+Open data
-Basic information
Entry | Database: PDB / ID: 8e3l | ||||||||||||
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Title | E. coli 50S ribosome bound to D-linker solithromycin conjugate | ||||||||||||
Components |
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Keywords | RIBOSOME / E. coli ribosome / solithromycin / siderophore conjugate / antibiotics | ||||||||||||
Function / homology | Function and homology information DnaA-L2 complex / negative regulation of DNA-templated DNA replication initiation / ribosome assembly / assembly of large subunit precursor of preribosome / cytosolic ribosome assembly / ribosomal large subunit assembly / large ribosomal subunit / transferase activity / large ribosomal subunit rRNA binding / cytosolic large ribosomal subunit ...DnaA-L2 complex / negative regulation of DNA-templated DNA replication initiation / ribosome assembly / assembly of large subunit precursor of preribosome / cytosolic ribosome assembly / ribosomal large subunit assembly / large ribosomal subunit / transferase activity / large ribosomal subunit rRNA binding / cytosolic large ribosomal subunit / cytoplasmic translation / rRNA binding / ribosome / structural constituent of ribosome / ribonucleoprotein complex / translation / response to antibiotic / RNA binding / zinc ion binding / cytoplasm / cytosol Similarity search - Function | ||||||||||||
Biological species | Escherichia coli (E. coli) | ||||||||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 2.35 Å | ||||||||||||
Authors | Pellegrino, J. / Lee, D.J. / Fraser, J.S. / Seiple, I.B. | ||||||||||||
Funding support | United States, 3items
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Citation | Journal: To Be Published Title: Solithromycin siderophore conjugates Authors: Boyce, J.H. / Pellegrino, J. / Lee, D.J. / Ecker, A.K. / Seiple, I.B. / Fraser, J.S. | ||||||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 8e3l.cif.gz | 2.4 MB | Display | PDBx/mmCIF format |
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PDB format | pdb8e3l.ent.gz | Display | PDB format | |
PDBx/mmJSON format | 8e3l.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 8e3l_validation.pdf.gz | 1.4 MB | Display | wwPDB validaton report |
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Full document | 8e3l_full_validation.pdf.gz | 1.4 MB | Display | |
Data in XML | 8e3l_validation.xml.gz | 94.3 KB | Display | |
Data in CIF | 8e3l_validation.cif.gz | 156.4 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/e3/8e3l ftp://data.pdbj.org/pub/pdb/validation_reports/e3/8e3l | HTTPS FTP |
-Related structure data
Related structure data | 27867MC 8e3mC 8e3oC M: map data used to model this data C: citing same article (ref.) |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
-Assembly
Deposited unit |
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1 |
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-Components
-RNA chain , 2 types, 2 molecules IJ
#1: RNA chain | Mass: 941795.562 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Production host: Escherichia coli (E. coli) |
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#2: RNA chain | Mass: 38177.762 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Production host: Escherichia coli (E. coli) / References: GenBank: 1266940032 |
-50S ribosomal protein ... , 8 types, 8 molecules KLMNOPQR
#3: Protein | Mass: 29663.244 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: rplB, b3317, JW3279 / Production host: Escherichia coli (E. coli) / References: UniProt: P60422 |
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#4: Protein | Mass: 15008.471 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: rplO / Production host: Escherichia coli (E. coli) / References: UniProt: A0A037Y8L6 |
#5: Protein | Mass: 22121.566 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: rplD, ECMG_02584 / Production host: Escherichia coli (E. coli) / References: UniProt: A0A7U9FY55 |
#6: Protein | Mass: 22277.535 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: rplC, b3320, JW3282 / Production host: Escherichia coli (E. coli) / References: UniProt: P60438 |
#7: Protein | Mass: 16050.606 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: rplM, A1UI_03510 / Production host: Escherichia coli (E. coli) / References: UniProt: S1EW51 |
#8: Protein | Mass: 12253.359 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Strain: K12 / Gene: rplV, eryB, b3315, JW3277 / Production host: Escherichia coli (E. coli) / References: UniProt: P61175 |
#9: Protein | Mass: 6332.249 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: rpmF, ECDEC2D_1303 / Production host: Escherichia coli (E. coli) / References: UniProt: A0A828UBL8 |
#10: Protein/peptide | Mass: 5397.463 Da / Num. of mol.: 1 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia coli (E. coli) / Gene: rpmH / Production host: Escherichia coli (E. coli) / References: UniProt: B7MGC4 |
-Non-polymers , 1 types, 1 molecules
#11: Chemical | ChemComp-UK3 / ( |
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