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 SARS-CoV Spike protein fusion core |
| This entry was created with PDB-REDO version 8.08 using the deposited PDB model version 1.6 |
| From original header | |||||||
|---|---|---|---|---|---|---|---|
| Spacegroup | C 1 2 1 | a: 121.215 Å | b: 66.316 Å | c: 69.976 Å | α: 90.00° | β: 107.35° | γ: 90.00° |
| Resolution | 2.80 Å | Reflections | 10724 | Test set | 554 (5.2%) | ||
| R | 0.2330 | R-free | 0.2730 | ||||
| According to PDB-REDO | |||||||
| Resolution | 2.80 Å | Reflections | 10724 | Test set | 554 (5.2%) | ||
| 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 | 0.2373 | 0.3224 |
| R-free | 0.2800 | 0.3454 |
| Bond length RMS Z-score | 1.057 | 0.490 |
| Bond angle RMS Z-score | 1.057 | 0.713 |
| Model quality | ||
| Ramachandran plot normality | -9.423 0 | -6.855 1 |
| Rotamer normality | -6.405 3 | -4.845 11 |
| Coarse packing | -0.133 43 | 1.968 97 |
| Fine packing | -4.324 0 | -0.795 61 |
| Bump severity | 0.382 2 | 0.083 11 |
| Hydrogen bond satisfaction | 0.782 4 | 0.882 30 |
| WHAT_CHECK | Report | Report |
Kleywegt-like plot |
| Description | Count |
|---|---|
| Rotamers changed | 16 |
| Side chains flipped | 8 |
| Waters removed | 285 |
| Peptides flipped | 2 |
| Chiralities fixed | 0 |
| Residues fitting density better | 0 |
| Residues fitting density worse | 9 |