ANI-1xBB: An ANI-Based Reactive Potential for Small Organic Molecules

Machine learning interatomic potentials (MLIPs) have emerged as powerful tools for investigating atomistic systems with high accuracy and a relatively low computational cost. However, a common and unaddressed challenge with many current neural network (NN) MLIP models is their limited ability to accurately predict the relative energies of systems containing isolated or nearly isolated atoms, which appear in various reactive processes. To address this limitation, we present a mathematical technique for modifying any existing atom-centered NN architecture to account for the energies of isolated atoms. The result produces a consistent prediction of the atomization energy (AE) of a system using minimal constraints on the model. Using this technique, we build a model architecture that we call hierarchically interacting particle neural network (HIP-NN)-AE, an AE-constrained version of the HIP-NN, as well as ANI-AE, the AE-constrained version of the accurate NN engine for molecular energies (ANI). Our results demonstrate AE consistency of AE-constrained models, which drastically improves the AE predictions for the models. We compare the AE-constrained approach to unconstrained models as well as models from the literature in other scenarios, such as bond dissociation energies, bond dissociation pathways, and extensibility tests. These results show that the constraints improve the model performance in some of these tasks and do not negatively affect the performance on any tasks. The AE constraint approach thus offers a robust solution to the challenges posed by isolated atoms in energy prediction tasks.

Reaction mechanism search tools have demonstrated the ability to provide insights into likely products and rate-limiting steps of reacting systems. However, reactions involving several concerted bond changes─as can be found in many key steps of natural product syntheses─can complicate the search process. To mitigate these complications, we present a mechanism search strategy particularly suited to help expedite exploration of an exemplary family of such complex reactions, cyclizations. We provide a cost-effective strategy for identifying relevant elementary reaction steps by combining graph-based enumeration schemes and machine learning techniques for intermediate filtering. Key to this approach is our use of a neural network potential (NNP), AIMNet2-rxn, for computational evaluation of each candidate reaction pathway. In this article, we evaluate the NNP's ability to estimate activation energies, demonstrate the correct anticipation of stereoselectivity, and recapitulate complex enabling steps in natural product synthesis.

Ring strain energy (RSE) is crucial for understanding molecular reactivity, with broad implications in polymerization, click chemistry, drug discovery and beyond. However, quantitatively determining RSE through experiments or quantum mechanics (QM) is resource-intensive, limiting its application on a large scale. We present a machine learning (ML)-based workflow that enables the reliable and efficient prediction of RSE, entirely bypassing traditional QM calculations. Our workflow employs AIMNet2 machine learning interatomic potentials and Auto3D for the identification of low-energy conformers and RSE computation. Remarkably, it achieves an R 2 of 0.997 and a mean absolute error (MAE) of 0.896 kcal/mol when benchmarked against the ωB97M-D4/Def2-TZVPP method, while running orders of magnitude faster than DFT calculations. To demonstrate the utility of our workflow, we successfully differentiated reactive from nonreactive molecules in copper-free click chemistry, [3 + 2] cycloaddition reaction and ring-opening metathesis polymerization, underscoring its transferability to diverse molecular systems. Additionally, we compiled the RSE Atlas, a computational database encompassing 16,905 single-ring molecules, offering a valuable resource for investigating factors influencing RSE. Our approach transforms RSE into a readily computable property, facilitating its integration into reaction designs.