{"title":"Predicting Adsorbate-Solvent Interaction Energies in Zeolite Pores Using Convolutional Neural Networks with Attention Mechanisms","authors":"Jiexin Shi, Xiuting Chen, Rachel B. Getman","doi":"10.1021/acs.jcim.6c02080","DOIUrl":null,"url":null,"abstract":"<p>Solvent effects play\r\na critical role in determining reaction\r\nthermodynamics\r\nand kinetics in liquid-phase heterogeneous catalysis, particularly\r\nin confined nanoporous environments such as zeolite pores. However,\r\naccurate prediction of solvation thermodynamics remains computationally\r\nprohibitive due to the need for extensive first-principles calculations\r\non diverse solvent configurations. In this work, we present an attention-enhanced\r\nthree-dimensional convolutional neural network (3D-CNN) framework\r\nto predict solvation interaction energies (Δ<em>E<sub>int</sub></em>) of adsorbates in Ti-faujasite (Ti-FAU) zeolite pores.\r\nMolecular dynamics (MD) snapshots of C<sub>1</sub>–C<sub>3</sub> oxygenates in aqueous and water–methanol solvent environments\r\nare transformed into multichannel voxel grid representations that\r\nencode spatially resolved atomistic information. The 3D-CNN architecture\r\nincorporates separate adsorbate and solvent branches and employs convolutional\r\nblock attention modules to dynamically prioritize spatial regions\r\nand feature channels relevant to adsorbate–solvent interactions.\r\nTrained on density functional theory (DFT)-derived interaction energies\r\nfrom a multiscale modeling workflow, the model achieves a mean absolute\r\nerror of 0.08 eV for individual configurations and 0.04 eV for ensemble-averaged\r\nsolvation energies, approaching DFT accuracy while substantially reducing\r\ncomputational cost. Cross-validation (CV) using simulation-system,\r\nsolvent-composition, and pore-type splits demonstrates predictive\r\nperformance on held-out systems within the represented chemical domain\r\nand across the solvent and pore conditions considered in this study.\r\nAnalysis of spatial attention maps and feature attributions reveals\r\nthat the model emphasizes adsorbate-proximal solvent structures and\r\nhydrogen-bonding interactions, consistent with physical intuition.\r\nThis framework enables efficient and interpretable prediction of solvation\r\ninteraction energies in confined systems and provides a scalable pathway\r\nfor mapping structural information sampled from force-field-MD to\r\nDFT targets.</p>","PeriodicalId":44,"journal":{"name":"Journal of Chemical Information and Modeling ","volume":"66 19","pages":"12709–12722"},"PeriodicalIF":6.4000,"publicationDate":"2026-10-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":null,"platform":"Semanticscholar","paperid":null,"PeriodicalName":"Journal of Chemical Information and Modeling ","FirstCategoryId":"92","ListUrlMain":"https://pubs.acs.org/doi/10.1021/acs.jcim.6c02080","RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"2026/9/30 0:00:00","PubModel":"Epub","JCR":"Q1","JCRName":"CHEMISTRY, MEDICINAL","Score":null,"Total":0}
引用次数: 0
Abstract
Solvent effects play
a critical role in determining reaction
thermodynamics
and kinetics in liquid-phase heterogeneous catalysis, particularly
in confined nanoporous environments such as zeolite pores. However,
accurate prediction of solvation thermodynamics remains computationally
prohibitive due to the need for extensive first-principles calculations
on diverse solvent configurations. In this work, we present an attention-enhanced
three-dimensional convolutional neural network (3D-CNN) framework
to predict solvation interaction energies (ΔEint) of adsorbates in Ti-faujasite (Ti-FAU) zeolite pores.
Molecular dynamics (MD) snapshots of C1–C3 oxygenates in aqueous and water–methanol solvent environments
are transformed into multichannel voxel grid representations that
encode spatially resolved atomistic information. The 3D-CNN architecture
incorporates separate adsorbate and solvent branches and employs convolutional
block attention modules to dynamically prioritize spatial regions
and feature channels relevant to adsorbate–solvent interactions.
Trained on density functional theory (DFT)-derived interaction energies
from a multiscale modeling workflow, the model achieves a mean absolute
error of 0.08 eV for individual configurations and 0.04 eV for ensemble-averaged
solvation energies, approaching DFT accuracy while substantially reducing
computational cost. Cross-validation (CV) using simulation-system,
solvent-composition, and pore-type splits demonstrates predictive
performance on held-out systems within the represented chemical domain
and across the solvent and pore conditions considered in this study.
Analysis of spatial attention maps and feature attributions reveals
that the model emphasizes adsorbate-proximal solvent structures and
hydrogen-bonding interactions, consistent with physical intuition.
This framework enables efficient and interpretable prediction of solvation
interaction energies in confined systems and provides a scalable pathway
for mapping structural information sampled from force-field-MD to
DFT targets.
期刊介绍:
The Journal of Chemical Information and Modeling publishes papers reporting new methodology and/or important applications in the fields of chemical informatics and molecular modeling. Specific topics include the representation and computer-based searching of chemical databases, molecular modeling, computer-aided molecular design of new materials, catalysts, or ligands, development of new computational methods or efficient algorithms for chemical software, and biopharmaceutical chemistry including analyses of biological activity and other issues related to drug discovery.
Astute chemists, computer scientists, and information specialists look to this monthly’s insightful research studies, programming innovations, and software reviews to keep current with advances in this integral, multidisciplinary field.
As a subscriber you’ll stay abreast of database search systems, use of graph theory in chemical problems, substructure search systems, pattern recognition and clustering, analysis of chemical and physical data, molecular modeling, graphics and natural language interfaces, bibliometric and citation analysis, and synthesis design and reactions databases.