Literature DB >> 16633685

Benchmark database of accurate (MP2 and CCSD(T) complete basis set limit) interaction energies of small model complexes, DNA base pairs, and amino acid pairs.

Petr Jurecka1, Jirí Sponer, Jirí Cerný, Pavel Hobza.   

Abstract

MP2 and CCSD(T) complete basis set (CBS) limit interaction energies and geometries for more than 100 DNA base pairs, amino acid pairs and model complexes are for the first time presented together. Extrapolation to the CBS limit is done by using two-point extrapolation methods and different basis sets (aug-cc-pVDZ - aug-cc-pVTZ, aug-cc-pVTZ - aug-cc-pVQZ, cc-pVTZ - cc-pVQZ) are utilized. The CCSD(T) correction term, determined as a difference between CCSD(T) and MP2 interaction energies, is evaluated with smaller basis sets (6-31G** and cc-pVDZ). Two sets of complex geometries were used, optimized or experimental ones. The JSCH-2005 benchmark set, which is now available to the chemical community, can be used for testing lower-level computational methods. For the first screening the smaller training set (S22) containing 22 model complexes can be recommended. In this case larger basis sets were used for extrapolation to the CBS limit and also CCSD(T) and counterpoise-corrected MP2 optimized geometries were sometimes adopted.

Entities:  

Mesh:

Substances:

Year:  2006        PMID: 16633685     DOI: 10.1039/b600027d

Source DB:  PubMed          Journal:  Phys Chem Chem Phys        ISSN: 1463-9076            Impact factor:   3.676


  122 in total

1.  A fast doubly hybrid density functional method close to chemical accuracy using a local opposite spin ansatz.

Authors:  Igor Ying Zhang; Xin Xu; Yousung Jung; William A Goddard
Journal:  Proc Natl Acad Sci U S A       Date:  2011-11-23       Impact factor: 11.205

2.  Molecular mechanical perspective on halogen bonding.

Authors:  Mahmoud A A Ibrahim
Journal:  J Mol Model       Date:  2012-05-30       Impact factor: 1.810

3.  The assessment and application of an approach to noncovalent interactions: the energy decomposition analysis (EDA) in combination with DFT of revised dispersion correction (DFT-D3) with Slater-type orbital (STO) basis set.

Authors:  Wei Gao; Huajie Feng; Xiaopeng Xuan; Liuping Chen
Journal:  J Mol Model       Date:  2012-05-29       Impact factor: 1.810

4.  Electronic and molecular structure of M-DNA fragments.

Authors:  Yury V Rubin; Leonid F Belous; Capital A Cyrillicnatolij Capital A Cyrillic Yakuba
Journal:  J Mol Model       Date:  2010-07-18       Impact factor: 1.810

5.  Density-functional approach to the three-body dispersion interaction based on the exchange dipole moment.

Authors:  Emil Proynov; Fenglai Liu; Zhengting Gan; Matthew Wang; Jing Kong
Journal:  J Chem Phys       Date:  2015-08-28       Impact factor: 3.488

6.  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

7.  Role of methyl-induced polarization in ion binding.

Authors:  Mariana Rossi; Alexandre Tkatchenko; Susan B Rempe; Sameer Varma
Journal:  Proc Natl Acad Sci U S A       Date:  2013-07-22       Impact factor: 11.205

8.  Stacking and hydrogen bond interactions between adenine and gallic acid.

Authors:  Isidro Lorenzo; Ana M Graña
Journal:  J Mol Model       Date:  2013-10-24       Impact factor: 1.810

9.  Proton Transfer Accounting for Anomalous Collision-Induced Dissociation of Proton-Bound Hoogsteen Base Pair of Cytosine and Guanine.

Authors:  Jeong Ju Park; Choong Sik Lee; Sang Yun Han
Journal:  J Am Soc Mass Spectrom       Date:  2018-09-13       Impact factor: 3.109

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

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.