5RGK
PanDDA analysis group deposition SARS-CoV-2 main protease fragment screen -- Crystal Structure of SARS-CoV-2 main protease in complex with Z1310876699 (Mpro-x0426)
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 | 2020-02-27 |
| Detector | DECTRIS PILATUS 6M |
| Wavelength(s) | 0.9126 |
| Spacegroup name | C 1 2 1 |
| Unit cell lengths | 112.522, 52.774, 44.716 |
| Unit cell angles | 90.00, 102.97, 90.00 |
Refinement procedure
| Resolution | 54.830 - 1.430 |
| R-factor | 0.176 |
| Rwork | 0.174 |
| R-free | 0.20990 |
| Structure solution method | FOURIER SYNTHESIS |
| Starting model (for MR) | 6lu7 |
| RMSD bond length | 0.010 |
| RMSD bond angle | 1.632 |
| Data reduction software | XDS |
| Data scaling software | Aimless (0.7.4) |
| Phasing software | REFMAC |
| Refinement software | REFMAC (5.8.0238) |
Data quality characteristics
| Overall | Inner shell | Outer shell | |
| Low resolution limit [Å] | 54.800 | 54.800 | 1.450 |
| High resolution limit [Å] | 1.430 | 7.830 | 1.430 |
| Rmerge | 0.078 | 0.032 | 1.368 |
| Rmeas | 0.093 | 0.037 | 1.783 |
| Rpim | 0.050 | 0.019 | 1.126 |
| Total number of observations | 142323 | 1147 | 4293 |
| Number of reflections | 45974 | ||
| <I/σ(I)> | 7.4 | 28.1 | 0.6 |
| Completeness [%] | 97.3 | 99.8 | 87.3 |
| Redundancy | 3.1 | 3.6 | 2.1 |
| CC(1/2) | 0.997 | 0.999 | 0.315 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, SITTING DROP | 6.5 | 293.15 | 15% PEG 4K, 5% DMSO, 0.1M MES pH 6.5 |
