Principles of Protein Structure, Comparative Protein Modelling and Visualisation

Nicolas Guex and Manuel C. Peitsch

GlaxoWellcome Experimental Research S.A.
16, chemin des Aulx
1228 Plan-les-Ouates / Switzerland
ng45767@GlaxoWellcome.co.uk,mcp13936@GlaxoWellcome.co.uk

The 5 first chapters of this course are adapted from the Internet course on protein structure by

J. Cooper, J. Walshaw & Alan Mills

The following chapters are by MC. Peitsch and N.Guex.

Part I: Introduction to Protein structure

Chapter 1: Secondary Structure and Backbone Conformation
Chapter 2: Super-secondary structure
Chapter 3: Side Chain Conformation
Chapter 4: Tertiary Protein Structure and folds
SCOP and CATH: Short description of Fold Classification Servers
Chapter 5: Quaternary Structure

Part II: Protein modelling

Chapter 6: Comparative protein modelling
Chapter 7: De novo modelling of G-protein coupled receptors

Part III: Model quality

Chapter 8: How to evaluate the quality of a model

Part IV: The SWISS-MODEL modelling environment

Chapter 9: Using the SWISS-MODEL server
Chapter 10: The Swiss-PdbViewer

Part V: Examples and case studies

Chapter 11: Autopsy of a PDB file
Chapter 12: Case studies

Appendices

Appendix A: Recommended reading
Appendix B: A few useful URLs