ArticleJournal of biomolecular NMR2006
Alternate-site isotopic labeling of ribonucleotides for NMR studies of ribose conformational dynamics in RNA.
Article in Journal of biomolecular NMR, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
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Who cites it
23 citing papers in PubMed, 42 citations in OpenAlex.
- Isotope Labels Combined with Solution NMR Spectroscopy Make Visible the Invisible Conformations of Small-to-Large RNAs.Chemical reviews · 2022Review
- Isotope-Labeled RNA Building Blocks for NMR Structure and Dynamics Studies.Molecules (Basel, Switzerland) · 2021Review
- Quantifying the effects of long-rangeJournal of biomolecular NMR · 2021Article
- Deleterious effects of carbon-carbon dipolar coupling on RNA NMR dynamics.Journal of biomolecular NMR · 2020Article
- Coupling between conformational dynamics and catalytic function at the active site of the lead-dependent ribozyme.RNA (New York, N.Y.) · 2018Article
- Isotope labeling for studying RNA by solid-state NMR spectroscopy.Journal of biomolecular NMR · 2018Review
- RNA structure refinement using NMR solvent accessibility data.Scientific reports · 2017Article
- Applications of PLOR in labeling large RNAs at specific sites.Methods (San Diego, Calif.) · 2016Article
- Chemo-enzymatic synthesis of site-specific isotopically labeled nucleotides for use in NMR resonance assignment, dynamics and structural characterizations.Nucleic acids research · 2016Article
- Regio-selective chemical-enzymatic synthesis of pyrimidine nucleotides facilitates RNA structure and dynamics studies.Chembiochem : a European journal of chemical biology · 2014Article
- Chemo-enzymatic synthesis of selectively ¹³C/¹⁵N-labeled RNA for NMR structural and dynamics studies.Methods in enzymology · 2014Article
- Biomass production of site selective 13C/15N nucleotides using wild type and a transketolase E. coli mutant for labeling RNA for high resolution NMR.Journal of biomolecular NMR · 2012Article
- Asymmetry of 13C labeled 3-pyruvate affords improved site specific labeling of RNA for NMR spectroscopy.Journal of biomolecular NMR · 2012Article
- Asymmetry of (13)C labeled 3-pyruvate affords improved site specific labeling of RNA for NMR spectroscopy.Journal of biomolecular NMR · 2011Article
- Characterizing RNA dynamics at atomic resolution using solution-state NMR spectroscopy.Nature methods · 2011Review
- Probing RNA dynamics via longitudinal exchange and CPMG relaxation dispersion NMR spectroscopy using a sensitive 13C-methyl label.Nucleic acids research · 2011Article
- Selective 13C labeling of nucleotides for large RNA NMR spectroscopy using an E. coli strain disabled in the TCA cycle.Journal of biomolecular NMR · 2010Article
- Growth of wildtype and mutant E. coli strains in minimal media for optimal production of nucleic acids for preparing labeled nucleotides.Applied microbiology and biotechnology · 2010Article
- Site-specific labeling of nucleotides for making RNA for high resolution NMR studies using an E. coli strain disabled in the oxidative pentose phosphate pathway.Journal of biomolecular NMR · 2010Article
- RNA phosphodiester backbone dynamics of a perdeuterated cUUCGg tetraloop RNA from phosphorus-31 NMR relaxation analysis.Journal of biomolecular NMR · 2009Article
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3 authors at 1 institution in 1 country.
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Abstract
Heteronuclear NMR spin relaxation studies of conformational dynamics are coming into increasing use to help understand the functions of ribozymes and other RNAs. Due to strong 13C-13C magnetic interactions within the ribose ring, however, these studies have thus far largely been limited to (13)C and (15)N resonances on the nucleotide base side chains. We report here the application of the alternate-site (13)C isotopic labeling scheme, pioneered by LeMaster for relaxation studies of amino acid side chains, to nucleic acid systems. We have used different strains of E. coli to prepare mononucleotides containing (13)C label in one of two patterns: Either C1' or C2' in addition to C4', termed (1'/2',4') labeling, or nearly complete labeling at the C2' and C4' sites only, termed (2',4') labeling. These patterns provide isolated 13C-1H spin systems on the labeled carbon atoms and thus allow spin relaxation studies without interference from 13C-13C scalar or dipolar coupling. Using relaxation studies of AMP dissolved in glycerol at varying temperature to produce systems with correlation times characteristic of different size RNAs, we demonstrate the removal of errors due to 13C-13C interaction in T (1) measurements of larger nucleic acids and in T (1rho) measurements in RNA molecules. By extending the applicability of spin relaxation measurements to backbone ribose groups, this technology should greatly improve the flexibility and completeness of NMR analyses of conformational dynamics in RNA.
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