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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 | |||||||
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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 |