Coordinates for molecular dynamics: Orthogonal local systems

Abstract

Systems of orthogonal coordinates for the problem of the motion of three or more particles in classical or in quantum mechanics are considered from the viewpoint of applications to intramolecular dynamics and chemical kinetics. These systems, for which the kinetic energy of relative motion is diagonal, are generated by making extensive use of the concept of kinematic rotations, which act on coordinates of different particles and describe their rearrangements. An explicit representation of these rotations by mass dependent matrices allows to relate different particle couplings in the Jacobi scheme, and to build up alternative systems (such as those based on the Radau–Smith vectors or variants thereof): this makes it possible to obtain coordinates which, while being rigorously orthogonal, may approximate closely the local ones, which are based on actual interparticle distances and are in general nonorthogonal. It is also briefly shown that by defining as variables the parameters describing the kinematic rotations it is possible to obtain nonorthogonal systems of coordinates, which are useful in the treatment of collective modes.