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The complex structure of beta-1,2-glucosyltransferase from Ignavibacterium album with phenyl alpha-D-glucoside |
This entry was created with PDB-REDO version 7.36. |
From original header | |||||||
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Spacegroup | C 1 2 1 | a: 165.124 Å | b: 71.523 Å | c: 130.151 Å | α: 90.00° | β: 105.00° | γ: 90.00° |
Resolution | 1.82 Å | Reflections | 131331 | Test set | 6529 (5.0%) | ||
R | 0.1620 | R-free | 0.2030 | ||||
According to PDB-REDO | |||||||
Resolution | 1.82 Å | Reflections | 131331 | Test set | 6529 (5.0%) | ||
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 | 0.1624 | 0.1641 |
R-free | 0.2032 | 0.1975 |
Bond length RMS Z-score | 0.708 | 0.438 |
Bond angle RMS Z-score | 1.017 | 0.689 |
Model quality | ||
Ramachandran plot normality | -1.276 45 | -0.712 61 |
Rotamer normality | -1.543 67 | -0.757 82 |
Coarse packing | 0.350 78 | 0.398 79 |
Fine packing | -1.707 23 | -1.657 25 |
Bump severity | 0.007 67 | 0.004 78 |
Hydrogen bond satisfaction | 0.903 54 | 0.909 63 |
WHAT_CHECK | Report | Report |
Kleywegt-like plot |
Description | Count |
---|---|
Rotamers changed | 34 |
Side chains flipped | 0 |
Waters removed | 5 |
Peptides flipped | 0 |
Chiralities fixed | 0 |
Residues fitting density better | 0 |
Residues fitting density worse | 0 |