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Title

Towards the prediction of protein interaction partners using physical docking

AuthorsWass, M.N.; Fuentes, G.; Pons, C.; Pazos, F.; Valencia, A.
KeywordsInteractome
Protein docking
Protein-protein interaction
Issue Date2011
PublisherNature Publishing Group
CitationMolecular Systems Biology 7 (2011)
AbstractDeciphering the whole network of protein interactions for a given proteome (interactome) is the goal of many experimental and computational efforts in Systems Biology. Separately the prediction of the structure of protein complexes by docking methods is a well-established scientific area. To date, docking programs have not been used to predict interaction partners. We provide a proof of principle for such an approach. Using a set of protein complexes representing known interactors in their unbound form, we show that a standard docking program can distinguish the true interactors from a background of 922 non-redundant potential interactors. We additionally show that true interactions can be distinguished from non-likely interacting proteins within the same structural family. Our approach may be put in the context of the proposed funnel-energy model; the docking algorithm may not find the native complex, but it distinguishes binding partners because of the higher probability of favourable models compared with a collection of non-binders. The potential exists to develop this proof of principle into new approaches for predicting interaction partners and reconstructing biological networks. © 2011 EMBO and Macmillan Publishers Limited.
Publisher version (URL)http://dx.doi.org/10.1038/msb.2011.3
URIhttp://hdl.handle.net/10261/108537
DOI10.1038/msb.2011.3
ISSN1744-4292
E-ISSN1744-4292
Appears in Collections:(CNB) Artículos
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