ArticleRNA (New York, N.Y.)2018
Gene regulation by a glycine riboswitch singlet uses a finely tuned energetic landscape for helical switching.
Article in RNA (New York, N.Y.), 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.
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Who cites it
14 citing papers in PubMed.
- Visualizing intracellular glycine with two-dye and single-dye ratiometric RNA-based sensors.Nucleic acids research · 2025Article
- Comprehensive mutational analysis of the sequence-function relationship within a viral internal ribosome entry site.Nucleic acids research · 2025Article
- Systematic analysis of cotranscriptional RNA folding using transcription elongation complex display.Nature communications · 2025Article
- The Impact of Second-Shell Nucleotides on Ligand Specificity in Cyclic Dinucleotide Riboswitches.Biochemistry · 2024Article
- Translation regulation by a guanidine-II riboswitch is highly tunable in sensitivity, dynamic range, and apparent cooperativity.RNA (New York, N.Y.) · 2023Article
- Efficient quantitative monitoring of translational initiation by RelE cleavage.Nucleic acids research · 2022Article
- Development and characterization of a glycine biosensor system for fine-tuned metabolic regulation in Escherichia coli.Microbial cell factories · 2022Article
- Architectures and complex functions of tandem riboswitches.RNA biology · 2022Article
- Fitness landscape of a dynamic RNA structure.PLoS genetics · 2021Article
- Real-time monitoring of single ZTP riboswitches reveals a complex and kinetically controlled decision landscape.Nature communications · 2020Article
- The asymmetry and cooperativity of tandem glycine riboswitch aptamers.RNA (New York, N.Y.) · 2020Article
- Regulatory context drives conservation of glycine riboswitch aptamers.PLoS computational biology · 2019Article
- A ligand-gated strand displacement mechanism for ZTP riboswitch transcription control.Nature chemical biology · 2019Article
- Systematic Evaluation of Genetic and Environmental Factors Affecting Performance of Translational Riboswitches.ACS synthetic biology · 2019Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
Riboswitches contain structured aptamer domains that, upon ligand binding, facilitate helical switching in their downstream expression platforms to alter gene expression. To fully dissect how riboswitches function requires a better understanding of the energetic landscape for helical switching. Here, we report a sequencing-based high-throughput assay for monitoring in vitro transcription termination and use it to simultaneously characterize the functional effects of all 522 single point mutants of a glycine riboswitch type-1 singlet. Mutations throughout the riboswitch cause ligand-dependent defects, but only mutations within the terminator hairpin alter readthrough efficiencies in the absence of ligand. A comprehensive analysis of the expression platform reveals that ligand binding stabilizes the antiterminator by just 2-3 kcal/mol, indicating that the competing expression platform helices must be extremely close in energy to elicit a significant ligand-dependent response. These results demonstrate that gene regulation by this riboswitch is highly constrained by the energetics of ligand binding and conformational switching. These findings exemplify the energetic parameters of RNA conformational rearrangements driven by binding events.
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