5S3L
PanDDA analysis group deposition -- Crystal Structure of SARS-CoV-2 Nsp3 macrodomain in complex with Z54628578
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | DIAMOND BEAMLINE I04-1 |
Synchrotron site | Diamond |
Beamline | I04-1 |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2020-05-21 |
Detector | DECTRIS PILATUS 6M |
Wavelength(s) | 0.91188 |
Spacegroup name | P 43 |
Unit cell lengths | 88.130, 88.130, 39.214 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 88.130 - 1.091 |
R-factor | 0.1621 |
Rwork | 0.160 |
R-free | 0.19640 |
Structure solution method | FOURIER SYNTHESIS |
Starting model (for MR) | 6woj |
RMSD bond length | 0.010 |
RMSD bond angle | 1.090 |
Data reduction software | XDS |
Data scaling software | Aimless (0.7.4) |
Phasing software | REFMAC |
Refinement software | BUSTER (2.10.3 (20-MAY-2020)) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 88.140 | 88.140 | 1.100 |
High resolution limit [Å] | 1.080 | 5.920 | 1.080 |
Rmerge | 0.099 | 0.060 | 1.498 |
Rmeas | 0.108 | 0.066 | 1.788 |
Rpim | 0.043 | 0.026 | 0.959 |
Total number of observations | 695465 | 5772 | 19974 |
Number of reflections | 128892 | ||
<I/σ(I)> | 5.4 | 17.2 | 0.4 |
Completeness [%] | 99.7 | 100 | 97.2 |
Redundancy | 5.4 | 6.7 | 3.2 |
CC(1/2) | 0.997 | 0.995 | 0.401 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 0.1 | 293.15 | 30% PEG 3K |