Course syllabus for BIOC 530 section on X-ray Crystallography 2017

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Date      Lecture On-line Material
4 Oct
Why X-rays? Why Crystals?
• Bragg's Law
• What's in a crystal?
space group symmetry, non-crystallographic symmetry, impossible symmetry
• Practical Details
growing crystals, sample preparation,
X-ray sources, data collection
Bragg's Law (Wikipedia page) (java applet)
Escher Web Sketcher (java applet)
Penrose Tilings and the 2011 Nobel Prize
Crystal Growth 101 (PDF)
Phase Diagrams - theory of crystallization
Synchrotron Radiation Videos
What's a Synchrotron?
Student Data Collection Trip to APS
Students stay home - robot does the work
6 Oct
Reciprocal Space ⇔ Real Space
• Fourier Transforms
• Point A - Experimental data (Reciprocal Space)
• Point B - Electron density maps (Real Space)
• The Phase Problem
how to get from point A to point B?

Kevin Cowtan's Book of Fourier
Fourier Series in 1D
Java applet
non-Java applet
Fourier Series in 2D
Structure Factor Tutorial
9 Oct
Structure Determination - Solving the Phase Problem
• Molecular Replacement
• Direct Methods
• MIR (Multiple Isomorphous Replacement)
• Anomalous Scattering (MAD SAD SIRAS)

X-ray Anomalous Scattering
11 Oct
What do we learn from crystal structures?
• Model-building - what goes in, what comes out
• How to refine a model
• How not to refine a model
How to judge the quality of a crystal structure
• Criteria
• Validation tools
Frontiers of Crystallography
• Nanocrystals and femtosecond experiments
Validation Criteria
The geometry of basic protein elements
Braille for Pugilists Essay from 20 years ago but still good reading
Validation Tools
wwPDB Validation Reports
PDB Redux (a.k.a. PDB REDO)
Cool Stuff
Free Electron Laser (Stanford) (Youtube video)

Class Notes

2017 class notes (PDF) (updated 28 Sep 2017)

Homework Assignment (Email me if you have questions)

Homework Assignment (PDF) hand in Mon 22 Oct in class

Links to on-line material from Crystallography courses taught elsewhere


Ethan A Merritt (HSB 428b)