Leveraging Quantum Mechanical Properties to Predict Solvent Effects on Large Drug-Like Molecules

Research output: Contribution to book/Conference proceedings/Anthology/ReportConference contributionContributedpeer-review

Contributors

Abstract

Understanding how solvation affects structure-property and property-property relationships of drug-like molecules is crucial for de novo design, as most relevant reactions occur in aqueous environments. We have thus performed an exhaustive analysis of the recently proposed Aquamarine dataset to gain insights into the effect of solvent-molecule interaction on the quantum-mechanical (QM) properties of large drug-like molecules. Our results show that the inclusion of an implicit solvent model of water changes the values of (extensive and intensive) QM properties but it does not alter the correlations among them. Moreover, we have found that solvation can limit the identification of unique molecular conformations, with variations in specific properties being rationalized by the extent of structural changes. Δ-learning approach was used to predict solvent effects on the dipole moment μ and the many-body dispersion energy EMBD, resulting in more accurate and scalable predictive models compared to these directly trained on solvated properties. Hence, our work provides valuable insights into the effect of solvent-molecule interaction on physicochemical properties, which could assist in the development of machine-learning models for designing solvated molecules of pharmaceutical and biological relevance.

Details

Original languageEnglish
Title of host publicationAI in Drug Discovery
EditorsDjork-Arné Clevert, Michael Wand, Jürgen Schmidhuber, Kristína Malinovská, Igor V. Tetko
PublisherSpringer Science and Business Media B.V.
Pages47-57
Number of pages11
ISBN (electronic)978-3-031-72381-0
ISBN (print)978-3-031-72380-3
Publication statusPublished - 2025
Peer-reviewedYes

Publication series

SeriesLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume14894 LNCS
ISSN0302-9743

Workshop

Title1st International Workshop on AI in Drug Discovery
Abbreviated titleAIDD 2024
Conference number1
Descriptionheld as a part of the 33rd International Conference on Artificial Neural Networks, ICANN 2024
Duration19 September 2024
Website
LocationUSI-SUPSI Campus Est
CityLugano-Viganello
CountrySwitzerland

External IDs

ORCID /0000-0002-7673-3142/work/181861247

Keywords

Keywords

  • Drug-like molecules, Property prediction, Quantum-mechanical properties, Solvent effects