alphafold-predictor

name	alphafold-predictor
description	AlphaFold protein structure prediction skill with confidence assessment and model analysis
allowed-tools	["Read","Write","Glob","Grep","Edit","WebFetch","WebSearch","Bash"]
metadata	{"version":"1.0","category":"bioinformatics","tags":["structural-biology","structure-prediction","alphafold","protein"]}
graph	{"domains":["domain:bioinformatics"],"specializations":["specialization:biomedical-informatics"],"skillAreas":["skill-area:machine-learning-frameworks","skill-area:python-data-pipelines","skill-area:data-analysis"],"workflows":["workflow:experiment-design"],"roles":["role:research-scientist","role:biomedical-engineer"]}

AlphaFold Predictor Skill

Purpose

Enable AlphaFold protein structure prediction with confidence assessment and model analysis.

Capabilities

• Structure prediction execution
• pLDDT confidence scoring
• PAE analysis
• Multi-chain complex prediction
• Template-based refinement
• ColabFold integration

Usage Guidelines

• Review pLDDT scores for prediction confidence
• Analyze PAE for domain boundaries
• Predict complexes for multi-protein assemblies
• Use templates when homologs exist
• Validate predictions against experimental data
• Document model versions and parameters

Dependencies

• AlphaFold2
• ColabFold
• RoseTTAFold

Process Integration

• Protein Structure Prediction (protein-structure-prediction)
• Molecular Docking and Virtual Screening (molecular-docking)