| crystal structure of the wildtype MHV coronavirus non-structural protein nsp15 |
| This entry was created with PDB-REDO version 8.13 using the deposited PDB model version 1.4 |
|
High resolution data is missing
|
| From original header | |||||||
|---|---|---|---|---|---|---|---|
| Spacegroup | P 63 2 2 | a: 86.435 Å | b: 86.435 Å | c: 219.220 Å | α: 90.00° | β: 90.00° | γ: 120.00° |
| Resolution | 2.70 Å | Reflections | 9985 | Test set | 517 (5.2%) | ||
| R | 0.1950 | R-free | 0.2560 | ||||
| According to PDB-REDO | |||||||
| Resolution | 3.00 Å | Reflections | 9985 | Test set | 517 (5.2%) | ||
| Twin | false | Radiation damage | 75 | ||||
| PDB-REDO files | |||||||
| Re-refined and rebuilt structure | Re-refined (only) structure |
All files
(compressed) |
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| Links | |||||||
| PDBe | RCSB PDB | 3D bionotes | Proteopedia | ||||
| Original | PDB-REDO | |
|---|---|---|
| Crystallographic refinement | ||
| R | 0.1972 | 0.1894 |
| R-free | 0.2650 | 0.2592 |
| Bond length RMS Z-score | 0.806 | 0.194 |
| Bond angle RMS Z-score | 0.828 | 0.404 |
| Model quality | ||
| Ramachandran plot normality | -3.886 10 | -2.323 26 |
| Rotamer normality | -3.507 25 | -1.964 51 |
| Coarse packing | -0.281 36 | -0.245 37 |
| Fine packing | -1.457 34 | -0.894 57 |
| Bump severity | 0.047 19 | 0.003 81 |
| Hydrogen bond satisfaction | 0.850 14 | 0.593 0 |
| WHAT_CHECK | Report | Report |
Kleywegt-like plot |
| Description | Count |
|---|---|
| Rotamers changed | 7 |
| Side chains flipped | 2 |
| Waters removed | 82 |
| Peptides flipped | 0 |
| Chiralities fixed | 0 |
| Residues fitting density better | 0 |
| Residues fitting density worse | 0 |