6NJD
Crystal structure of RavD (residues 1-200) from Legionella pneumophila (strain Corby) complexed with Met-1 linked di-ubiquitin
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | SSRF BEAMLINE BL18U1 |
Synchrotron site | SSRF |
Beamline | BL18U1 |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2017-06-18 |
Detector | DECTRIS PILATUS 6M |
Wavelength(s) | 0.97736 |
Spacegroup name | P 21 21 2 |
Unit cell lengths | 77.740, 102.090, 90.920 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 50.010 - 2.050 |
R-factor | 0.2142 |
Rwork | 0.212 |
R-free | 0.24580 |
Structure solution method | SAD |
RMSD bond length | 0.010 |
RMSD bond angle | 1.388 |
Data reduction software | XDS |
Data scaling software | XSCALE |
Phasing software | PHENIX |
Refinement software | REFMAC (5.8.0135) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 50.010 | 50.010 | 2.170 |
High resolution limit [Å] | 2.050 | 6.090 | 2.050 |
Rmerge | 0.056 | 0.044 | 0.568 |
Rmeas | 0.061 | 0.048 | 0.613 |
Number of reflections | 87704 | 3346 | 13771 |
<I/σ(I)> | 17.67 | 38.87 | 3.6 |
Completeness [%] | 100.0 | 99.7 | 100 |
Redundancy | 6.975 | 6.83 | 7.033 |
CC(1/2) | 0.999 | 0.998 | 0.934 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 8.5 | 289 | 100 mM Tris-HCl, pH 8.5, 200 mM magnesium chloride and 20% PEG3350 |