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Computational Biophysics Workshop - San Francisco, Jun. 26-30, 2005

Below is a list of the tutorials used at the workshop.   Please click here to see a page with the updated versions of these tutorials.


• VMD Molecular Graphics Tutorial
  An introduction to VMD and its capabilities.
  
  
• NAMD Molecular Dynamics/Steered Molecular Dynamics Tutorial
  An introduction to NAMD and its capabilities.
  
  
• Evolution of Protein: Aspartyl-tRNA Synthetase
  A tutorial that uses structural and sequence alignment to learn about the evolution of tRNA synthetases.
  
  
• Bioinformatics and Sequence Alignment
  Introduces participants to bioinformatics, the statistical analysis of protein sequences and structures.
   
• Aquaporins Tutorial
  A tutorial that uses Bioinformatics tools within VMD to find important structural features in aquaporins from evolutionary studies.
  
  
• Topology File Tutorial
  An introduction on how to generate parameter information for a molecule based on topology information from other molecules.
  
  
• Parameterization of a Novel Residue
  Tutorial on determining new force field parameters to describe novel system components of a new molecule.
  
  
• Simuation of Water Permeation Through Nanotubes Tutorial
  A tutorial simulating water diffusion and permeation through nanotubes.
  
  
• Stretching Deca-Alanine Tutorial
  An introduction to IMD and SMD simulations with VMD and NAMD.