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| Crystal structure of GH family 81 beta-1,3-glucanase from Rhizomucr miehei complexed with laminarihexaose |
| This entry was created with PDB-REDO version 8.08 using the deposited PDB model version 3.0 |
| From original header | |||||||
|---|---|---|---|---|---|---|---|
| Spacegroup | P 1 21 1 | a: 108.700 Å | b: 99.020 Å | c: 138.430 Å | α: 90.00° | β: 111.35° | γ: 90.00° |
| Resolution | 2.70 Å | Reflections | 74950 | Test set | 2005 (2.7%) | ||
| R | 0.1762 | R-free | 0.2322 | ||||
| According to PDB-REDO | |||||||
| Resolution | 2.70 Å | Reflections | 74950 | Test set | 2005 (2.7%) | ||
| Twin | false | Radiation damage | 94 | ||||
| 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 | 0.2007 | 0.1940 |
| R-free | 0.2444 | 0.2314 |
| Bond length RMS Z-score | 0.951 | 0.366 |
| Bond angle RMS Z-score | 0.932 | 0.571 |
| Model quality | ||
| Ramachandran plot normality | -2.722 20 | -2.207 27 |
| Rotamer normality | -3.028 32 | -2.764 36 |
| Coarse packing | 0.099 53 | 0.385 66 |
| Fine packing | -1.804 20 | -1.424 35 |
| Bump severity | 0.026 31 | 0.030 27 |
| Hydrogen bond satisfaction | 0.872 23 | 0.883 31 |
| WHAT_CHECK | Report | Report |
Kleywegt-like plot |
| Description | Count |
|---|---|
| Rotamers changed | 42 |
| Side chains built | 68 |
| Waters removed | 107 |
| Peptides flipped | 11 |
| Chiralities fixed | 0 |
| Residues fitting density better | 9 |
| Residues fitting density worse | 0 |