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FASTA Sequence PDB Format mmCIF Format
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7QIX

Specific features and methylation sites of a plant ribosome. 40s body ribosomal subunit.

PDB DOI: 10.2210/pdb7qix/pdb

Classification: RIBOSOME
Organism(s): Solanum Lycopersicum

Deposited: 2021-12-16
Deposition Author(s): Amunts, A. , Cottilli, P. , Itoh, Y.

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 2.53 Å

Literature

Specific features and methylation sites of a plant ribosome. 40s body ribosomal subunit.

Amunts, A. , Cottilli, P. , Itoh, Y.

Primary Citation of Related Structures: 7QIX


Nucleic Acids / Hybrid
Molecule Chains Sequence Length Organism Sequence
18S rRNA body 2 1807 NA UACCUGGUUGAUCCUGCCAGUAGUCAUAUGCUUGUCUCAAAGAUUAAGCCAUGCAUGUGUAAGUAUGAACAAAUUCAGACUGUGAAACUGCGAAUGGCUCAUUAAAUCAGUUAUAGUUUGUUUGAUGGUAUCUACUACUCGGAUAACCGUAGUAAUUCUAGAGCUAAUACGUGCAACAAACCCCGACUUCUGGAAGGGAUGCAUUUAUUAGAUAAAAGGUCGACGCGGGCUCUGCCCGUUGCUGCGAUGAUUCAUGAUAACUCGACGGAUCGCACGGCCAUCGUGCCGGCGACGCAUCAUUCAAAUUUCUGCCCUAUCAACUUUCGAUGGUAGGAUAGUGGCCUACCAUGGUGGUGACGGGUGACGGAGAAUUAGGGUUCGAUUCCGGAGAGGGAGCCUGAGAAACGGCUACCACAUCCAAGGAAGGCAGCAGGCGCGCAAAUUACCCAAUCCUGACACGGGGAGGUAGUGACAAUAAAUAACAAUACCGGGCUCUAUGAGUCUGGUAAUUGGAAUGAGUACAAUCUAAAUCCCUUAACGAGGAUCCAUUGGAGGGCAAGUCUGGUGCCAGCAGCCGCGGUAAUUCCAGCUCCAAUAGCGUAXXAUUUAAGUUGUUGCAGUUAAAAAGCUCGUAGUUGGACUUUGGGAUGGGCCGGCCGGUCCGCCCUAGGUGUGCACCGGUCGUCUCGUCCCUUCUGUCGGCGAUGCGCUCCUGGCCUUAAUUGGCCGGGUCGUGCCUCCGGCGCUGUUACUUUGAAGAAAUUAGAGUGCUCAAAGCAAGCCUACGCUCUGUAUACAUUAGCAUGGGAUAACAUUAUAGGAUUUCGGUCCUAUUACGUUGGCCUUCGGGAUCGGAGUAAUGAUUAACAGGGACAGUCGGGGGCAUUCGUAUUUCAUAGUCAGAGGUGAAAUUCUUGGAUUUAUGAAAGACGAACAACUGCGAAAGCAUUUGCCAAGGAUGUUUUCAUUAAUCAAGAACGAAAGUUGGGGGCUCGAAGACGAUCAGAUACCGUCCUAGUCUCAACCAUAAACGAUGCCGACCAGGGAUCGGCGGAUGUUGCUUUUAGGACUCCGCCGGCACCUUAUGAGAAAUCAAAGUUUUUGGGUUCCGGGGGGAGUAUGGUCGCAAGGCUGAAACUUAAAGGAAUUGACGGAAGGGCACCACCAGGAGUGGAGCCUGCGGCUUAAUUUGACCAACACGGGGAAACUUACCAGGUCCAGACAUAGUAAGGAUUGACAGACUGAGAGCUCUUUCUUGAUUCUAUGGGUGGUGGUGCAUGGCGUUCUUAGUUGGUGGAGCGAUUUGUCUGGUUAAUUCCGUUAACGAACGAGACCUCAGCCUGCUAACUAGCUAUGCGGAGGUAUCCCUUCGCGGCCAGCUUCUUAGAGGGACUACGGCCUUUUAGGCCGCGGAAGUUUGAGGCAAUAACAGGUCUGUGAUGCCCUUAGAUGUUCUGGGCCGCACGCGCGCUACACUGAUGUAUUCAACGAGCUUAUAGCCUUGGCCGACAGGCCCGGGUAAUCUUUGAAAUUUCAUCGUGAUGGGGAUAGAUCAUUGCAAUUGUUGGUCUUCAACGAGGAAUUCCUAGUAAGCGCGAGUCAUCAGCUCGCGUUGACUACGUCCCUGCCCUUUGUACACACCGCCCGUCGCUCCUACCGAUUGAAUGAUCCGGUGAAAUGUUCGGAUCGCGGCGACGUGGGCGGUUCGCUGCCCGCGACGUCGCGAGAAGUCCAUUGAACCUUAUCAUUUAGAGGAAGGAGAAGUCGUAACAAGGUUUCNGUAGGUGAACCUGCGGAAGGAUCAUUG

Proteins
Molecule Chains Sequence Length Organism Sequence
40S ribosomal protein S21 L 82 Solanum Lycopersicum MQNDEGQNMDLYIPRKCSATNRLITSKDHASVQLNVGHLDESGVYTGQFTTYALCGFIRAQGDADSAMDRLWQKKKAEVGQQ
40S body ribosomal protein uS12 M 142 Solanum Lycopersicum MGKTRGMGAGRKLKSHRRRQRWADKSYKKSHLGNEWKKPFAGSSHAKGIVLEKIGIEAKQPNSAIRKCARVQLIKNGKKIAAFVPNDGCLNYIEENDEVLIAGFGRKGHAVGDIPGVRFKVVKVSGVSLLALFKEKKEKPRS
40S ribosomal protein S26 N 127 Solanum Lycopersicum MTFKRRNGGRNKHGRGHVKFIRCSNCGKCCPKDKAIKRFLVRNIVEQAAVRDVQEACAFELYTLPKLYLKMQYCVSCAIHSKVVRVRSRTDRRVREPPQRFRRPRDDLPKTGQAPRPAGGPPAAPRT
S5 DRBM domain-containing protein O 280 Solanum Lycopersicum MAERGAGDRGGFGRGFGGRGGRGGDRGGRGRGGRRPRRETEEEKWVPVTKLGRLVKDGKIRSLEQIYLHSLPIKEFQIIDTLIGPSLKDEVMKIMPVQKQTRAGQRTRFKAFVVVGDGNGHVGLGVKCSKEVATAIRGGIILAKLSVIPVRRGYWGNKIGKPHTVPCKVTGKCGSVTVRMVPAPRGAGIVAARVPKKVLQFAGIEDVFTSSRGSTKTLGNFVKATFDCLMKTYGFLTPDFWKETRFTKSPFQEYFDILAKPANKVIVYATEEAAPERVEA
40S ribosomal protein S6 P 249 Solanum Lycopersicum MKFNIANPTTGCQKKLEIDDDQKLRAFFDKRISQEVSGDSLGEEFKGYVFKIMGGCDKQGFPMKQGVLTPGRVRLLLYRGTPCFRGYGRRNGERRRKSVRGCIVSPDLSVLNLVIVKKGENDLPGLTDTEKPRMRGPKRASKIRKLFNLSKEDDVRKYVNTYRRNFTTKTGKNASKAPKIQRLVTPLTLQRKRARIADKKKRIAKAKSEAADYQKLLASRLKEQRERRSESLAKKRSRLSAASKPSIAA
40S body ribosomal protein uS4 Q 197 Solanum Lycopersicum MVHVSFYRNYGKTFKKPRRPYEKERLDAELKLVGEYGLRCKRELWRVQYALSRIRNAARMLLTLDEKDPRRIFEGEALLRRMNRYGLLDESQNKLDYVLALTVENFLERRLQTLVFKTGMAKSIHHARVLIRQRHIRVGRQVVNVASFMVRVDSQKHIDFSLTSPFGGGRPGRVKRKNQKSAAKKAAGGDGDEEDEE
30S ribosomal protein S15, chloroplastic R 151 Solanum Lycopersicum MGRMHSRGKGISASALPYKRTPPSWLKISAPDVEDNICKFAKKGLTPSQIGVILRDSHGIAQVKSVTGSKILRILKAHGLAPEIPEDLYHLIKKAVAIRKHLERNRKDKDSKFRLILVESRIHRLARYYKKTKKLPPVWKYESTTASTLVA
Ribosomal protein S14 S 150 Solanum Lycopersicum MSKRRTREPKEETVTLGPSVREGELVFGVAHIFASFNDTFIHVTDLSGRETMVRITGGMKVKADRDESSPYAAMLAAQDVSQRCKELGINALHIKLRATGGNKTKTPGPGAQSALRALARSGMKIGRIEDVTPIPTDSTRRKGGRRGRRL
40S ribosomal protein S24 U 133 Solanum Lycopersicum MADKAVTIRTRKFMTNRLLARKQFIIDVLHPGRANVSKAELKEKLSRMYEVKDPNAIFVFKFRTHFGGGKSTGFGLIYDSVENAKKYEPKYRLIRNGLDTKVEKSRKQMKERKNRAKKVRGVKKTKAGDAKKK
40S ribosomal protein S27 V 86 Solanum Lycopersicum MVLPNDVDLLNPPAEHEKKKHKLKRLVQSPNSFFMDVKCQGCFNITTVFSHSQTVVVCGNCQTVLCQPTGGRARLIEGCSFRRKGD
60S ribosomal protein L41 D 25 Solanum Lycopersicum MRAKWKKKRMRRLKRKRRKMRQRSK
40S ribosomal protein S30 W 62 Solanum Lycopersicum MGKVHGSLARAGKVRGQTPKVAKQDKKKKPRGRAHKRMQYNRRFVTAVVGFGKKRGPNSSEK
40S ribosomal protein S15a-1 T 130 Solanum Lycopersicum MVRVSVLNDALKSMYNAEKAGKAQVELRPSSKVIIKFLIVMQKHGYIGDFQYVDDHRVGKIVVELNGRLNKCGVISPRFDVGVATIEGWTARLLPSRQFGYIVLTTSAGIMDHEEARRKNVGGKVLGFFY
Ribosomal protein L19 X 213 Solanum Lycopersicum MVSLKLQKRLAASVLKCGRGKVWLDPNEGNEISMANSRQNIRKLVKDGFIIRKPTKIHSRSRARRMKEAKRKGRHSGYGKRKGTREARLPTKVLWMRRLRVLRRLLRKYRESKKIDKHMYHDMYMKVKGNVFKNKRVLMENIHKTKAEKAREKTLSDQFEARRAKNKASRERKFARRKKRLAQGPGGEKPVQPAAPAAAAPAQPAQGSKKSKK
40S ribosomal protein SA E 296 Solanum Lycopersicum MATQDVRTLSTKEADIQMMLAAEVHLGTKNCDFQMERYAFKRRNDGIYIINLGKTWEKLQMAARVIVAIENPQDIIVQSARPYGQRAVLKFAQYTGAHAIAGRHTPGTFTNQLQTSYSEPRLLILTDPRTDHQPIKEAALGNIPTIAFCDTDSPMRYVDIGIPANNKGKHSIGVLFWILARMVLQMRGAINQGPKWDVMVDLFFYREPEEAKEQEEEVPAIADYADYSASAALGGDWTSSQIPEAQWTADAAAPAVGGGWAGDGAADGGWDAAAAPAPVPLPVPDVAPTSGATGWE
40S ribosomal protein S3a F 260 Solanum Lycopersicum MAVGKNKRISKGKKGGKKKAADPYAKKDWYDIKAPSVFEVRNVGKTLVTRTQGTKIASEGLKHRVFEVSLADLQNDEDHSFRKIRLRAEDVQGRNVLTNFHGMDFTTDKLRSLVKKWQSLIEAHVDVKTTDSYTLRMFCIAFTKKRPNQQKRTCYAQSSQIRQIRRKMVEIMRNQAQSCDLKDLVLKFIPESIGREIEKATSSIFPLQNVFIRKVKILKAPKFDLGRLMEVHGDYSEDVGVKVDRPAEDIATEPTEVVGA
40S body ribosomal protein eS4 G 264 Solanum Lycopersicum MARGLKKHLKRLNAPKHWMLDKLGGAFAPKPSSGPHKSRECLPLVIILRNRLKYALTYREVISILMQRQVMVDGKVRTDKTYPAGFMDVVTIPKTNESFRLLYDTKGRFRLHSLRDEEAKFKLCKVRSVQFGQKGIPYLNTYDGRTIRYPDPLIKANDTIKLDLDSNKIVDFIKFDVGNVVMVTGGRNRGRVGILKNREKHKGSFETVHIQDSQGHEFATRLGNVFTLGKGSKPWVSLPKGKGIKLSIIEEARKRMAAQSATPA
40S ribosomal protein S7 H 191 Solanum Lycopersicum MYTSKQKIHKDKAAEPSEHEVSVGQAFFDLENTNQELKSELKDLYINSATQIDVSGNRKAVVIHVPYRLRKAFRKVHVRLVRELEKKFSGKDVIFIATRRIVRPPKRGSAAQRPRTRTLTSVHDAILEDLVVPAEIVGKRTRYRVDGSKIMKVYLDPKERNNTEYKLETFSAVYRKLSGKDVVFEYPITEA
40S ribosomal protein S8 I 220 Solanum Lycopersicum MGISRDSMHKRRATGGKKKSWRKKRKYELGRQPANTKISSNKTVRRIRVRGGNVKWRALRLDTGNFSWGSEAVTRKTRILDVVYNASNNELVRTQTLVKSAIVQVDAAPFKQWYLQHYGIDIGRKKKGAAKKETTTEEGDAAEEAKKSNHVVRKIENRQADRKLDSHLEEQFASGRLLACISSRPGQCGRADGYILEGKELEFYMKKLQKKKGKASGASA
Ribosomal_S17_N domain-containing protein J 159 Solanum Lycopersicum MAEQTEKAFLKQPGVFLSSKKTGKGKRPGKGGNRYFKSIGLGFKTPREATEGTYIDKKCPFTGNVSIRGRILAGTCHSAKMNRTIIVRRNYLHYVKKYQRYEKRHSNIPAHISPCFRVKEGDHVTIGQCRPLSKTVRFNVLKVIPAGSGGVGKKAFTGM
40S ribosomal protein S17 K 144 Solanum Lycopersicum MGRVRTKTVKKSSRQVIERYYSKMTLDFHTNKKILEEVAIIPSKRLRNKIAGFSTHLMKRIQKGPVRGISLKLQEEERERRMDFVPEESAIKTDLIEVDKETLDMLSALGMSDLPGVVKQAAEPQAVAALPSYGRGGGGFGRKY
Experimental Data

Method: ELECTRON MICROSCOPY

Deposited Date: 2021-12-16
Deposition Author(s): Amunts, A. , Cottilli, P. , Itoh, Y.