ArticleNucleic acids research2020
Assessment of the nucleotide modifications in the high-resolution cryo-electron microscopy structure of the Escherichia coli 50S subunit.
Article in Nucleic acids research, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 papers.
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Who cites it
19 citing papers in PubMed, 29 citations in OpenAlex.
- Recent advances in antituberculosis drugs and therapeutics: from mechanistic breakthroughs to clinical translation.Molecular biomedicine · 2026Review
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- In situ structure of bacterial 50S ribosomes at 3.0 Å resolution from vitreous sections.Communications biology · 2025Article
- Structural insights into context-dependent inhibitory mechanisms of chloramphenicol in cells.Nature structural & molecular biology · 2025Article
- Learning structural heterogeneity from cryo-electron sub-tomograms with tomoDRGN.Nature methods · 2024Article
- Multimodal binding and inhibition of bacterial ribosomes by the antimicrobial peptides Api137 and Api88.Nature communications · 2024Article
- CNature communications · 2024Article
- In vivo-like nearest neighbor parameters improve prediction of fractional RNA base-pairing in cells.Nucleic acids research · 2023Article
- Learning structural heterogeneity from cryo-electron sub-tomograms with tomoDRGN.bioRxiv : the preprint server for biology · 2023Article
- MRT-ModSeq - Rapid detection of RNA modifications with MarathonRT.bioRxiv : the preprint server for biology · 2023Article
- Cryo-EM structure of the ancient eukaryotic ribosome from the human parasite Giardia lamblia.Nucleic acids research · 2022Article
- Structural basis for context-specific inhibition of translation by oxazolidinone antibiotics.Nature structural & molecular biology · 2022Article
- Directed evolution of the rRNA methylating enzyme Cfr reveals molecular basis of antibiotic resistance.eLife · 2022Article
- Identification of MgActa crystallographica. Section D, Structural biology · 2021Article
- Advanced Methods for Studying Structure and Interactions of Macrolide Antibiotics.International journal of molecular sciences · 2020Review
- Structural Heterogeneities of the Ribosome: New Frontiers and Opportunities for Cryo-EM.Molecules (Basel, Switzerland) · 2020Review
- Article
- DSSR-enabled innovative schematics of 3D nucleic acid structures with PyMOL.Nucleic acids research · 2020Article
- Loss of a single methylation in 23S rRNA delays 50S assembly at multiple late stages and impairs translation initiation and elongation.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
Abstract
Post-transcriptional ribosomal RNA (rRNA) modifications are present in all organisms, but their exact functional roles and positions are yet to be fully characterized. Modified nucleotides have been implicated in the stabilization of RNA structure and regulation of ribosome biogenesis and protein synthesis. In some instances, rRNA modifications can confer antibiotic resistance. High-resolution ribosome structures are thus necessary for precise determination of modified nucleotides' positions, a task that has previously been accomplished by X-ray crystallography. Here, we present a cryo-electron microscopy (cryo-EM) structure of the Escherichia coli 50S subunit at an average resolution of 2.2 Å as an additional approach for mapping modification sites. Our structure confirms known modifications present in 23S rRNA and additionally allows for localization of Mg2+ ions and their coordinated water molecules. Using our cryo-EM structure as a testbed, we developed a program for assessment of cryo-EM map quality. This program can be easily used on any RNA-containing cryo-EM structure, and an associated Coot plugin allows for visualization of validated modifications, making it highly accessible.
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