Sparse Linear Surrogates Match Neural Network Potentials on the SPICE Biomolecular Benchmark with Three Orders of Magnitude Smaller Training Sets

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Authors: D. L. AZEVEDO
Cited by: 1
References: 18

Abstract

High Resolution Image Download MS PowerPoint Slide We introduce the orbital cluster expansion (OCE), a linear regression on physics-motivated local features derived from atomic orbital eigenenergies, and benchmark it against the SPICE 2.0 biomolecular data set at the ωB97M-D3BJ/def2-TZVPPD level. With regression of formation energies on 677 dipeptides spanning the natural amino acids, ridge regression on 414 OCE features attains a parent-stratified test root-mean-square error of 30 meV per atom with Spearman ρ = 0.97 and R 2 = 0.95 against a target spread of only 0.13 eV per atom, matching MACE-OFF23(L) and ANI-2x trained with 10 4 –10 6 conformations but with ∼10 3 fewer training points. Comparable accuracy holds on 500 PubChem drug-like molecules and 500 DES370K dimers. We characterize a fundamental dual regime: intermolecular ranking is preserved across chemistries, while intraconformer ranking is random because the basis cannot resolve geometry-only variation within a fixed connectivity. OCE is a transparent, physically interpretable surrogate for intermolecular biomolecular screening.

Fields of Study & Subjects

Machine Learning in Bioinformatics Neural Networks and Applications Gaussian Processes and Bayesian Inference

Publication details

Journal / source
The Journal of Physical Chemistry Letters
Publisher
American Chemical Society (ACS)
Volume
17
Issue
28
Pages
7867–7870
Publication date
6 July 2026
Language
EN