Appendix D: Protein Structure Visualization Tools

The following tools allow visualization of macromolecular structures in PDB format (i.e. experimental structures and models).

• DeepView/Swiss-PdbViewer: Software for protein structure analysis and visualization.
• NGL: Javascript based molecular viewer.
• MolScript: A program for creating schematic or detailed molecular graphics images.
• Mol*: Web-based opensource toolkit for visualisation and analysis of large-scale molecular data.
• OpenStructure: Opensource computational structural biology framework with integrated structure viewer.
• POV-Ray: Opensource raytracing software.
• PyMol: A Python based opensource viewer for visualization of macromolecular structures.
• UCSF Chimera: An extensible program for interactive visualization and analysis of molecular structures.
• VMD: VMD is a molecular visualization program for displaying, animating, and analyzing large biomolecular systems using 3-D graphics and built-in scripting.