alphafold-database

SKILL.md

AlphaFold Database

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 structure predictions with confidence metrics, download coordinate files, retrieve bulk datasets, and integrate predictions into computational workflows.

When to Use This Skill

This skill should be used when working with AI-predicted protein structures in scenarios such as:

Retrieving protein structure predictions by UniProt ID or protein name

Downloading PDB/mmCIF coordinate files for structural analysis

Analyzing prediction confidence metrics (pLDDT, PAE) to assess reliability

Accessing bulk proteome datasets via Google Cloud Platform

Comparing predicted structures with experimental data

Performing structure-based drug discovery or protein engineering

Building structural models for proteins lacking experimental structures

Integrating AlphaFold predictions into computational pipelines