5SAD
PanDDA analysis group deposition -- Crystal Structure of SARS-CoV-2 NendoU in complex with Z425449682
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 | 2020-07-07 |
| Detector | DECTRIS PILATUS 6M |
| Wavelength(s) | 0.91258 |
| Spacegroup name | P 63 |
| Unit cell lengths | 150.214, 150.214, 111.567 |
| Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
| Resolution | 130.090 - 1.961 |
| R-factor | 0.1983 |
| Rwork | 0.197 |
| R-free | 0.22270 |
| Structure solution method | FOURIER SYNTHESIS |
| Starting model (for MR) | 6x1b |
| RMSD bond length | 0.008 |
| RMSD bond angle | 1.050 |
| Data reduction software | XDS |
| Data scaling software | Aimless (0.7.4) |
| Phasing software | REFMAC |
| Refinement software | BUSTER (2.10.3 (18-SEP-2020)) |
Data quality characteristics
| Overall | Inner shell | Outer shell | |
| Low resolution limit [Å] | 130.080 | 130.080 | 1.990 |
| High resolution limit [Å] | 1.960 | 10.740 | 1.960 |
| Rmerge | 0.180 | 0.032 | 2.941 |
| Rmeas | 0.190 | 0.033 | 3.123 |
| Rpim | 0.060 | 0.010 | 1.047 |
| Total number of observations | 1007687 | 7103 | 44337 |
| Number of reflections | 102340 | ||
| <I/σ(I)> | 7 | 32.5 | 0.6 |
| Completeness [%] | 99.9 | 100 | 98.6 |
| Redundancy | 9.8 | 10.7 | 8.8 |
| CC(1/2) | 0.998 | 0.999 | 0.381 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, SITTING DROP | 5 | 293 | 0.1 M Na3 Citrate pH 5,14% w/v PEG6000 |
