ArticleJournal of the American Society for Mass Spectrometry2013
Ammonium ion binding to DNA G-quadruplexes: do electrospray mass spectra faithfully reflect the solution-phase species?
Article in Journal of the American Society for Mass Spectrometry, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed, 81 citations in OpenAlex.
- Exploring RNA G-Quadruplex Stability in the Gas Phase: Insights from Native Mass Spectrometry.ChemPlusChem · 2026Article
- Combined Trapped Ion Mobility and Infrared Ion Spectroscopy Study of Protonation Sites in Aromatic Amines.Journal of the American Society for Mass Spectrometry · 2025Article
- Formation and Nanomechanical Properties of Silver-Mediated Guanine DNA Duplexes in Aqueous Solution.ACS nano · 2024Article
- G-quadruplex formation in RNA aptamers selected for binding to HIV-1 capsid.Frontiers in chemistry · 2024Article
- New 2,4-bis[(substituted-aminomethyl)phenyl]phenylquinazoline and 2,4-bis[(substituted-aminomethyl)phenyl]phenylquinoline Derivatives: Synthesis and Biological Evaluation as Novel Anticancer Agents by Targeting G-Quadruplex.Pharmaceuticals (Basel, Switzerland) · 2023Article
- Interactions of ruthenium(II) polypyridyl complexes with human telomeric DNA.Journal of inorganic biochemistry · 2023Article
- DNA G-quadruplexes for native mass spectrometry in potassium: a database of validated structures in electrospray-compatible conditions.Nucleic acids research · 2021Article
- Recent developments in the characterization of nucleic acids by liquid chromatography, capillary electrophoresis, ion mobility, and mass spectrometry (2010-2020).Journal of separation science · 2021Review
- Strengths and Weaknesses of Molecular Simulations of Electrosprayed Droplets.Journal of the American Society for Mass Spectrometry · 2018Article
- Optimizing Native Ion Mobility Q-TOF in Helium and Nitrogen for Very Fragile Noncovalent Structures.Journal of the American Society for Mass Spectrometry · 2018Article
- Multimerization rules for G-quadruplexes.Nucleic acids research · 2017Article
- Structural Characterization of a Thrombin-Aptamer Complex by High Resolution Native Top-Down Mass Spectrometry.Journal of the American Society for Mass Spectrometry · 2017Article
- Assembly of supramolecular DNA complexes containing both G-quadruplexes and i-motifs by enhancing the G-repeat-bearing capacity of i-motifs.Nucleic acids research · 2017Article
- Folding and misfolding pathways of G-quadruplex DNA.Nucleic acids research · 2016Article
- Modular calibrant sets for the structural analysis of nucleic acids by ion mobility spectrometry mass spectrometry.The Analyst · 2016Article
- Kinetic ESI-MS Studies of Potent Anti-HIV Aptamers Based on the G-Quadruplex Forming Sequence d(TGGGAG).ACS medicinal chemistry letters · 2016Article
- May the Best Molecule Win: Competition ESI Mass Spectrometry.International journal of molecular sciences · 2015Review
- ESI-MS Investigation of an Equilibrium between a Bimolecular Quadruplex DNA and a Duplex DNA/RNA Hybrid.Journal of the American Society for Mass Spectrometry · 2015Article
- Formation and Dissociation of the Interstrand i-Motif by the Sequences d(XnC 4Y m) Monitored with Electrospray Ionization Mass Spectrometry.Journal of the American Society for Mass Spectrometry · 2015Article
- Linking molecular models with ion mobility experiments. Illustration with a rigid nucleic acid structure.Journal of mass spectrometry : JMS · 2015Article
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Authors and funding
3 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
G-quadruplex nucleic acids can bind ammonium ions in solution, and these complexes can be detected by electrospray mass spectrometry (ESI-MS). However, because ammonium ions are volatile, the extent to which ESI-MS quantitatively could provide an accurate reflection of such solution-phase equilibria is unclear. Here we studied five G-quadruplexes having known solution-phase structure and ammonium ion binding constants: the bimolecular G-quadruplexes (dG(4)T(4)G(4))(2), (dG(4)T(3)G(4))(2), and (dG(3)T(4)G(4))(2), and the intramolecular G-quadruplexes dG(4)(T(4)G(4))(3) and dG(2)T(2)G(2)TGTG(2)T(2)G(2) (thrombin binding aptamer). We found that not all mass spectrometers are equally suited to reflect the solution phase species. Ion activation can occur in the electrospray source, or in a high-pressure traveling wave ion mobility cell. When the softest instrumental conditions are used, ammonium ions bound between G-quartets, but also additional ammonium ions bound at specific sites outside the external G-quartets, can be observed. However, even specifically bound ammonium ions are in some instances too labile to be fully retained in the gas phase structures, and although the ammonium ion distribution observed by ESI-MS shows biases at specific stoichiometries, the relative abundances in solution are not always faithfully reflected. Ion mobility spectrometry results show that all inter-quartet ammonium ions are necessary to preserve the G-quadruplex fold in the gas phase. Ion mobility experiments, therefore, help assign the number of inner ammonium ions in the solution phase structure.
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