Transition State Searching Accelerated by Neural Network Potential.

IF 5.3 2区 化学 Q1 CHEMISTRY, MEDICINAL Journal of Chemical Information and Modeling Pub Date : 2025-03-10 Epub Date: 2025-02-20 DOI:10.1021/acs.jcim.4c01714
Bowen Li, Jin Xiao, Ya Gao, John Z H Zhang, Tong Zhu
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Abstract

Understanding transition states is pivotal in the design of efficient chemical processes and catalysts. However, identifying transition states is challenging due to the resource-intensive and iterative nature of current computational methods. This study integrates neural network potentials with physical models to enhance the transition state prediction. Different neural network potentials and transition states locating algorithms are benchmarked. By combining NequIP with the energy-weighted Climbing Image-Nudged Elastic Band (EW-CI-NEB) method, we achieved highly accurate transition state predictions, significantly surpassing semiempirical methods in accuracy and greatly outpacing density functional theory in efficiency. Additionally, the transferability of the model was evaluated using a NequIP model trained on a refined subset of the dataset, and the model's performance was further improved through active learning. This method can directly search for transition states in given reactions or serve as an efficient tool for generating initial guesses of transition state structures, significantly reducing manual effort.

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神经网络潜能加速过渡态搜索
了解过渡态是设计高效化学过程和催化剂的关键。然而,由于当前计算方法的资源密集型和迭代性,确定过渡状态是具有挑战性的。该研究将神经网络电位与物理模型相结合,增强了对过渡状态的预测。对不同的神经网络电位和过渡状态定位算法进行了基准测试。通过将NequIP与能量加权攀登图像轻推弹性带(EW-CI-NEB)方法相结合,我们实现了高精度的过渡状态预测,在精度上大大超过了半经验方法,在效率上大大超过了密度泛函数理论。此外,使用在数据集的精细化子集上训练的NequIP模型来评估模型的可移植性,并通过主动学习进一步提高模型的性能。该方法可以直接搜索给定反应中的过渡态,也可以作为生成过渡态结构初始猜测的有效工具,大大减少了人工工作量。
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来源期刊
CiteScore
9.80
自引率
10.70%
发文量
529
审稿时长
1.4 months
期刊介绍: The Journal of Chemical Information and Modeling publishes papers reporting new methodology and/or important applications in the fields of chemical informatics and molecular modeling. Specific topics include the representation and computer-based searching of chemical databases, molecular modeling, computer-aided molecular design of new materials, catalysts, or ligands, development of new computational methods or efficient algorithms for chemical software, and biopharmaceutical chemistry including analyses of biological activity and other issues related to drug discovery. Astute chemists, computer scientists, and information specialists look to this monthly’s insightful research studies, programming innovations, and software reviews to keep current with advances in this integral, multidisciplinary field. As a subscriber you’ll stay abreast of database search systems, use of graph theory in chemical problems, substructure search systems, pattern recognition and clustering, analysis of chemical and physical data, molecular modeling, graphics and natural language interfaces, bibliometric and citation analysis, and synthesis design and reactions databases.
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