PAE Viewer

PAE Viewer visualizes predicted aligned error (PAE) for multimer protein structure predictions and integrates crosslinking data to assess confidence in AlphaFold-Multimer models.

Key Features:

• Interactive 3D Visualization: Provides a 3D display of predicted protein complexes to map PAE values onto structural models.
• Predicted Aligned Error (PAE) Integration: Displays and highlights PAE values to indicate alignment uncertainty across residues and chains.
• Crosslink Data Integration: Integrates experimental cross-linking data with predicted structures to support interpretation of model confidence.
• Multimer model support: Supports multimer structure predictions and is compatible with outputs from AlphaFold-Multimer.

Scientific Applications:

• Quality Assessment: Evaluate the reliability of predicted protein complexes by examining PAE values alongside crosslinking data.
• Structural Interpretation: Aid interpretation of complex architectures and inter-chain relationships in predicted multimer models.
• Experimental Validation: Assist validation of computational models by comparison with experimental cross-linking data.

Methodology:

Combines computational structure predictions with experimental crosslinking data and visualizes prediction quality using the PAE metric.