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3did: a catalog of domain-based interactions of known three-dimensional structure.

ABSTRACT: The database of 3D interacting domains (3did, available online for browsing and bulk download at http://3did.irbbarcelona.org) is a catalog of protein-protein interactions for which a high-resolution 3D structure is known. 3did collects and classifies all structural templates of domain-domain interactions in the Protein Data Bank, providing molecular details for such interactions. The current version also includes a pipeline for the discovery and annotation of novel domain-motif interactions. For every interaction, 3did identifies and groups different binding modes by clustering similar interfaces into 'interaction topologies'. By maintaining a constantly updated collection of domain-based structural interaction templates, 3did is a reference source of information for the structural characterization of protein interaction networks. 3did is updated every 6 months.

SUBMITTER: Mosca R

PROVIDER: S-EPMC3965002 | biostudies-literature | 2014 Jan

REPOSITORIES: biostudies-literature

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3did: a catalog of domain-based interactions of known three-dimensional structure.

Mosca Roberto R Céol Arnaud A Stein Amelie A Olivella Roger R Aloy Patrick P

Nucleic acids research 20130929 Database issue

The database of 3D interacting domains (3did, available online for browsing and bulk download at http://3did.irbbarcelona.org) is a catalog of protein-protein interactions for which a high-resolution 3D structure is known. 3did collects and classifies all structural templates of domain-domain interactions in the Protein Data Bank, providing molecular details for such interactions. The current version also includes a pipeline for the discovery and annotation of novel domain-motif interactions. Fo ...[more]

PMID: 24081580

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