISFLNIMKHRGYIKNFEVFDPHRVGKITVELQGRIKDCKALTYRQDL RATEIEKYRTRMLPTRQWGYVVVTTPNGVLDHEEAIRQNVGGQVLGYFH A0A077RZD1 40S ribosomal protein uS14 Triticum aestivum 0.006391455 1 LEVO MGHSNVWNSHPKNYGAGSRVCRVCGNSHGLIRKYGLMCCRQCFRSNAKDIGFIKYR A0A3B6LU46 40S ribosomal protein eS27 Triticum aestivum 0.009583195 1 LEVO MVLQNDIDLLNPPAELEKLKHKKKRLVQSPNSFFMDVKCQGCFNITTVFSHSQTVVVCPGCQTVLCQPTGGKARLTEGCS FRRKGD W5HZ68 40S ribosomal protein eS30 Triticum aestivum 0.006934164 1 LEVO MGKVHGSLARAGKVRGQTPKVAKQDKKKQPRGRAHKRIQYNRRFVTAVVGFGKKRGPNSSEK A0A3B6S9M7 40S ribosomal protein uS2 Triticum aestivum 0.033300438 1 LEVO MAAAAGEAPRALSQKEQDIQMMLAADVHLGTKNCDFQMERYAYKRRSDGIYIINLGKTWEKLQLAARVIVAIENPQDIIV QSARPYGQRAVLKFAQHTGANAIAGRHTPGTFTNQMQTSFSEPRLLILTDPRTDHQPIKESALGNIPTIAFCDTDSPMRY VDIGIPANNKGRNSIGCLYWLLARMVLQMRGTILPGHKWDVMVDLFFYRDPEEAKEQEDEAAGAPEYAAITDYGAAAGQW GGDQWTSDAPAPPPVTGGEWPMAEAPVAGGDGWDAAGAPVAVEGAVPAPVVAATGWDAAVQPPAQGWE W5E2W7 40S ribosomal protein eS1 Triticum aestivum 0.030043955 1 LEVO MAVGKNKRISKGRKGSKKKAVDPFTKKQWYDIKAPLLFTSRNVGKTLVSRTQGTKIASEGLKHRVFEVSLADLQNDEDQA YRKIRLRAEDVQGMNVLTNFWGMDFTTDKLRSLVRKWQTLIEAHVDVKTTDNYMLRMFAIGFTKRRPNQVKRTCYAQASQ IRQIRRKMVEIMVNQAASCDLKELVNKFIPEVIGKEIEKATSSIFPLQNVYVRKVKILKAPKFDLGKLMEVHGDYKEDVG VKLDRPADGDEVIPGAEEVAAAE A0A3B6IU74 40S ribosomal protein eS21 Triticum aestivum 0.009194349 1 LEVO MQNEVGDMVDLYVPRKCSATNRIITAKDHASVQINIGHVDENGLYDGRFTTFALSGFVRAQGDADGSLDRLWQKRKAEIK QL W5EL62 40S ribosomal protein eS26 Triticum aestivum 0.016576164 1 LEVO MTFKRRNGGRNKHGRGHVKYIRCSNCAKCCPKDKAIKRFLVRNIVEQAAVRDVQEACVHDGYVLPKLYAKVHHCVSCAIH AHIVRVRSRENRRNREPPQRFRRRDDGPRPGQGGPPRAGGPGAPGGAPAGAGAVPGAPGGAPAGAGAVPGAPAPRV A0A3B6LWE1 40S ribosomal protein uS4 Triticum aestivum 0.022534111 1 LEVO MVHVNFYRNYGKTFKKPRRPYEKERLDAELKLVGEYGLRCKRELWRVQYALSRIRNAARHLLTLDEKNPRRIFEGAALLR RMNRYGLLAEGQDKLDYVLALTAENFLARRLQTLVFKAGMAKSIHHARVLIRQRHIRVGRQIVNVPSFMVRVESEKHIDF SLTSPFGGGPAGRVKRKNQKKASGGGDAGGDEEEE W5FPA7 40S ribosomal protein uS5 Triticum aestivum 0.029995974999999998 1 LEVO MADRGGERGVDRGGFGRGFGRGGRGDRGGRRGGRRGPRQEEEKWVPVTKLGRLVKEGRFTKMEEIYLHSLPVKEHQIVET LCPGLKDEVMKITPVQKQTRAGQRTRFKAFVVVGDSNGHVGLGVKCAKEVATAIRGAIILAKLSIVPVRRGYWGNKIGLP HTVPCKVTGKCGSVTVRMVPAPRGSGIVAARVPKKVLQFAGIDDVFTSSRGSTKTLGNFVKATFDCLMKTYGFLTPDFWR ETTFTKAPYQEFTDILAKPTKALMLDAPAEKVEA A0A3B6LVN2 40S ribosomal protein eS6 Triticum aestivum 0.028488574 1 LEVO MKLNIANPTTGCQKKVEIDDDMKLRNLYDKRISQEVVGDLLGEEFEGYIFKIMGGCDKQGFPMKQGVLTPGRVRLLLHRG TSCFRGHGRRVGERRRKSVRGCIVSQDLSVINLVIVKKGKNDLPGLTDTEKPRMRGPKRASKIKKLFNLGKDDDVRQYVN TYRRSFTNKKGKTVSKAPKIQRLVTPLTLQRKRARIADKKKRIAKKKSEAAEYQKLLAQRLKEQRDRRSESMAKRRSKLS AATKAPAASA A0A2X0SLI3 40S ribosomal protein eS7 Triticum aestivum 0.022297891 1 LEVO MYTARKKIQKDKGVEPSEFEDTVAQAFFDLENGNQELKSDLKDLYINTAIQMDVVGNRKAVVIHVPYRLRKPFRKIHVRL VRELEKKFSGKDVVFVATRRIVRPPKKGSAVQRPRTRTLTAVHDGILEDVVYPAEIVGKRVRYRLDGAKVIKIYLDPKER NNTEYKLETFSAVYRRLCGKDVVFEYPVTETA Q5I7K2 40S ribosomal protein uS17 Triticum aestivum 0.017841061000000002 1 LEVO MAEQTEKSFLKQPKVFLSTKKADKAKRPGKAGNRFWKSVGLGFKTPREAIDGTYIDKKCPFTGTVAIRGRIIAGTCHSAK MNRTIIVRRNYLHFVKKYQRYEKRHSNIPAHISPCFRVKEGDHVIIGQCRPLSKTVRFNVLKVVPAGTTGGGKKAFIAA W5BFB7 60S ribosomal protein eL41 Oryza sativa 0.0034454369999999995 1 LEVO MRAKWKKKRMRRLKRKRRKMRQRSK P62125 mRNA Triticum aestivum 0.0022294029999999996 1 AUGUAAA tRNAi Triticum aestivum 0.024446925999999997 1 AUCAGAGU(1MG)(2MG)CGCAGCGGAAGCGU(2MG)G(PSU)GGGCCCAU(MIA)ACCCACAG(G7M)(H2U)(5MC) (5MC)CAGGA(PSU)CG(1MA)AACCUGGCUCUGAUACCA MAGNESIUM ION 2.4305e-05 84 MG ZINC ION 6.5409e-05 2 ZN singleParticle particle 7.0 Quantifoil R1.2/1.3 COPPER 200 CARBON GLOW DISCHARGE ETHANE JEOL CRYO ARM 300 FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 300 2.7 0.5 3.0 60000.0 JEOL CRYOSPECPORTER NITROGEN GATAN K3 (6k x 4k) 40.0 1 3.0 FSC 0.143 CUT-OFF RELION 41361 MAXIMUM LIKELIHOOD RELION MAXIMUM LIKELIHOOD RELION RELION emd_35635_half_map_1.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 560 560 560 0 0 0 560 560 560 441.28 441.28 441.28 90.0 90.0 90.0 X Y Z -0.054050095 0.07244817 -0.000037033864 0.0060993494 0.788 0.788 0.788 AUTHOR ::::EMDATABANK.org::::EMD-35635:::: emd_35635_half_map_2.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 560 560 560 0 0 0 560 560 560 441.28 441.28 441.28 90.0 90.0 90.0 X Y Z -0.052347913 0.084920466 -0.000036523565 0.0063302354 0.788 0.788 0.788 AUTHOR ::::EMDATABANK.org::::EMD-35635::::