Theoretical and Computational Chemistry

Message Passing Neural Networks for Partial Charge Assignment to Metal-Organic Frameworks

Cory Simon Oregon State University


Virtual screenings can accelerate and reduce the cost of discovering metal-organic frameworks (MOFs) for their applications in gas storage, separation, and sensing. In molecular simulations of gas adsorption/diffusion in MOFs, the adsorbate-MOF electrostatic interaction is typically modeled by placing partial point charges on the atoms of the MOF. For the virtual screening of large libraries of MOFs, it is critical to develop computationally inexpensive methods to assign atomic partial charges to MOFs that accurately reproduce the electrostatic potential in their pores. Herein, we design and train a message passing neural network (MPNN) to predict the atomic partial charges on MOFs under a charge neutral constraint. A set of ca. 2,250 MOFs labeled with high-fidelity partial charges, derived from periodic electronic structure calculations, serves as training examples. In an end-to-end manner, from charge-labeled crystal graphs representing MOFs, our MPNN machine-learns features of the local bonding environments of the atoms and learns to predict partial atomic charges from these features. Our trained MPNN assigns high-fidelity partial point charges to MOFs with orders of magnitude lower computational cost than electronic structure calculations. To enhance the accuracy of virtual screenings of large libraries of MOFs for their adsorption-based applications, we make our trained MPNN model and MPNN-charge-assigned computation-ready, experimental MOF structures publicly available.

Version notes

v0: first draft


Thumbnail image of Message_passing_networks_to_learn_MOF_charges.pdf
download asset Message_passing_networks_to_learn_MOF_charges.pdf 3 MB [opens in a new tab]

Supplementary material

Thumbnail image of Message_passing_networks_to_learn_MOF_charges_SI.pdf
download asset Message_passing_networks_to_learn_MOF_charges_SI.pdf 1 MB [opens in a new tab]
Message passing networks to learn MOF charges SI