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| Rubisco from Arabidopsis thaliana |
| This entry was created with PDB-REDO version 8.04 using the deposited PDB model version 1.4 |
| From original header | |||||||
|---|---|---|---|---|---|---|---|
| Spacegroup | I 4 | a: 111.860 Å | b: 111.860 Å | c: 197.710 Å | α: 90.00° | β: 90.00° | γ: 90.00° |
| Resolution | 1.50 Å | Reflections | 192721 | Test set | 9636 (5.0%) | ||
| R | 0.1358 | R-free | 0.1524 | ||||
| According to PDB-REDO | |||||||
| Resolution | 1.50 Å | Reflections | 192721 | Test set | 9636 (5.0%) | ||
| Twin | true | 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 | 0.1346 | 0.1000 |
| R-free | 0.1485 | 0.1252 |
| Bond length RMS Z-score | 0.561 | 0.512 |
| Bond angle RMS Z-score | 0.775 | 0.690 |
| Model quality | ||
| Ramachandran plot normality | -1.747 36 | -1.266 48 |
| Rotamer normality | -1.784 55 | -0.655 79 |
| Coarse packing | N/A N/A | N/A N/A |
| Fine packing | N/A N/A | N/A N/A |
| Bump severity | 0.038 22 | 0.101 10 |
| Hydrogen bond satisfaction | N/A N/A | N/A N/A |
| WHAT_CHECK | Report | Report |
Kleywegt-like plot |
| Description | Count |
|---|---|
| Rotamers changed | 25 |
| Side chains built | 0 |
| Waters removed | 30 |
| Peptides flipped | 0 |
| Chiralities fixed | 0 |
| Residues fitting density better | 95 |
| Residues fitting density worse | 0 |