ReviewBiochimie2015
Cooperativity, allostery and synergism in ligand binding to riboswitches.
Review in Biochimie, 2015. 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
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
19 citing papers in PubMed, 31 citations in OpenAlex.
- Structural and dynamic mechanisms for coupled folding and tRNA recognition of a translational T-box riboswitch.Nature communications · 2023Article
- Programming conformational cooperativity to regulate allosteric protein-oligonucleotide signal transduction.Nature communications · 2023Article
- On the Rational Design of Cooperative Receptors.Annual review of biophysics · 2023Review
- Cotranscriptional Assembly and Native Purification of Large RNA-RNA Complexes for Structural Analyses.Methods in molecular biology (Clifton, N.J.) · 2023Article
- X-Ray Crystallography to Study Conformational Changes in a TPP Riboswitch.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Allosteric regulation of noncoding RNA function by microRNAs.Nucleic acids research · 2022Article
- Subsite Ligand Recognition and Cooperativity in the TPP Riboswitch: Implications for Fragment-Linking in RNA Ligand Discovery.ACS chemical biology · 2022Article
- Pseudoknot length modulates the folding, conformational dynamics, and robustness of Xrn1 resistance of flaviviral xrRNAs.Nature communications · 2021Article
- Cooperativity and Allostery in RNA Systems.Methods in molecular biology (Clifton, N.J.) · 2021Review
- Structural distinctions between NAD+ riboswitch domains 1 and 2 determine differential folding and ligand binding.Nucleic acids research · 2020Article
- Insight to Functional Conformation and Noncovalent Interactions of Protein-Protein Assembly Using MALDI Mass Spectrometry.Molecules (Basel, Switzerland) · 2020Review
- Cooperative Heteroligand Interaction with G-Quadruplexes Shows Evidence of Allosteric Binding.Biochemistry · 2020Article
- Rational design to control the trade-off between receptor affinity and cooperativity.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Structural Insights into RNA Dimerization: Motifs, Interfaces and Functions.Molecules (Basel, Switzerland) · 2020Review
- Conformational flexibility of adenine riboswitch aptamer in apo and bound states using NMR and an X-ray free electron laser.Journal of biomolecular NMR · 2019Article
- Systematic characterization of artificial small RNA-mediated inhibition of Escherichia coli growth.RNA biology · 2017Article
- Singlet glycine riboswitches bind ligand as well as tandem riboswitches.RNA (New York, N.Y.) · 2016Article
- Engineering and characterization of fluorogenic glycine riboswitches.Nucleic acids research · 2016Article
- High-resolution measurement of long-range distances in RNA: pulse EPR spectroscopy with TEMPO-labeled nucleotides.Chemical science · 2016Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
Recent progress in identification and characterization of novel types of non-coding RNAs has proven that RNAs carry out a variety of cellular functions ranging from scaffolding to gene expression control. In both prokaryotic and eukaryotic cells, several classes of non-coding RNAs control expression of dozens of genes in response to specific cues. One of the most interesting and outstanding questions in the RNA field is whether regulatory RNAs are capable of employing basic biological concepts, such as allostery and cooperativity, previously attributed to the function of proteins. Aside from regulatory RNAs that form complementary base pairing with their nucleic acid targets, several RNA classes modulate gene expression via molecular mechanisms which can be paralleled to protein-mediated regulation. Among these RNAs are riboswitches, metabolite-sensing non-coding regulatory elements that adopt intrinsic three-dimensional structures and specifically bind various small molecule ligands. These characteristics of riboswitches make them well-suited for complex regulatory responses observed in allosteric and cooperative protein systems. Here we present an overview of the biochemical, genetic, and structural studies of riboswitches with a major focus on complex regulatory mechanisms and biological principles utilized by riboswitches for such genetic modulation.
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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.