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Protruding domain of GII.17 norovirus Kawasaki308 in complex with HBGA type A (triglycan) |
This entry was created with PDB-REDO version 8.04. |
From original header | |||||||
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Spacegroup | P 21 21 21 | a: 75.870 Å | b: 86.730 Å | c: 97.440 Å | α: 90.00° | β: 90.00° | γ: 90.00° |
Resolution | 1.81 Å | Reflections | 64128 | Test set | 3207 (5.0%) | ||
R | 0.1526 | R-free | 0.1829 | ||||
According to PDB-REDO | |||||||
Resolution | 1.76 Å | Reflections | 64128 | Test set | 3207 (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 | |
---|---|---|
Crystallographic refinement | ||
R | 0.1643 | 0.1642 |
R-free | 0.1930 | 0.1905 |
Bond length RMS Z-score | 0.593 | 0.398 |
Bond angle RMS Z-score | 0.641 | 0.583 |
Model quality | ||
Ramachandran plot normality | -0.390 73 | -0.636 66 |
Rotamer normality | -0.304 85 | -0.334 85 |
Coarse packing | N/A N/A | N/A N/A |
Fine packing | N/A N/A | N/A N/A |
Bump severity | 0.000 95 | 0.000 95 |
Hydrogen bond satisfaction | N/A N/A | N/A N/A |
Kleywegt-like plot |
Description | Count |
---|---|
Rotamers changed | 16 |
Side chains flipped | 12 |
Waters removed | 31 |
Peptides flipped | 0 |
Chiralities fixed | 0 |
Residues fitting density better | 0 |
Residues fitting density worse | 0 |