alphafold-database-access
AlphaFold Database Access
Overview
AlphaFold DB is a public repository of AI-predicted 3D protein structures for over 200 million proteins, maintained by DeepMind and EMBL-EBI. Access predictions via BioPython or REST API, download coordinate files in multiple formats, analyze confidence metrics, and retrieve bulk proteome datasets via Google Cloud.
When to Use
- Retrieving AI-predicted protein structures by UniProt accession
- Downloading PDB/mmCIF coordinate files for structural analysis or docking
- Analyzing prediction confidence (pLDDT per-residue, PAE domain-level)
- Bulk-downloading entire proteome predictions via Google Cloud
- Comparing predicted structures with experimental PDB structures
- Building structural models for proteins lacking experimental data
- Identifying high-confidence binding sites for drug discovery
- For experimental structures only → use PDB directly
- For running AlphaFold predictions → use ColabFold or local AlphaFold
Prerequisites
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