Prediction of organic homolytic bond dissociation enthalpies at near chemical accuracy with sub-second computational cost

• Published in: Nature communications 2020-05, Vol.11 (1), p.2328-2328, Article 2328
• Main Authors: St. John, Peter C., Guan, Yanfei, Kim, Yeonjoon, Kim, Seonah, Paton, Robert S.
• Format: Article
• Language: English
• Subjects: 119/118; 639/638/440/951; 639/638/563/606; 639/638/630; bond dissociation enthalpies; Chemical reactions; chemical reactivity; Computational efficiency; Computer applications; Computing costs; Density functional theory; Drug metabolism; Enthalpy; Graph neural networks; Humanities and Social Sciences; INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CHEMISTRY; Learning algorithms; Machine learning; multidisciplinary; Neural networks; Organic chemistry; organic molecules; Quantum mechanics; Science; Science (multidisciplinary); Selectivity; Soot
• ISSN: 2041-1723; 2041-1723
• DOI: 10.1038/s41467-020-16201-z

Bond dissociation enthalpies (BDEs) of organic molecules play a fundamental role in determining chemical reactivity and selectivity. However, BDE computations at sufficiently high levels of quantum mechanical theory require substantial computing resources. In this paper, we develop a machine learning model capable of accurately predicting BDEs for organic molecules in a fraction of a second. We perform automated density functional theory (DFT) calculations at the M06-2X/def2-TZVP level of theory for 42,577 small organic molecules, resulting in 290,664 BDEs. A graph neural network trained on a subset of these results achieves a mean absolute error of 0.58 kcal mol −1 (vs DFT) for BDEs of unseen molecules. We further demonstrate the model on two applications: first, we rapidly and accurately predict major sites of hydrogen abstraction in the metabolism of drug-like molecules, and second, we determine the dominant molecular fragmentation pathways during soot formation. Bond dissociation enthalpies are key quantities in determining chemical reactivity, their computations with quantum mechanical methods being highly demanding. Here the authors develop a machine learning approach to calculate accurate dissociation enthalpies for organic molecules with sub-second computational cost.