5S2N
PanDDA analysis group deposition -- Crystal Structure of SARS-CoV-2 Nsp3 macrodomain in complex with Z1787627869
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 | 2020-05-20 |
Detector | DECTRIS PILATUS 6M |
Wavelength(s) | 0.91188 |
Spacegroup name | P 43 |
Unit cell lengths | 87.954, 87.954, 39.172 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 87.950 - 1.133 |
R-factor | 0.1672 |
Rwork | 0.165 |
R-free | 0.20390 |
Structure solution method | FOURIER SYNTHESIS |
Starting model (for MR) | 6woj |
RMSD bond length | 0.010 |
RMSD bond angle | 1.110 |
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] | 87.930 | 87.930 | 1.090 |
High resolution limit [Å] | 1.070 | 5.860 | 1.070 |
Rmerge | 0.094 | 0.042 | 2.227 |
Rmeas | 0.104 | 0.046 | 2.702 |
Rpim | 0.042 | 0.018 | 1.499 |
Total number of observations | 703243 | 6004 | 18281 |
Number of reflections | 131595 | ||
<I/σ(I)> | 4.5 | 18 | 0.2 |
Completeness [%] | 99.6 | 99.8 | 97.3 |
Redundancy | 5.3 | 6.9 | 2.9 |
CC(1/2) | 0.998 | 0.998 | 0.353 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 0.1 | 293.15 | 30% PEG 3K |