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Graph theory and graph mining constitute rich fields of computationaltechniques to study the structures, topologies and properties of graphs. Thesetechniques constitute a good asset in bioinformatics if there exist efficientmethods for transforming biological data into graphs. In this paper, we presentProtein Graph Repository (PGR), a novel database of protein 3D-structurestransformed into graphs allowing the use of the large repertoire of graphtheory techniques in protein mining. This repository contains graphrepresentations of all currently known protein 3D-structures described in theProtein Data Bank (PDB). PGR also provides an efficient online converter ofprotein 3D-structures into graphs, biological and graph-based description,pre-computed protein graph attributes and statistics, visualization of eachprotein graph, as well as graph-based protein similarity search tool. Suchrepository presents an enrichment of existing online databases that will helpbridging the gap between graph mining and protein structure analysis. PGR dataand features are unique and not included in any other protein database. Therepository is available at http://wjdi.bioinfo.uqam.ca/.

PGR: A Graph Repository of Protein 3D-Structures