A comprehensive evaluation of the kinetic method applied in the determination of the proton affinity of the nucleic acid molecules

Journal of the American Society for Mass Spectrometry
Leonardo Di DonnaCostantinos Athanassopoulos

Abstract

The determination of proton affinity (PA) of 2'-deoxyadenosine (dA) is used as a case study for the evaluation of possible drawbacks in the determination of the PA of the nucleic acid molecules by the kinetic method. The observed Delta PA among the different values obtain for dA by applying this procedure in its different extensions was 0.64 Kcal/mol, which is within the uncertainties of any theoretical or experimental approach. It was demonstrated that nucleosides can be generally used as reference compounds to measure the PA of an unknown nucleoside. The evaluation of Delta Delta S value for two competing reaction channels taken by proton-bound heterodimers formed by two nucleosides provides clear information on the reference base which has to be discarded from the set of reference compounds used for the estimation of an unknown PA. The PA of dA obtained with the most elaborated kinetic method (237.00 +/- 0.07 kcal/mol) is consistent with the value of 237.0 kcal/mol obtained by a simple treatment of the relative intensities of the product ions generated by two couples of the proton bound dimers formed by the nucleoside and two reference amines. The kinetic method can be, therefore, confidently used to assess the proton affini...Continue Reading

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Citations

Sep 6, 2007·Analytical and Bioanalytical Chemistry·E D RaczyńskaM Szelag
Nov 7, 2009·Journal of the American Society for Mass Spectrometry·Sangeeta KumariMariappanadar Vairamani
Oct 15, 2010·The Journal of Physical Chemistry. B·Adam MoserDarrin M York
Oct 16, 2016·Chemical Reviews·Ewa D RaczyńskaPierre-Charles Maria
Oct 3, 2007·Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry·Jean-Yves SalpinPhilippe Maitre
Mar 23, 2019·Analytical and Bioanalytical Chemistry·Lucia BartellaFabio Mazzotti
May 10, 2005·Journal of Mass Spectrometry : JMS
Oct 22, 2019·Frontiers in Molecular Biosciences·Roberta RisolutiStefano Materazzi
Mar 10, 2019·Journal of Environmental Management·Daniele LicoPierantonio De Luca
Aug 30, 2008·The Journal of Physical Chemistry. B·David TouboulRenato Zenobi
Sep 15, 2018·Journal of the American Society for Mass Spectrometry·Jeong Ju ParkSang Yun Han
Oct 25, 2017·The Journal of Physical Chemistry Letters·Andrés F Cruz-OrtizGustavo A Pino
Feb 22, 2013·The Journal of Physical Chemistry. B·Gennady V PalamarchukJerzy Leszczynski

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