Skillintermediate

AlphaFold DB (Predicted Protein Structures)

| Endpoint | Description | |----------|-------------| | `/prediction/{uniprot_accession}` | Prediction metadata by UniProt ID |

Claude Code Knowledge Pack7/10/2026

Overview

AlphaFold DB (Predicted Protein Structures)

Base URL

https://alphafold.ebi.ac.uk/api/

Auth

No auth required.

Key Endpoints

Endpoint	Description
`/prediction/{uniprot_accession}`	Prediction metadata by UniProt ID

Structure File URLs (direct download)

https://alphafold.ebi.ac.uk/files/AF-{UNIPROT}-F1-model_v4.pdb
https://alphafold.ebi.ac.uk/files/AF-{UNIPROT}-F1-model_v4.cif
https://alphafold.ebi.ac.uk/files/AF-{UNIPROT}-F1-predicted_aligned_error_v4.json

Example Calls

# Get prediction metadata for EGFR
https://alphafold.ebi.ac.uk/api/prediction/P00533

# Download PDB structure
https://alphafold.ebi.ac.uk/files/AF-P00533-F1-model_v4.pdb

# Download PAE (predicted aligned error)
https://alphafold.ebi.ac.uk/files/AF-P00533-F1-predicted_aligned_error_v4.json

Response Format

JSON for metadata. PDB/mmCIF for structures. PAE as JSON matrix.

Rate Limits

No strict limits. Use FTP/Cloud for bulk downloads (~200M+ structures).