5RGM
PanDDA analysis group deposition SARS-CoV-2 main protease fragment screen -- Crystal Structure of SARS-CoV-2 main protease in complex with PCM-0102142 (Mpro-x0708)
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 | 2020-03-03 |
| Detector | DECTRIS PILATUS 6M |
| Wavelength(s) | 0.9126 |
| Spacegroup name | C 1 2 1 |
| Unit cell lengths | 112.850, 53.140, 44.420 |
| Unit cell angles | 90.00, 102.78, 90.00 |
Refinement procedure
| Resolution | 43.320 - 2.040 |
| R-factor | 0.1765 |
| Rwork | 0.174 |
| R-free | 0.22370 |
| Structure solution method | FOURIER SYNTHESIS |
| Starting model (for MR) | 6lu7 |
| RMSD bond length | 0.007 |
| RMSD bond angle | 1.503 |
| 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] | 43.320 | 43.320 | 2.090 |
| High resolution limit [Å] | 2.040 | 9.120 | 2.040 |
| Rmerge | 0.164 | 0.034 | 1.853 |
| Rmeas | 0.192 | 0.040 | 2.176 |
| Rpim | 0.099 | 0.020 | 1.126 |
| Total number of observations | 60692 | 747 | 4407 |
| Number of reflections | 16437 | ||
| <I/σ(I)> | 6.1 | 27 | 0.7 |
| Completeness [%] | 99.9 | 98.9 | 99.8 |
| Redundancy | 3.7 | 3.7 | 3.7 |
| CC(1/2) | 0.991 | 0.998 | 0.260 |
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 |
