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Structure of BmVAL-1 |
This entry was created with PDB-REDO version 7.31. |
From original header | |||||||
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Spacegroup | P 43 21 2 | a: 85.790 Å | b: 85.790 Å | c: 66.670 Å | α: 90.00° | β: 90.00° | γ: 90.00° |
Resolution | 2.25 Å | Reflections | 11791 | Test set | 977 (8.3%) | ||
R | 0.1800 | R-free | 0.2140 | ||||
According to PDB-REDO | |||||||
Resolution | 2.25 Å | Reflections | 11791 | Test set | 977 (8.3%) | ||
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 | 0.1747 | 0.1768 |
R-free | 0.2014 | 0.2252 |
Bond length RMS Z-score | 0.872 | 0.335 |
Bond angle RMS Z-score | 0.856 | 0.617 |
Model quality | ||
Ramachandran plot normality | 0.216 84 | -0.790 59 |
Rotamer normality | -2.357 51 | -1.681 64 |
Coarse packing | -1.223 11 | -1.257 10 |
Fine packing | -1.579 28 | -1.154 47 |
Bump severity | 0.722 1 | 0.003 82 |
Hydrogen bond satisfaction | 0.879 28 | 0.881 29 |
WHAT_CHECK | Report | Report |
Kleywegt-like plot |
Description | Count |
---|---|
Rotamers changed | 2 |
Side chains flipped | 0 |
Waters removed | 1 |
Peptides flipped | 0 |
Chiralities fixed | 0 |
Residues fitting density better | 1 |
Residues fitting density worse | 0 |