Crystal structure of beta-glycosides-binding protein (W177X) of ABC transporter in a closed state bound to laminaritriose (Form I) |
This entry was created with PDB-REDO version 8.06. |
From original header | |||||||
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Spacegroup | P 21 21 21 | a: 57.930 Å | b: 63.550 Å | c: 63.550 Å | α: 90.00° | β: 90.00° | γ: 90.00° |
Resolution | 2.30 Å | Reflections | 18641 | Test set | 867 (4.7%) | ||
R | 0.2026 | R-free | 0.2649 | ||||
According to PDB-REDO | |||||||
Resolution | 2.30 Å | Reflections | 18641 | Test set | 867 (4.7%) | ||
Twin | false | Radiation damage | 81 | ||||
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 | 0.2027 | 0.2009 |
R-free | 0.2658 | 0.2669 |
Bond length RMS Z-score | 1.465 | 0.541 |
Bond angle RMS Z-score | 1.211 | 0.701 |
Model quality | ||
Ramachandran plot normality | -2.312 26 | -1.462 43 |
Rotamer normality | -3.437 26 | -2.231 46 |
Coarse packing | 1.014 85 | 1.024 86 |
Fine packing | -1.638 26 | -1.511 31 |
Bump severity | 0.010 56 | 0.007 65 |
Hydrogen bond satisfaction | 0.905 57 | 0.911 65 |
WHAT_CHECK | Report | Report |
Kleywegt-like plot |
Description | Count |
---|---|
Rotamers changed | 5 |
Side chains flipped | 0 |
Waters removed | 1 |
Peptides flipped | 0 |
Chiralities fixed | 0 |
Residues fitting density better | 0 |
Residues fitting density worse | 0 |