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| RIP2 Kinase Catalytic Domain (1 - 310) |
| This entry was created with PDB-REDO version 8.08 using the deposited PDB model version 1.2 |
| From original header | |||||||
|---|---|---|---|---|---|---|---|
| Spacegroup | P 32 2 1 | a: 132.566 Å | b: 132.566 Å | c: 107.788 Å | α: 90.00° | β: 90.00° | γ: 120.00° |
| Resolution | 2.44 Å | Reflections | 40992 | Test set | 2059 (5.0%) | ||
| R | 0.1698 | R-free | 0.2113 | ||||
| According to PDB-REDO | |||||||
| Resolution | 2.44 Å | Reflections | 40992 | Test set | 2059 (5.0%) | ||
| Twin | false | Radiation damage | 67 | ||||
| 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 | 0.1758 | 0.1628 |
| R-free | 0.2128 | 0.1975 |
| Bond length RMS Z-score | 0.780 | 0.458 |
| Bond angle RMS Z-score | 0.789 | 0.618 |
| Model quality | ||
| Ramachandran plot normality | -2.019 31 | -0.803 61 |
| Rotamer normality | -1.081 70 | -1.504 61 |
| Coarse packing | 0.057 51 | 0.134 55 |
| Fine packing | -0.831 60 | -0.426 73 |
| Bump severity | 0.005 72 | 0.004 76 |
| Hydrogen bond satisfaction | 0.921 78 | 0.932 88 |
| WHAT_CHECK | Report | Report |
Kleywegt-like plot |
| Description | Count |
|---|---|
| Rotamers changed | 10 |
| Side chains built | 13 |
| Waters removed | 65 |
| Peptides flipped | 0 |
| Chiralities fixed | 0 |
| Residues fitting density better | 5 |
| Residues fitting density worse | 1 |