DAPID: a 3D-domain annotated protein-protein interaction database.

Yung Chiang Chen*, Heng Chu Chen, Jinn-Moon Yang

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

14 Scopus citations

Abstract

DAPID is a database of domain-annotated protein interactions inferred from three-dimensional (3D) interacting domains of protein complexes in the Protein Data Bank (PDB). The DAPID data model allows users to visualize 3D interacting domains, contact residues, and molecular details of any predicted protein-protein interactions. Our model derives these interactions by utilizing a new concept, called the ''3D-domain interologs'' which is similar to ''interologs''. In S. cerevisiae, there is 18.6% overlap between our predicted protein-protein interactions and ones in the DIP database. The mean correlation coefficient of the gene expression profiles of our predicted interactions is significantly higher than that for random pairs in S. cerevisiae. In addition, we find several novel interactions which are consistent with the functions of the proteins. The DAPID currently holds 1008 3D-interacting domain pairs and 101511 predicted 3D-domain annotated protein-protein interactions. It is available online at http://gemdock.life.nctu.edu.tw/dapid.

Original languageEnglish
Pages (from-to)206-215
Number of pages10
JournalGenome informatics. International Conference on Genome Informatics
Volume17
Issue number2
DOIs
StatePublished - 1 Jan 2006

Fingerprint Dive into the research topics of 'DAPID: a 3D-domain annotated protein-protein interaction database.'. Together they form a unique fingerprint.

Cite this