8CRX
Cutibacterium acnes 70s ribosome with mrna, p-site trna and sarecycline bound
PDB DOI: 10.2210/pdb8crx/pdb
Classification: ANTIBIOTIC Organism(s): Cutibacterium Acnes , Escherichia Coli , Synthetic Construct
Deposited: 2022-05-12 Deposition Author(s): Bunick, C.G. , Devarkar, S.C. , Lomakin, I.B.
Experimental Data Snapshot
Method: ELECTRON MICROSCOPY Resolution: 2.78 Å
Cutibacterium acnes 70s ribosome with mrna, p-site trna and sarecycline bound
Bunick, C.G. , Devarkar, S.C. , Lomakin, I.B.
Primary Citation of Related Structures: 8CRX
| Nucleic Acids / Hybrid | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 23S ribosomal RNA | a | 3086 | NA | GCAAAGUUGUGUAGUGCGAUCGGUGGAUGCCUUGGCACCAAGAGCCGAUGAAGGACGUUGUGACCUGCGAUAAGCCCUGGGGAGUUGGUGAGCGAGCUGUGAUCCGGGGGUGUCCGAAUGGGGAAACCUGGAAUGUCCGGAGUAGUGUCCGGUGGCCCUGCCCUGAAUGUAUAGGGGUGUGGGUGGUAACGCGGGGAAGUGAAACAUCUUAGUACCCGUAGGAAGAGAAAACAAGUGUGAUUCCGUGAGUAGUGGCGAGCGAAAGCGGAGGAGGCUAAACCGUGUGUGUGUUCAAGCCGGCAGGUGUUGCAUGUGCGGGGUUGUGGGGGCCUUGUGGUUCUGCUGCCGCAGGAUUGGCCAGUGAGAAAUGUUGCGUGAAGGUGAAGCGUCUGGGAAGGCGUACCGGAGUGGGUGAGAGUCCUGUAACUGUAAGCGUGGCACUGGUGUGGGGUUGCCCCGAGUAGCGUGGGACUCGUGGAAUUUCGCGUGAAUCUGGCGGGACCACCCGUCAAGCCUAAAUACUCCUUGGUGACCGAUAGUGGAUGAGUACCGUGAGGGAAGGGUGAAAAGUACCCCGGGAGGGGAGUGAAAGAGUUCCUGAAACCGGUCGCAUGCAAGCCGUCAGAGCCUGUGUGGUGAUGGCGUGCCUUUUGAAGAAUGAGCCUGCGAGUUAGUGAUGCGUGGCGAGGUUAACCCGUGGUGGGGGAGUCGUAGCGAAAGCGAGUCCGAUAAGGGCGUGAGUCGCGUGUUCUAGACCCGAAGCGGUGUGAUCUAUCCAUGGCCAGGAUGAAGCGUCGGUAAGACGUCGUGGAGGUCCGAACCCACUUCAGUUGAAAAUGGAGGGGAUGAGUUGUGGAUAGGGGUGAAAGGCCAAUCAAACACCGUGAUAGCUGGUUCUCCCCGAAAUGCAUUUAGGUGCAGCGUUGCGUGGUUCUUGUUGGAGGUAGAGCACUGGAUGGUCUAGGGGGCUUAUCGGCUUACCGAAAUCAGCCAAACUCCGAAUGCUGGCAAGUGUAGCGUGGCAGUGAGACGGCGGGUGAUAAGCUUCGUCGUCGAGAGGGAAACAGCCCAGAUCAUCAGCUAAGGCCCCUAAGUGGUGACUCAGUGGGAAAGGAUGUGGAGUUGCGUAGACAACCAGGAGGUUGGCUUGGAAGCAGCCAUCCUUGAAAGAGUGCGUAAUAGCUCACUGGUCAAGUGAUUCCGCGCCGAUAAUGUAGCGGGGCUUAAGUUAUCCGCCGAAGCUGUGGCAACCUGUGUGGUUGGGUAGGGGAGCGUCGUGUCAGUGGUGAAGCUGCCGGGUGACUGUGUGGUGGAGUUGAUGCGAGUGAGAAUGCAGGCAUGAGUAGCGUGUGACGGGUGGGAAUCCCGUCCGCCGAUUAUCCAAGGGUUCCAGGGUCAAGUUUGUCUGCCCUGGGUGAGUCGGGUCCUAAGGCGAGGCCGACAGGCGUAGUCGAUGGGUAACCAGUUGAUAUUCUGGUACCGGCUUGUCACCGUCCGUGUCGAGGUGUGUGAUGCUAAGCAUGUGAGCUUGUCUUGGGAGUGUUUUUGAUGCUUCUGGGGUGGGUGAGUGUGUGAACCGAUCAUGUAGUAGGCAAGCUGCGGAGGGACGCAGUGAGGUAGCUCAUCCCCGGUGAUGGUUGUCCGGGGCUAAGUGUGUGGACUGUCUGGUAGGUAAAUCCGCUGGGCGUGAAGGUUGAGGCAUGAUGGGGAGCCCAUGGUUGUGGGUGAGUGAGUGAUCCUGUACUGUCGAGAAAAGCUUCGUGAGCGAGGUGGCGGGUCCGCCCGUACCCUAAACCGACACUGGUGGAUAGGUAGAGUAUACCGAGGCGAUCGAGUGAAUCGUGGUGAAGGAACUCGGCAAAAUGCCCCCGUAACUUUGGGAUAAGGGGGACCUGAGCUGUCGUGCACCCGUGCGGUGUGGUGGCGGUGAGGGGCGCAGAGUCCAGGGGGAAACGACUGUUUACCAAAAACACAGGUCCGUGCGAAGUCGUAAGACGAUGUAUACGGACUGACUCCUGCCCGGUGCUGGAAGGUUAAGGGGAACUGUGAGUGUAUGCGUAGCGGUGAACUUAAGCCCCAGUAAACGGCGGUGGUAACXAUAACCAUCCUAAGGUAGCGAAAUUCCUUGUCGGGUAAGUUCCGACCUGCACGAAUGGAGUAACGAUUUCCCUACUGUCUCCACCAUGAACUCGGUGAAAUUGCAUUACGAGUAAAGAUGCUCGUUACGCGCAGCAGGACGGAAAGACCCCGGGACCUUUACUAUAGUUUGGUAUUGGUGAUUGGGACGGUUUGUGUAGGAUAGGUGGGAGACGUUGAUGCGGCCACGCUAGUGGUGGUGGAGUCGUUGGUGAAAUACCACUCUGAUUGUUCUGGUUAUCUCACUGUGGACCGUGAUCCGGUUCAAGGACAGUGCCUGAUGGGUAGUUUGACUGGGGCGGUCGCCUCCUAAAGGGUAACGGAGGCGCCCAAAGGUUCCCUCAGCCUGGUUGGUAAUCAGGUGGUGAGUGUAAGUGCACAAGGGGGCUUGACUGUGAGACUGACAGGUCGAGCAGGGACGAAAGUCGGGACUAGUGAUCUGACGGUGGCUUGUGGAUGCGCCGUCACUCAACGGAUAAAAGGUACCCCGGGGAUAACAGGCUGAUCUUGCCCGAGCGCUCAUAGCGACGGCAUGGUUUGGCACCUCGAUGUCGGCUCGUCGCAUCCUGGGGCUGGAGUCGGUCCCAAGGGUUGGGCUGUUCGCCCAUUAAAGCGGCACGCGAGCUGGGUUCAGAACGUCGUGAGACAGUUCGGUCCCUAUCCGCUGCGCGCGGAGGAAUCUUGAGAAGGGCUGUCUUUAGUACGAGAGGACCGAGACGGACUGACCUCUGGUGUGCCAGUUGUUCUGCCAAGAGCAUGGCUGGUUGGCUACGUCGGGUUGUGAUAACCGCUGAAAGCAUCUAAGCGGGAAGCACGCUUCAAGAUAAGGGUUCCCACAGGAGUGUUCCUGGUAAGGUCCCCGAGAGAUGAUCGGGUUGAUAGGCCAGACGUGGACGCAUCGUAAGGUGUGGAGCUGACUGGUACUAAUAGACCGAGGACUUUCAUUAACA |
| 5S ribosomal RNA | b | 120 | NA | UUUCCGGUGGCCAUAGUGGAAGGGAAACACCCGGUCCCAUUCCGAACCCGGUCGUUAAGCCUUCCAACGCUGAUGGUACUGCACGAGGGAUCGUGUGGGAGAGUAAGACGCUGCCGGAAU |
| P-site initiator tRNA | c | 77 | NA | CGCGGGGUGGAGCAGCCUGGUAGCUCGUCGGGCUCAUAACCCGAAGGUCGUCGGUUCAAAUCCGGCCCCCGCAACCA |
| 32MF mRNA | y | 22 | NA | CAAGGAGGUAAAAAUGUUUUAA |
| Proteins | ||||
|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Sequence |
| 50S ribosomal protein L22 | R | 153 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MSKTERPSRRAALLGDRPGSYAIARHVRMSASKCRRVINLVRGMDAVDAVTMLKFQPQAAAEPIRKVIASAMANAEQTEGLRADDLYISQAFVDEGITMRRIRPRAKGSASRILKRSAHITVVVEPKEARQARKKAKSGRPAAAAKSETEKGA |
| 50S ribosomal protein L24 | T | 122 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MKSLKIKKGDRVKVIAGNDKGAIGEVLSVDPARERVVVEGVNIRKHHRRDMPTPQGGTTKGGIISSEAPIHVSNVQLVTKIDGKDVVTRVGYRRVDVTKRRPDGSEYAAQRSVRYLKKEEAK |
| 50S ribosomal protein L20 | P | 123 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MARVKRSVNAKKKRREVLDQASGYRGQRSRLYRKAKEQTLHSATYSFRDRRAKKGDFRSLWIQRINAASRAQGMTYNRFINGLKNAGVEVDRKMLAELAVSDINAFNSLVEVAKASQPQNAAA |
| 50S ribosomal protein L29 | X | 77 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MPKLSAAELRQLSGEELRNKVRELKEELFGLRFQSATGQLENTARLREVRKDIARVYTVLQERNLNIVDDPDSTKEA |
| 50S ribosomal protein L6 | G | 180 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MSRIGRLPIAVPSGVEVKLDGQYVEVKGPKGTLNFTVREPITVSKNDEGAILVERPDDERENRSLHGLTRTLINNMVIGVTEGYEKKLEIQGVGYRVLSKGPKQLEFNLGFSHPVIVDAPEGITFAVENPTKFSVQGIDKQVVGETAANIRKIRKPEPYKGKGVRYEGENVRRKVGKAGK |
| 50S ribosomal protein L13 | I | 147 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MTTYSPKAGEVQRKWYVIDAEDIVLGRLATTAANLLRGKHKPQYAPHIDTGDFVVVVNASKIALTGKKATDSLRYDHSGRPGGLRVTSIGEMLAKNPRRAVERAVWGMMPKNKLSRQQLKKLKVYGGPEHPHAAQNPQPYEITQIAQ |
| 50S ribosomal protein L14 | J | 122 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MIQQETRLKVADNTGAKELLCIRVLGGSKRRYAYLGDTIVCTVKDAIPGGNVKKGEVVKAVVVRTVKSHRRPDGSYIKFDENAAVLLKGDGEPRGTRIFGPIARELREKKFMRIVSLAPEVI |
| 50S ribosomal protein L17 | M | 187 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MPKPTKGPRLGGSPAHERIILRNLASQLFEHGRVVTTVTKAKRVRPLAEKLINRAKTDTVANRRFVNRTITDRGIVHILFTEIGPRMEGRDGGYTRVTRIGIRKGDNAPMAVIEVISDKVAPKAPASAADAKAQINTATEAKDAEPEAGDAAVEHNAPAEDAAAQAPVADEQEAAEADEKAEEKPEA |
| 50S ribosomal protein L18 | N | 127 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MASTLTVRKSLSDRAKARARRQARGRKKIFGTVERPRMVVTRSSKHVFVQVIDDVAGNTLVSASTMEAELREMSGDKTAKAARVGTIIGERAKAAGITKVVFDKAGNQYHGRIAALADAAREAGLDF |
| 50S ribosomal protein L23 | S | 102 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MSELKIRDPRDIILAPVVSEKSYGLLDQNTYTFVVKPTANKTEIKIAIEQIFGVKVTSVNTMNRKGKVRRTRTGVGKRPDTKRAIVTVAEGDRIDIFTGPVA |
| 50S ribosomal protein L3 | D | 223 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MTNERTVKGVLGTKLGMTQLWDEHNRLVPVTVIQAGPCVVTQVRTPETDGYSAVQLGYGAVKAKNVTKPEAGHFEKAGVTPRRHLVELRTADASEYTLGQEIAADVFSESDFVDVTGTSKGKGTAGVMKRHGFGGLRATHGVHRKHRSPGSIGGCSTPGKVIKGLRMAGRMGVERVTVQNLQVHSVDAERGIMLVRGAVPGPKGSLLVVRSAAKKAAKNGDAA |
| 50S ribosomal protein L25 | U | 205 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MADIIHLKAEQRTEFGKGAARRIRRDDKVPAVMYGHDHDPIHVTLDGHATLLALRTENPLLSIEIEGQKPMLALPKDVQRDVLKGFVRHVDLLTVRRGEKVDVNVALRITGESAPGTIAMTEFNEIEVQADLLNIPEVIEIDVTGLEAGTTIYLGDLKLPEGTSLLGDAEDVAATVAFPETEPVEDEESAGEDAQGESEEKAAKE |
| 30S ribosomal protein S5 | E | 215 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MSGTQRRGGGAGGERRGRDNRRGQNDRNRNQNEYLERVVAINRVAKVVQGGRRFSFTALVVVGDGEGSVGVGYGKAKEVPAAIAKAVEEAKKHFFKVPLVGRTITHPVIGEKAAGVVMLRPASPGTGVIAGGSARAVLECAGVHDVLAKSLGSSNAINVVHATVDALQQLEEPEEVARRRGKSVEDIAPAAMLRARKEADEAAAAARMEEKAGVN |
| 30S ribosomal protein S6 | F | 96 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MRKYEVMIIIDPTVEERQVDSLMEKYLKVITDEKGTVDNVDVWGKRRLAYDIQKKSEGIYVVVNATCEPATIQELDRLLAIDEKIMRTKVMRPEIH |
| 30S ribosomal protein S11 | K | 135 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MATAGHKGAPKTKVRRKEKKNVVAGQAHIKSTFNNTIIAITDPSGAVISWASAGTVGFKGSRKSTPFAAQMAAEAAGRRAMEHGMKRVDVFVKGPGSGRETAIRSLGAVGLEIGPISDVTPVPHNGCRPPKRRRV |
| 30S ribosomal protein S12 | L | 123 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MPTIQQLVRKGRTDKISKNKTPALKGSPQRRGVCTRVYTTTPKKPNSALRKVARVRLSSGIEVTAYIPGVGHNLQEHSMVLVRGGRVKDLPGVRYKIVRGSLDTQGVKGRKQARSRYGAKKEK |
| 30S ribosomal protein S15 | O | 87 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MDAAEKKKIIEEYATHPGDTGSPDVQVAILTKRIAELTEHLKVHKGDHHSRRGLMLMVGQRRRLLNYIAKNDIEHYRELIARLGLRR |
| 30S ribosomal protein S17 | Q | 90 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MSENTAERTTRRKVREGLVVSDKMNKTITVMVEDRVKHPLYGKVMTKSVRLKAHDENNEAGMGDRVRIMETRPLSATKRWRLVEIIEKAK |
| 50S ribosomal protein bL37 | V | 24 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MGKTGRKRRARRKKGANHGKRPNA |
| 50S ribosomal protein L28 | W | 61 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MAAVCDICAKRPGFGHNVPWSKKKTNRRWSPNIQRVRVVENGTHKRMNVCTSCLKAGRVSR |
| 50S ribosomal protein L32 | Z | 63 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MAVPKRKMSRSNTRHRRSQWKTVATKLVTCANPACGEKHLPHTACPSCGGYGPRGDRRQVVEA |
| 50S ribosomal protein L33 | 0 | 56 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MAKKSGDVRPKITLACTECKERNYITKKNRRNNPDRMEMAKFCPRCRKHTAHRETR |
| 50S ribosomal protein L34 | 1 | 44 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MKRTFQPSNRRRARNHGFRSRMSTRAGRSILAARRRKGRVNLSA |
| 50S ribosomal protein L35 | 2 | 68 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MPKMKSHSGTKKRFKVTGSGKVTARKAGKRHLNEHKSSRVTRRLTGETVLSKGEAAKVKKLLAGHPGR |
| 50S ribosomal protein L31 | 4 | 69 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MKQGIHPDYRETTVVCTCGNTFTTRSTSQSGTLNADVCSKCHPFYTGKQKILDAGGRVARFERRYGKKN |
| 30S ribosomal protein S8 | H | 135 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MTMTDPIADMLTRLRNANQAYHDQTSMPHSKIKAGIAGILKSEGYIADYKVNEPKEGEVGKTLTLTLKYGENRERSIAGVRRISKPGLRVYAKSTALPKVLGGLGIAIISTSQGLLTDKQAHEKSVGGEVLAYVW |
| 50S ribosomal protein L36 | 3 | 37 | Cutibacterium Acnes , Escherichia Coli , Synthetic Construct | MKVQPSVKKICDKCKVIRRHGRVMVICDNPRHKQRQG |
Experimental Data
Method: ELECTRON MICROSCOPY
Deposited Date: 2022-05-12 Deposition Author(s): Bunick, C.G. , Devarkar, S.C. , Lomakin, I.B.