Newly identified epitope Mn2 from SARS-CoV M protein complexed withHLA-A*0201 |
This entry was created with PDB-REDO version 8.11. |
From original header | |||||||
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Spacegroup | C 1 2 1 | a: 160.871 Å | b: 48.847 Å | c: 137.242 Å | α: 90.00° | β: 110.94° | γ: 90.00° |
Resolution | 2.20 Å | Reflections | 50976 | Test set | 0 (0.0%) | ||
R | 0.2050 | R-free | 0.2460 | ||||
According to PDB-REDO | |||||||
Resolution | 2.20 Å | Reflections | 50976 | Test set | 2528 (5.0%) New test set, PDB-REDO compensated for this | ||
Twin | false | Radiation damage | 42 | ||||
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 | 0.2104 | 0.1749 |
R-free | 0.2511 R-free was considered biased, the estimated unbiased R-free was used | 0.2183 |
Bond length RMS Z-score | 0.507 | 0.721 |
Bond angle RMS Z-score | 0.714 | 0.762 |
Model quality | ||
Ramachandran plot normality | -1.015 55 | 0.233 86 |
Rotamer normality | -1.800 55 | -1.396 64 |
Coarse packing | 0.258 61 | 0.442 68 |
Fine packing | -0.139 80 | 0.308 88 |
Bump severity | 0.013 49 | 0.012 51 |
Hydrogen bond satisfaction | 0.913 68 | 0.929 86 |
WHAT_CHECK | Report | Report |
Kleywegt-like plot |
Description | Count |
---|---|
Rotamers changed | 20 |
Side chains flipped | 0 |
Waters removed | 62 |
Peptides flipped | 2 |
Chiralities fixed | 0 |
Residues fitting density better | 30 |
Residues fitting density worse | 0 |