Literature DB >> 17186489

Density functional theory augmented with an empirical dispersion term. Interaction energies and geometries of 80 noncovalent complexes compared with ab initio quantum mechanics calculations.

Petr Jurecka1, Jirí Cerný, Pavel Hobza, Dennis R Salahub.   

Abstract

Standard density functional theory (DFT) is augmented with a damped empirical dispersion term. The damping function is optimized on a small, well balanced set of 22 van der Waals (vdW) complexes and verified on a validation set of 58 vdW complexes. Both sets contain biologically relevant molecules such as nucleic acid bases. Results are in remarkable agreement with reference high-level wave function data based on the CCSD(T) method. The geometries obtained by full gradient optimization are in very good agreement with the best available theoretical reference. In terms of the standard deviation and average errors, results including the empirical dispersion term are clearly superior to all pure density functionals investigated-B-LYP, B3-LYP, PBE, TPSS, TPSSh, and BH-LYP-and even surpass the MP2/cc-pVTZ method. The combination of empirical dispersion with the TPSS functional performs remarkably well. The most critical part of the empirical dispersion approach is the damping function. The damping parameters should be optimized for each density functional/basis set combination separately. To keep the method simple, we optimized mainly a single factor, s(R), scaling globally the vdW radii. For good results, a basis set of at least triple-zeta quality is required and diffuse functions are recommended, since the basis set superposition error seriously deteriorates the results. On average, the dispersion contribution to the interaction energy missing in the DFT functionals examined here is about 15 and 100% for the hydrogen-bonded and stacked complexes considered, respectively.

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Year:  2007        PMID: 17186489     DOI: 10.1002/jcc.20570

Source DB:  PubMed          Journal:  J Comput Chem        ISSN: 0192-8651            Impact factor:   3.376


  47 in total

1.  Performance of Becke's half-and-half functional for non-covalent interactions: energetics, geometries and electron densities.

Authors:  Konstantinos Gkionis; J Grant Hill; Steven P Oldfield; James A Platts
Journal:  J Mol Model       Date:  2009-02-11       Impact factor: 1.810

2.  Stretched DNA investigated using molecular-dynamics and quantum-mechanical calculations.

Authors:  Jan Rezác; Pavel Hobza; Sarah A Harris
Journal:  Biophys J       Date:  2010-01-06       Impact factor: 4.033

3.  Further analysis and comparative study of intermolecular interactions using dimers from the S22 database.

Authors:  Laszlo Fusti Molnar; Xiao He; Bing Wang; Kenneth M Merz
Journal:  J Chem Phys       Date:  2009-08-14       Impact factor: 3.488

4.  Transferable scoring function based on semiempirical quantum mechanical PM6-DH2 method: CDK2 with 15 structurally diverse inhibitors.

Authors:  Petr Dobeš; Jindřich Fanfrlík; Jan Rezáč; Michal Otyepka; Pavel Hobza
Journal:  J Comput Aided Mol Des       Date:  2011-02-01       Impact factor: 3.686

5.  Comparison of some dispersion-corrected and traditional functionals with CCSD(T) and MP2 ab initio methods: dispersion, induction, and basis set superposition error.

Authors:  Dipankar Roy; Mateusz Marianski; Neepa T Maitra; J J Dannenberg
Journal:  J Chem Phys       Date:  2012-10-07       Impact factor: 3.488

6.  Aromatic interactions as control elements in stereoselective organic reactions.

Authors:  Elizabeth H Krenske; K N Houk
Journal:  Acc Chem Res       Date:  2012-07-24       Impact factor: 22.384

7.  Directional Dependence of Hydrogen Bonds: a Density-based Energy Decomposition Analysis and Its Implications on Force Field Development.

Authors:  Zhenyu Lu; Nengjie Zhou; Qin Wu; Yingkai Zhang
Journal:  J Chem Theory Comput       Date:  2011-12-13       Impact factor: 6.006

Review 8.  Semiempirical Quantum Mechanical Methods for Noncovalent Interactions for Chemical and Biochemical Applications.

Authors:  Anders S Christensen; Tomáš Kubař; Qiang Cui; Marcus Elstner
Journal:  Chem Rev       Date:  2016-04-13       Impact factor: 60.622

9.  Evaluating dispersion forces for optimization of van der Waals complexes using a non-empirical functional.

Authors:  Alya A Arabi
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2016-11-13       Impact factor: 4.226

10.  The accuracy of quantum chemical methods for large noncovalent complexes.

Authors:  Robert Sedlak; Tomasz Janowski; Michal Pitoňák; Jan Rezáč; Peter Pulay; Pavel Hobza
Journal:  J Chem Theory Comput       Date:  2013-08-13       Impact factor: 6.006

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