Specific force field parameters determination for the hybrid ab initio QM/MM LSCF method
- 14 March 2002
- journal article
- research article
- Published by Wiley in Journal of Computational Chemistry
- Vol. 23 (6) , 610-624
- https://doi.org/10.1002/jcc.10058
Abstract
The pure quantum mechanics method, called Local Self‐Consistent Field (LSCF), that allows to optimize a wave function within the constraint that some predefined spinorbitals are kept frozen, is discussed. These spinorbitals can be of any shape, and their occupation numbers can be 0 or 1. Any post‐Hartree–Fock method, based on the restricted or unrestricted Hartree–Fock Slater determinant, and Kohn–Sham‐based DFT method are available. The LSCF method is easily applied to hybrid quantum mechanics/molecular mechanics (QM/MM) procedure where the quantum and the classical parts are covalently bonded. The complete methodology of our hybrid QM/MM scheme is detailed for studies of macromolecular systems. Not only the energy but also the gradients are derived; thus, the full geometry optimization of the whole system is feasible. We show that only specific force field parameters are needed for a correct description of the molecule, they are given for some general chemical bonds. A careful analysis of the errors induced by the use of molecular mechanics in hybrid computation show that a general procedure can be derived to obtain accurate results at low computation effort. The methodology is applied to the structure determination of the crambin protein and to Menshutkin reactions between primary amines and chloromethane. © 2002 Wiley Periodicals, Inc. J Comput Chem 23: 610–624, 2002Keywords
This publication has 54 references indexed in Scilit:
- Nonorthogonal localized molecular orbitals in electronic structure theoryThe Journal of Chemical Physics, 2000
- A hybrid method for solutes in complex solvents: Density functional theory combined with empirical force fieldsThe Journal of Chemical Physics, 1999
- Towards more realistic computational modeling of homogenous catalysis by density functional theory: combined QM/MM and ab initio molecular dynamicsCatalysis Today, 1999
- A Hybrid Density Functional Theory/Molecular Mechanics Study of Nickel−Iron Hydrogenase: Investigation of the Active Site Redox StatesJournal of the American Chemical Society, 1999
- A Hybrid QM−MM Potential Employing Hartree−Fock or Density Functional Methods in the Quantum RegionThe Journal of Physical Chemistry A, 1999
- A pseudobond approach to combining quantum mechanical and molecular mechanical methodsThe Journal of Chemical Physics, 1999
- Modeling of Peptide Hydrolysis by Thermolysin. A Semiempirical and QM/MM StudyJournal of the American Chemical Society, 1998
- NDDO fragment self‐consistent field approximation for large electronic systemsJournal of Computational Chemistry, 1992
- Theoretical studies of enzymic reactions: Dielectric, electrostatic and steric stabilization of the carbonium ion in the reaction of lysozymeJournal of Molecular Biology, 1976
- Canonical Configurational Interaction ProcedureReviews of Modern Physics, 1960