4PYZ
Crystal structure of the first two Ubl domains of Deubiquitylase USP7
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | APS BEAMLINE 19-ID |
Synchrotron site | APS |
Beamline | 19-ID |
Temperature [K] | 100 |
Detector technology | CCD |
Collection date | 2013-10-20 |
Detector | ADSC QUANTUM 315r |
Wavelength(s) | 0.97924 |
Spacegroup name | P 21 21 21 |
Unit cell lengths | 68.328, 103.755, 116.197 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 40.710 - 2.840 |
R-factor | 0.2452 |
Rwork | 0.244 |
R-free | 0.28690 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 2ylm |
RMSD bond length | 0.008 |
RMSD bond angle | 0.910 |
Data reduction software | HKL-3000 |
Data scaling software | SCALEPACK |
Phasing software | PHASER |
Refinement software | BUSTER-TNT (BUSTER 2.10.0) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 50.000 | 50.000 | 2.880 |
High resolution limit [Å] | 2.830 | 7.670 | 2.830 |
Rmerge | 0.095 | 0.040 | 0.936 |
Number of reflections | 19822 | ||
<I/σ(I)> | 22.2 | ||
Completeness [%] | 99.3 | 98.9 | 99.7 |
Redundancy | 6.8 | 6.4 | 6.6 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 5.6 | 291 | 15% PEG 4000, 0.2 M NH4Ac, 0.1 M NaCitrate pH5.6, vapor diffusion hanging drop, temperature 291K |