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

TY - JOUR

T1 - 3did

T2 - a catalog of domain-based interactions of known three-dimensional structure

AU - Mosca, Roberto

AU - Céol, Arnaud

AU - Stein, Amelie

AU - Olivella, Roger

AU - Aloy, Patrick

PY - 2014/1/1

Y1 - 2014/1/1

N2 - 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.

AB - 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.

KW - Databases, Protein

KW - Internet

KW - Models, Molecular

KW - Protein Interaction Domains and Motifs

KW - Protein Interaction Mapping

KW - Protein Interaction Maps

U2 - 10.1093/nar/gkt887

DO - 10.1093/nar/gkt887

M3 - Journal article

C2 - 24081580

SN - 0305-1048

VL - 42

SP - D374-D379

JO - Nucleic Acids Research

JF - Nucleic Acids Research

IS - D1

ER -