ArticleBiochemistry2013
Long-range architecture in a viral RNA genome.
Article in Biochemistry, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
24 citing papers in PubMed, 40 citations in OpenAlex.
- Measuring intramolecular connectivity in long RNA molecules using two-dimensional DNA patch-probe arrays.Nucleic acids research · 2025Article
- Discovery and Quantification of Long-Range RNA Base Pairs in Coronavirus Genomes with SEARCH-MaP and SEISMIC-RNA.Research square · 2024Article
- Conserved structures and dynamics in 5'-proximal regions of Betacoronavirus RNA genomes.Nucleic acids research · 2024Article
- Structures of additional crystal forms of Satellite tobacco mosaic virus grown from a variety of salts.Acta crystallographica. Section F, Structural biology communications · 2021Article
- SHAPE Directed Discovery of New Functions in Large RNAs.Accounts of chemical research · 2021Review
- Review
- Physical and Functional Analysis of Viral RNA Genomes by SHAPE.Annual review of virology · 2019Review
- Review
- Packaged and Free Satellite Tobacco Mosaic Virus (STMV) RNA Genomes Adopt Distinct Conformational States.Biochemistry · 2017Article
- Review
- Ins and Outs of Multipartite Positive-Strand RNA Plant Viruses: Packaging versus Systemic Spread.Viruses · 2016Review
- Biologically-supported structural model for a viral satellite RNA.Nucleic acids research · 2015Article
- Selective 2'-hydroxyl acylation analyzed by primer extension and mutational profiling (SHAPE-MaP) for direct, versatile and accurate RNA structure analysis.Nature protocols · 2015Article
- Requirement for Host RNA-Silencing Components and the Virus-Silencing Suppressor when Second-Site Mutations Compensate for Structural Defects in the 3' Untranslated Region.Journal of virology · 2015Article
- The Role of Packaging Sites in Efficient and Specific Virus Assembly.Journal of molecular biology · 2015Article
- When Competing Viruses Unify: Evolution, Conservation, and Plasticity of Genetic Identities.Journal of molecular evolution · 2015Article
- Visualizing the global secondary structure of a viral RNA genome with cryo-electron microscopy.RNA (New York, N.Y.) · 2015Article
- Mechanisms of virus assembly.Annual review of physical chemistry · 2015Review
- Microarrays for identifying binding sites and probing structure of RNAs.Nucleic acids research · 2015Review
- Progress and outlook in structural biology of large viral RNAs.Virus research · 2014Review
Corrections and comments
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Authors and funding
8 authors at 3 institutions in 1 country.
Funding
Abstract
We have developed a model for the secondary structure of the 1058-nucleotide plus-strand RNA genome of the icosahedral satellite tobacco mosaic virus (STMV) using nucleotide-resolution SHAPE chemical probing of the viral RNA isolated from virions and within the virion, perturbation of interactions distant in the primary sequence, and atomic force microscopy. These data are consistent with long-range base pairing interactions and a three-domain genome architecture. The compact domains of the STMV RNA have dimensions of 10-45 nm. Each of the three domains corresponds to a specific functional component of the virus: The central domain corresponds to the coding sequence of the single (capsid) protein encoded by the virus, whereas the 5' and 3' untranslated domains span signals essential for translation and replication, respectively. This three-domain architecture is compatible with interactions between the capsid protein and short RNA helices previously visualized by crystallography. STMV is among the simplest of the icosahedral viruses but, nonetheless, has an RNA genome with a complex higher-order structure that likely reflects high information content and an evolutionary relationship between RNA domain structure and essential replicative functions.
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Registered trials
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.