ArticleBiophysical journal2014
Single-molecule measurements of the CCR5 mRNA unfolding pathways.
Article in Biophysical journal, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
What it found
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Who cites it
16 citing papers in PubMed, 28 citations in OpenAlex.
- A DNA Scaffold Approach Facilitates 5' Labeling of the SARS-CoV-2 RNA Pseudoknot for Single-Molecule Förster Resonance Energy Transfer Investigation.Chemphyschem : a European journal of chemical physics and physical chemistry · 2025Article
- Identifying Inhibitors of -1 Programmed Ribosomal Frameshifting in a Broad Spectrum of Coronaviruses.Viruses · 2022Article
- Structural dynamics of single SARS-CoV-2 pseudoknot molecules reveal topologically distinct conformers.Nature communications · 2021Article
- Formation of frameshift-stimulating RNA pseudoknots is facilitated by remodeling of their folding intermediates.Nucleic acids research · 2021Article
- Modeling the structure of the frameshift-stimulatory pseudoknot in SARS-CoV-2 reveals multiple possible conformers.PLoS computational biology · 2021Article
- Programmed -1 ribosomal frameshifting from the perspective of the conformational dynamics of mRNA and ribosomes.Computational and structural biotechnology journal · 2021Review
- 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
- Monovalent ions modulate the flux through multiple folding pathways of an RNA pseudoknot.Proceedings of the National Academy of Sciences of the United States of America · 2018Article
- Conformational dynamics of the frameshift stimulatory structure in HIV-1.RNA (New York, N.Y.) · 2017Article
- Mechanical unfolding kinetics of the SRV-1 gag-pro mRNA pseudoknot: possible implications for -1 ribosomal frameshifting stimulation.Scientific reports · 2016Article
- Ribosomal frameshifting and transcriptional slippage: From genetic steganography and cryptography to adventitious use.Nucleic acids research · 2016Review
- Salt Effects on the Thermodynamics of a Frameshifting RNA Pseudoknot under Tension.Journal of molecular biology · 2016Article
- -1 Programmed Ribosomal Frameshifting as a Force-Dependent Process.Progress in molecular biology and translational science · 2016Review
- Probing the structural dynamics of proteins and nucleic acids with optical tweezers.Current opinion in structural biology · 2015Review
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
Abstract
Secondary or tertiary structure in an mRNA, such as a pseudoknot, can create a physical barrier that requires the ribosome to generate additional force to translocate. The presence of such a barrier can dramatically increase the probability that the ribosome will shift into an alternate reading frame, in which a different set of codons is recognized. The detailed biophysical mechanism by which frameshifting is induced remains unknown. Here we employ optical trapping techniques to investigate the structure of a -1 programmed ribosomal frameshift (-1 PRF) sequence element located in the CCR5 mRNA, which encodes a coreceptor for HIV-1 and is, to our knowledge, the first known human -1 PRF signal of nonviral origin. We begin by presenting a set of computationally predicted structures that include pseudoknots. We then employ what we believe to be new analytical techniques for measuring the effective free energy landscapes of biomolecules. We find that the -1 PRF element manifests several distinct unfolding pathways when subject to end-to-end force, one of which is consistent with a proposed pseudoknot conformation, and another of which we have identified as a folding intermediate. The dynamic ensemble of conformations that CCR5 mRNA exhibits in the single-molecule experiments may be a significant feature of the frameshifting mechanism.
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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.