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| Unlocking the structural features for the exo-xylobiosidase activity of an unusual GH11 member identified in a compost-derived consortium-xylobiose complex |
| This entry was created with PDB-REDO version 7.36 using the deposited PDB model |
| From original header | |||||||
|---|---|---|---|---|---|---|---|
| Spacegroup | P 43 21 2 | a: 55.958 Å | b: 55.958 Å | c: 163.276 Å | α: 90.00° | β: 90.00° | γ: 90.00° |
| Resolution | 1.20 Å | Reflections | 82157 | Test set | 4194 (5.1%) | ||
| R | 0.1800 | R-free | 0.2030 | ||||
| According to PDB-REDO | |||||||
| Resolution | 1.20 Å | Reflections | 82157 | Test set | 4194 (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 | 0.1879 | 0.1446 |
| R-free | 0.2063 | 0.1700 |
| Bond length RMS Z-score | 0.273 | 0.457 |
| Bond angle RMS Z-score | 0.651 | 0.748 |
| Model quality | ||
| Ramachandran plot normality | -0.830 58 | -0.942 55 |
| Rotamer normality | -0.633 84 | 0.065 93 |
| Coarse packing | -0.074 58 | -0.073 58 |
| Fine packing | -1.594 28 | -1.521 31 |
| Bump severity | 0.023 36 | 0.021 38 |
| Hydrogen bond satisfaction | 0.902 53 | 0.894 43 |
| WHAT_CHECK | Report | Report |
Kleywegt-like plot |
| Description | Count |
|---|---|
| Rotamers changed | 1 |
| Side chains flipped | 0 |
| Waters removed | 70 |
| Peptides flipped | 0 |
| Chiralities fixed | 0 |
| Residues fitting density better | 123 |
| Residues fitting density worse | 0 |