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Crystal Structure of DC-SIGN carbohydrate recognition domain complexed with Man4 |
This entry was created with PDB-REDO version 7.32. |
From original header | |||||||
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Spacegroup | P 43 | a: 55.660 Å | b: 55.660 Å | c: 53.330 Å | α: 90.00° | β: 90.00° | γ: 90.00° |
Resolution | 1.55 Å | Reflections | 23752 | Test set | 1219 (5.1%) | ||
R | 0.2230 | R-free | 0.2550 | ||||
According to PDB-REDO | |||||||
Resolution | 1.55 Å | Reflections | 23752 | Test set | 1219 (5.1%) | ||
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 | 0.2184 | 0.1412 |
R-free | 0.2389 | 0.1691 |
Bond length RMS Z-score | 0.237 | 0.391 |
Bond angle RMS Z-score | 0.584 | 0.631 |
Model quality | ||
Ramachandran plot normality | -0.740 61 | 0.251 85 |
Rotamer normality | -1.109 75 | 0.686 97 |
Coarse packing | -0.489 37 | -0.440 39 |
Fine packing | -1.939 16 | -1.534 30 |
Bump severity | 0.013 51 | 0.013 51 |
Hydrogen bond satisfaction | 0.870 22 | 0.862 18 |
WHAT_CHECK | Report | Report |
Kleywegt-like plot |
Description | Count |
---|---|
Rotamers changed | 2 |
Side chains flipped | 0 |
Waters removed | 32 |
Peptides flipped | 0 |
Chiralities fixed | 0 |
Residues fitting density better | 92 |
Residues fitting density worse | 0 |