Modeling Hydrogen Bonds in Three Dimensions
- 1 October 1990
- journal article
- research article
- Published by Taylor & Francis in Journal of Biomolecular Structure and Dynamics
- Vol. 8 (2) , 431-438
- https://doi.org/10.1080/07391102.1990.10507814
Abstract
The effective potential between two hydrogen bonded atoms is calculated on the basis of the Lippencott-Schroeder bent bond model, taken to be a typical model interaction. We differ from other calculations in that the minimum energy configuration for the proton is treated adiabatically, its position being recomputed at each value of the larger atoms separation. We find the typical hard core to have been a consequence of an artificial restriction of the proton to a fixed angle with the larger atom axis, basically a one-dimensional assumption. Free to move in three dimensions, the proton is squeezed off the axis as the separation narrows, and the hard core feature is gone. Depending on the degree of bond bending, the anharmonicity of the bond may be diminished, eliminated, or even reversed.Keywords
This publication has 10 references indexed in Scilit:
- Low-Frequency Parametrization of Hydrogen BondingJournal of Biomolecular Structure and Dynamics, 1991
- DNA solitons with realistic parameter valuesPhysical Review A, 1989
- An ab initio molecular orbital study of the structures and energies of neutral and charged bimolecular complexes of NH3 with the hydrides AHn (A = N, O, F, P, S, and Cl)Journal of Computational Chemistry, 1989
- First production of intense circularly polarized hard x rays from a novel multipole wiggler in an accumulation ringPhysical Review Letters, 1989
- Hydrogen-bond melting in B-DNA copolymers in a mean-field self-consistent phonon approachPhysical Review B, 1989
- Self-consistent phonon theory of mean-field hydrogen-bond melting of poly(dG)-poly(dC)Physical Review B, 1985
- A self-consistent microscopic theory of hydrogen bond melting with application to poly(d G)⋅poly(d C)The Journal of Chemical Physics, 1984
- Molecular dynamics of native proteinJournal of Molecular Biology, 1983
- AMBER: Assisted model building with energy refinement. A general program for modeling molecules and their interactionsJournal of Computational Chemistry, 1981
- Energy functions for peptides and proteins. I. Derivation of a consistent force field including the hydrogen bond from amide crystalsJournal of the American Chemical Society, 1974