7KN6
Crystal structure of SARS-CoV-2 receptor binding domain complexed with nanobody VHH V and antibody Fab CC12.3
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 | C 1 2 1 |
Unit cell lengths | 187.357, 90.146, 57.261 |
Unit cell angles | 90.00, 104.36, 90.00 |
Refinement procedure
Resolution | 48.270 - 2.550 |
R-factor | 0.1954 |
Rwork | 0.193 |
R-free | 0.23850 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 6xc7 7jmw 6waq |
RMSD bond length | 0.004 |
RMSD bond angle | 0.802 |
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 | 2.590 |
High resolution limit [Å] | 2.550 | 2.550 |
Rmerge | 0.164 | 0.765 |
Rpim | 0.074 | 0.485 |
Number of reflections | 25515 | 633 |
<I/σ(I)> | 8.9 | 1 |
Completeness [%] | 98.0 | |
Redundancy | 5.5 | |
CC(1/2) | 0.980 | 0.540 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 293 | 20% PEG 3350, 0.2 M Na2HPO4, pH 9.1 |