Machine-learned density functional based quantum chemical computations for ethane: performance of DeepMind 21 on potential energy surface and molecular properties

IF 2.5 4区 化学 Q4 BIOCHEMISTRY & MOLECULAR BIOLOGY
B. Jijila, S. Susannal Ezhilarasi, V. Nirmala
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引用次数: 0

Abstract

Context

Machine learning (ML) has proven to be a promising method in quantum chemistry calculations. Researchers at Google DeepMind established the superior performance of a machine-learned functional DeepMind 21 (DM21), the neural network-based functionals which emerged as a powerful tool for developing exchange–correlation energy approximation in density functional theory (DFT), to accurately explain the charge delocalization and strong correlation. While many researchers have cited the work of DeepMind, still there remains a paucity of research publications that perform algorithmic computations with DeepMind’s AI model for quantum sciences. To address this lacuna, this paper investigates quantum chemistry algorithmic computations of potential energy surface and analysis properties of ethane molecule (C2H6) by employing the machine learning model to predict exchange–correlation potential. This paper utilizes neural density functional, DeepMind 21 to compute the dipole moment, molecular orbitals (HOMO/LUMO), and long-range interactions. Our computations were based on DM21m TensorFlow neural network model-based prediction of exchange–correlation potential, and then using this prediction to compute self-consistent field energies using PySCF Python package with cc-pVDZ Dunning dual basis set. The accuracy of the DM21 functional was rigorously assessed through comparison with conventional DFT methods (B3LYP, PW6B95) and the reference CCSD(T) standard. The findings indicate that the DM21 functional yields result in close agreement with the CCSD(T) benchmark energies and established literature values, confirming its efficacy for PES generation and quantum chemical computation in systems like ethane. This investigation demonstrates the suitability of the deep learning density functional for quantum science computations of ethane molecule for the first time.

Methods

In this method, the potential energy surfaces and properties (dipole moment, molecular orbitals) are computed using machine-learned density function approximation using pretrained deep learning models provided by DeepMind 21 researchers. By inserting deep learning inference in density functional theory (DFT) with a pretrained neural network, self-consistent field (SCF) energy at different geometries along the coordinate of interest is computed, and hence potential energy surfaces are computed and obtained. For a given specified molecular geometry, the algorithm computes the electron density vector, which is then used as a machine learning feature input for a pretrained DM21 deep learning model to predict the exchange–correlation. This methodology was implemented in a Python source code using frameworks such as PySCF and DM21.

基于机器学习密度泛函的乙烷量子化学计算:DeepMind 21在势能表面和分子性质上的表现。
背景:机器学习(ML)已被证明是量子化学计算中一种很有前途的方法。b谷歌DeepMind的研究人员建立了机器学习功能DeepMind 21 (DM21)的卓越性能,基于神经网络的功能成为密度泛函理论(DFT)中发展交换相关能量近似的强大工具,以准确解释电荷离域和强相关性。虽然许多研究人员引用了DeepMind的工作,但仍然缺乏用DeepMind的量子科学人工智能模型进行算法计算的研究出版物。针对这一不足,本文利用机器学习模型预测交换相关势,研究了乙烷分子(C2H6)势能面的量子化学算法计算和分析性质。本文利用神经密度函数、DeepMind 21计算偶极矩、分子轨道(HOMO/LUMO)和远程相互作用。我们的计算是基于DM21m TensorFlow神经网络模型预测交换相关势,然后使用PySCF Python包与cc-pVDZ Dunning对偶基集计算自洽场能。通过与传统DFT方法(B3LYP, PW6B95)和参考CCSD(T)标准进行比较,严格评估DM21泛函的准确性。研究结果表明,DM21的功能产率与CCSD(T)基准能量和已建立的文献值非常接近,证实了其在乙烷等体系中PES生成和量子化学计算中的有效性。该研究首次证明了深度学习密度泛函在乙烷分子量子科学计算中的适用性。方法:在该方法中,利用DeepMind 21研究人员提供的预训练深度学习模型,使用机器学习密度函数近似计算势能表面和性质(偶极矩,分子轨道)。通过在密度泛函理论(DFT)中插入深度学习推理和预训练神经网络,计算出沿感兴趣坐标的不同几何形状上的自洽场(SCF)能量,从而计算得到势能面。对于给定的特定分子几何形状,该算法计算电子密度矢量,然后将其用作预训练的DM21深度学习模型的机器学习特征输入,以预测交换相关性。该方法是在Python源代码中使用PySCF和DM21等框架实现的。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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来源期刊
Journal of Molecular Modeling
Journal of Molecular Modeling 化学-化学综合
CiteScore
3.50
自引率
4.50%
发文量
362
审稿时长
2.9 months
期刊介绍: The Journal of Molecular Modeling focuses on "hardcore" modeling, publishing high-quality research and reports. Founded in 1995 as a purely electronic journal, it has adapted its format to include a full-color print edition, and adjusted its aims and scope fit the fast-changing field of molecular modeling, with a particular focus on three-dimensional modeling. Today, the journal covers all aspects of molecular modeling including life science modeling; materials modeling; new methods; and computational chemistry. Topics include computer-aided molecular design; rational drug design, de novo ligand design, receptor modeling and docking; cheminformatics, data analysis, visualization and mining; computational medicinal chemistry; homology modeling; simulation of peptides, DNA and other biopolymers; quantitative structure-activity relationships (QSAR) and ADME-modeling; modeling of biological reaction mechanisms; and combined experimental and computational studies in which calculations play a major role.
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