Interfacing the GROMOS (bio)molecular simulation software to quantum-chemical program packages.
The newly implemented quantum-chemical/molecular-mechanical (QM/MM) functionality of the Groningen molecular simulation (GROMOS) software for (bio)molecular simulation is described. The implementation scheme is based on direct coupling of the GROMOS C++ software to executables of the quantum-chemical program packages MNDO and TURBOMOLE, allowing for an independent further development of these packages. The new functions are validated for different test systems using program and model testing techniques. The effect of truncating the QM/MM electrostatic interactions at various QM/MM cutoff radii is discussed and the application of semiempirical versus density-functional Hamiltonians for a solute molecule in aqueous solution is compared.
Laboratory of Physical Chemistry, Swiss Federal Institute of Technology Zürich ETH, 8093 Zürich, Switzerland.
Katharina
K
Meier
Nathan
N
Schmid
Wilfred F
WF
van Gunsteren
D019281:Dimerization; D048288:Imidazolines / Q000737:chemistry*; D056004:Molecular Dynamics Simulation; D011789:Quantum Theory; D012984:Software; D014867:Water / Q000737:chemistry*
C502519:4-hydroxybenzylidene-1,2-dimethylimidazolinone; D048288:Imidazolines; D014867:Water