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Updated: Mar 29, 2026

Laser-free Hydroxyl Radical Protein Footprinting to Perform Higher Order Structural Analysis of Proteins
Published on: June 4, 2021
Insights into the Solvation and Mobility of the Hydroxyl Radical in Aqueous Solution
Edelsys Codorniu-Hernández1, Peter G Kusalik1
1Department of Chemistry, University of Calgary , 2500 University Drive NW, Calgary, T2N1N4, Alberta, Canada.
Abstract:
A detailed description of the local solvation structure and mobility of hydroxyl radicals (OH*) in aqueous solution near ambient conditions is provided by Car-Parrinello molecular dynamics simulations. Here, we demonstrate that for HCTH/120 and BLYP functionals, smaller systems (i.e., 31·H2O-OH*) are contaminated by system size effects, being biased for the presence of a three-electron two-centered hemibond structure between the oxygen atoms of a water molecule and the radical. Radial and spatial distribution functions of relatively large 63·H2O-OH* systems reveal the existence of a 4-fold coordinated "inactive" OH* structure with three H-bond donating neighbors and a strongly coordinated H-bond accepting neighbor. The local hydration structure around the radical exhibits more H-bond ordering than has been predicted by recent simulations employing classical force fields. Local structural fluctuations can end with spontaneous H-transfer reactions from the nearest H-bond donor water molecule, facilitated by the formation of an "active" OH* state, resembling the proton transfer mechanism of hydrated OH(-) (i.e., slight polarization of the (H3O2)* complex). A comparison of the free energy barriers for the H-transfer reaction obtained by both DFT functionals and for both system sizes is also provided, demonstrating that this can be a very rapid process in water.
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