title: Hybrid density functional-molecular mechanics calculations for core-electron binding energies of glycine in water solution.
abstract: We report hybrid density functional theory-molecular mechanics (DFT/MM) calculations performed for glycine in water solution at different pH values. In this paper, we discuss several aspects of the quantum mechanics-molecular mechanics (QM/MM) simulations where the dynamics and spectral binding energy shifts are computed sequentially, and where the latter are evaluated over a set of configurations generated by molecular or Car-Parrinello dynamics simulations. In the used model, core ionization takes place in glycine as a quantum mechanical (QM) system modeled with DFT, and the solution is described with expedient force fields in a large molecular mechanical (MM) volume of water molecules. The contribution to the core electronic binding energy from all interactions within and between the two (DFT and MM) parts is accounted for, except charge transfer and dispersion. While the obtained results were found to be in qualitative agreement with experiment, their precision must be qualified with respect to the problem of counter ions, charge transfer and optimal division of QM and MM parts of the system. Results are compared to those of a recent study [Ottoson et al., J. Am. Chem. Soc., 2011, 133, 3120].
authors.affiliation: Division of Theoretical Chemistry & Biology, School of Biotechnology, Royal Institute of Technology, S-106 91 Stockholm, Sweden. jniskan@theochem.kth.se
authors.forename: Johannes
authors.initials: J
authors.lastname: Niskanen
authors.forename: N
authors.initials: N
authors.lastname: Arul Murugan
authors.forename: Zilvinas
authors.initials: Z
authors.lastname: Rinkevicius
authors.forename: Olav
authors.initials: O
authors.lastname: Vahtras
authors.forename: Cui
authors.initials: C
authors.lastname: Li
authors.forename: Susanna
authors.initials: S
authors.lastname: Monti
authors.forename: Vincenzo
authors.initials: V
authors.lastname: Carravetta
authors.forename: Hans
authors.initials: H
authors.lastname: Agren
mesh_terms: D004583:Electrons; D005998:Glycine / Q000737:chemistry*; D006863:Hydrogen-Ion Concentration; D056004:Molecular Dynamics Simulation; D011789:Quantum Theory; D013816:Thermodynamics; D014867:Water / Q000737:chemistry*
chemical_list: D014867:Water; D005998:Glycine