ArticlePhysical biology2008
Predicting ribosomal frameshifting efficiency.
Article in Physical biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
19 citing papers in PubMed, 32 citations in OpenAlex.
- mRNA vaccine sequence and structure design and optimization: Advances and challenges.The Journal of biological chemistry · 2025Review
- Modular Polymerase Synthesis and Internal Protein Domain Swapping via Dual Opposed Frameshifts in the Ebola Virus L Gene.Pathogens (Basel, Switzerland) · 2024Article
- Complex dynamics under tension in a high-efficiency frameshift stimulatory structure.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
- Mechanical unfolding kinetics of the SRV-1 gag-pro mRNA pseudoknot: possible implications for -1 ribosomal frameshifting stimulation.Scientific reports · 2016Article
- Mimicking Ribosomal Unfolding of RNA Pseudoknot in a Protein Channel.Journal of the American Chemical Society · 2015Article
- Many-body effect in ion binding to RNA.The Journal of chemical physics · 2014Article
- The genetic code as expressed through relationships between mRNA structure and protein function.FEBS letters · 2013Review
- HIV-1 frameshift efficiency is primarily determined by the stability of base pairs positioned at the mRNA entrance channel of the ribosome.Nucleic acids research · 2013Article
- Programmed -1 frameshifting efficiency correlates with RNA pseudoknot conformational plasticity, not resistance to mechanical unfolding.Proceedings of the National Academy of Sciences of the United States of America · 2012Article
- Article
- A conserved RNA pseudoknot in a putative molecular switch domain of the 3'-untranslated region of coronaviruses is only marginally stable.RNA (New York, N.Y.) · 2011Article
- Computing the conformational entropy for RNA folds.The Journal of chemical physics · 2010Article
- RNA pseudoknots: folding and finding.F1000 biology reports · 2010Article
- Interaction of the HIV-1 frameshift signal with the ribosome.Nucleic acids research · 2009Article
- Triplex structures in an RNA pseudoknot enhance mechanical stability and increase efficiency of -1 ribosomal frameshifting.Proceedings of the National Academy of Sciences of the United States of America · 2009Article
- A new computational approach for mechanical folding kinetics of RNA hairpins.Biophysical journal · 2009Article
- Predicting structures and stabilities for H-type pseudoknots with interhelix loops.RNA (New York, N.Y.) · 2009Article
- Frameshifting RNA pseudoknots: structure and mechanism.Virus research · 2009Review
- Statistical mechanical modeling of RNA folding: from free energy landscape to tertiary structural prediction.Nucleic acids and molecular biologyArticle
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors at 1 institution in 1 country.
Funding
Abstract
Many retroviruses use -1 ribosomal frameshifting as part of the mechanism in translational control of viral protein synthesis. Quantitative prediction of the efficiency of -1 frameshifting is crucial for understanding the viral gene expression. Here we investigate the free energy landscape for a minimal -1 programmed ribosomal frameshifting machinery, including the codon-anticodon base pairs at the slippery site, the downstream messenger RNA structure and the spacer between the slippery site and the downstream structure. The free energy landscape analysis leads to a quantitative relationship between the frameshifting efficiency and the tension force generated during the movement of codon-anticodon complexes, which may occur in the A/T to A/A accommodation process or the translocation process. The analysis shows no consistent correlation between frameshifting efficiency and global stability of the downstream mRNA structure.
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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.