7VNB
Crystal structure of the SARS-CoV-2 RBD in complex with a human single domain antibody n3113
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | SSRF BEAMLINE BL17U1 |
Synchrotron site | SSRF |
Beamline | BL17U1 |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2020-06-07 |
Detector | DECTRIS PILATUS 6M |
Wavelength(s) | 0.979 |
Spacegroup name | H 3 |
Unit cell lengths | 146.210, 146.210, 93.080 |
Unit cell angles | 90.00, 90.00, 120.00 |
Refinement procedure
Resolution | 42.560 - 2.270 |
R-factor | 0.1783 |
Rwork | 0.177 |
R-free | 0.20330 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 6lzg |
RMSD bond length | 0.008 |
RMSD bond angle | 0.954 |
Data reduction software | XDS |
Data scaling software | XDS |
Phasing software | PHASER |
Refinement software | PHENIX (1.15.2_3472) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 73.110 | 2.330 |
High resolution limit [Å] | 2.270 | 2.270 |
Number of reflections | 34264 | 2535 |
<I/σ(I)> | 11.1 | |
Completeness [%] | 99.9 | |
Redundancy | 10.4 | |
CC(1/2) | 0.997 | 0.798 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 289 | 4.3M sodium chloride and 0.1M HEPES, pH 7.5 |