ArticleNucleic acids research2008
A new kinetic model reveals the synergistic effect of E-, P- and A-sites on +1 ribosomal frameshifting.
Article in Nucleic acids research, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
20 citing papers in PubMed, 34 citations in OpenAlex.
- mRNA and tRNA modification states influence ribosome speed and frame maintenance during poly(lysine) peptide synthesis.The Journal of biological chemistry · 2022Article
- Translational accuracy of a tethered ribosome.Nucleic acids research · 2021Article
- Translation Elongation and Recoding in Eukaryotes.Cold Spring Harbor perspectives in biology · 2018Review
- Ribosomal frameshifting and transcriptional slippage: From genetic steganography and cryptography to adventitious use.Nucleic acids research · 2016Review
- An Expanded CAG Repeat in Huntingtin Causes +1 Frameshifting.The Journal of biological chemistry · 2016Article
- Model of the pathway of -1 frameshifting: Long pausing.Biochemistry and biophysics reports · 2016Article
- A novel antigen capture ELISA for the specific detection of IgG antibodies to elephant endotheliotropic herpes virus.BMC veterinary research · 2015Article
- The highly conserved codon following the slippery sequence supports -1 frameshift efficiency at the HIV-1 frameshift site.PloS one · 2015Article
- Article
- Ribosomal frameshifting used in influenza A virus expression occurs within the sequence UCC_UUU_CGU and is in the +1 direction.Open biology · 2012Article
- rRNA pseudouridylation defects affect ribosomal ligand binding and translational fidelity from yeast to human cells.Molecular cell · 2011Article
- A pilot study of bacterial genes with disrupted ORFs reveals a surprising profusion of protein sequence recoding mediated by ribosomal frameshifting and transcriptional realignment.Molecular biology and evolution · 2011Article
- Allosteric vs. spontaneous exit-site (E-site) tRNA dissociation early in protein synthesis.Proceedings of the National Academy of Sciences of the United States of America · 2011Article
- The many paths to frameshifting: kinetic modelling and analysis of the effects of different elongation steps on programmed -1 ribosomal frameshifting.Nucleic acids research · 2011Article
- Recode-2: new design, new search tools, and many more genes.Nucleic acids research · 2010Article
- FSscan: a mechanism-based program to identify +1 ribosomal frameshift hotspots.Nucleic acids research · 2009Article
- A homogeneous cell-based bicistronic fluorescence assay for high-throughput identification of drugs that perturb viral gene recoding and read-through of nonsense stop codons.RNA (New York, N.Y.) · 2009Article
- A gripping tale of ribosomal frameshifting: extragenic suppressors of frameshift mutations spotlight P-site realignment.Microbiology and molecular biology reviews : MMBR · 2009Review
- Anticodon loop mutations perturb reading frame maintenance by the E site tRNA.RNA (New York, N.Y.) · 2008Article
- Mechanisms and implications of programmed translational frameshifting.Wiley interdisciplinary reviews. RNAReview
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 3 institutions in 1 country.
Funding
Abstract
Programmed ribosomal frameshifting (PRF) is a process by which ribosomes produce two different polypeptides from the same mRNA. In this study, we propose three different kinetic models of +1 PRF, incorporating the effects of the ribosomal E-, P- and A-sites toward promoting efficient +1 frameshifting in Escherichia coli. Specifically, the timing of E-site tRNA dissociation is discussed within the context of the kinetic proofreading mechanism of aminoacylated tRNA (aa-tRNA) selection. Mathematical modeling using previously determined kinetic rate constants reveals that destabilization of deacylated tRNA in the E-site, rearrangement of peptidyl-tRNA in the P-site, and availability of cognate aa-tRNA corresponding to the A-site act synergistically to promote efficient +1 PRF. The effect of E-site codon:anticodon interactions on +1 PRF was also experimentally examined with a dual fluorescence reporter construct. The combination of predictive modeling and empirical testing allowed the rate constant for P-site tRNA slippage (k(s)) to be estimated as k(s) approximately 1.9 s(-1) for the release factor 2 (RF2) frameshifting sequence. These analyses suggest that P-site tRNA slippage is the driving force for +1 ribosomal frameshifting while the presence of a 'hungry codon' in the A-site and destabilization in the E-site further enhance +1 PRF in E. coli.
Indexed as
Identifiers
What OpenQuestion holds
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.