ArticleNucleic acids research2011
Structure and dynamics of the deoxyguanosine-sensing riboswitch studied by NMR-spectroscopy.
Article in Nucleic acids research, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed, 43 citations in OpenAlex.
- Exploring functional transitions of the 2'-dG riboswitch aptamer.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- TiRNA: a coarse-grained method with temperature and ion effects for RNA structure folding and prediction.Nucleic acids research · 2026Article
- Tiny but multi-stable: four distinct conformational states govern the ligand-free state of the preQ1 riboswitch from a thermophilic bacterium.Nucleic acids research · 2025Article
- Conformational heterogeneity in the dGsw purine riboswitch: role of MgRNA (New York, N.Y.) · 2025Article
- Magnesium ions mitigate metastable states in the regulatory landscape of mRNA elements.RNA (New York, N.Y.) · 2024Article
- Characterization of Structure and Dynamics of the Guanidine-II Riboswitch from Escherichia coli by NMR Spectroscopy and Small-Angle X-ray Scattering (SAXS).Chembiochem : a European journal of chemical biology · 2022Article
- In-Cell NMR Spectroscopy of Functional Riboswitch Aptamers in Eukaryotic Cells.Angewandte Chemie (International ed. in English) · 2021Article
- More than Proton Detection-New Avenues for NMR Spectroscopy of RNA.Chemistry (Weinheim an der Bergstrasse, Germany) · 2020Review
- Modular, triple-resonance, transmission line DNP MAS probe for 500 MHz/330 GHz.Journal of magnetic resonance (San Diego, Calif. : 1997) · 2019Article
- Life times of metastable states guide regulatory signaling in transcriptional riboswitches.Nature communications · 2018Article
- NMR experiments for the rapid identification of P=O···H-X type hydrogen bonds in nucleic acids.Journal of biomolecular NMR · 2017Article
- Ribo-attenuators: novel elements for reliable and modular riboswitch engineering.Scientific reports · 2017Article
- Ligand binding to 2΄-deoxyguanosine sensing riboswitch in metabolic context.Nucleic acids research · 2017Article
- A magnesium-induced triplex pre-organizes the SAM-II riboswitch.PLoS computational biology · 2017Article
- Biophysical properties, thermal stability and functional impact of 8-oxo-7,8-dihydroguanine on oligonucleotides of RNA-a study of duplex, hairpins and the aptamer for preQ1 as models.Nucleic acids research · 2017Article
- Using RNA Sequence and Structure for the Prediction of Riboswitch Aptamer: A Comprehensive Review of Available Software and Tools.Frontiers in genetics · 2017Review
- An intermolecular G-quadruplex as the basis for GTP recognition in the class V-GTP aptamer.RNA (New York, N.Y.) · 2016Article
- (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
- Ligand-detected relaxation dispersion NMR spectroscopy: dynamics of preQ1-RNA binding.Angewandte Chemie (International ed. in English) · 2015Article
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Authors and funding
6 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The mfl-riboswitch regulates expression of ribonucleotide reductase subunit in Mesoplasma florum by binding to 2'-deoxyguanosine and thereby promoting transcription termination. We characterized the structure of the ligand-bound aptamer domain by NMR spectroscopy and compared the mfl-aptamer to the aptamer domain of the closely related purine-sensing riboswitches. We show that the mfl-aptamer accommodates the extra 2'-deoxyribose unit of the ligand by forming a more relaxed binding pocket than these found in the purine-sensing riboswitches. Tertiary structures of the xpt-aptamer bound to guanine and of the mfl-aptamer bound to 2'-deoxyguanosine exhibit very similar features, although the sequence of the mfl-aptamer contains several alterations compared to the purine-aptamer consensus sequence. These alterations include the truncation of a hairpin loop which is crucial for complex formation in all purine-sensing riboswitches characterized to date. We further defined structural features and ligand binding requirements of the free mfl-aptamer and found that the presence of Mg(2+) is not essential for complex formation, but facilitates ligand binding by promoting pre-organization of key structural motifs in the free aptamer.
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