3DID database of 3D interacting domains

3DID database of 3D interacting domains catalogs high-resolution three-dimensional protein–protein and domain–peptide interactions to provide atomic-level structural interface data derived from X-ray crystallography, NMR spectroscopy, and cryo-electron microscopy.

Key Features:

• High-Resolution Structural Data: Compiles protein–protein and domain–peptide interactions with three-dimensional structures determined by X-ray crystallography, NMR spectroscopy, and cryo-electron microscopy.
• Interface Residue Presentation: Reports specific interface residues involved in binding, including individual interaction types and global domain interfaces where domains or peptides bind.
• Novel Domain-Peptide Interactions: Incorporates novel domain–peptide interactions identified using a method developed by the associated research team.

Scientific Applications:

• Protein Engineering: Provides detailed interaction interfaces to guide design and modification of proteins.
• Drug Discovery: Supplies atomic-level interaction information to support identification and optimization of targets and lead compounds.
• Structural Biology Research: Enables study of molecular recognition mechanisms and binding specificity between proteins and peptides.
• Systems Biology: Supplies interaction data that can be integrated into models of biological networks to improve accuracy.

Methodology:

Curates high-resolution structural data from public databases and employs computational methods to identify and categorize interface residues; novel domain–peptide interactions are derived using a method developed by the research team.