5RHD
PanDDA analysis group deposition SARS-CoV-2 main protease fragment screen -- Crystal Structure of SARS-CoV-2 main protease in complex with SF013 (Mpro-x2193)
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 | 2020-04-03 |
| Detector | DECTRIS PILATUS 6M |
| Wavelength(s) | 0.913 |
| Spacegroup name | C 1 2 1 |
| Unit cell lengths | 112.679, 52.873, 44.557 |
| Unit cell angles | 90.00, 103.06, 90.00 |
Refinement procedure
| Resolution | 54.880 - 1.570 |
| R-factor | 0.1739 |
| Rwork | 0.172 |
| R-free | 0.20590 |
| Structure solution method | FOURIER SYNTHESIS |
| Starting model (for MR) | 6lu7 |
| RMSD bond length | 0.008 |
| RMSD bond angle | 0.970 |
| Data reduction software | XDS |
| Data scaling software | Aimless (0.7.4) |
| Phasing software | REFMAC |
| Refinement software | BUSTER (2.10.3 (29-NOV-2019)) |
Data quality characteristics
| Overall | Inner shell | Outer shell | |
| Low resolution limit [Å] | 54.870 | 54.870 | 1.600 |
| High resolution limit [Å] | 1.570 | 8.600 | 1.570 |
| Rmerge | 0.086 | 0.030 | 1.175 |
| Rmeas | 0.102 | 0.034 | 1.459 |
| Rpim | 0.053 | 0.017 | 0.853 |
| Total number of observations | 120698 | 894 | 4511 |
| Number of reflections | 35596 | ||
| <I/σ(I)> | 7.1 | 31.2 | 0.7 |
| Completeness [%] | 99.5 | 99.8 | 95.8 |
| Redundancy | 3.4 | 3.8 | 2.6 |
| CC(1/2) | 0.998 | 0.999 | 0.337 |
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 |
