D. Janezic et F. Merzel, SPLIT INTEGRATION SYMPLECTIC METHOD FOR MOLECULAR-DYNAMICS INTEGRATION, Journal of chemical information and computer sciences, 37(6), 1997, pp. 1048-1054
Citations number
31
Categorie Soggetti
Information Science & Library Science","Computer Application, Chemistry & Engineering","Computer Science Interdisciplinary Applications",Chemistry,"Computer Science Information Systems
An explicit Split Integration Symplectic Method (SISM) for molecular d
ynamics (MD) simulations is described. This work is an extension of an
efficient symplectic integration algorithm introduced by Janezic and
Merzel (J. Chem. Inf: Comput. Sci 1995, 35, 321-326). SISM is based on
splitting of the total. Hamiltonian of the system into a harmonic par
t and the remaining part in such a way that both parts can be efficien
tly computed. The Hamilton equations of motion are then solved using t
he second order generalized leap-frog integration scheme in which the
high-frequency motions are treated analytically by the normal mode ana
lysis which is carried out only once, at the beginning of the calculat
ion. SISM requires only one force evaluation per integration step; the
computation cost per integration step is approximately the same as th
at of the standard leap-frog-Verlet (a,FV) method, and it allows an in
tegration time step up to an Order of magnitude larger than can be use
d by other methods of the same order and complexity. The simulation re
sults of selected examples-MD simulations of a model system of linear
chain molecules of the form H-(-C=C-)(2)-H and a model system of flexi
ble CO2 molecules-show that the SISM posses long term stability and th
e ability to use long time steps. The approach for MD simulations desc
ribed here is general and applicable to any complex system.