ZincBind

ZincBind catalogs zinc binding sites from the Protein Data Bank (PDB) to support analysis of zinc–protein interactions involved in catalysis, structural stability, gene expression, and immunity.

Key Features:

• Extensive Data Collection: Compiles zinc–protein interactions from the Protein Data Bank (PDB), identifying instances where zinc binds to proteins.
• Binding Site Identification and Clustering: Identifies individual zinc binding sites and clusters them based on 90% sequence identity.
• Database Size and Scope: Contains 24,992 binding sites organized into 7,489 unique clusters.
• Regular Updates: Incorporates new structural data through regular updates to the repository.

Scientific Applications:

• Structural Biology Studies: Enables exploration of how zinc contributes to protein structure and stability using curated binding-site data.
• Functional Genomics: Supports investigation of zinc’s roles in gene expression regulation by linking binding sites to protein sequences and structures.
• Drug Discovery and Development: Facilitates identification and characterization of zinc-binding proteins as potential therapeutic targets.

Methodology:

Data are compiled from the Protein Data Bank (PDB); each zinc binding site is identified and sites are clustered by 90% sequence identity.