8P6P
Mycoplasma pneumoniae small ribosomal subunit in chloramphenicol-treated cells
PDB DOI: 10.2210/pdb8p6p/pdb
Classification: TRANSLATION Organism(s): Mycoplasmoides Pneumoniae M129
Deposited: 2023-05-27 Deposition Author(s): Mahamid, J. , Schacherl, M. , Spahn, C.M.T. , Xue, L.
Experimental Data Snapshot
Method: ELECTRON MICROSCOPY Resolution: 3.2 Å
Mycoplasma pneumoniae small ribosomal subunit in chloramphenicol-treated cells
Mahamid, J. , Schacherl, M. , Spahn, C.M.T. , Xue, L.
Primary Citation of Related Structures: 8P6P
| Nucleic Acids / Hybrid | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 23S ribosomal RNA | 3 | 2907 | NA | UACAAUAAGUUACUAAGGGCUUAUGGUGGAUGCCUUGGCACUAAUAGGCGAUGAAGGACGUGUUAACCUGCGAUAAGCUUCGGGUAGGUGGUAAGAACCUCAGAUCCGGAGAUUUCCGAAUGGAGCAAUCCGGUAGUUGGAAACAGCUAUCAUUAAUUGAUGAAUAAAUAGUCAAUUAAAGCAAUACGUGGUGAAGUGAAACAUCUCAGUAGCCACAGGAAAAGAAAACGAAUGUGAUUCCGUGUGUAGUGGCGAGCGAAAGCGGAACAGGCCAAACUUAUCAUUAGAUAGGGGUUGUAGGGCUUGCAAUGUGGACUUGAAAACGAUAGAAGAAGCUGUUGGAAAGCAGCGCGCAAAAGGGUGAUAGCCCCGUAUUUGAAAUUGUUUUCAUACCUAGCGAGAUCCCUGAGUAGCUCGGAAAACGUUAUUUUGAGUGAAUCUGCCCAGACCAUUGGGUAAGCCUAAAUACUAAUUAGUGACCGAUAGCGAAACAGUACCGUGAGGGAAAGGUGAAAAGAACCCAGAGAUGGGAGUGAAAUAGAUUCUGAAACCAUAUGCCUACAACGUGUCAGAGCACAUUAAUGUGUGAUGGCGUGCGUUUUGAAGUAUGAGCCGGCGAGUUAUGAUAGCAAGCGUUAGUUAACCAGGAGAUGGGGAGCUGUAGCGAAAGCGAGUUUUAAAAGAGCGUUUGUUUGUUAUUAUAGACCCGAAACGGGUUGAGCUAGUCAUGAGCAGGUUGAAGGUUGAGUAACAUCAACUGGAGGACCGAACCGACUCUCGUUGAAACGAUAGCGGAUGACUUGUGAUUAGGGGUGAAAUUCCAAUCGAAAUCCGUGAUAGCUGGUUCUCGUCGAAAUAGCUUUAAGGCUAGCGUGAGAUCACAAAUAAGUGGAGGUAAAGCUACUGAAUGUAUGAUGGCGCCACCUAGGCGUACUGAAUACAAUUAAACUCUGAAUGCCAUUUAUUUUAUUCUCGCAGUCAGACAGUGGGGGAUAAGCUUCAUUGUCAAGAGGGGAAGAGCCCAGAUCAUUAAAUAAGGUCCCCAAAAUAUACUAAGUGGAAAAGGAUGUGAAAGUGCUAAAACAGCAAGGAUGUUGGCUUAGAAGCAGCCAUCGUUUAAAGAGUGCGUAACAGCUCACUUGUCGAGUGUUUUUGCGCCGAAGAUGUAACGGGGCUAAGUAUAUUACCGAAUUUAUGGAUAAGAUUUAUAUCUUGUGGUAGACGAGCGUUGUAUUGGAGUUGAAGUCAAAGCGUGAGCAUUGGUGGAUCCAAUACAAGUGAGAAUGCCGGCAUGAGUAACGCUUGGGAGUGAGAAUCUCCCAAACCGAUUGACUAAGGUUUCCUGGACCAGGGUCGUCCUUCCAGGGUUAGUCUGGACCUAAGCUGAGGCUGAAAAGCGUAGGCGAUGGACAACAGGUUAAUAUUCCUGUACUUACAGUUAGACUGAUGGAGUGACAAAGAAGGUUUUCCACCCCCAUAAUUGGAUUUGGGGAUAAAUCAUAAGGUGGUACAAUAGGCAAAUCCGUUGUGCAUAACAUUGAGUGAUGAUGUCGAGUGAAUGAGUGAUCAAGUAGCGAAGGUGGUAUUAAUCAUGCUUUCAAGAAAAGCUUCUAGGGUUAAUCUAGCUGUAACCAGUACCGAGAACGAACACACGUAGUCAAGGAGAGGAUCCUAAGGUUAGCGAGUGAACUAUAGCCAAGGAACUCUGCAAAUUAACCCCGUAAGUUAGCGAGAAGGGGUGCUUAUGUAAAAGUAAGCCGCAGUGAAGAACGAGGGGGGACUGUUUAACUAAAACACAACUCUAUGCCAAACCGUAAGGUGAUGUAUAUGGGGUGACACCUGCCCAGUGCUGGAAGGUUAAAGAAGGAGGUUAGCGCAAGCGAAGCUUUUAACUGAAGCCCCAGUGAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAAAUUCCUAGUCGGGUAAAUUCCGUCCCGCUUGAAUGGUGUAACCAUCUCUUGACUGUCUCGGCUAUAGACUCGGUGAAAUCCAGGUACGGGUGAAGACACCCGUUAGGCGCAACGGGACGGAAAGACCCCGUGAAGCUUUACUGUAGCUUAAUAUUGAUCAGGACAUUAUCAUGUAGAGAAUAGGUAGGAGCAAUCGAUGCAAGUUCGCUAGGACUUGUUGAUGCGAAAGGUGGAAUACUACCCUUGGUUGUGUGCUGUUCUAAUUGGUAACUGUUAUCCAGUUUCAAGACAGUGUUAGGUGGGCAGUUUGACUGGGGCGGUCGCCUCCUAAAAGGUAACGGAGGCGUACAAAGGUACCUUCAGUACGGUUGGAAAUCGUAUGUAGAGUGUAAUGGUGUAAGGGUGCUUGACUGUGAGACAUACAGGUCGAACAGGUGAGAAAUCAGGUCAUAGUGAUCCGGUGGUCCAGUAUGGAAUGGCCAUCGCUCAACGGAUAAAAGCUACUCCGGGGAUAACAGGCUGAUACUGCCCAAGAGUUCAUAUCGACGGCAGUGUUUGGCACCUCGAUGUCGACUCAUCUCAUCCUCGAGCUGAAGCAGGUUCGAAGGGUUCGGCUGUUCGCCGAUUAAAGAGAUACGUGAGUUGGGUUCAAACCGUCGUGAGACAGGUUGGUCCCUAUCUAUUGUGCCCGUAGGAAGAUUGAAGAGUGUUGCUUCUAGUACGAGAGGACCGAAGCGAGGACACCUCUUAUGCUCCAGUUGUAGCGCCAGCUGCACCGCUGGGUAGUAACGUGUCUAUUAGAUAAACGCUGAAAGCAUCUAAGUGUGAAACUAUCUCAAAGAUUAAUCUUCCCAUUUCGCAAGAAAGUAAGAGCCGUCAAAGACGAUGACGUUGAUAGGUUACAGGUGUAAGCAUAGUGAUAUGUUGAGCUGAGUAAUACUAAUUGCUCGAGGACUUAUUGGA |
| 16S ribosomal RNA | 5 | 1520 | NA | UUUUUCUGAGAGUUUGAUCCUGGCUCAGGAUUAACGCUGGCGGCAUGCCUAAUACAUGCAAGUCGAUCGAAAGUAGUAAUACUUUAGAGGCGAACGGGUGAGUAACACGUAUCCAAUCUACCUUAUAAUGGGGGAUAACUAGUUGAAAGACUAGCUAAUACCGCAUAAGAACUUUGGUUCGCAUGAAUCAAAGUUGAAAGGACCUGCAAGGGUUCGUUAUUUGAUGAGGGUGCGCCAUAUCAGCUAGUUGGUGGGGUAACGGCCUACCAAGGCAAUGACGUGUAGCUAUGCUGAGAAGUAGAAUAGCCACAAUGGGACUGAGACACGGCCCAUACUCCUACGGGAGGCAGCAGUAGGGAAUUUUUCACAAUGAGCGAAAGCUUGAUGGAGCAAUGCCGCGUGAACGAUGAAGGUCUUUAAGAUUGUAAAGUUCUUUUAUUUGGGAAGAAUGACUUUAGCAGGUAAUGGCUAGAGUUUGACUGUACCAUUUUGAAUAAGUGACGACUAACUAUGUGCCAGCAGUCGCGGUAAUACAUAGGUCGCAAGCGUUAUCCGGAUUUAUUGGGCGUAAAGCAAGCGCAGGCGGAUUGAAAAGUCUGGUGUUAAAGGCAGCUGCUUAACAGUUGUAUGCAUUGGAAACUAUUAAUCUAGAGUGUGGUAGGGAGUUUUGGAAUUUCAUGUGGAGCGGUGAAAUGCGUAGAUAUAUGAAGGAACACCAGUGGCGAAGGCGAAAACUUAGGCCAUUACUGACGCUUAGGCUUGAAAGUGUGGGGAGCAAAUAGGAUUAGAUACCCUAGUAGUCCACACCGUAAACGAUAGAUACUAGCUGUCGGGGCGAUCCCCUCGGUAGUGAAGUUAACACAUUAAGUAUCUCGCCUGGGUAGUACAUUCGCAAGAAUGAAACUCAAACGGAAUUGACGGGGACCCGCACAAGUGGUGGAGCAUGUUGCUUAAUUCGACGGUACACGAAAAACCUUACCUAGACUUGACAUCCUUGGCAAAAUUAUGGAAACAUAAUGGAGGUUAACCGAGUGACAGGUGGUGCAUGGUUGUCGUCAGCUCGUGUCGUGAGAUGUUGGGUUAAGUCCCGCAACGAGCGCAACCCUUAUCGUUAGUUACAUUGUCUAGCGAGACUGCUAAUGCAAAUUGGAGGAAGGAAGGGAUGACGUCAAAUCAUCAUGCCCCUUAUGUCUAGGGCUGCAAACGUGCUACAAUGGCCAAUACAAACAGUCGCCAGCUUGUAAAAGUGAGCAAAUCUGUAAAGUUGGUCUCAGUUCGGAUUGAGGGCUGCAAUUCGUCCUCAUGAAGUCGGAAUCACUAGUAAUCGCGAAUCAGCUAUGUCGCGGUGAAUACGUUCUCGGGUCUUGUACACACCGCCCGUCAAACUAUGAAAGCUGGUAAUAUUUAAAAACGUGUUGCUAACCAUUAGGAAGCGCAUGUCAAGGAUAGCACCGGUGAUUGGAGUUAAGUCGUAACAAGGUACCCCUACGAGAACGUGGGGGUGGAUCACCUCCUUUCUA |
| mRNA | y | 21 | NA | CUGCUGAUAAGGUCUUCAAAA |
| tRNA-Asp (P-site) | 7 | 75 | NA | GGUUCCAUGGUGUAGUGGAUAACAUAUCUCCCUGUCACGGAGGGGUUGCGGGUUCGAUUCCCGUUGGAACCGCCA |
| tRNA-Lys (A-site) | 8 | 76 | NA | GCAUCUUUAGCUCAGUUGGUAGAGCAAAUGACUCUUAAUCAUUGGGUCGGGGGUUCGAGCCCCUCAAGAUGCACCA |
| Proteins | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 30S ribosomal protein S7 | F | 155 | Mycoplasmoides Pneumoniae M129 | MRKNRAPKRTVLPDPVFNNTLVTRIINVIMEDGKKGLAQRILYGAFDLIEQRTKEKPLTVFERAVGNVMPRLELRVRRIAGSNYQVPTEVPQDRKIALALRWIAMFARKRHEKTMLEKIANEIIDASNNTGAAIKKKDDTHKMAEANKAFAHMRW |
| 30S ribosomal protein S8 | G | 142 | Mycoplasmoides Pneumoniae M129 | MITTTKPIKAHFDPVADLLTKINNARKAKLMTVTTIASKLKIAILEILVKEGYLANFQVLENKSKTKRIVTFNLKYTQRRIPSINGVKQISKPGLRIYRPFEKLPLVLNGLGIAIISTSDGVMTDKVARLKKIGGEILAYVW |
| 30S ribosomal protein S9 | H | 132 | Mycoplasmoides Pneumoniae M129 | MEKQSYYGLGRRKSSSAKVYLTPTQDKGKITVNRRDPSEYFPNKLVIQDMEQPLDLTDLKKNFDINVVVKGGGFTGQAGAIRLGIVRALLQFNPELKKILKSKKLTTRDKRVKERKKFGLYGARRAPQFTKR |
| 30S ribosomal protein S10 | I | 108 | Mycoplasmoides Pneumoniae M129 | MNAANAVKYPELKIKLESYDSTLLDLTTKKIVEVVKGVDVKIKGPLPLPTKKEVITIIRSPHVDKASREQFEKNRHKRLMILVDVNQGAIDSLKRIKIPVGVTLRFSK |
| 30S ribosomal protein S11 | J | 121 | Mycoplasmoides Pneumoniae M129 | MAKKKKINVSSGIIHVSCSPNNTIVSASDPGGNVLCWASSGTMGFKGSRKKTPYSAGIAADKVAKTVKEMGMATVKLFVKGTGRGKDTAIRSFANAGLSITEINEKTPIPHNGCKPPKRPR |
| 30S ribosomal protein S12 | K | 139 | Mycoplasmoides Pneumoniae M129 | MATIAQLIRKPRKKKKVKSKSPALHYNLNLLNKKVTNVYSPLKRGVCTRVGTMTPKKPNSALRKYAKVRLTNGFEVLTYIPGEGHNLQEHSVTLLRGGRVKDLPGVRYHIVRGTLDTVGVEKRRQQRSAYGAKKPKAKS |
| 30S ribosomal protein S13 | L | 124 | Mycoplasmoides Pneumoniae M129 | MARILGIDIPNQKRIEIALTYIFGIGLSRSQAILKQANINPDKRVKDLTEEEFVAIRNVASAYKIEGDLRREIALNIKHLSEIGAWRGLRHRKNLPVRGQRTRTNARTRKGPRKTVANKKIESK |
| 30S ribosomal protein S14 type Z | M | 61 | Mycoplasmoides Pneumoniae M129 | MAKKSLKVKQTRIPKFAVRAYTRCQRCGRARAVLSHFGVCRLCFRELAYAGAIPGVKKASW |
| 30S ribosomal protein S15 | N | 86 | Mycoplasmoides Pneumoniae M129 | MQIDKNGIIKSAQLHDKDVGSIQVQVSLLTSQIKQLTDHLLANKKDFISKRGLYAKVSKRKRLLKYLKHNDLEAYRNLVKTLNLRG |
| 30S ribosomal protein S16 | O | 94 | Mycoplasmoides Pneumoniae M129 | MVKIRLMRMGRVHYPTYRIVAVDSRVKRDGKYIALIGHLNPALKENKCKIDEAVALEWLNKGAKPTDTVRSLFSQTGLWKKFVESKKKPVAKSK |
| 30S ribosomal protein S17 | P | 85 | Mycoplasmoides Pneumoniae M129 | MKRNQRKVLIGIVKSTKNAKTATVQVESRFKHPLYHKSVVRHKKYQAHNEGEVLAKDGDKVQIVETRPLSATKRFRIAKIIERAK |
| 30S ribosomal protein S18 | Q | 104 | Mycoplasmoides Pneumoniae M129 | MMNNEHDNFQKEVETTTETTFNREEGKRMVRPLFKRSKKYCRFCAIGQLRIDLIDDLEALKRFLSPYAKINPRRITGNCQMHQRHVAKALKRARYLALVPFVKD |
| 30S ribosomal protein S19 | R | 87 | Mycoplasmoides Pneumoniae M129 | MSRSAKKGAFVDAHLLKKVIDMNKQEKKRPIKTWSRRSTIFPEFVGNTFAVHNGKTFINVYVTDDMVGHKLGEFSPTRNFKQHTANR |
| 30S ribosomal protein S20 | S | 87 | Mycoplasmoides Pneumoniae M129 | MANIKSNEKRLRQNIKRNLNNKGQKTKLKTNVKNFHKEINLDNLGNVYSQADRLARKGIISTNRARRLKSRNVAVLNKTQVTAVEGK |
| 30S ribosomal protein S21 | T | 60 | Mycoplasmoides Pneumoniae M129 | MPKIEVKNDDLELALKKFKRVSLEIRRLAQRHEYHLRKGMRLREKRKIAQKKRRKFRNMV |
| 50S ribosomal protein L31 | X | 97 | Mycoplasmoides Pneumoniae M129 | MKKDFHFPSQSVSFKCASCSNSFTIESTLKQKEITIDICGKCHPFYIGELTKQTVHGRAEKLSGKFNAGKAFLENKTPKKAKGKTEEYTKHRSLNEL |
| 30S ribosomal protein S2 | A | 294 | Mycoplasmoides Pneumoniae M129 | MSELITTPVETTAKAELVSLAKLGEMRTHVGMVKRYWNPKMGFFIEPERKHNNDHFVLELQRQSLQTAYNYVKEVAQNNGQILFVGTKNDYVKKLVNNIAKRVDVAFITQRWLGGTLTNFKTLSISINKLNKLVEKQAENAADLTKKENLMLSREIERLEKFFGGVKSLKRLPNLLIVDDPVYEKNAVAEANILRIPVVALCNTNTNPELVDFIIPANNHQPQSTCLLMNLLADAVAEAKAMPTMFAYKPDEEIQIEIPQKQEAPRQVVNRANSKQITSQRLNITRNPEVLTRE |
| 30S ribosomal protein S3 | B | 273 | Mycoplasmoides Pneumoniae M129 | MGQKVNSNGLRFGINKNWISRWTANSHAQTAKWLIEDEKIRNLFFVNYRNAQVSNVEIERTQATVDVFVYAAQPAFLIGSENKNIQKITKQIKQIIGRTTNLDLTINEIGSPMLSARIIARDLANAIEARVPLRTAMRQSLIKVLKAGANGIKVLVSGRLNGAEIARDKMYIEGNMPLSTLRADIDYALEKAQTTYGVIGVKVWINRGMIYTKGLNRTPAHILHPQKKQPNRQNQQPRHFNQGQVLSANKLTGSDVETSSIQALTKPNKEDKQ |
| 30S ribosomal protein S4 | C | 205 | Mycoplasmoides Pneumoniae M129 | MKYTGSIFKRSRRLGFSLLENNKEFSKGKKRKTIPGQHGNRFRSSTMSGYAQQLQEKQRMQYMYGITDKQFRRLFRLVLKQRGNLAVNLFRVLESRLDNIVYRMGFAPTRRSARQLVNHGHVLLNDRTVDTPSIILNPGDKVRLKAKTIKIPIVKAASESGVVSPFVETNNKTFEGTYVRFPERSELPAGINESYVVEWYKRLVK |
| 30S ribosomal protein S5 | D | 219 | Mycoplasmoides Pneumoniae M129 | MTDQNQKANQGNGLQTTNLQAHAQRKHNLRPSSEGIKKAVSKKEGGGHNRNNQNRRFQKPAFKSEFEERIVKLKRISKTTKGGRNMRFSVLVVVGNRKGKIGYGIAKALEVPNAIKKAIKAAHNSLHTIEIHKGSIYHEVIGRSGASRVLLKPAPQGTGIIAGGAIRAIIELAGYSDIYTKNLGRNTPINMIHATMDGILKQLSPRRVAILRNKNLNEL |
| 30S ribosomal protein S6 | E | 215 | Mycoplasmoides Pneumoniae M129 | MQYNIILLVDGSLSLEQANQVNEKQQQTLTNVEGLQTEYLGLKELAYPIKKQLSAHYYRWKFSGDNQSTKDFKRTANINKQVLRELIINLEREYGYLASINPKKQQLALQKRAKYDEIIARENNPENPDVPVTSGLASTQPRLSRTEKAQKPKEELWDVVQKMGNFDSVQANPYRPRFKRFNAEHVNQRQNQQNNNNNRFDRNRNRQHNRFKDKQ |
Experimental Data
Method: ELECTRON MICROSCOPY
Deposited Date: 2023-05-27 Deposition Author(s): Mahamid, J. , Schacherl, M. , Spahn, C.M.T. , Xue, L.