name: pymol-visualizer description: PyMOL molecular visualization skill for structure rendering and analysis allowed-tools:
- Read
- Write
- Glob
- Grep
- Edit
- WebFetch
- WebSearch
- Bash
metadata:
version: "1.0"
category: bioinformatics
tags:
- structural-biology
- visualization
- pymol
- rendering
PyMOL Visualizer Skill
Purpose
Enable PyMOL molecular visualization for structure rendering and analysis.
Capabilities
- Protein structure visualization
- Surface representation
- Binding site highlighting
- Movie and animation generation
- Publication-quality images
- Scripted visualization pipelines
Usage Guidelines
- Select appropriate representation styles
- Highlight functionally important regions
- Generate consistent visualizations
- Create animations for presentations
- Export high-resolution images
- Document visualization parameters
Dependencies
- PyMOL
- ChimeraX
- VMD
- NGLview
Process Integration
- Protein Structure Prediction (protein-structure-prediction)
- Molecular Docking and Virtual Screening (molecular-docking)