ArticleRNA biology
High throughput structural analysis of yeast ribosomes using hSHAPE.
Article in RNA biology. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed, 30 citations in OpenAlex.
- Human protein synthesis requires aminoacyl-tRNA pivoting during proofreading.Nature communications · 2025Article
- Low dose ribosomal DNA P-loop mutation affects development and enforces autophagy in Arabidopsis.RNA biology · 2024Article
- Geometric alignment of aminoacyl-tRNA relative to catalytic centers of the ribosome underpins accurate mRNA decoding.Nature communications · 2023Article
- Altered Conformational Landscape upon Sensing Guanine Nucleotides in a Disease Mutant of Elongation Factor-like 1 (EFL1) GTPase.Biomolecules · 2022Article
- The Ribosome-Binding Mode of Trichothecene Mycotoxins Rationalizes Their Structure-Activity Relationships.International journal of molecular sciences · 2021Article
- Supersized Ribosomal RNA Expansion Segments in Asgard Archaea.Genome biology and evolution · 2020Article
- Robust mapping of polyadenylated and non-polyadenylated RNA 3' ends at nucleotide resolution by 3'-end sequencing.Methods (San Diego, Calif.) · 2020Article
- Ribosome-dependent conformational flexibility changes and RNA dynamics of IRES domains revealed by differential SHAPE.Scientific reports · 2018Article
- Tracking fluctuation hotspots on the yeast ribosome through the elongation cycle.Nucleic acids research · 2017Article
- The structure of Rpf2-Rrs1 explains its role in ribosome biogenesis.Nucleic acids research · 2015Article
- Ribosomes in the balance: structural equilibrium ensures translational fidelity and proper gene expression.Nucleic acids research · 2014Article
- Snapshots of pre-rRNA structural flexibility reveal eukaryotic 40S assembly dynamics at nucleotide resolution.Nucleic acids research · 2014Article
- Platinum-RNA modifications following drug treatment in S. cerevisiae identified by click chemistry and enzymatic mapping.ACS chemical biology · 2014Article
- Mod-seq: high-throughput sequencing for chemical probing of RNA structure.RNA (New York, N.Y.) · 2014Article
- Bypass of the pre-60S ribosomal quality control as a pathway to oncogenesis.Proceedings of the National Academy of Sciences of the United States of America · 2014Article
- Mutations in the chromodomain-like insertion of translation elongation factor 3 compromise protein synthesis through reduced ATPase activity.The Journal of biological chemistry · 2014Article
- Eukaryotic rpL10 drives ribosomal rotation.Nucleic acids research · 2014Article
- The kissing-loop T-shaped structure translational enhancer of Pea enation mosaic virus can bind simultaneously to ribosomes and a 5' proximal hairpin.Journal of virology · 2013Article
- RNA secondary structure prediction using high-throughput SHAPE.Journal of visualized experiments : JoVE · 2013Article
- Preparation of biologically active Arabidopsis ribosomes and comparison with yeast ribosomes for binding to a tRNA-mimic that enhances translation of plant plus-strand RNA viruses.Frontiers in plant science · 2013Article
Corrections and comments
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Authors and funding
4 authors at 1 institution in 1 country.
Funding
Abstract
Global mapping of rRNA structure by traditional methods is prohibitive in terms of time, labor and expense. High throughput selective 2' hydroxyl acylation analyzed by primer extension (hSHAPE) bypasses these problems by using fluorescently labeled primers to perform primer extension reactions, the products of which can be separated by capillary electrophoresis, thus enabling long read lengths in a cost effective manner. The data so generated is analyzed in a quantitative fashion using SHAPEFinder. This approach was used to map the flexibility of nearly the entire sequences of the 3 largest rRNAs from intact, empty yeast ribosomes. Mapping of these data onto near-atomic resolution yeast ribosome structures revealed the binding sites of known trans-acting factors, as well as previously unknown highly flexible regions of yeast rRNA. Refinement of this technology will enable nucleotide-specific mapping of changes in rRNA structure depending on the status of tRNA occupancy, the presence or absence of other trans-acting factors, due to mutations of intrinsic ribosome components or extrinsic factors affecting ribosome biogenesis, or in the presence of translational inhibitors.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.