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| Crystal structure of beta-glycosides-binding protein (W177X) of ABC transporter in a closed state bound to laminaritriose (Form II) |
| This entry was created with PDB-REDO version 7.33. |
| From PDB header | |||||||
|---|---|---|---|---|---|---|---|
| Spacegroup | P 31 2 1 | a: 185.410 Å | b: 185.410 Å | c: 74.180 Å | α: 90.00° | β: 90.00° | γ: 120.00° |
| Resolution | 2.80 Å | Reflections | 36300 | Test set | 1703 (4.7%) | ||
| R | 0.1870 | R-free | 0.2360 | ||||
| According to PDB-REDO | |||||||
| Resolution | 2.80 Å | Reflections | 36300 | Test set | 1703 (4.7%) | 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 | ||||
| PDB | PDB-REDO | |
|---|---|---|
| Crystallographic refinement | ||
| R | 0.1876 | 0.1921 |
| R-free | 0.2372 | 0.2219 |
| Bond length RMS Z-score | 0.804 | 0.444 |
| Bond angle RMS Z-score | 1.154 | 0.656 |
| Model quality | ||
| Ramachandran plot normality | 2.744 19 | 1.995 30 |
| Rotamer normality | 3.971 26 | 2.627 46 |
| Coarse packing | 0.472 37 | 0.204 51 |
| Fine packing | 1.377 37 | 0.941 55 |
| Bump severity | 0.015 47 | 0.015 47 |
| Hydrogen bond satisfaction | 0.869 21 | 0.881 29 |
| WHAT_CHECK | Report | Report |
Kleywegt-like plot |
| Description | Count |
|---|---|
| Rotamers changed | 16 |
| Side chains flipped | 0 |
| Waters removed | 1 |
| Peptides flipped | 1 |
| Chiralities fixed | 0 |
| Residues fitting density better | 0 |
| Residues fitting density worse | 0 |