7W1S
Crystal structure of SARS-CoV-2 spike receptor-binding domain in complex with neutralizing nanobody Nb-007
Experimental procedure
| Experimental method | SINGLE WAVELENGTH |
| Source type | SYNCHROTRON |
| Source details | SSRF BEAMLINE BL18U1 |
| Synchrotron site | SSRF |
| Beamline | BL18U1 |
| Temperature [K] | 100 |
| Detector technology | PIXEL |
| Collection date | 2021-05-17 |
| Detector | DECTRIS PILATUS3 S 6M |
| Wavelength(s) | 0.97915 |
| Spacegroup name | P 41 21 2 |
| Unit cell lengths | 56.804, 56.804, 219.773 |
| Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
| Resolution | 29.651 - 1.997 |
| R-factor | 0.1999 |
| Rwork | 0.199 |
| R-free | 0.22390 |
| Structure solution method | MOLECULAR REPLACEMENT |
| Starting model (for MR) | 6yz5 6b20 |
| RMSD bond length | 0.003 |
| RMSD bond angle | 0.542 |
| Data reduction software | HKL-3000 |
| Data scaling software | HKL-3000 |
| Phasing software | PHASER |
| Refinement software | PHENIX (1.10.1_2155) |
Data quality characteristics
| Overall | Outer shell | |
| Low resolution limit [Å] | 50.000 | 2.070 |
| High resolution limit [Å] | 1.997 | 2.000 |
| Rmerge | 0.182 | 0.739 |
| Number of reflections | 25547 | 2451 |
| <I/σ(I)> | 16.5 | |
| Completeness [%] | 99.9 | |
| Redundancy | 17.4 |
Crystallization Conditions
| crystal ID | method | pH | temperature | details |
| 1 | VAPOR DIFFUSION, SITTING DROP | 291 | 0.2 M Sodium chloride, 20% w/v Polyethylene glycol 3350, pH 6.9 |
