7KN5
Crystal structure of SARS-CoV-2 receptor binding domain complexed with nanobodies VHH E and U
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | SYNCHROTRON |
| Source details | SSRL BEAMLINE BL12-1 |
| Synchrotron site | SSRL |
| Beamline | BL12-1 |
| Temperature [K] | 100 |
| Detector technology | PIXEL |
| Collection date | 2020-07-10 |
| Detector | DECTRIS EIGER X 16M |
| Wavelength(s) | 0.97946 |
| Spacegroup name | P 1 21 1 |
| Unit cell lengths | 80.525, 91.943, 84.998 |
| Unit cell angles | 90.00, 91.15, 90.00 |
Refinement procedure
| Resolution | 38.570 - 1.870 |
| R-factor | 0.1785 |
| Rwork | 0.177 |
| R-free | 0.21330 |
| Structure solution method | MOLECULAR REPLACEMENT |
| Starting model (for MR) | 6xc7 6waq |
| RMSD bond length | 0.013 |
| RMSD bond angle | 1.188 |
| Data reduction software | HKL-2000 |
| Data scaling software | HKL-2000 |
| Phasing software | PHASER (2.8.3) |
| Refinement software | PHENIX (1.16_3549) |
Data quality characteristics
| Overall | Outer shell | |
| Low resolution limit [Å] | 50.000 | 1.900 |
| High resolution limit [Å] | 1.870 | 1.870 |
| Rmerge | 0.084 | 0.760 |
| Rpim | 0.035 | 0.452 |
| Number of reflections | 96843 | 3542 |
| <I/σ(I)> | 29 | 1.1 |
| Completeness [%] | 95.1 | 70.5 |
| Redundancy | 6.2 | 3.2 |
| CC(1/2) | 0.995 | 0.651 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, SITTING DROP | 293 | 20% PEG-3000, 0.1 M citrate pH 5.5 |
