ArticleNucleic acids research2010
Dissecting the influence of Mg2+ on 3D architecture and ligand-binding of the guanine-sensing riboswitch aptamer domain.
Article in Nucleic acids research, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed.
- Magnesium ions mitigate metastable states in the regulatory landscape of mRNA elements.RNA (New York, N.Y.) · 2024Article
- Potential effects of metal ion induced two-state allostery on the regulatory mechanism of add adenine riboswitch.Communications biology · 2022Article
- Complex Conformational Dynamics of the Heart Failure-Associated Pre-miRNA-377 Hairpin Revealed by Single-Molecule Optical Tweezers.International journal of molecular sciences · 2021Article
- A structural intermediate pre-organizes the add adenine riboswitch for ligand recognition.Nucleic acids research · 2021Article
- In-Cell NMR Spectroscopy of Functional Riboswitch Aptamers in Eukaryotic Cells.Angewandte Chemie (International ed. in English) · 2021Article
- Genetic Code Expansion Facilitates Position-Selective Labeling of RNA for Biophysical Studies.Chemistry (Weinheim an der Bergstrasse, Germany) · 2020Article
- Divalent ion competition reveals reorganization of an RNA ion atmosphere upon folding.Nucleic acids research · 2017Article
- Recurrent RNA motifs as scaffolds for genetically encodable small-molecule biosensors.Nature chemical biology · 2017Article
- Ligand-mediated and tertiary interactions cooperatively stabilize the P1 region in the guanine-sensing riboswitch.PloS one · 2017Article
- (19)F-labeling of the adenine H2-site to study large RNAs by NMR spectroscopy.Journal of biomolecular NMR · 2016Article
- Rapid NMR screening of RNA secondary structure and binding.Journal of biomolecular NMR · 2015Article
- Tetracycline determines the conformation of its aptamer at physiological magnesium concentrations.Biophysical journal · 2014Article
- The purine riboswitch as a model system for exploring RNA biology and chemistry.Biochimica et biophysica acta · 2014Review
- Dynamics of riboswitches: Molecular simulations.Biochimica et biophysica acta · 2014Review
- Structural determinants for ligand capture by a class II preQ1 riboswitch.Proceedings of the National Academy of Sciences of the United States of America · 2014Article
- The importance of helix P1 stability for structural pre-organization and ligand binding affinity of the adenine riboswitch aptamer domain.RNA biology · 2014Article
- Mg(2+)-induced conformational changes in the btuB riboswitch from E. coli.RNA (New York, N.Y.) · 2014Article
- Loop-loop interaction in an adenine-sensing riboswitch: a molecular dynamics study.RNA (New York, N.Y.) · 2013Article
- Single-molecule chemical denaturation of riboswitches.Nucleic acids research · 2013Article
- Dynamic energy landscapes of riboswitches help interpret conformational rearrangements and function.PLoS computational biology · 2012Article
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Authors and funding
4 authors.
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No grant is acknowledged in the PubMed record.
Abstract
Long-range tertiary interactions determine the three-dimensional structure of a number of metabolite-binding riboswitch RNA elements and were found to be important for their regulatory function. For the guanine-sensing riboswitch of the Bacillus subtilis xpt-pbuX operon, our previous NMR-spectroscopic studies indicated pre-formation of long-range tertiary contacts in the ligand-free state of its aptamer domain. Loss of the structural pre-organization in a mutant of this RNA (G37A/C61U) resulted in the requirement of Mg(2+) for ligand binding. Here, we investigate structural and stability aspects of the wild-type aptamer domain (Gsw) and the G37A/C61U-mutant (Gsw(loop)) of the guanine-sensing riboswitch and their Mg(2+)-induced folding characteristics to dissect the role of long-range tertiary interactions, the link between pre-formation of structural elements and ligand-binding properties and the functional stability. Destabilization of the long-range interactions as a result of the introduced mutations for Gsw(loop) or the increase in temperature for both Gsw and Gsw(loop) involves pronounced alterations of the conformational ensemble characteristics of the ligand-free state of the riboswitch. The increased flexibility of the conformational ensemble can, however, be compensated by Mg(2+). We propose that reduction of conformational dynamics in remote regions of the riboswitch aptamer domain is the minimal pre-requisite to pre-organize the core region for specific ligand binding.
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