7ZF4
SARS-CoV-2 Omicron RBD in complex with Omi-9 Fab and nanobody F2
Experimental procedure
Experimental method | SINGLE WAVELENGTH |
Source type | SYNCHROTRON |
Source details | DIAMOND BEAMLINE I03 |
Synchrotron site | Diamond |
Beamline | I03 |
Temperature [K] | 100 |
Detector technology | PIXEL |
Collection date | 2022-01-31 |
Detector | DECTRIS EIGER2 XE 16M |
Wavelength(s) | 0.9762 |
Spacegroup name | C 2 2 21 |
Unit cell lengths | 86.574, 205.147, 123.052 |
Unit cell angles | 90.00, 90.00, 90.00 |
Refinement procedure
Resolution | 61.530 - 4.180 |
R-factor | 0.3702 |
Rwork | 0.369 |
R-free | 0.38530 |
Structure solution method | MOLECULAR REPLACEMENT |
Starting model (for MR) | 7qnw |
RMSD bond length | 0.008 |
RMSD bond angle | 1.130 |
Data reduction software | xia2 |
Data scaling software | xia2 |
Phasing software | PHASER |
Refinement software | PHENIX (1.19_4092) |
Data quality characteristics
Overall | Outer shell | |
Low resolution limit [Å] | 67.000 | 4.250 |
High resolution limit [Å] | 4.180 | 4.180 |
Rmerge | 0.728 | |
Rpim | 0.207 | |
Number of reflections | 8472 | 410 |
<I/σ(I)> | 2.5 | 0.4 |
Completeness [%] | 100.0 | |
Redundancy | 13.4 | |
CC(1/2) | 0.877 | 0.340 |
Crystallization Conditions
crystal ID | method | pH | temperature | details |
1 | VAPOR DIFFUSION, SITTING DROP | 293 | 0.1 M Sodium acetate trihydrate pH 4.5 and 30% (w/v) PEG 1500 |