8UU4
Cryo-em structure of the listeria innocua 70s ribosome in complex with hpf (structure i-a)
PDB DOI: 10.2210/pdb8uu4/pdb
Classification: RIBOSOME Organism(s): Listeria Innocua
Deposited: 2023-10-31 Deposition Author(s): Basu, R.S. , Gagnon, M.G. , Seely, S.M.
Experimental Data Snapshot
Method: ELECTRON MICROSCOPY Resolution: 3.0 Å
Cryo-em structure of the listeria innocua 70s ribosome in complex with hpf (structure i-a)
Basu, R.S. , Gagnon, M.G. , Seely, S.M.
Primary Citation of Related Structures: 8UU4
| 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 | Listeria Innocua | MAKQKIRIRLKAYDHRILDQSAEKIVETAKRSGASVSGPIPLPTEKSIYTVLRAVHKYKDSREQFEMRTHKRLIDIVNPTPQTVDSLMRLDLPSGVDIEIKL |
| Small ribosomal subunit protein uS11 | K | 129 | Listeria Innocua | MARKTNTRKRRVKKNIESGIAHIRSTFNNTIVMITDTHGNALAWSSAGSLGFKGSRKSTPFAAQMAAESAAKSAQEHGLKTLEVTVKGPGSGREAAIRALQAAGLEVTAIKDVTPVPHNGCRPPKRRRV |
| Large ribosomal subunit protein uL13 | L | 145 | Listeria Innocua | MRTTYMAKPGEVERKWYVIDATGVSLGRLSSEVASILRGKNKPQFTPHIDTGDFVIIINAGKIGLTGKKATDKIYYRHSQYPGGLKSRTAGEMRTNNPEKLLELSIKGMLPKNSLGRQLFKKLHVYGGSEHEHAAQKPEVYELRG |
| Large ribosomal subunit protein uL14 | M | 122 | Listeria Innocua | MIQQESRMKVADNSGAREVLTIKVLGGSGRKTANIGDVVVCTVKQATPGGVVKKGEVVKAVIVRTKSGARRQDGSYIKFDENACVIIRDDKSPRGTRIFGPVARELRENNFMKIVSLAPEVL |
| Large ribosomal subunit protein uL15 | N | 146 | Listeria Innocua | MKLHELKPSEGSRKERNRVGRGTGSGNGKTSGRGHKGQKARSGGGVRLGFEGGQLPLFRRIPKRGFTNINRKEFAIVNLDVLNRFEDGTEVTPELLIETGIIRNEKSGIKILSDGNIEKKLTVKANKFSAAAKEAIEAAGGKTEVI |
| Large ribosomal subunit protein uL16 | O | 144 | Listeria Innocua | MLVPKRVKYRREFRGNMRGRAKGGTEVAFGEYGLQAVEASWITNRQIEAARIAMTRYMKRGGKVWIKIFPHKSYTSKPIGVRMGKGKGAPEGWVSPVKRGKIMFEIAGVPEDVAREALRLAAHKLPVKTKIVKREEIGGEANES |
| Large ribosomal subunit protein bL17 | P | 135 | Listeria Innocua | MGYRKLGRTSSQRKALLRDLATDLIVHERIETTEARAKEIRKVVEKLITSGKKGDLHARRQAAAFIRHEVVEVVQVDAKGKDGSTVKKNRPVYALQKLFDDVAPRYAERQGGYTRILKKGPRRGDGAPMVIIELV |
| Large ribosomal subunit protein uL18 | Q | 119 | Listeria Innocua | MITKIDKNKVRKKRHARVRSKISGTESRPRLNVFRSNKNIYAQVIDDVNGVTLASASNLDKDFGSAESKVDAASKVGELVAKRASEKGITSVTFDRGGYLYHGRVKALAEAARENGLEF |
| Large ribosomal subunit protein bL19 | R | 114 | Listeria Innocua | MNKLIDEITKSQLNPDVPSFRPGDTVRVHAKVVEGTRERIQLFEGVVIKRRGAGISETFTVRKISNGVGVERTFPVHTPRIAKLEVIRRGKVRRAKLYYLRNLRGKAARIKEIR |
| Large ribosomal subunit protein bL20 | S | 119 | Listeria Innocua | MPRVKGGTVTRKRRKKIVKLAKGYYGSKHLLFKVANQAVMKSYQYAYRDRRQKKRDFRRLWIARINAAARMQDLSYSKLMHGLKLAGIDINRKMLADLAVNDIASFNTLADSAKKALAK |
| Large ribosomal subunit protein bL21 | T | 102 | Listeria Innocua | MYAIIETGGKQIKVEAGQEIYVEKLAGEVGDVVTFDKVLFVGGDSAKVGVPFVDGATVTAKVEKQGRAKKLTVYKYKPKKNYHKKQGHRQPYTKLTIDAINA |
| Large ribosomal subunit protein uL24 | W | 103 | Listeria Innocua | MHVKKGDKVKVITGKDKGKSGKVLAAFPKKDRVLIEGINMVKKHTKPSNINPQGGILNVEAPIHVSNVMLIDPKTGEPTRVGYEVKGDKKVRVAKKSGEVIDK |
| Small ribosomal subunit protein uS3 | C | 218 | Listeria Innocua | MGQKVHPIGMRIGVIRDWDSKWYAEKDYADFLHEDLRIRDYVAKRLSDASVSRVEIERAANRVNITIHTAKPGMVIGKGGSEVEALRKNLNELTQKRVHINIVEIKRADLDAKLVAENIARQLEGRVSFRRAQKQAIQRTMRAGAKGIKTQVSGRLGGADIARAEHYSEGTVPLHTLRADIDYAWEEADTTYGKLGVKVWIYRGEVLPTKKNNVEGGK |
| Small ribosomal subunit protein uS4 | D | 200 | Listeria Innocua | MARYTGPSWKVSRRLGISLSGTGKELERRPYAPGQHGPTQRKKISEYGLQQAEKQKLRHMYGLTERQFKNTFNKAGKLQGKHGENFMILLEQRLDNIVYRLGLARTRRAARQLVNHGHITVDGKRVDIPSYQVSVGQVISVREKSAKNSAIAESLEVSSFVPEYVTFDAETLTGSLNRLPERSELAAEINEAFIVEFYSR |
| Small ribosomal subunit protein uS5 | E | 167 | Listeria Innocua | MPEQIDGNKLDLEERVVTINRVAKVVKGGRRFRFTALVVVGDKNGHVGFGTGKAQEVPDAIRKAVEDAKKNMVFVPTVDTTIPHTVVGHFGGGEILLKPASAGSGVTAGGPVRAVLELAGVADVSSKSLGSNTPINMVRATIDGIKQLKNAEDVAKLRGKTVEELLG |
| Small ribosomal subunit protein bS6 | F | 97 | Listeria Innocua | MARKYEIMYIIRPNIEEDEKKAVVERFDGILTENGAEIIESKEWGKRRLAYEINDYRDGFYHIVKLNADKADSINEFDRLAKISDDIVRHMVIKEEA |
| Small ribosomal subunit protein uS7 | G | 156 | Listeria Innocua | MPRKGPVAKRDVLPDPIYNSKLVTRLINKMMVDGKRGKSQAILYSAFDIIAQETGKDPMEVFEQAMKNIMPLLEVKARRVGGANYQVPIEVRADRRSTLGLRWLVNYARLRGEKTMEVRVAREIMDAANNTGASVKKREDTHKMADANRAFAHYRW |
| Large ribosomal subunit protein uL22 | U | 118 | Listeria Innocua | MASEVTSAKAVAKTVRIAPRKARIVIDLIRGKQVGEAIAILKYTPRSASPIIEKVLKSAIANAEHNYDLDINNLVVEEAFVDEGPTLKRFRPRAQGRASAINKRTSHITVVVSEVKEG |
| Large ribosomal subunit protein uL23 | V | 94 | Listeria Innocua | MDARDIIKRPVVTEESTSILDDKKYTFEVDTRATKTQVKYAIEEIFDVKVAKVNVMNYKGKLKRMGRYAGYTNKRRKAIVTVTADSKEIQFFEV |
| Large ribosomal subunit protein bL27 | Y | 96 | Listeria Innocua | MLKFDIQHFAHKKGGGSTSNGRDSESKRLGAKRADGQFVTGGSILYRQRGTKIYPGTNVGRGGDDTLFAKTDGVVRFERMGRDKKKVSVYPEVQEA |
| Large ribosomal subunit protein bL28 | Z | 62 | Listeria Innocua | MAKECVITGRKSRSGNKRSHAMNSSKRTWKANLQKVRILVNGKPKKVWVSARALKSGKVERV |
| Large ribosomal subunit protein uL29 | 1 | 63 | Listeria Innocua | MKANDIRDLSTTEIQDQEKALKEELFNLRFQLATGQLENTARIREVRKAIARMKTIVRERELA |
| Large ribosomal subunit protein uL30 | 2 | 59 | Listeria Innocua | MAKLEITLKRSLIGRPQPQRKTVQALGLGKTNSVVVKEDNPAIRGMITKVSHLVDVKEV |
| Large ribosomal subunit protein bL31B | 3 | 81 | Listeria Innocua | MKTGIHPEYRPVVFVDTSTDFKFLSGSTKSSSETIKWEDGNEYPLLRVEISSDSHPFYTGKQKHATADGRVDRFNKKYGLK |
| Large ribosomal subunit protein bL32 | 4 | 57 | Listeria Innocua | MAVPFRRTSKAKKRKRRTHVKLQLPGMNECSNCGEYRLSHHVCPECGQYDGKDVANS |
| Large ribosomal subunit protein bL33 | 5 | 49 | Listeria Innocua | MRVNITLECTECGDRNYITTKNKRENPERIELKKYCPRLRRVTLHRETK |
| Large ribosomal subunit protein bL34 | 6 | 44 | Listeria Innocua | MKRTYQPSKRKRKKVHGFRTRMSTKNGRRVLASRRRKGRKVLSA |
| Large ribosomal subunit protein bL35 | 7 | 66 | Listeria Innocua | MPKMKTHRGSAKRFKRTGSGKLKRRHGFTSHMFANKSQKQKRKLRKSAMVSAGDFKRIRQMVAKMK |
| Large ribosomal subunit protein bL36 | 8 | 37 | Listeria Innocua | MKVRPSVKPMCEKCKVIRRKGKVMVICENPKHKQKQG |
| Small ribosomal subunit protein uS8 | H | 132 | Listeria Innocua | MVMTDPIADFLTRIRNANMVKHDKLELPASKIKKEIAEILKREGFIRDVEYIEDDNAGTIRVFLKYGATGERVITGLKRISKPGLRVYAKSTEVPKVLNGLGIAIVSTSQGVLTDKEARAKQVGGEVLAYVW |
| Small ribosomal subunit protein uS9 | I | 130 | Listeria Innocua | MAQVQYYGTGRRKSSVARVRLVPGDGKIVINNRDWEDYIPFAALREVIKQPLVATETLGNYDVLVNVHGGGYTGQAGAIRHGVARALLQVAPEYRPALKSAGLLTRDPRMKERKKYGLKGARRAPQFSKR |
Experimental Data
Method: ELECTRON MICROSCOPY
Deposited Date: 2023-10-31 Deposition Author(s): Basu, R.S. , Gagnon, M.G. , Seely, S.M.