The combination of laser photodissociation, action spectroscopy, and mass spectrometry to identify and separate isomers

SJP Marlton, AJ Trevitt - Chemical Communications, 2022 - pubs.rsc.org
The separation and detection of isomers remains a challenge for many areas of mass
spectrometry. This article highlights laser photodissociation and ion mobility strategies that …

The effect of adenine protonation on RNA phosphodiester backbone bond cleavage elucidated by deaza-nucleobase modifications and mass spectrometry

E Fuchs, C Falschlunger, R Micura… - Nucleic Acids …, 2019 - academic.oup.com
The catalytic strategies of small self-cleaving ribozymes often involve interactions between
nucleobases and the ribonucleic acid (RNA) backbone. Here we show that multiply …

Gas-phase conformations and N-glycosidic bond stabilities of sodium cationized 2′-deoxyguanosine and guanosine: sodium cations preferentially bind to the …

Y Zhu, LA Hamlow, CC He, JK Lee, J Gao… - The Journal of …, 2017 - ACS Publications
2′-Deoxyguanosine (dGuo) and guanosine (Guo) are fundamental building blocks of DNA
and RNA nucleic acids. In order to understand the effects of sodium cationization on the gas …

Structural characterization of nucleotide 5′-triphosphates by infrared ion spectroscopy and theoretical studies

RE Van Outersterp, J Martens, G Berden… - Physical Chemistry …, 2018 - pubs.rsc.org
The molecular family of nucleotide triphosphates (NTPs), with adenosine 5′-triphosphate
(ATP) as its best-known member, is of high biochemical importance as their phosphodiester …

IRMPD action spectroscopy, ER-CID experiments, and theoretical studies of sodium cationized thymidine and 5-methyluridine: kinetic trapping during the ESI …

Y Zhu, HA Roy, NA Cunningham… - Journal of The …, 2017 - ACS Publications
Thymidine (dThd) is a fundamental building block of DNA nucleic acids, whereas 5-
methyluridine (Thd) is a common modified nucleoside found in tRNA. In order to determine …

Structural and energetic effects of O2′-ribose methylation of protonated purine nucleosides

CC He, LA Hamlow, ZJ Devereaux, Y Zhu… - The Journal of …, 2018 - ACS Publications
The chemical difference between DNA and RNA nucleosides is their 2′-hydrogen versus
2′-hydroxyl substituents. Modification of the ribosyl moiety at the 2′-position and 2′-O …

The intrinsic basicity of the phosphate backbone exceeds that of uracil and thymine residues: protonation of the phosphate moiety is preferred over the nucleobase for …

RR Wu, LA Hamlow, CC He, Y Nei, G Berden… - Physical Chemistry …, 2017 - pubs.rsc.org
The gas-phase conformations of the protonated forms of thymidine-5′-monophosphate and
uridine-5′-monophosphate,[pdThd+ H]+ and [pUrd+ H]+, are investigated by infrared …

Influence of 5-fluorination on the structure and glycosidic bond stability of the protonated canonical DNA and RNA cytidine nucleosides: Oh, what a difference the 2 …

ZJ Devereaux, EO Soley, G Berden, J Oomens… - International Journal of …, 2024 - Elsevier
Fluorinated nucleosides are well-established as anticancer and antiviral medications. As
with many pharmaceuticals, the effects of fluorine modifications are often only partially …

OH Radical‐Induced Oxidation in Nucleosides and Nucleotides Unraveled by Tandem Mass Spectrometry and Infrared Multiple Photon Dissociation Spectroscopy

Y Jiang, C Clavaguéra, S Indrajith… - …, 2023 - Wiley Online Library
OH⋅‐induced oxidation products of DNA nucleosides and nucleotides have been
structurally characterized by collision‐induced dissociation tandem mass spectrometry (CID …

Protonation-induced tautomerization lowers the activation barriers for N-glycosidic bond cleavage of thymidine and 5-methyluridine

RR Wu, MT Rodgers - International Journal of Mass Spectrometry, 2025 - Elsevier
Synergistic infrared multiple photon dissociation (IRMPD) action spectroscopy experiments
and electronic structure calculations revealed that both 2, 4-dihydroxy tautomers and O2 …