分子间相互作用研究的APF-D密度泛函SAM色散校正方法改进

doi:10.3866/PKU.WHXB201609132

物理化学学报 >> 2016, Vol. 32 >> Issue (11): 2709-2716.doi: 10.3866/PKU.WHXB201609132

分子间相互作用研究的APF-D密度泛函SAM色散校正方法改进

何禹^1,²,王一波^1,^2,*()

¹ 贵州省高性能计算化学重点实验室,贵阳550025
² 贵州大学网络与信息中心,贵阳550025

收稿日期:2016-07-11 发布日期:2016-11-08
通讯作者: 王一波 E-mail:ybw@gzu.edu.cn
基金资助:
贵州省自然科学基金(20082116)

An Improvement of the SAM Dispersion Correction in the APF-D Density Functional Method for Studying Intermolecular Interactions

Yu HE^1,²,Yi-Bo WANG^1,^2,*()

¹ Key Laboratory of High Performance Computational Chemistry, Guiyang 550025, P. R. China
² Network and Information Center of Guizhou University, Guiyang 550025, P. R. China

Received:2016-07-11 Published:2016-11-08
Contact: Yi-Bo WANG E-mail:ybw@gzu.edu.cn
Supported by:
the Natural Science Foundation of Guizhou Province, China(20082116)

摘要/Abstract

摘要：

APF密度泛函色散校正（APF-D）是由B3PW91和PBE0杂化的APF泛函，加上球形原子模型（SAM）色散校正构成的一种有别于Grimme经验色散校正的密度泛函理论色散校正（DFT-D）方法，计算稀有气体及其与小分子复合物结合能和势能面准确性很高，但对常见氢键、C―H…π和π…π等复合物结合能计算结果明显偏大，在一般性分子间相互作用问题研究中一直未被认可和采纳。我们发现APF-D结合能计算结果偏大的原因是APF泛函与SAM色散校正重复计入了一定量的长程色散能；通过引入不依赖于体系的SAM色散能阻力因子ζ，简单而有效地解决了APF-D色散能过度补偿问题，提出了APF-D改进方案APF-D^*；通过S66和L7标准测试集的对照计算表明，APF-D^*结合能准确性远高于原始APF-D，达到和超过目前常用的B3LYPD3和ωB97X-D方法水平，并具有较好的计算效率，期待在大体系分子间相互作用研究中得到广泛应用。

关键词: DFT-D, APF泛函, SAM色散校正

Abstract:

Austin-Petersson-Frisch (APF) is a new hybrid density functional method that combines B3PW91 and PBE0. APF-D provides an additional empirical dispersion correction method based on a spherical atom model (SAM), which is different from the Grimme's empirical dispersion correction method. APF-D accurately describes the binding energy and the potential energy surfaces of complexes of noble gas atoms and small hydrocarbon dimers. However, APF-D is not accepted as a standard method to study intermolecular interactions because the results often show a large deviation from the normal range when using the APF-D method to calculate the binding energy of hydrogen bonded complexes, C-H…π and π…π interactions. Our research identified that such a deviation arises from some long-range dispersion that has been double counted by the APF function and the SAM dispersion correction. Therefore, we propose an improved APF-D method, termed APF-D^*. By taking advantage of ζ, which is independent of SAM dispersion, we were able to solve effectively the problem of excessive dispersion compensation in APF-D. By comparing the results from S66 and L7 benchmark sets, we find that APF-D^* greatly improved the precision of calculations over the traditional APF-D method. The overall accuracy of APF-D^* was found to be comparable to or better than current leading DFT methods, such as B3LYP-D3 and ωB97X-D. However, both B3LYP-D3 and ωB97X-D have a much larger computational cost than APF-D^*. We believe that APF-D^* is a better method to calculate of the intermolecular energy of large molecules.

Key words: DFT-D, APF functional, SAM dispersion correction

MSC2000:

O641

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何禹,王一波. 分子间相互作用研究的APF-D密度泛函SAM色散校正方法改进[J]. 物理化学学报, 2016, 32(11): 2709-2716.

Yu HE,Yi-Bo WANG. An Improvement of the SAM Dispersion Correction in the APF-D Density Functional Method for Studying Intermolecular Interactions[J]. Acta Phys. -Chim. Sin., 2016, 32(11): 2709-2716.

参考文献

1	Lewars, E. G. Computational Chemistry: Introduction to the Theory and Applications of Molecular and Quantum Mechanics; Kluwer Academic Publishers: Massachusetts, 2010; pp 5―6.
2	Zhao Y. ; Truhlar D. G. J. Chem. Theory Comput. 2005, 1, 415.
3	Xu X. ; Goddard W. A. J. Phys. Chem. A 2004, 108, 2305.
4	Frey J. A. ; Leutwyler S. Chim. Int. J. Chem 2005, 59, 511.
5	Rezac J. ; Hobza P. Chem. Rev. 2016, 116, 5038.
6	Grimme S. ; Hansen A. ; Brandenburg J. G. ; Bannwarth C. Chem. Rev 2016, 116 (SI), 5105.
7	Grimme S. ; Antony J. ; Ehrlich S. ; Krieg H. J. Chem. Phys. 2010, 132, 154104.
8	Chai J. D. ; Head-Gordon M. Phys. Chem. Chem. Phys. 2008, 10, 6615.
9	Burns L. A. ; Vázquez-Mayagoitia A. ; Sumpter B. G. ; Sherrill D. J. Chem. Phys. 2011, 134, 95.
10	Austin A. ; Petersson G. A. ; Frisch M. J. ; Dobek F. J. ; Scalmani G. ; Throssell K. J. Chem. Theory Comput. 2012, 8, 4989.
11	Frisch, M. J.; Trucks, G.W.; Schlegel, H. B.; et al. Gaussian 09, Revision D.01; Gaussian Inc.:Wallingford CT, 2009.
12	Mardirossian N. ; Head-Gordon M. J. Chem. Phys. 2015, 142, A1113.
13	Mardirossian N. ; Head-Gordon M. J. Chem. Phys. 2016, 144, 214110.
14	Rezac J. ; Riley K. E. ; Hobza P. J. Chem. Theory Comput. 2011, 7, 2427.
15	Sedlak R. ; Janowski T. ; Pitonak M. ; Rezac J. ; Pulay P. ; Hobza P. J. Chem. Theory Comput 2013, 9, 3364.
16	Wang W. Z. ; Sun T. ; Zhang Y. ; Wang Y. B. J. Chem. Phys. 2015, 143, 4145.
17	Su P. ; Li H. J. Chem. Phys 2009, 131, 014102.
18	Jurecak P. ; Sponer J. ; Cemy J. ; Hobza P. Phys. Chem. Chem. Phys 2006, 8, 1985.
19	Takatani T. ; Hohenstein E. G. ; Malagoli M. ; Marshall M. S. ; Sherrill C. D. J. Chem. Phys 2010, 132, 1290.
20	Podeszwa R. ; Patkowski K. ; Szalewicz K. Phys. Chem. Chem. Phys. 2010, 12, 5974.
21	Carter D. J. ; Rohl A. L. J. Chem. Theory Comput. 2012, 8, 281.
22	Dunning T. H. J. Chem. Phys. 1989, 90, 1007.
23	Kendall R. A. ; Dunning T. H. ; Harrison R. J. J. Chem. Phys. 1992, 96, 6796.
24	Woon D. E. ; Dunning T. H. J. Chem. Phys. 1993, 98, 1358.
25	Weigend F. ; Ahlrichs R. Phys. Chem. Chem. Phys 2005, 7, 3297.
26	Boys S. F. ; Bernardi F. Mol. Phys 1970, 19, 553.
27	BEGDB online database, http://http://www.begdb.com/(accessed Mar 1, 2016).

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分子间相互作用研究的APF-D密度泛函SAM色散校正方法改进

An Improvement of the SAM Dispersion Correction in the APF-D Density Functional Method for Studying Intermolecular Interactions

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