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The Crystal Structure of the Phosphodiesterase 2A Catalytic Domain |
This entry was created with PDB-REDO version 8.01. |
From original header | |||||||
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Spacegroup | C 2 2 21 | a: 90.033 Å | b: 102.549 Å | c: 81.598 Å | α: 90.00° | β: 90.00° | γ: 90.00° |
Resolution | 1.70 Å | Reflections | 37389 | Test set | 3413 (9.1%) | ||
R | 0.2060 | R-free | 0.2370 | ||||
According to PDB-REDO | |||||||
Resolution | 1.75 Å | Reflections | 37389 | Test set | 3413 (9.1%) | ||
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 | 0.1963 | 0.1690 |
R-free | 0.2259 | 0.2063 |
Bond length RMS Z-score | 0.218 | 0.453 |
Bond angle RMS Z-score | 0.584 | 0.703 |
Model quality | ||
Ramachandran plot normality | -0.333 72 | 0.950 94 |
Rotamer normality | -1.134 75 | -0.189 90 |
Coarse packing | 1.952 99 | 2.070 99 |
Fine packing | -1.073 50 | -0.435 72 |
Bump severity | 0.009 61 | 0.011 56 |
Hydrogen bond satisfaction | 0.907 60 | 0.902 53 |
WHAT_CHECK | Report | Report |
Kleywegt-like plot |
Description | Count |
---|---|
Rotamers changed | 8 |
Side chains flipped | 13 |
Waters removed | 12 |
Peptides flipped | 0 |
Chiralities fixed | 0 |
Residues fitting density better | 26 |
Residues fitting density worse | 0 |