8UU7
Cryo-em structure of the listeria innocua 70s ribosome in complex with hflxr, hpf, and e-site trna (structure ii-b)
PDB DOI: 10.2210/pdb8uu7/pdb
Classification: RIBOSOME Organism(s): Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E
Deposited: 2023-10-31 Deposition Author(s): Basu, R.S. , Gagnon, M.G. , Seely, S.M.
Experimental Data Snapshot
Method: ELECTRON MICROSCOPY Resolution: 3.2 Å
Cryo-em structure of the listeria innocua 70s ribosome in complex with hflxr, hpf, and e-site trna (structure ii-b)
Basu, R.S. , Gagnon, M.G. , Seely, S.M.
Primary Citation of Related Structures: 8UU7
| Nucleic Acids / Hybrid | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 23S Ribosomal RNA | a | 2932 | NA | GGUUAAGUUAGAAAGGGCGCACGGUGGAUGCCUUGGCACUAGGAGCCGAAGAAGGACGGGACUAACACCGAUAUGCUUUGGGGAGCUGUACGUAAGCGUUGAUCCAGAGAUUUCCGAAUGGGGGAACCCACUAUCUUUAGUCGGAUAGUAUCCUUACGUGAAUACAUAGCGUGAGGAAGGCAGACCCAGGGAACUGAAACAUCUAAGUACCUGGAGGAAGAGAAAGAAAAAUCGAUUUCCUGAGUAGCGGCGAGCGAAACGGAAAGAGCCCAAACCAAGAAGCUUGCUUCUUGGGGUUGUAGGACACUCUAUACGGAGUUACAAAAGAAAGUUAUAAAUGAAGCGGUCUGGAAAGGCCCGCCAAAGACGGUAACAGCCCGGUAGUUGAAAUGGCUUUCCCUCCAGAGUGGAUCCUGAGUACGACGGAACACGUGAAAUUCCGUCGGAAUCCGGGAGGACCAUCUCCCAAGGCUAAAUACUCCCUAGUGACCGAUAGUGAACCAGUACCGUGAGGGAAAGGUGAAAAGCACCCCGGAAGGGGAGUGAAACAGUUCCUGAAACCGUGUGCCUACAAGUAGUUAGAGCCCGUUAAUGGGUGAUAGCGUGCCUUUUGUAGAAUGAACCGGCGAGUUACGAUUUGUUGCAAGGUUAAGCGGAAAAAGCGGAGCCGUAGCGAAAGCGAGUCUGAAUAGGGCGCAUAAGUAACAGGUCGUAGACCCGAAACCAGGUGAUCUACCCAUGUCCAGGAUGAAGGUAAGGUAAUACUUACUGGAGGUCCGAACCCACGCACGUUGAAAAGUGCGGGGAUGAGGUGUGGGUAGCGGAGAAAUUCCAAUCGAACUUGGAGAUAGCUGGUUCUCUCCGAAAUAGCUUUAGGGCUAGCCUCGAGGUAAAGAGUCAUGGAGGUAGAGCACUGUUUGGACUAGGGGCCCUUCUCGGGUUACCGAAUUCAGAUAAACUCCGAAUGCCAUGUACUUAUACUCGGGAGUCAGACUGCGAGUGAUAAGAUCCGUAGUCGAAAGGGAAACAGCCCAGACCACCAGUUAAGGUCCCCAAAUAUAUGUUAAGUGGAAAAGGAUGUGGGGUUGCUUAGACAACCAGGAUGUUGGCUUAGAAGCAGCCACCAUUGAAAGAGUGCGUAAUAGCUCACUGGUCGAGUGACCCCGCGCCGAAAAUGUACCGGGGCUAAACAUAUUACCGAAACUGUGGAUGAACCUCUUCGGAGGUUCGUGGUAGGAGAGCGUUCUAAGGGCGGUGAAGUCAGACCGGAAGGACUGGUGGAGCGCUUAGAAGUGAGAAUGCCGGUAUGAGUAGCGAAAGAAGGGUGAGAAUCCCUUCCACCGAAUAUCUAAGGUUUCCUGAGGAAGGCUCGUCCGCUCAGGGUUAGUCGGGACCUAAGCCGAGGCCGAUAGGCGUAGGCGAUGGACAACAGGUAGAGAUUCCUGUACCAGUGCUAAUUGUUUAACCGAUGGGGUGACACAGAAGGAUAGGGAAUCGCACGAAUGGAAAUGUGCGUCCAAGCAGUGAGUGUGAGAAGUAGGCAAAUCCGCUUCUUGCGAAGCAUGAGCUGUGAUGGGGAAGGAAAUUAAGUACGGAAGUUCCUGAUUUCACGCUGUCAAGAAAAGCCUCUAGGAAGAGUAGUACUGCCCGUACCGCAAACCGACACAGGUAGAUGAGGAGAGAAUCCUAAGGUGAGCGAGAGAACUCUCGUUAAGGAACUCGGCAAAAUGACCCCGUAACUUCGGGAGAAGGGGUGCUCUAUUAGGGUGCAAGCCCGAGAGAGCCGCAGUGAAUAGGCCCAGGCGACUGUUUAGCAAAAACACAGGUCUCUGCAAAACCGUAAGGUGACGUAUAGGGGCUGACGCCUGCCCGGUGCUGGAAGGUUAAGAGGAGUGCUUAGCUUCGGCGAAGGUACGAAUUGAAGCCCCAGUAAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAAAUUCCUUGUCGGGUAAGUUCCGACCCGCACGAAAGGCGCAACGAUCUGGGCACUGUCUCAACGAGAGACUCGGUGAAAUUAUAGUACCUGUGAAGAUGCAGGUUACCCGCGACAGGACGGAAAGACCCCGUGGAGCUUUACUGCAACCUGAUAUGGAAUGUUUGUACCGCUUGUACAGGAUAGGUAGGAGCCGAAGAGACGUGUGCGCUAGCAUACGAGGAGGCAAUGGUGGGAUACUACCCUGGCUGUAUGACCAUUCUAACCCGCCACGCUAAGCGCGUGGGGAGACAGUGUCAGGUGGGCAGUUUGACUGGGGCGGUCGCCUCCUAAAGAGUAACGGAGGCGCCCAAAGGUUCCCUCAGAAUGGAUGGAAAUCAUUCGCAGAGUGUAAAGGCACAAGGGAGCUUGACUGCGAGACUGACAAGUCGAGCAGGGACGAAAGUCGGGCUUAGUGAUCCGGUGGUUCCGCAUGGAAGGGCCAUCGCUCAACGGAUAAAAGCUACCCCGGGGAUAACAGGCUUAUCUCCCCCAAGAGUCCACAUCGACGGGGAGGUUUGGCACCUCGAUGUCGGCUCGUCGCAUCCUGGGGCUGUAGUCGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGGCACGCGAGCUGGGUUCAGAACGUCGUGAGACAGUUCGGUCCCUAUCCGUCGCGGGCGCAGGAAAUUUGAGAGGAGCUGUCCUUAGUACGAGAGGACCGGGAUGGACACACCGCUGGUGUACCAGUUGUUCCGCCAGGAGCAUCGCUGGGUAGCUAUGUGUGGCAGGGAUAAACGCUGAAAGCAUCUAAGCGUGAAGCCCCCCUCAAGAUGAGAUUUCCCAUUUCUUCGGAAAGUAAGAUCCCUGAAAGAUGAUCAGGUAGAUAGGUUUGGAGUGGAAGUGUAGCGAUACAUGGAGCGGACAAAUACUAAUCGAUCGAGGACUUAACCAA |
| 5S Ribosomal RNA | b | 116 | NA | UCUGGUAGUUAUGGCGAGAAGGUCACACCCGUUCCCAUCCCGAACACGGUAGUUAAGCUUCUCUGCGCCAAUGGUAGUUGGGGGCUUCCCCCUGCGAGAGUAGGUCGCUGCCGGGC |
| Proteins | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| Small ribosomal subunit protein uS10 | J | 102 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MAKQKIRIRLKAYDHRILDQSAEKIVETAKRSGASVSGPIPLPTEKSIYTVLRAVHKYKDSREQFEMRTHKRLIDIVNPTPQTVDSLMRLDLPSGVDIEIKL |
| Small ribosomal subunit protein uS11 | K | 129 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MARKTNTRKRRVKKNIESGIAHIRSTFNNTIVMITDTHGNALAWSSAGSLGFKGSRKSTPFAAQMAAESAAKSAQEHGLKTLEVTVKGPGSGREAAIRALQAAGLEVTAIKDVTPVPHNGCRPPKRRRV |
| Large ribosomal subunit protein uL13 | L | 145 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MRTTYMAKPGEVERKWYVIDATGVSLGRLSSEVASILRGKNKPQFTPHIDTGDFVIIINAGKIGLTGKKATDKIYYRHSQYPGGLKSRTAGEMRTNNPEKLLELSIKGMLPKNSLGRQLFKKLHVYGGSEHEHAAQKPEVYELRG |
| Large ribosomal subunit protein uL14 | M | 122 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MIQQESRMKVADNSGAREVLTIKVLGGSGRKTANIGDVVVCTVKQATPGGVVKKGEVVKAVIVRTKSGARRQDGSYIKFDENACVIIRDDKSPRGTRIFGPVARELRENNFMKIVSLAPEVL |
| Large ribosomal subunit protein uL15 | N | 146 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MKLHELKPSEGSRKERNRVGRGTGSGNGKTSGRGHKGQKARSGGGVRLGFEGGQLPLFRRIPKRGFTNINRKEFAIVNLDVLNRFEDGTEVTPELLIETGIIRNEKSGIKILSDGNIEKKLTVKANKFSAAAKEAIEAAGGKTEVI |
| Large ribosomal subunit protein uL16 | O | 144 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MLVPKRVKYRREFRGNMRGRAKGGTEVAFGEYGLQAVEASWITNRQIEAARIAMTRYMKRGGKVWIKIFPHKSYTSKPIGVRMGKGKGAPEGWVSPVKRGKIMFEIAGVPEDVAREALRLAAHKLPVKTKIVKREEIGGEANES |
| Large ribosomal subunit protein bL17 | P | 135 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MGYRKLGRTSSQRKALLRDLATDLIVHERIETTEARAKEIRKVVEKLITSGKKGDLHARRQAAAFIRHEVVEVVQVDAKGKDGSTVKKNRPVYALQKLFDDVAPRYAERQGGYTRILKKGPRRGDGAPMVIIELV |
| Large ribosomal subunit protein uL18 | Q | 119 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MITKIDKNKVRKKRHARVRSKISGTESRPRLNVFRSNKNIYAQVIDDVNGVTLASASNLDKDFGSAESKVDAASKVGELVAKRASEKGITSVTFDRGGYLYHGRVKALAEAARENGLEF |
| Large ribosomal subunit protein bL19 | R | 114 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MNKLIDEITKSQLNPDVPSFRPGDTVRVHAKVVEGTRERIQLFEGVVIKRRGAGISETFTVRKISNGVGVERTFPVHTPRIAKLEVIRRGKVRRAKLYYLRNLRGKAARIKEIR |
| Large ribosomal subunit protein bL20 | S | 119 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MPRVKGGTVTRKRRKKIVKLAKGYYGSKHLLFKVANQAVMKSYQYAYRDRRQKKRDFRRLWIARINAAARMQDLSYSKLMHGLKLAGIDINRKMLADLAVNDIASFNTLADSAKKALAK |
| Large ribosomal subunit protein bL21 | T | 102 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MYAIIETGGKQIKVEAGQEIYVEKLAGEVGDVVTFDKVLFVGGDSAKVGVPFVDGATVTAKVEKQGRAKKLTVYKYKPKKNYHKKQGHRQPYTKLTIDAINA |
| Large ribosomal subunit protein bL27 | Y | 96 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MLKFDIQHFAHKKGGGSTSNGRDSESKRLGAKRADGQFVTGGSILYRQRGTKIYPGTNVGRGGDDTLFAKTDGVVRFERMGRDKKKVSVYPEVQEA |
| Large ribosomal subunit protein uL23 | V | 94 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MDARDIIKRPVVTEESTSILDDKKYTFEVDTRATKTQVKYAIEEIFDVKVAKVNVMNYKGKLKRMGRYAGYTNKRRKAIVTVTADSKEIQFFEV |
| Large ribosomal subunit protein uL24 | W | 103 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MHVKKGDKVKVITGKDKGKSGKVLAAFPKKDRVLIEGINMVKKHTKPSNINPQGGILNVEAPIHVSNVMLIDPKTGEPTRVGYEVKGDKKVRVAKKSGEVIDK |
| Small ribosomal subunit protein uS3 | C | 218 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MGQKVHPIGMRIGVIRDWDSKWYAEKDYADFLHEDLRIRDYVAKRLSDASVSRVEIERAANRVNITIHTAKPGMVIGKGGSEVEALRKNLNELTQKRVHINIVEIKRADLDAKLVAENIARQLEGRVSFRRAQKQAIQRTMRAGAKGIKTQVSGRLGGADIARAEHYSEGTVPLHTLRADIDYAWEEADTTYGKLGVKVWIYRGEVLPTKKNNVEGGK |
| Small ribosomal subunit protein uS4 | D | 200 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MARYTGPSWKVSRRLGISLSGTGKELERRPYAPGQHGPTQRKKISEYGLQQAEKQKLRHMYGLTERQFKNTFNKAGKLQGKHGENFMILLEQRLDNIVYRLGLARTRRAARQLVNHGHITVDGKRVDIPSYQVSVGQVISVREKSAKNSAIAESLEVSSFVPEYVTFDAETLTGSLNRLPERSELAAEINEAFIVEFYSR |
| Small ribosomal subunit protein uS5 | E | 167 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MPEQIDGNKLDLEERVVTINRVAKVVKGGRRFRFTALVVVGDKNGHVGFGTGKAQEVPDAIRKAVEDAKKNMVFVPTVDTTIPHTVVGHFGGGEILLKPASAGSGVTAGGPVRAVLELAGVADVSSKSLGSNTPINMVRATIDGIKQLKNAEDVAKLRGKTVEELLG |
| Small ribosomal subunit protein bS6 | F | 97 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MARKYEIMYIIRPNIEEDEKKAVVERFDGILTENGAEIIESKEWGKRRLAYEINDYRDGFYHIVKLNADKADSINEFDRLAKISDDIVRHMVIKEEA |
| Small ribosomal subunit protein uS7 | G | 156 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MPRKGPVAKRDVLPDPIYNSKLVTRLINKMMVDGKRGKSQAILYSAFDIIAQETGKDPMEVFEQAMKNIMPLLEVKARRVGGANYQVPIEVRADRRSTLGLRWLVNYARLRGEKTMEVRVAREIMDAANNTGASVKKREDTHKMADANRAFAHYRW |
| Large ribosomal subunit protein uL22 | U | 118 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MASEVTSAKAVAKTVRIAPRKARIVIDLIRGKQVGEAIAILKYTPRSASPIIEKVLKSAIANAEHNYDLDINNLVVEEAFVDEGPTLKRFRPRAQGRASAINKRTSHITVVVSEVKEG |
| Large ribosomal subunit protein bL28 | Z | 62 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MAKECVITGRKSRSGNKRSHAMNSSKRTWKANLQKVRILVNGKPKKVWVSARALKSGKVERV |
| Large ribosomal subunit protein uL29 | 1 | 63 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MKANDIRDLSTTEIQDQEKALKEELFNLRFQLATGQLENTARIREVRKAIARMKTIVRERELA |
| Large ribosomal subunit protein uL30 | 2 | 59 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MAKLEITLKRSLIGRPQPQRKTVQALGLGKTNSVVVKEDNPAIRGMITKVSHLVDVKEV |
| Large ribosomal subunit protein bL31B | 3 | 81 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MKTGIHPEYRPVVFVDTSTDFKFLSGSTKSSSETIKWEDGNEYPLLRVEISSDSHPFYTGKQKHATADGRVDRFNKKYGLK |
| Large ribosomal subunit protein bL32 | 4 | 57 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MAVPFRRTSKAKKRKRRTHVKLQLPGMNECSNCGEYRLSHHVCPECGQYDGKDVANS |
| Large ribosomal subunit protein bL33 | 5 | 49 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MRVNITLECTECGDRNYITTKNKRENPERIELKKYCPRLRRVTLHRETK |
| Large ribosomal subunit protein bL34 | 6 | 44 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MKRTYQPSKRKRKKVHGFRTRMSTKNGRRVLASRRRKGRKVLSA |
| Large ribosomal subunit protein bL35 | 7 | 66 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MPKMKTHRGSAKRFKRTGSGKLKRRHGFTSHMFANKSQKQKRKLRKSAMVSAGDFKRIRQMVAKMK |
| Large ribosomal subunit protein bL36 | 8 | 37 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MKVRPSVKPMCEKCKVIRRKGKVMVICENPKHKQKQG |
| Small ribosomal subunit protein uS8 | H | 132 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MVMTDPIADFLTRIRNANMVKHDKLELPASKIKKEIAEILKREGFIRDVEYIEDDNAGTIRVFLKYGATGERVITGLKRISKPGLRVYAKSTEVPKVLNGLGIAIVSTSQGVLTDKEARAKQVGGEVLAYVW |
| Small ribosomal subunit protein uS9 | I | 130 | Escherichia Coli , Listeria Innocua , Listeria Monocytogenes Egd-E | MAQVQYYGTGRRKSSVARVRLVPGDGKIVINNRDWEDYIPFAALREVIKQPLVATETLGNYDVLVNVHGGGYTGQAGAIRHGVARALLQVAPEYRPALKSAGLLTRDPRMKERKKYGLKGARRAPQFSKR |
Experimental Data
Method: ELECTRON MICROSCOPY
Deposited Date: 2023-10-31 Deposition Author(s): Basu, R.S. , Gagnon, M.G. , Seely, S.M.