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TitleStructure of the bacterial ribosome at 2 Å resolution.
Journal, issue, pagesElife, Vol. 9, Year 2020
Publish dateSep 14, 2020
AuthorsZoe L Watson / Fred R Ward / Raphaël Méheust / Omer Ad / Alanna Schepartz / Jillian F Banfield / Jamie Hd Cate /
PubMed AbstractUsing cryo-electron microscopy (cryo-EM), we determined the structure of the 70S ribosome with a global resolution of 2.0 Å. The maps reveal unambiguous positioning of protein and RNA residues, ...Using cryo-electron microscopy (cryo-EM), we determined the structure of the 70S ribosome with a global resolution of 2.0 Å. The maps reveal unambiguous positioning of protein and RNA residues, their detailed chemical interactions, and chemical modifications. Notable features include the first examples of isopeptide and thioamide backbone substitutions in ribosomal proteins, the former likely conserved in all domains of life. The maps also reveal extensive solvation of the small (30S) ribosomal subunit, and interactions with A-site and P-site tRNAs, mRNA, and the antibiotic paromomycin. The maps and models of the bacterial ribosome presented here now allow a deeper phylogenetic analysis of ribosomal components including structural conservation to the level of solvation. The high quality of the maps should enable future structural analyses of the chemical basis for translation and aid the development of robust tools for cryo-EM structure modeling and refinement.
External linksElife / PubMed:32924932 / PubMed Central
MethodsEM (single particle)
Resolution1.89 - 2.13 Å
Structure data

22586

7k00

EMDB-22586: Structure of the Bacterial Ribosome at 2 Angstrom Resolution (composite structure)
PDB-7k00: Structure of the Bacterial Ribosome at 2 Angstrom Resolution
Method: EM (single particle) / Resolution: 1.98 Å

EMDB-22607:
Structure of the Bacterial Ribosome at 2 Angstrom Resolution (70S ribosome)
Method: EM (single particle) / Resolution: 1.98 Å

EMDB-22614:
Structure of the Bacterial Ribosome at 2 Angstrom Resolution (50S focused refinement)
Method: EM (single particle) / Resolution: 1.89 Å

EMDB-22632:
Structure of the Bacterial Ribosome at 2 Angstrom Resolution (30S focused refinement)
Method: EM (single particle) / Resolution: 2.04 Å

EMDB-22635:
Structure of the Bacterial Ribosome at 2 Angstrom Resolution (30S head domain focused refinement)
Method: EM (single particle) / Resolution: 1.98 Å

EMDB-22636:
Structure of the Bacterial Ribosome at 2 Angstrom Resolution (30S platform domain focused refinement)
Method: EM (single particle) / Resolution: 2.01 Å

EMDB-22637:
Structure of the Bacterial Ribosome at 2 Angstrom Resolution (50S central protuberance focused refinement)
Method: EM (single particle) / Resolution: 2.13 Å

Chemicals

ChemComp-PAR:
PAROMOMYCIN / Antimicrobial, medication*YM / Paromomycin

ChemComp-MG:
Unknown entry

ChemComp-SPD:
SPERMIDINE / Spermidine

ChemComp-SPM:
SPERMINE / Spermine

ChemComp-ZN:
Unknown entry

ChemComp-HOH:
WATER / Water

Source
  • escherichia coli (E. coli)
KeywordsRIBOSOME / antibiotics / post-translational modifications / post-transcriptional modifications

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