5RGI
PanDDA analysis group deposition SARS-CoV-2 main protease fragment screen -- Crystal Structure of SARS-CoV-2 main protease in complex with Z369936976 (Mpro-x0397)
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 | 112.159, 52.655, 44.500 |
| Unit cell angles | 90.00, 102.97, 90.00 |
Refinement procedure
| Resolution | 54.650 - 1.570 |
| R-factor | 0.1724 |
| Rwork | 0.170 |
| R-free | 0.21170 |
| Structure solution method | FOURIER SYNTHESIS |
| Starting model (for MR) | 6lu7 |
| RMSD bond length | 0.010 |
| RMSD bond angle | 1.566 |
| 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] | 54.650 | 54.650 | 1.600 |
| High resolution limit [Å] | 1.570 | 8.600 | 1.570 |
| Rmerge | 0.096 | 0.028 | 1.186 |
| Rmeas | 0.114 | 0.033 | 1.461 |
| Rpim | 0.060 | 0.017 | 0.842 |
| Total number of observations | 117587 | 892 | 4341 |
| Number of reflections | 35209 | ||
| <I/σ(I)> | 7.2 | 28.2 | 0.9 |
| Completeness [%] | 99.4 | 99.8 | 95.1 |
| Redundancy | 3.3 | 3.8 | 2.6 |
| CC(1/2) | 0.997 | 0.999 | 0.380 |
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 |
