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crystal structure of the wildtype MHV coronavirus non-structural protein nsp15 |
This entry was created with PDB-REDO version 7.00. |
From original header | |||||||
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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 |
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 | |
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Crystallographic refinement | ||
R | 0.1970 | 0.2034 |
R-free | 0.2644 | 0.2643 |
Bond length RMS Z-score | 0.459 | 0.449 |
Bond angle RMS Z-score | 0.699 | 0.650 |
Model quality | ||
Ramachandran plot normality | -3.287 10 | -1.515 31 |
Rotamer normality | -4.200 9 | -3.058 21 |
Coarse packing | -1.061 N/A | -0.891 N/A |
Fine packing | -2.319 6 | -1.478 28 |
Bump severity | 0.047 29 | 0.002 96 |
Hydrogen bond satisfaction | 0.865 24 | 0.890 41 |
WHAT_CHECK | Report | Report |
Kleywegt-like plot |
Description | Count |
---|---|
Rotamers changed | 7 |
Side chains flipped | 2 |
Waters removed | 54 |
Peptides flipped | 0 |
Chiralities fixed | 0 |
Residues fitting density better | 1 |
Residues fitting density worse | 2 |