Large-scale mapping of human protein interactome using structural complexes

• Published in: EMBO reports Vol. 13; no. 3; pp. 266 - 271
• Main Authors: Tyagi, Manoj, Hashimoto, Kosuke, Shoemaker, Benjamin A, Wuchty, Stefan, Panchenko, Anna R
• Format: Journal Article
• Language: English
• Published: Chichester, UK John Wiley & Sons, Ltd 01.03.2012; Nature Publishing Group UK; Springer Nature B.V; Nature Publishing Group
• Subjects: Binding Sites; Computational Biology - methods; Databases, Genetic; EMBO31; EMBO40; EMBO43; Humans; IBIS; Molecular biology; Multiprotein Complexes - chemistry; Protein Binding; protein complexes; Protein Interaction Domains and Motifs; Protein Interaction Mapping - methods; protein interactions; protein structures; Proteins; Proteomics; Proteomics - methods; Scientific Report; Scientific Reports; Software; protein interactions; protein structures; IBIS; protein complexes
• ISSN: 1469-221X; 1469-3178; 1469-3178
• DOI: 10.1038/embor.2011.261

Although the identification of protein interactions by high‐throughput (HTP) methods progresses at a fast pace, ‘interactome’ data sets still suffer from high rates of false positives and low coverage. To map the human protein interactome, we describe a new framework that uses experimental evidence on structural complexes, the atomic details of binding interfaces and evolutionary conservation. The structurally inferred interaction network is highly modular and more functionally coherent compared with experimental interaction networks derived from multiple literature citations. Moreover, structurally inferred and high‐confidence HTP networks complement each other well, allowing us to construct a merged network to generate testable hypotheses and provide valuable experimental leads. This study describes a new framework that utilizes experimental evidence on structural complexes, the atomic details of binding interfaces and evolutionary conservation to map the human protein interactome.