Mis à jour: 12/13/2012

Course timetable - 2012

• Crystal Symmetry new 17/09/2012
• X-ray Diffraction - I new 21/09/2012
• X-ray Diffraction - II new 27/09/2012
• Protein crystallization new 28/09/2012
• X-ray Sources new 30/09/2012
• SAXS new 08/10/2012
• Space_group
• Escher Web Sketch (official M.C. Escher symmetry sketches )
• Bragg's Law and Diffraction
• Fourier transform
• Crystal Structure Diffraction
  • The interactive course of crystallography
  • --> Crystallographic applets obtained from http://escher.epfl.ch/eCrystallography/ <--
• Notes on Electron Density, Phase Problem & Intensity Measurement
• Review of Diffraction Basics

Protein crystallization
• How to grow protein crystals
• Pictorial Library of Crystallization Drop Phenomena
• Atomic Force Microscopy(and see links therein)
  • Crystals at Birth
  • Growth of 3D Protein Molecules- Basics
  • Nucleation and Growth of Macromolecules

Cryo-crystallography
• How does Radiation Damage in Protein Crystals depend on X-ray Dose
• Heat transfer from protein crystals

X-ray Sources
• Synchrotron crystallography overview
• Strategies for macromolecular synchrotron crystallograph

Getting started
• 1 2 3 shoot
• Cryo-Notes from Bernard Rupp

Phasing
• The Patterson by Patterson
• Isomorphous Replacement new 12/10/2012
• Anomalous Scattering and Molecular Replacement new 12/10/2012

Modelling
• Phase Improvement, Model Building & Refinement new 12/10/2012

Links

• Ewald Sphere and Diffraction
• Protein Crystallographic Data Movies

1. Nuclear Magnetic Resonance Spectroscopy new 19/10/2012
2. NMR Relaxation new 19/10/2012
3. NMR Indirect Spin-Spin Coupling
4. NMR Parameters
5. Magnetization Transfer
6. NMR Pulse Sequences I
7. NMR Pulse Sequences II
8. NMR Spectroscopy Studies of Nucleic Acids
9. NMR Sequential Assignment Strategies new 15/11/2012
10. NMR Structure Calculations new 21/11/2012
11. NMR Chemical Exchange
12. Structure-based Drug Design

• Potential Energy Functions new 2/12/2012
• Energy Minimization & Molecular Dynamics new 2/12/2012
• Free Energy & Applications new 2/12/2012

The seminars will be held on Friday December 3rd, 2010 in D-560 at 11H30-15H00 . A Powerpoint or acetate presentation would be appreciated. Your presentation should last no more than 15 minutes leaving time for 5 minutes of questions. Please focus your presentation on the technique used in the article that you have chosen - whenever possible be ready to justify the use of this technique, why it was used and its advantages in the context of its application. Please consult the evaluation profile for which presentation has been assigned to you from the list of seminar topics.

This year instead of an oral presentation, each student will choose from a list of topics and submit a term paper summarizing the technical concepts in their chosen reference. The due date is January 11th, 2013 and it must be submitted electronically.

A recommended format of the term paper should include a title page, an abstract, an introduction to place the importance of the technique in relation to its field, a description of the method, a summary of the results obtained by the method, and importantly your analysis of the method of why it was used and its advantages in the context of its application, and any pertinent references to support your contentions. The acceptable length of the term paper is 10 pages maximum including any figures and tables but excluding the cover page and references. The term paper should use a 12 pt font and have a 2 cm margin all around.

Please append the PDF file of your chosen article to your term paper. Please contact me if you cannot access a PDF copy of your chosen article.

1. Crystallography 101
2. Crystallographic facts
3. Protein Crystallography on the Web

1. Principles of Protein Crystallography by J. Drenth, Springer-Verlag Inc., New York
2. Practical Protein Crystallography by D. McRee, Academic Press Inc., San Diego