Efficient Block Encodings for Ensembles of Molecular Hamiltonians

Accurately characterizing molecular properties and reactivity often requires electronic-structure calculations across an ensemble of molecular geometries. Quantum algorithms that process such ensembles coherently could address this challenge, but they require Hamiltonian block encoding circuits that combine advanced factorization techniques with sublinear scaling in ensemble size. Here, we introduce SVD-THC, which extends tensor hypercontraction to sets of Hamiltonians defined at different nuclear geometries through a singular value decomposition of the ensemble. We use SVD-THC to construct a single multiplexed block encoding circuit for all geometries in an ensemble. We then evaluate the approach on ensembles generated by varying internal rotational coordinates in 1-bromo-2-chloroethane as well as in glycine and alanine dipeptides, corresponding to established model systems for peptide conformational landscapes, with up to 5,184 geometries. Across several resolutions of the internal-coordinate grids, the Toffoli complexity of the resulting circuits grows only weakly with the number of geometries, changing by at most 12% over grids that differ in size by up to 576 times. In an energy-thresholding circuit, this yields 35--200 times fewer Toffoli gates than slicing together single-geometry block encodings. This approach could help make coherent processing of molecular geometry ensembles a useful primitive for fault-tolerant quantum computing.