Computational Biophysics Workshop - San Diego, Jul. 12-16, 2010
Lectures
- Mon, 7/12: Introduction to Protein Structure and
Dynamics, K. Schulten
- Opening Remarks (pdf)
- Structure and Sequence Analysis with VMD (pdf)
- Introduction to Molecular Dynamics with NAMD (pdf)
- Case Studies: Light Harvesting Complex II (pdf), Ubiquitin (pdf)
- Tue, 7/13: Statistical Mechanics of Proteins, K. Schulten
- Analysis of Equilibrium and Non-equilibrium
Properties of Proteins with NAMD (pdf,
pdf)
- Exemplary Applications of VMD / NAMD in Modern
Research (pdf)
- Wed, 7/14: Introduction to Bioinformatics, Z. Luthey-Schulten
- Introduction to Evolutionary Concepts in
Bioinformatics: MultiSeq in VMD (pdf)
- Application of MultiSeq to Evolution of Translation
Machinery (pdf)
- Thu, 7/15: Parameters for Classical Force Fields, E. Tajkhorshid
- Introduction to Topology, Parameters, and Structure
Files (pdf)
- Examples and Applications (pdf)
- Fri, 7/16: Simulating Membrane Channels, E. Tajkhorshid
- Introduction and Examples (pdf)
- Nanotubes (pdf)