Literature DB >> 26592124

Accurate Prediction of Noncovalent Interaction Energies with the Effective Fragment Potential Method: Comparison of Energy Components to Symmetry-Adapted Perturbation Theory for the S22 Test Set.

Joanna C Flick1, Dmytro Kosenkov1, Edward G Hohenstein2, C David Sherrill2, Lyudmila V Slipchenko1.   

Abstract

Noncovalent interactions play an important role in the stabilization of biological molecules. The effective fragment potential (EFP) is a computationally inexpensive ab initio-based method for modeling intermolecular interactions in noncovalently bound systems. The accuracy of EFP is benchmarked against the S22 and S66 data sets for noncovalent interactions [Jurečka, P.; Šponer, J.; Černý, J.; Hobza, P. Phys. Chem. Chem. Phys.2006, 8, 1985; Řezáč, J.; Riley, K. E.; Hobza, P. J. Chem. Theory Comput.2011, 7, 2427]. The mean unsigned error (MUE) of EFP interaction energies with respect to coupled-cluster singles, doubles, and perturbative triples in the complete basis set limit [CCSD(T)/CBS] is 0.9 and 0.6 kcal/mol for S22 and S66, respectively, which is similar to the MUE of MP2 and SCS-MP2 for the same data sets, but with a greatly reduced computational expense. Moreover, EFP outperforms classical force fields and popular DFT functionals such as B3LYP and PBE, while newer dispersion-corrected functionals provide a more accurate description of noncovalent interactions. Comparison of EFP energy components with the symmetry-adapted perturbation theory (SAPT) energies for the S22 data set shows that the main source of errors in EFP comes from Coulomb and polarization terms and provides a valuable benchmark for further improvements in the accuracy of EFP and force fields in general.

Entities:  

Year:  2012        PMID: 26592124     DOI: 10.1021/ct200673a

Source DB:  PubMed          Journal:  J Chem Theory Comput        ISSN: 1549-9618            Impact factor:   6.006


  6 in total

1.  A new theoretical analysis of the cooperative effect in T-shaped hydrogen complexes of CnHm∙∙∙HCN∙∙∙HW with n = 2, m = 2 or 4, and W = F or CN.

Authors:  Boaz G Oliveira; Tamires F Costa; Regiane C M U Araújo
Journal:  J Mol Model       Date:  2013-05-31       Impact factor: 1.810

2.  Calculating the sensitivity and robustness of binding free energy calculations to force field parameters.

Authors:  Gabriel J Rocklin; David L Mobley; Ken A Dill
Journal:  J Chem Theory Comput       Date:  2013-07-09       Impact factor: 6.006

3.  Theoretical predictions of thermodynamic parameters of adsorption of nitrogen containing environmental contaminants on kaolinite.

Authors:  Andrea Michalkova Scott; Elizabeth A Burns; Brandon J Lafferty; Frances C Hill
Journal:  J Mol Model       Date:  2015-01-27       Impact factor: 1.810

4.  Physical mechanisms of intermolecular interactions from symmetry-adapted perturbation theory.

Authors:  Krzysztof Szalewicz; Bogumił Jeziorski
Journal:  J Mol Model       Date:  2022-08-25       Impact factor: 2.172

5.  Theoretical study of adsorption of nitrogen-containing environmental contaminants on kaolinite surfaces.

Authors:  Andrea Michalkova Scott; Elizabeth A Burns; Frances C Hill
Journal:  J Mol Model       Date:  2014-07-17       Impact factor: 1.810

6.  Hybrid RHF/MP2 geometry optimizations with the effective fragment molecular orbital method.

Authors:  Anders S Christensen; Casper Steinmann; Dmitri G Fedorov; Jan H Jensen
Journal:  PLoS One       Date:  2014-02-18       Impact factor: 3.240

  6 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.