Mol*: Molecular Visualization

Next-generation web-based 3D molecular visualization and analysis platform integrated throughout all Chiral applications. Mol* provides high-performance WebGL rendering capable of handling complex molecular systems from single proteins to cellular-scale assemblies, offering real-time interactive exploration with publication-quality graphics. Seamlessly embedded across all platform tools, it enables detailed structure analysis, trajectory visualization, confidence mapping, interface characterization, and binding pose comparison with sophisticated measurement and annotation capabilities essential for molecular understanding.

Official Website: https://molstar.org

Key Features

  • High-Performance Rendering: WebGL-based visualization for complex molecular systems
  • Interactive Analysis: Real-time exploration of structures and trajectories
  • Integrated Workflows: Seamlessly embedded in all platform applications
  • Publication Graphics: High-quality images and animations for presentations

Visualization Capabilities

Structure Visualization

  • Protein Structures: Ribbons, surfaces, and detailed atomic representations
  • Molecular Complexes: Multi-chain assemblies and binding interfaces
  • Small Molecules: Ligands with customizable representations
  • Trajectories: MD simulation dynamics and conformational changes

Analysis Tools

  • Distance Measurements: Atomic distances and bond lengths
  • Interface Analysis: Protein-protein and protein-ligand contacts
  • Confidence Mapping: pLDDT scores for predicted structures
  • Quality Assessment: Visual validation of docking poses

Platform Integration

Embedded in Applications

  • Boltz-2: Structure prediction confidence visualization
  • DiffDock/DiffDock-PP: Docking pose analysis and comparison
  • GROMACS: Trajectory visualization and analysis
  • All Reports: Interactive 3D views in analysis dashboards

Workflow Integration

  • Structure Analysis: Direct visualization from all applications
  • Report Integration: Embedded viewers in HTML dashboards
  • Export Options: High-resolution images for publications
  • Interactive Comparison: Side-by-side structure evaluation

Visualization Examples

Antibody-Antigen Complexes

  • Interface Analysis: Detailed binding site exploration
  • Confidence Mapping: Color-coded prediction reliability
  • Pose Comparison: Multiple docking solutions overlay
  • Publication Graphics: Professional quality output

Virtual Screening Results

  • Hit Visualization: Top compounds in binding sites
  • Binding Mode Analysis: Interaction pattern exploration
  • Comparative Studies: Multiple ligand overlay and comparison

Tutorials