The crystal structure of Glycoside Hydrolase BglX inactive mutant D286N from P. aeruginosa in complex with xylotriose |
This entry was created with PDB-REDO version 8.07. |
From original header | |||||||
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Spacegroup | P 1 | a: 70.955 Å | b: 73.668 Å | c: 73.668 Å | α: 65.55° | β: 73.46° | γ: 69.66° |
Resolution | 1.80 Å | Reflections | 123923 | Test set | 6198 (5.0%) | ||
R | 0.1628 | R-free | 0.1965 | ||||
According to PDB-REDO | |||||||
Resolution | 1.80 Å | Reflections | 123923 | Test set | 6198 (5.0%) | ||
Twin | false | Radiation damage | 91 | ||||
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 | |
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Crystallographic refinement | ||
R | 0.1634 | 0.1569 |
R-free | 0.1969 | 0.1878 |
Bond length RMS Z-score | 1.370 | 0.457 |
Bond angle RMS Z-score | 1.012 | 0.644 |
Model quality | ||
Ramachandran plot normality | -0.687 64 | -0.271 76 |
Rotamer normality | -0.658 79 | 0.046 90 |
Coarse packing | 0.825 81 | 0.763 79 |
Fine packing | -1.187 45 | -1.105 49 |
Bump severity | 0.007 65 | 0.008 62 |
Hydrogen bond satisfaction | 0.898 47 | 0.900 50 |
WHAT_CHECK | Report | Report |
Kleywegt-like plot |
Description | Count |
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Rotamers changed | 21 |
Side chains flipped | 0 |
Waters removed | 75 |
Peptides flipped | 0 |
Chiralities fixed | 0 |
Residues fitting density better | 0 |
Residues fitting density worse | 0 |