5SMM
PanDDA analysis group deposition of SARS-CoV-2 main protease ligands identified from single sequence-guideddeep generative framework -- Crystal structure of SARS-CoV-2 main protease in complex with Z1633315555 (Mpro-IBM0058)
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 | 2020-11-26 |
| Detector | DECTRIS PILATUS 6M |
| Wavelength(s) | 0.91263 |
| Spacegroup name | C 1 2 1 |
| Unit cell lengths | 113.124, 53.041, 44.382 |
| Unit cell angles | 90.00, 102.90, 90.00 |
Refinement procedure
| Resolution | 55.130 - 1.580 |
| R-factor | 0.1926 |
| Rwork | 0.191 |
| R-free | 0.23110 |
| Structure solution method | FOURIER SYNTHESIS |
| Starting model (for MR) | 6lu7 |
| RMSD bond length | 0.007 |
| RMSD bond angle | 1.439 |
| Data reduction software | XDS |
| Data scaling software | Aimless (0.7.7) |
| Phasing software | REFMAC |
| Refinement software | REFMAC (5.8.0267) |
Data quality characteristics
| Overall | Inner shell | Outer shell | |
| Low resolution limit [Å] | 55.140 | 55.140 | 1.610 |
| High resolution limit [Å] | 1.580 | 8.650 | 1.580 |
| Rmerge | 0.097 | 0.027 | 1.490 |
| Rmeas | 0.117 | 0.032 | 1.836 |
| Rpim | 0.064 | 0.017 | 1.060 |
| Total number of observations | 112236 | 792 | 5034 |
| Number of reflections | 35161 | ||
| <I/σ(I)> | 12.2 | 84.2 | 0.8 |
| Completeness [%] | 99.7 | 99.8 | 99.1 |
| Redundancy | 3.2 | 3.4 | 2.9 |
| CC(1/2) | 0.997 | 0.999 | 0.269 |
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 |
