ArticleACS chemical biology2013
A novel paramagnetic relaxation enhancement tag for nucleic acids: a tool to study structure and dynamics of RNA.
Article in ACS chemical biology, 2013. 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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14 citing papers in PubMed, 32 citations in OpenAlex.
- An Electrophilic Uridine Building Block for Post-Synthetic RNA Modification as Exemplified for Spin Labeling.Chemistry (Weinheim an der Bergstrasse, Germany) · 2026Article
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- Advances in Isotope Labeling for Solution Nucleic Acid Nuclear Magnetic Resonance Spectroscopy.ChemPlusChem · 2025Review
- Paramagnetic Chemical Probes for Studying Biological Macromolecules.Chemical reviews · 2022Review
- Lanthanide Tagging of Oligonucleotides to Nucleobase for Paramagnetic NMR.Chembiochem : a European journal of chemical biology · 2020Article
- Investigation of Strand-Selective Interaction of SNA-Modified siRNA with AGO2-MID.International journal of molecular sciences · 2020Article
- Paramagnetic-iterative relaxation matrix approach: extracting PRE-restraints from NOESY spectra for 3D structure elucidation of biomolecules.Journal of biomolecular NMR · 2019Article
- Challenges and perspectives for structural biology of lncRNAs-the example of the Xist lncRNA A-repeats.Journal of molecular cell biology · 2019Article
- Phosphoramidite building blocks with protected nitroxides for the synthesis of spin-labeled DNA and RNA.Beilstein journal of organic chemistry · 2018Article
- Molecular basis for asymmetry sensing of siRNAs by the Drosophila Loqs-PD/Dcr-2 complex in RNA interference.Nucleic acids research · 2017Article
- Synthesis and incorporation of 13C-labeled DNA building blocks to probe structural dynamics of DNA by NMR.Nucleic acids research · 2017Article
- Impact of spin label rigidity on extent and accuracy of distance information from PRE data.Journal of biomolecular NMR · 2017Article
- The "Speedy" Synthesis of Atom-Specific (15)N Imino/Amido-Labeled RNA.Chemistry (Weinheim an der Bergstrasse, Germany) · 2015Article
- A fully enzymatic method for site-directed spin labeling of long RNA.Nucleic acids research · 2014Article
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
Abstract
In this work, we present a novel 2,2,6,6-tetramethylpiperidine 1-oxyl (TEMPO) radical phosphoramidite building block, which can be attached to the 5'-terminus of nucleic acids. To investigate the paramagnetic relaxation enhancement (PRE) emanating from this radical center, we incorporated the TEMPO label into various types of RNAs. We measured proton PREs for selectively (13)C-isotope labeled nucleotides to derive long-range distance restraints in a short 15 nucleotide stem-loop model system, underscoring the potential of the 5'-TEMPO tag to determine long-range distance restraints for solution structure determination. We subsequently applied the distance-dependent relaxation enhancement induced by the nitroxide radical to discern two folding states in a bistable RNA. Finally, we investigated the fast conformational sampling of the HIV-1 TAR RNA, a paradigm for structural flexibility in nucleic acids. With PRE NMR in combination with molecular dynamics simulations, the structural plasticity of this RNA was analyzed in the absence and presence of the ligand L-argininamide.
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