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| Post-fusion hairpin conformation of the sars coronavirus spike glycoprotein |
| This entry was created with PDB-REDO version 8.08 using the deposited PDB model version 1.5 |
| From original header | |||||||
|---|---|---|---|---|---|---|---|
| Spacegroup | H 3 | a: 41.983 Å | b: 41.983 Å | c: 320.544 Å | α: 90.00° | β: 90.00° | γ: 120.00° |
| Resolution | 2.20 Å | Reflections | 9636 | Test set | 0 (0.0%) | ||
| R | 0.2100 | R-free | 0.2490 | ||||
| According to PDB-REDO | |||||||
| Resolution | 2.20 Å | Reflections | 9636 | Test set |
954 (9.9%)
New test set, PDB-REDO compensated for this
|
||
| Twin | true | 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 | 0.2104 | 0.1755 |
| R-free |
0.2540
R-free was considered biased, the
estimated unbiased R-free was used
|
0.2285 |
| Bond length RMS Z-score | 0.517 | 0.318 |
| Bond angle RMS Z-score | 0.579 | 0.492 |
| Model quality | ||
| Ramachandran plot normality | -2.878 18 | -1.226 49 |
| Rotamer normality | -2.077 49 | -1.588 59 |
| Coarse packing | 2.903 99 | 2.842 99 |
| Fine packing | 2.677 99 | 2.987 99 |
| Bump severity | 0.009 59 | 0.004 76 |
| Hydrogen bond satisfaction | 0.959 98 | 0.954 98 |
| WHAT_CHECK | Report | Report |
Kleywegt-like plot |
| Description | Count |
|---|---|
| Rotamers changed | 3 |
| Side chains flipped | 0 |
| Waters removed | 13 |
| Peptides flipped | 0 |
| Chiralities fixed | 0 |
| Residues fitting density better | 224 |
| Residues fitting density worse | 0 |