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Computational Biophysics Workshop - Champaign, Jul. 6-10, 2009

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


• Using VMD
  An introduction to VMD and its capabilities
  
  
• NAMD Tutorial
  An introduction to NAMD and its capabilities
   
• Evolution of Translation Class I Aminoacyl-tRNA Synthetases: tRNA complexes
  A tutorial that uses structural and sequence alignment to learn about the evolution of tRNA synthetases.
  
  
• Evolution of Translation EF-Tu: tRNA
  Provides an advanced lesson in the MultiSeq bioinformatic analysis environment.
   
• Evolution of Translation: The Ribosome
  Leads the reader through major features of the ribosome, the primary translation machinery of the cell.
   
• Stretching Deca-Alanine Tutorial
  An introduction to IMD and SMD simulations with VMD and NAMD
  
  
• Simulation of Water Permeation Through Nanotubes
  A tutorial simulating water diffusion and permeation through nanotubes
  
  
• Aquaporins Tutorial
  A tutorial that uses Bioinformatics tools within VMD to find important structural features in aquaporins from evolutionary studies
  
  
• Parameterization of a Novel Residue
  Tutorial on determining new force field parameters to describe novel system components of a new molecule
   
• Membrane Proteins Tutorial
  Step by step tutorial for setting up and running molecular dynamics simulations of membrane proteins.