Cavity Characterization in Supramolecular Cages.

J Chem Inf Model

Laboratoire Hétérochimie Fondamentale et Appliquée (LHFA, UMR 5069), CNRS, Université Toulouse III─Paul Sabatier, 118 Route de Narbonne, Toulouse 31062, Cedex 09, France.

Published: June 2023

Confining molecular guests within artificial hosts has provided a major driving force in the rational design of supramolecular cages with tailored properties. Over the last 30 years, a set of design strategies have been developed that enabled the controlled synthesis of a myriad of cages. Recently, there has been a growing interest in involving in silico methods in this toolbox. Cavity shape and size are important parameters that can be easily accessed by inexpensive geometric algorithms. Although these algorithms are well developed for the detection of nonartificial cavities (e.g., enzymes), they are not routinely used for the rational design of supramolecular cages. In order to test the capabilities of this tool, we have evaluated the performance and characteristics of seven different cavity characterization software in the context of 22 analogues of well-known supramolecular cages. Among the tested software, KVFinder project and Fpocket proved to be the most software to characterize supramolecular cavities. With the results of this work, we aim to popularize this underused technique within the supramolecular community.

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http://dx.doi.org/10.1021/acs.jcim.3c00328DOI Listing

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