Combining ab initio and density functional theories with semiempirical methods
نویسندگان
چکیده
For large reactive systems, the calculation of energies can be simplified by treating the active part with a high-level quantum mechanical ~QM! ~ab initio or density functional! approach and the environment with a less sophisticated semiempirical ~SE! approach, as an improvement over the widely used hybrid quantum mechanical/molecular mechanical ~QM/MM! methods. An example is the interaction between an active region of an enzyme and its immediate environment. One such method is the original ‘‘Our-own-N-layer Integrated molecular Orbital1Molecular Mechanics ~ONIOM!’’ approach. In this paper, the interaction between the QM and SE region is described explicitly by two different schemes. In the iterative QM/SE schemes ~QM/SE-I!, the electrostatic interaction and polarization effects are introduced explicitly for both the QM and SE atoms by a self-consistent procedure based on either polarizable point charges or the electron density. In the noniterative QM/SE scheme, based on the ONIOM model ~QM/SE-O!, the exchange ~Pauli repulsion! and charge transfer effects are taken into account at the SE level, in addition to the explicit electrostatic interaction and polarization between the two regions. Test calculations are made on a number of model systems ~including small polar or charged molecules interacting with water and proton transfer reactions in the presence of polar molecules or an extended hydrogen-bond network!. The quantitative accuracy of the results depend on several parameters, such as the charge-scaling/normalization factors for the SE charge and the QM/SE van der Waals parameters, which can be chosen to optimize the result. For the QM/SE-O approach, the results are more sensitive to the quality of the SE level ~e.g., self-consistent-charge density-functional-tight-binding vs AM1! than the explicit interaction between QM and SE atoms. © 2002 American Institute of Physics. @DOI: 10.1063/1.1501134#
منابع مشابه
Development of a New Force Field for Polynorbornene
A new force field has been customized for the variation of polynorbornene that contains a bicycloheptane group in the backbone structure. The force field was developed from ab initio density functional theory (DFT), and semiempirical electronic structure calculations for both stereochemical dimers of the 2,3 exoexo isomer of polynorbornene. The bond length and bond angle parameters were determi...
متن کاملSemiempirical van der Waals interactions versus ab initio nonlocal correlation effects in the thiophene-Cu(111) system
The adsorption mechanism of single thiophene (C4H4S), 4-thiophene (C16H10S4), and their dimers on the Cu(111) surface has been studied in the framework of the density functional theory (DFT). The importance of the London dispersion effects on the molecule-surface adsorption geometry and the corresponding binding energy was investigated by using semiempirical and first-principles methods. Intere...
متن کاملImprovement of DNA and RNA Sugar Pucker Profiles from Semiempirical Quantum Methods
Neglect of diatomic differential overlap (NDDO) and self-consistent density-functional tight-binding (SCC-DFTB) semiempirical models commonly employed in combined quantum mechanical/molecular mechanical simulations fail to adequately describe the deoxyribose and ribose sugar ring puckers. This failure limits the application of these methods to RNA and DNA systems. In this work, we provide bench...
متن کاملA hybrid density functional theory (DFT) and ab initio study of α-Acyloxycarboxamides Derived from Indane-1, 2, 3-trione
α-acyloxycarboxamides are synthesized from three component Passerini reaction between indane-1,2,3-trione, isocyanides, and thiophenecarboxylic acids in quantitative yields. The structures of the final products were confirmed by IR, 1H and 13C NMR spectroscopy, mass spectrometry, and elemental analysis. The B3LYP/HF calculations for computation of 1H an...
متن کاملNuclear shielding constants by density functional theory with gauge including atomic orbitals
Recently, we introduced a new density-functional theory ~DFT! approach for the calculation of NMR shielding constants. First, a hybrid DFT calculation ~using 5% exact exchange! is performed on the molecule to determine Kohn–Sham orbitals and their energies; second, the constants are determined as in nonhybrid DFT theory, that is, the paramagnetic contribution to the constants is calculated from...
متن کاملAb initio study & Density functional investigational of Adenine & Thymine; Comparison of primitive Gaussian and NBO calculation
We have performed quantum-chemical ab initio in various basis sets at the Hartree-Fock andB3LYP levels for Adenine and Thymine with the program GAUSSIAN98. The Dipole,Quadrupole, Octapole and Hexadecapole moments and primitive in nine basis sets for thesemolecules are presented. The most stabilized forms of these molecules are observed in 6-311++G** basis set. We have evaluated coefficient hybr...
متن کامل