1O06
Crystal structure of the Vps27p Ubiquitin Interacting Motif (UIM)
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | ROTATING ANODE |
Source details | RIGAKU |
Temperature [K] | 100 |
Detector technology | IMAGE PLATE |
Collection date | 2002-01-10 |
Detector | RIGAKU RAXIS IV |
Wavelength(s) | 1.5418 |
Spacegroup name | P 62 2 2 |
Unit cell lengths | 34.967, 34.967, 64.243 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 30.000 * - 1.450 |
R-factor | 0.18884 |
Rwork | 0.185 |
R-free | 0.22300 * |
Structure solution method | SAD |
RMSD bond length | 0.008 |
RMSD bond angle | 1.365 |
Data reduction software | DENZO |
Data scaling software | SCALEPACK |
Phasing software | SOLVE |
Refinement software | REFMAC (5.1.19) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 30.000 | 1.500 |
High resolution limit [Å] | 1.450 | 1.450 |
Rmerge | 0.034 | 0.135 |
Total number of observations | 32073 * | |
Number of reflections | 4525 | |
<I/σ(I)> | 33.5 | 10.5 |
Completeness [%] | 99.3 | 94.2 |
Redundancy | 7.1 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 7.5 * | 23 * | 0.08M sodium cacodylate, 0.16M zinc acetate, 10.4% PEG-8000, 20% glycerol, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 293.0K |
1 | VAPOR DIFFUSION, SITTING DROP | 7.5 * | 23 * | 0.08M sodium cacodylate, 0.16M zinc acetate, 10.4% PEG-8000, 20% glycerol, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 293.0K |
Crystallization Reagents in Literatures
ID | crystal ID | solution | reagent name | concentration (unit) | details |
1 | 1 | drop | Vps27p-2 | 1.6 (mM) | |
2 | 1 | drop | selenomethionine-substituted ubiquitin | 0.8 (mM) | |
3 | 1 | drop | Tris | 50 (mM) | pH7.5 |
4 | 1 | drop | 150 (mM) | ||
5 | 1 | reservoir | sodium cacodylate | 0.08 (M) | pH6.5 |
6 | 1 | reservoir | zinc acetate | 0.16 (M) | |
7 | 1 | reservoir | PEG8000 | 10.4 (%) | |
8 | 1 | reservoir | glycerol | 20 (%) |