arXiv:2501.06159physics.chem-phcs.LG2025-01被引 1

用图神经网络加速化学反应过渡态搜索,大幅减少计算量。

Efficient Transition State Searches by Freezing String Method with Graph Neural Network Potentials

  • 用预训练的SchNet模型微调后替代昂贵的量子计算势能面。
  • 在多种反应中100%成功定位过渡态,平均减少72%的量子计算次数。
  • 只需少量数据即可提升对复杂相互作用的预测能力,适合大体系研究。

过渡态(TS)搜索是化学反应性计算研究中的关键瓶颈,因准确描述键断裂与形成等复杂过程需反复评估高成本的从头算势能面(PES)。尽管已有多种算法用于高效定位TS,但PES评估的计算开销仍是主要限制。本文开发并微调了一种基于图神经网络(GNN)的势能面模型,用于加速有机反应的过渡态搜索。选用的SchNet模型首先在ANI-1数据集上预训练,随后在包含反应物、产物及过渡态结构的小规模数据集上微调。将该GNN-PES集成至冻结弦方法(FSM),实现快速生成过渡态初猜几何。在一组化学多样性反应的基准测试中,微调后的模型(GNN-FT)成功率达100%,所有案例均找到参考过渡态,且相比传统基于DFT的FSM搜索,平均减少72%的从头算计算次数。微调显著降低模型在分布外情形(如非共价相互作用)下的误差,且仅用少量数据即提升过渡态区域的预测精度。对过渡态几何和能量误差的分析表明,GNN-FT沿反应坐标捕捉势能面具有足够准确性,可作为可靠的DFT替代方案。结果表明,经合理训练的现代GNN势能面能显著降低过渡态搜索成本,拓展化学反应性研究的体系规模与适用范围。

原文摘要 · Abstract (English)

Transition state (TS) searches are a critical bottleneck in computational studies of chemical reactivity, as accurately capturing complex phenomena like bond breaking and formation events requires repeated evaluations of expensive ab-initio potential energy surfaces (PESs). While numerous algorithms have been developed to locate TSs efficiently, the computational cost of PES evaluations remains a key limitation. In this work, we develop and fine-tune a graph neural network (GNN) PES to accelerate TS searches for organic reactions. Our GNN of choice, SchNet, is first pre-trained on the ANI-1 dataset and subsequently fine-tuned on a small dataset of reactant, product, and TS structures. We integrate this GNN PES into the Freezing String Method (FSM), enabling rapid generation of TS guess geometries. Across a benchmark suite of chemically diverse reactions, our fine-tuned model (GNN-FT) achieves a 100% success rate, locating the reference TSs in all cases while reducing the number of ab-initio calculations by 72% on average compared to conventional DFT-based FSM searches. Fine-tuning reduces GNN-FT errors by orders of magnitude for out-of-distribution cases such as non-covalent interactions, and improves TS-region predictions with comparatively little data. Analysis of transition state geometries and energy errors shows that GNN-FT captures PES along the reaction coordinate with sufficient accuracy to serve as a reliable DFT surrogate. These results demonstrate that modern GNN potentials, when properly trained, can significantly reduce the cost of TS searches and broaden the scope and size of systems considered in chemical reactivity studies.

过渡态搜索图神经网络势能面分子模拟

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