This entry is not up to date with the most recent version of PDB-REDO.
Please log in
to request an update.
CRYSTAL STRUCTURE OF THE RECEPTOR BINDING DOMAIN OF SARS-COV-2 OMICRON BA.4/5 VARIANT SPIKE PROTEIN IN COMPLEX WITH ITS RECEPTOR ACE2 |
This entry was created with PDB-REDO version 7.38. |
From original header | |||||||
---|---|---|---|---|---|---|---|
Spacegroup | P 1 21 1 | a: 85.510 Å | b: 130.010 Å | c: 101.880 Å | α: 90.00° | β: 92.64° | γ: 90.00° |
Resolution | 3.36 Å | Reflections | 31275 | Test set | 1573 (5.0%) | ||
R | 0.2310 | R-free | 0.2870 | ||||
According to PDB-REDO | |||||||
Resolution | 3.36 Å | Reflections | 31275 | Test set | 1573 (5.0%) | ||
Twin | false | Radiation damage | N/A | ||||
PDB-REDO files | |||||||
Re-refined and rebuilt structure | Re-refined (only) structure |
All files
(compressed) |
|||||
Links | |||||||
PDBe | RCSB PDB | 3D bionotes | Proteopedia |
Original | PDB-REDO | |
---|---|---|
Crystallographic refinement | ||
R | 0.2636 | 0.2699 |
R-free | 0.3029 | 0.2873 |
Bond length RMS Z-score | 0.265 | 0.384 |
Bond angle RMS Z-score | 0.611 | 0.608 |
Model quality | ||
Ramachandran plot normality | -1.978 30 | -3.368 13 |
Rotamer normality | -2.431 50 | -2.038 57 |
Coarse packing | -0.382 42 | -0.431 39 |
Fine packing | -0.885 58 | -0.734 63 |
Bump severity | 0.428 2 | 0.420 2 |
Hydrogen bond satisfaction | 0.836 10 | 0.849 13 |
WHAT_CHECK | Report | Report |
Kleywegt-like plot |
Description | Count |
---|---|
Rotamers changed | 5 |
Side chains flipped | 0 |
Waters removed | 0 |
Peptides flipped | 0 |
Chiralities fixed | 0 |
Residues fitting density better | 43 |
Residues fitting density worse | 0 |