• 文献检索
  • 文档翻译
  • 深度研究
  • 学术资讯
  • Suppr Zotero 插件Zotero 插件
  • 邀请有礼
  • 套餐&价格
  • 历史记录
应用&插件
Suppr Zotero 插件Zotero 插件浏览器插件Mac 客户端Windows 客户端微信小程序
定价
高级版会员购买积分包购买API积分包
服务
文献检索文档翻译深度研究API 文档MCP 服务
关于我们
关于 Suppr公司介绍联系我们用户协议隐私条款
关注我们

Suppr 超能文献

核心技术专利:CN118964589B侵权必究
粤ICP备2023148730 号-1Suppr @ 2026

文献检索

告别复杂PubMed语法,用中文像聊天一样搜索,搜遍4000万医学文献。AI智能推荐,让科研检索更轻松。

立即免费搜索

文件翻译

保留排版,准确专业,支持PDF/Word/PPT等文件格式,支持 12+语言互译。

免费翻译文档

深度研究

AI帮你快速写综述,25分钟生成高质量综述,智能提取关键信息,辅助科研写作。

立即免费体验

通讯:变分多体展开:在基于片段的显式极化方法中考虑交换排斥、电荷离域和色散。

Communication: variational many-body expansion: accounting for exchange repulsion, charge delocalization, and dispersion in the fragment-based explicit polarization method.

机构信息

Department of Chemistry and Supercomputing Institute, University of Minnesota, Minneapolis, Minnesota 55455, USA.

出版信息

J Chem Phys. 2012 Feb 21;136(7):071101. doi: 10.1063/1.3688232.

DOI:10.1063/1.3688232
PMID:22360228
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC3292587/
Abstract

A fragment-based variational many-body (VMB) expansion method is described to directly account for exchange repulsion, charge delocalization (charge transfer) and dispersion interactions in the explicit polarization (X-Pol) method. The present VMB/X-Pol approach differs from other fragment molecular orbital (FMO) techniques in two major aspects. First, the wave function for the monomeric system is variationally optimized using standard X-Pol method, as opposed to the iterative update procedure adopted in FMO. Second, the mutual polarizations in the dimeric terms are also variationally determined, whereas single-point energy calculations of the individual dimers embedded in a static monomer field are used in FMO. The second-order (two-body) VMB (VMB2) expansion method is illustrated on a series of water hexamer complexes and one decamer cluster, making use of Hartree-Fock theory, MP2, and the PBE1 and M06 density functionals to represent the monomer and dimer fragments. The computed binding energies are within 2 kcal/mol of the corresponding results from fully delocalized calculations. Energy decomposition analyses reveal specific dimeric contributions to exchange repulsion, charge delocalization, and dispersion. Since the wave functions for one-body and all two-body terms are variationally optimized in VMB2 and X-Pol, it is straightforward to obtain analytic gradient without the additional coupled-perturbed Hartree-Fock step. Thus, the method can be useful for molecular dynamics simulations.

摘要

一种基于片段的变分多体 (VMB) 扩展方法被描述为直接在显式极化 (X-Pol) 方法中考虑交换排斥、电荷离域(电荷转移)和色散相互作用。目前的 VMB/X-Pol 方法与其他片段分子轨道 (FMO) 技术在两个主要方面不同。首先,使用标准的 X-Pol 方法对单体系统的波函数进行变分优化,而不是 FMO 中采用的迭代更新过程。其次,二聚体项中的相互极化也是通过变分确定的,而 FMO 中则使用嵌入在静态单体场中的单个二聚体的单点能计算。二阶(双体)VMB(VMB2)扩展方法在一系列水六聚体复合物和一个十聚体簇上进行了说明,使用 Hartree-Fock 理论、MP2 以及 PBE1 和 M06 密度泛函来表示单体和二聚体片段。计算得到的结合能与完全离域计算的相应结果相差 2 kcal/mol 以内。能量分解分析揭示了交换排斥、电荷离域和色散的特定二聚体贡献。由于 VMB2 和 X-Pol 中对单体重和所有双体重项的波函数进行了变分优化,因此可以直接获得解析梯度,而无需额外的耦合微扰 Hartree-Fock 步骤。因此,该方法可用于分子动力学模拟。

相似文献

1
Communication: variational many-body expansion: accounting for exchange repulsion, charge delocalization, and dispersion in the fragment-based explicit polarization method.通讯:变分多体展开:在基于片段的显式极化方法中考虑交换排斥、电荷离域和色散。
J Chem Phys. 2012 Feb 21;136(7):071101. doi: 10.1063/1.3688232.
2
Explicit polarization: a quantum mechanical framework for developing next generation force fields.显式极化:用于开发下一代力场的量子力学框架。
Acc Chem Res. 2014 Sep 16;47(9):2837-45. doi: 10.1021/ar5002186. Epub 2014 Aug 6.
3
Generalized X-Pol Theory and Charge Delocalization States.广义X偏振理论与电荷离域态
J Chem Theory Comput. 2010 Aug 10;6(8):2402-10. doi: 10.1021/ct100292g.
4
The variational explicit polarization potential and analytical first derivative of energy: Towards a next generation force field.变分显式极化势与能量的解析一阶导数:迈向新一代力场
J Chem Phys. 2008 Jun 21;128(23):234108. doi: 10.1063/1.2936122.
5
Using multipole point charge distributions to provide the electrostatic potential in the variational explicit polarization (X-Pol) potential.使用多极点电荷分布在变分显式极化(X-Pol)势中提供静电势。
Theor Chem Acc. 2011 May 1;129(1):3-13. doi: 10.1007/s00214-011-0889-9. Epub 2011 Jan 26.
6
Intermolecular potentials of the silane dimer calculated with Hartree-Fock theory, Møller-Plesset perturbation theory, and density functional theory.用哈特里-福克理论、莫勒-普莱斯微扰理论和密度泛函理论计算的硅烷二聚体的分子间势。
J Phys Chem A. 2007 Nov 22;111(46):11922-9. doi: 10.1021/jp0752973. Epub 2007 Oct 27.
7
Energy benchmarks for water clusters and ice structures from an embedded many-body expansion.水团簇和冰结构的嵌入多体展开能量基准。
J Chem Phys. 2013 Sep 21;139(11):114101. doi: 10.1063/1.4820906.
8
Multilevel X-Pol: a fragment-based method with mixed quantum mechanical representations of different fragments.多层次 X-Pol:一种基于片段的方法,不同片段采用混合量子力学表示。
J Phys Chem B. 2012 Jun 14;116(23):6781-8. doi: 10.1021/jp212399g. Epub 2012 Mar 19.
9
Towards a force field based on density fitting.迈向基于密度拟合的力场。
J Chem Phys. 2006 Mar 14;124(10):104101. doi: 10.1063/1.2173256.
10
On the Interfragment Exchange in the X-Pol Method.关于X-Pol方法中的片段间交换
J Chem Theory Comput. 2010;6(8):2469-2476. doi: 10.1021/ct100268p.

引用本文的文献

1
Fragment-Based Local Coupled Cluster Embedding Approach for the Quantification and Analysis of Noncovalent Interactions: Exploring the Many-Body Expansion of the Local Coupled Cluster Energy.基于片段的局部耦合簇嵌入方法用于非共价相互作用的量化和分析:探索局部耦合簇能量的多体展开。
J Chem Theory Comput. 2021 Jun 8;17(6):3348-3359. doi: 10.1021/acs.jctc.1c00005. Epub 2021 May 26.
2
A GPU-Accelerated Parameter Interpolation Thermodynamic Integration Free Energy Method.一种基于图形处理器加速的参数插值热力学积分自由能方法。
J Chem Theory Comput. 2018 Mar 13;14(3):1564-1582. doi: 10.1021/acs.jctc.7b01175. Epub 2018 Feb 7.
3
Quantum mechanical force fields for condensed phase molecular simulations.用于凝聚相分子模拟的量子力学力场。
J Phys Condens Matter. 2017 Sep 27;29(38):383002. doi: 10.1088/1361-648X/aa7c5c. Epub 2017 Aug 17.
4
Multipolar Ewald methods, 2: applications using a quantum mechanical force field.多极埃瓦尔德方法,2:使用量子力学力场的应用
J Chem Theory Comput. 2015 Feb 10;11(2):451-61. doi: 10.1021/ct500799g.
5
Explicit polarization: a quantum mechanical framework for developing next generation force fields.显式极化:用于开发下一代力场的量子力学框架。
Acc Chem Res. 2014 Sep 16;47(9):2837-45. doi: 10.1021/ar5002186. Epub 2014 Aug 6.
6
Quantum mechanical force field for hydrogen fluoride with explicit electronic polarization.具有显式电子极化的氟化氢量子力学力场。
J Chem Phys. 2014 May 28;140(20):204501. doi: 10.1063/1.4875922.
7
Parametrization of an Orbital-Based Linear-Scaling Quantum Force Field for Noncovalent Interactions.用于非共价相互作用的基于轨道的线性标度量子力场的参数化
J Chem Theory Comput. 2014 Mar 11;10(3):1086-1098. doi: 10.1021/ct401035t. Epub 2014 Feb 11.
8
Quantum mechanical force field for water with explicit electronic polarization.具有显式电子极化的水的量子力学力场。
J Chem Phys. 2013 Aug 7;139(5):054503. doi: 10.1063/1.4816280.
9
A variational linear-scaling framework to build practical, efficient next-generation orbital-based quantum force fields.一种用于构建实用、高效的下一代基于轨道的量子力场的变分线性缩放框架。
J Chem Theory Comput. 2013 Mar 12;9(3):1417-1427. doi: 10.1021/ct3010134.
10
Multilevel X-Pol: a fragment-based method with mixed quantum mechanical representations of different fragments.多层次 X-Pol:一种基于片段的方法,不同片段采用混合量子力学表示。
J Phys Chem B. 2012 Jun 14;116(23):6781-8. doi: 10.1021/jp212399g. Epub 2012 Mar 19.

本文引用的文献

1
Electrostatically Embedded Many-Body Correlation Energy, with Applications to the Calculation of Accurate Second-Order Møller-Plesset Perturbation Theory Energies for Large Water Clusters.静电嵌入多体相关能量及其在计算大水分子簇的精确二阶 Møller-Plesset 微扰理论能量中的应用。
J Chem Theory Comput. 2007 Jul;3(4):1342-8. doi: 10.1021/ct700057x.
2
Generalized X-Pol Theory and Charge Delocalization States.广义X偏振理论与电荷离域态
J Chem Theory Comput. 2010 Aug 10;6(8):2402-10. doi: 10.1021/ct100292g.
3
Thermochemical Fragment Energy Method for Biomolecules: Application to a Collagen Model Peptide.生物分子的热化学片段能量法:应用于胶原蛋白模型肽
J Chem Theory Comput. 2009 Jun 9;5(6):1667-79. doi: 10.1021/ct8005002.
4
Evaluation of B3LYP, X3LYP, and M06-Class Density Functionals for Predicting the Binding Energies of Neutral, Protonated, and Deprotonated Water Clusters.用于预测中性、质子化和去质子化水团簇结合能的B3LYP、X3LYP和M06类密度泛函的评估。
J Chem Theory Comput. 2009 Apr 14;5(4):1016-26. doi: 10.1021/ct800549f. Epub 2009 Mar 12.
5
Accurate Molecular Crystal Lattice Energies from a Fragment QM/MM Approach with On-the-Fly Ab Initio Force Field Parametrization.从片段 QM/MM 方法与即时从头算力场参数化获得准确的分子晶体晶格能。
J Chem Theory Comput. 2011 Nov 8;7(11):3733-42. doi: 10.1021/ct200541h. Epub 2011 Oct 20.
6
New Advance in Computational Chemistry:  Full Quantum Mechanical ab Initio Computation of Streptavidin-Biotin Interaction Energy.计算化学的新进展:链霉亲和素 - 生物素相互作用能的全量子力学从头计算
J Phys Chem B. 2003 Nov 6;107(44):12039-41. doi: 10.1021/jp0359081.
7
Fragmentation methods: a route to accurate calculations on large systems.碎片化方法:一种对大型系统进行精确计算的途径。
Chem Rev. 2012 Jan 11;112(1):632-72. doi: 10.1021/cr200093j. Epub 2011 Aug 26.
8
Fully analytic energy gradient in the fragment molecular orbital method.分子轨道碎片方法中的完全解析能量梯度。
J Chem Phys. 2011 Mar 28;134(12):124115. doi: 10.1063/1.3568010.
9
An efficient, fragment-based electronic structure method for molecular systems: self-consistent polarization with perturbative two-body exchange and dispersion.一种用于分子体系的高效、基于片段的电子结构方法:自洽极化与微扰双体交换和色散。
J Chem Phys. 2011 Mar 7;134(9):094118. doi: 10.1063/1.3560026.
10
Energy decomposition analysis based on a block-localized wavefunction and multistate density functional theory.基于局域波函数和多态密度泛函理论的能量分解分析。
Phys Chem Chem Phys. 2011 Apr 21;13(15):6760-75. doi: 10.1039/c0cp02206c. Epub 2011 Mar 2.