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