5RVP
PanDDA analysis group deposition -- Crystal structure of SARS-CoV-2 NSP3 macrodomain in complex with ZINC000000154817
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | SSRL BEAMLINE BL12-2 |
Synchrotron site | SSRL |
Beamline | BL12-2 |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2020-05-28 |
Detector | DECTRIS PILATUS3 6M |
Wavelength(s) | 0.97946 |
Spacegroup name | C 1 2 1 |
Unit cell lengths | 138.770, 29.620, 37.840 |
Unit cell angles | 90.00, 103.23, 90.00 |
Refinement procedure
Resolution | 36.840 - 1.040 |
R-factor | 0.1313 |
Rwork | 0.131 |
R-free | 0.14190 |
Structure solution method | MOLECULAR REPLACEMENT |
Data reduction software | XDS (0.94) |
Data scaling software | XSCALE |
Phasing software | PHASER (2.8.3) |
Refinement software | PHENIX (1.18.2_3874) |
Data quality characteristics
Overall | Inner shell | Outer shell | |
Low resolution limit [Å] | 36.840 | 36.840 | 1.070 |
High resolution limit [Å] | 1.040 | 4.650 | 1.040 |
Rmerge | 0.051 | 0.032 | 0.442 |
Rmeas | 0.061 | 0.038 | 0.613 |
Total number of observations | 173533 | ||
Number of reflections | 53058 | 839 | 576 |
<I/σ(I)> | 12.62 | 31.12 | 1.55 |
Completeness [%] | 73.3 | 94.7 | 10.8 |
Redundancy | 3.271 | 3.257 | 2.014 |
CC(1/2) | 0.998 | 0.998 | 0.652 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, HANGING DROP | 8.5 | 293 | 100 mM TRIS, 50 mM sodium acetate, 28% PEG 4000 |