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Newsletter No. 205
 October 5, 2009

Biophysical Society 54th Annual Meeting (02/20-24/2010)

SEPTEMBER 2009 PUBLICATIONS BY MEMBERS OF THE GROUP  

1: Acchione M, Lipschultz CA, Desantis ME, Shanmuganathan A, Li M, Wlodawer A,
Tarasov S, Smith-Gill SJ. Light chain somatic mutations change thermodynamics of 
binding and water coordination in the HyHEL-10 family of antibodies. Mol Immunol.
2009 Sep 23. PMID: 19781789.

2: Plested AJ, Mayer ML. AMPA receptor ligand binding domain mobility revealed by
functional cross linking. J Neurosci. 2009;29(38):11912-23. PMID: 19776277.

3: Lountos GT, Tropea JE, Cherry S, Waugh DS. Overproduction, purification and
structure determination of human dual-specificity phosphatase 14. Acta
Crystallogr D Biol Crystallogr. 2009;65:1013-20. PMID: 19770498.

4: Masaoka A, Horton JK, Beard WA, Wilson SH. DNA polymerase beta and PARP
activities in base excision repair in living cells. DNA Repair (Amst). 2009 Sep 11. 
PMID: 19748837.

5: Pletnev S, Gurskaya NG, Pletneva NV, Lukyanov KA, Chudakov DM, Martynov VI,
Popov VO, Kovalchuk MV, Wlodawer A, Dauter Z, Pletnev V. Structural basis for
phototoxicity of the genetically encoded photosensitizer killer red. J Biol Chem.
2009 Sep 8. PMID: 19737938.

6: Clore GM, Iwahara J. Theory, practice, and applications of paramagnetic
relaxation enhancement for the characterization of transient low-population
States of biological macromolecules and their complexes. Chem Rev. 2009
Sep;109:4108-39. PMID: 19522502.
TIPS AND TRICKS

(4) Crystal Screen Optimization Server

It is a GUI written by P Hubbard to calculate 2D gradients for crystal screen optimization (much like a web 2.0 version of Hampton’s “Make Tray” utility). It gives a handy print out of recipes and records for people who make their optimization trays by hand.

(3) Cryoprotectant Database

(2) CCP4 wiki on Crystallization of Protein-DNA Complexes

(1) Hampton Research Crystal Screens 1 & 2 as Additives

Annie Hassell and co-workers at Glaxo Smithkline have had lots of success using the Hampton Research Crystal Screens (HRCS) 1 & 2 as additives. Sometimes these improve the crystal quality whereas the 96 Additive Screen does not. What they have not had a great deal of success with is determining which component of the added reagent is responsible for improving the crystal quality. Does not appear that it is just one component in many cases.

They generally use 5% of the sparse matrix screen added to the well. When they get a hit, they further optimize the concentration of the reagent to add to the well.

ARCHIVE: Introduction, Pre-crystallization, Crystallization, Post-crystallization, Derivatization, Cryoprotection, Diffraction, Symmetry, Structure Solution, Structure Refinement, Structure Analysis & Presentation.

TOPIC DISCUSSION - Suggested Topics?

ARCHIVE: Test-set-and-R-free, Twinning, Low Resolution Crystallography, PHASER, HKL2000, Parallel Expression, Structural Genomics, NCS, Missing Atoms, Trends in Crystallography,  Absorption Correction.
DR. ZBIGNIEW DAUTER'S LECTURE 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"
Copyright © NIH X-Ray Diffraction Group                       Maintained by Dr. Xinhua Ji
on the NIH-NCI-CCR-MCL server (http://mcl1.ncifcrf.gov)