Propedia 26: An expanded and updated database of protein-peptide interactions for machine learning applications

Propedia is a curated database of protein-peptide interactions. In this new release, we expanded the dataset to more than four times the size of the previous version and introduced a comprehensive set of new annotations. We systematically analyzed protein-peptide complexes to derive predicted physicochemical properties, solvent-accessible surface areas, interaction energies, interface residues, and interchain contacts. In addition, we applied machine learning models to predict the potential therapeutic functions of the peptides. Propedia 26 comprises 98,779 entries, including 78,148 protein–peptide pair complexes (pep-pro) and 20,631 multi-protein complexes featuring a single peptide interacting with one or more protein chains (multipro). We anticipate that this expanded and enriched resource will support the discovery and development of peptide-based drugs and biotechnological products. Propedia 26 is freely accessible at https://bioinfo.dcc.ufmg.br/propedia26.