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Crystal Structure of P Domain from Norwalk Virus Strain Vietnam 026 in complex with Fucose |
This entry was created with PDB-REDO version 8.01. |
From original header | |||||||
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Spacegroup | C 2 2 21 | a: 80.529 Å | b: 115.905 Å | c: 267.801 Å | α: 90.00° | β: 90.00° | γ: 90.00° |
Resolution | 1.85 Å | Reflections | 99445 | Test set | 5004 (5.0%) | ||
R | 0.1640 | R-free | 0.1893 | ||||
According to PDB-REDO | |||||||
Resolution | 1.85 Å | Reflections | 99445 | Test set | 5004 (5.0%) | ||
Twin | false | Radiation damage | N/A | ||||
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 | 0.1657 | 0.1468 |
R-free | 0.1888 | 0.1719 |
Bond length RMS Z-score | 0.305 | 0.812 |
Bond angle RMS Z-score | 0.517 | 0.888 |
Model quality | ||
Ramachandran plot normality | -0.848 57 | -0.605 65 |
Rotamer normality | 0.479 96 | 0.479 96 |
Coarse packing | -1.024 15 | -0.985 16 |
Fine packing | -1.263 42 | -1.009 53 |
Bump severity | 0.001 92 | 0.001 92 |
Hydrogen bond satisfaction | 0.879 28 | 0.902 53 |
WHAT_CHECK | Report | Report |
Kleywegt-like plot |
Description | Count |
---|---|
Rotamers changed | 9 |
Side chains flipped | 0 |
Waters removed | 34 |
Peptides flipped | 0 |
Chiralities fixed | 0 |
Residues fitting density better | 53 |
Residues fitting density worse | 0 |