Literature DB >> 32543858

Extending the Applicability of the ANI Deep Learning Molecular Potential to Sulfur and Halogens.

Christian Devereux1, Justin S Smith2,3, Kate K Davis1, Kipton Barros3, Roman Zubatyuk4, Olexandr Isayev4, Adrian E Roitberg1.   

Abstract

Machine learning (ML) methods have become powerful, predictive tools in a wide range of applications, such as facial recognition and autonomous vehicles. In the sciences, computational chemists and physicists have been using ML for the prediction of physical phenomena, such as atomistic potential energy surfaces and reaction pathways. Transferable ML potentials, such as ANI-1x, have been developed with the goal of accurately simulating organic molecules containing the chemical elements H, C, N, and O. Here, we provide an extension of the ANI-1x model. The new model, dubbed ANI-2x, is trained to three additional chemical elements: S, F, and Cl. Additionally, ANI-2x underwent torsional refinement training to better predict molecular torsion profiles. These new features open a wide range of new applications within organic chemistry and drug development. These seven elements (H, C, N, O, F, Cl, and S) make up ∼90% of drug-like molecules. To show that these additions do not sacrifice accuracy, we have tested this model across a range of organic molecules and applications, including the COMP6 benchmark, dihedral rotations, conformer scoring, and nonbonded interactions. ANI-2x is shown to accurately predict molecular energies compared to density functional theory with a ∼106 factor speedup and a negligible slowdown compared to ANI-1x and shows subchemical accuracy across most of the COMP6 benchmark. The resulting model is a valuable tool for drug development which can potentially replace both quantum calculations and classical force fields for a myriad of applications.

Entities:  

Year:  2020        PMID: 32543858     DOI: 10.1021/acs.jctc.0c00121

Source DB:  PubMed          Journal:  J Chem Theory Comput        ISSN: 1549-9618            Impact factor:   6.006


  15 in total

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7.  Identification of novel compounds against three targets of SARS CoV-2 coronavirus by combined virtual screening and supervised machine learning.

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8.  Linear Atomic Cluster Expansion Force Fields for Organic Molecules: Beyond RMSE.

Authors:  Dávid Péter Kovács; Cas van der Oord; Jiri Kucera; Alice E A Allen; Daniel J Cole; Christoph Ortner; Gábor Csányi
Journal:  J Chem Theory Comput       Date:  2021-11-04       Impact factor: 6.006

9.  Artificial intelligence-enhanced quantum chemical method with broad applicability.

Authors:  Peikun Zheng; Roman Zubatyuk; Wei Wu; Olexandr Isayev; Pavlo O Dral
Journal:  Nat Commun       Date:  2021-12-02       Impact factor: 14.919

10.  Quantum-mechanical property prediction of solvated drug molecules: what have we learned from a decade of SAMPL blind prediction challenges?

Authors:  Nicolas Tielker; Lukas Eberlein; Gerhard Hessler; K Friedemann Schmidt; Stefan Güssregen; Stefan M Kast
Journal:  J Comput Aided Mol Des       Date:  2020-10-20       Impact factor: 3.686

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