Low-resolution structural modeling of protein interactome

• Published in: Current opinion in structural biology 2013-04, Vol.23 (2), p.198-205
• Main Author: Vakser, Ilya A
• Format: Article
• Language: English
• Subjects: Models, Molecular; Molecular Docking Simulation; Protein Binding; Protein Interaction Mapping - methods; Proteins - chemistry; Proteins - metabolism; Proteome
• ISSN: 0959-440X; 1879-033X
• DOI: 10.1016/j.sbi.2012.12.003

► Low-resolution approaches are needed for large networks of protein interactions. ► Protein docking is increasingly focusing on modeled proteins. ► Template-based modeling of protein–protein complexes is rapidly advancing. ► Almost all interactions of structurally characterized proteins have templates. Structural characterization of protein–protein interactions across the broad spectrum of scales is key to our understanding of life at the molecular level. Low-resolution approach to protein interactions is needed for modeling large interaction networks, given the significant level of uncertainties in large biomolecular systems and the high-throughput nature of the task. Since only a fraction of protein structures in interactome are determined experimentally, protein docking approaches are increasingly focusing on modeled proteins. Current rapid advancement of template-based modeling of protein–protein complexes is following a long standing trend in structure prediction of individual proteins. Protein–protein templates are already available for almost all interactions of structurally characterized proteins, and about one third of such templates are likely correct.