Virtual Screening of Marine Natural Compounds by Means of Chemoinformatics and CDFT-Based Computational Peptidology

• Published in: Marine drugs Vol. 18; no. 9; p. 478
• Main Authors: Flores-Holguín, Norma, Frau, Juan, Glossman-Mitnik, Daniel
• Format: Journal Article
• Language: English
• Published: Switzerland MDPI 20.09.2020; MDPI AG
• Subjects: Aquatic Organisms; bioavailability; Biological Products - chemistry; Biological Products - isolation & purification; Biological Products - pharmacokinetics; Cheminformatics - methods; chemoinformatics; Computational Biology - methods; computational peptidology; conceptual DFT; Density Functional Theory; Depsipeptides - chemistry; Depsipeptides - isolation & purification; Depsipeptides - pharmacokinetics; Models, Molecular; Quantitative Structure-Activity Relationship; theopapuamides A-D; virtual screening; bioactivity scores; conceptual DFT; virtual screening; ADME; bioavailability; theopapuamides A-D; chemoinformatics; computational peptidology
• ISSN: 1660-3397; 1660-3397
• DOI: 10.3390/md18090478

This work presents the results of a computational study of the chemical reactivity and bioactivity properties of the members of the theopapuamides A-D family of marine peptides by making use of our proposed methodology named Computational Peptidology (CP) that has been successfully considered in previous studies of this kind of molecular system. CP allows for the determination of the global and local descriptors that come from Conceptual Density Functional Theory (CDFT) that can give an idea about the chemical reactivity properties of the marine natural products under study, which are expected to be related to their bioactivity. At the same time, the validity of the procedure based on the adoption of the KID (Koopmans In DFT) technique, as well as the MN12SX/Def2TZVP/H O model chemistry is successfully verified. Together with several chemoinformatic tools that can be used to improve the process of virtual screening, some additional properties of these marine peptides are identified related to their ability to behave as useful drugs. With the further objective of analyzing their bioactivity, some useful parameters for future QSAR studies, their predicted biological targets, and the ADMET (Absorption, Distribution, Metabolism, Excretion and Toxicity) parameters related to the theopapuamides A-D pharmacokinetics are also reported.