Newsletter 176
July 14, 2008

The NIH X-Ray Diffraction Interest Group

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

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

Item 1: June 2008 Publications by Members of the Group


1: Raman J, Fritz TA, Gerken TA, Jamison O, Live D, Lu M, Tabak LA.
 The catalytic and lectin domains of UDP- GalNAc :Polypeptide
alpha-N-Acetylgalactosaminyltransferase function in concert to 
direct glycosylation site selection.
J Biol Chem. 2008 Jun 18. PMID: 18562306 
   
2: Plested AJ, Vijayan R, Biggin PC, Mayer ML.
 Molecular basis of kainate receptor modulation by sodium.
Neuron. 2008 Jun 12;58(5):720-35. PMID: 18549784 
   
3: Im YJ, Hurley JH.
 Integrated structural model and membrane targeting mechanism of 
the human ESCRT-II complex.
Dev Cell. 2008 Jun;14(6):902-13. PMID: 18539118 
   
4: Li M, Gustchina A, Alexandratos J, Wlodawer A, Wünschmann S, 
Kepley CL, Chapman MD, Pomés A.
 Crystal structure of a dimerized cockroach allergen Bla g 2 
complexed with a monoclonal antibody.
J Biol Chem. 2008 Jun 2. PMID: 18519566

Item 2: Tips and Tricks

phenix.refine: crystallographic structure refinement in PHENIX

Pavel V. Afonine, Ralf W. Grosse-Kunstleve, Peter H. Zwart, Thomas C. Terwilliger, Nigel W. Moriarty & Paul D. Adams

A combination of highly efficient programming tools and new or improved crystallographic algorithms provides a very high level of automation and robustness in structure refinement. Their implementation in phenix.refine – state-of-the-art refinement module of PHENIX package – resulted in a complete set of tools that cover most of refinement needs and scenarios, such as: ... (full article).

Pavel V. Afonine's recent lecture on phenix.refine (click here).

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).