Newsletter 173
June 2, 2008

The NIH X-Ray Diffraction Interest Group

Newsletter web site: http://mcl1.ncifcrf.gov/nihxray

2008 Meeting of the American Crystallography Association
31 May - 5 June 2008, Knoxville, TN, USA

21st Congress of the International Union of Crystallography 2008
23 - 31 August 2008, Osaka, Japan

Item 1: May 2008 Publications by Members of the Group


1: Bonifacino JS, Hurley JH.
 Retromer.
Curr Opin Cell Biol. 2008 May 8. PMID: 18472259 
   
2: Batra VK, Beard WA, Shock DD, Pedersen LC, Wilson SH.
 Structures of DNA polymerase beta with active-site 
mismatches suggest a transient abasic site intermediate 
during misincorporation.
Mol Cell. 2008 May 9;30(3):315-24. PMID: 18471977
   
3: Tu C, Tan YH, Shaw G, Zhou Z, Bai Y, Luo R, Ji X.
 Impact of low-frequency hotspot mutation R282Q on the 
structure of p53 DNA-binding domain as revealed by 
crystallography at 1.54 angstroms resolution.
Acta Crystallogr D64(Pt 5):471-7. PMID: 18453682 
   
4: Canagarajah BJ, Hummer G, Prinz WA, Hurley JH.
 Dynamics of cholesterol exchange in the oxysterol binding 
protein family.
J Mol Biol. 2008 May 2;378(3):737-48. PMID: 18377932

Item 2: Tips and Tricks

David Garboczi (NIAID): Our Experiences with the Data Reduction Program XDS
Let me tell you about our experiences with the data reduction program XDS as an alternative to the more widely used software packages. It is run by a script that is detector-specific and there are examples on Wolfgang Kabsch's web site. We find it to be flexible and easy to use, which allows more experimenting with the raw X-ray data to achieve the best datasets. (Full Article)

Need an image processing software that builds three-dimensional profiles? Try XDS. For an easy start, see INTEGRATE by Kay Diederichs.

Click for Introduction and tips and tricks in Pre-crystallization modification, Crystallization, Post-crystallization treatment, Derivatization, Diffraction, Symmetry, Structure Solution, Structure Refinement, and Structure Analysis & Presentation.

Item 3: Topic Discussion

Click for previous discussions on: Twinning, Low Resolution Crystallography, PHASER, HKL2000, Parallel Protein Expression, Structural Genomics, NCS, Missing Atoms, Trends in Crystallography, and Absorption Correction.

Item 4: Dr. Zbigniew Dauter's Lectures at the NIH (2005)

Part 1: "How to read international tables?"

Part 2: "Data collection strategy" and "Twinning"

"Phasing methods - a general introduction to all methods"

Part 3: "SAD phasing, Quick halide soaking, and Radiation damage

with possible use of it for phasing"

This site is maintained by Dr. Xinhua Ji (jix@ncifcrf.gov) on the NCI-CCR-MCL server (http://mcl1.ncifcrf.gov).