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| Bmi1/Ring1b-UbcH5c complex structure |
| This entry was created with PDB-REDO version 7.00 using the deposited PDB model |
| From original header | |||||||
|---|---|---|---|---|---|---|---|
| Spacegroup | P 32 2 1 | a: 107.890 Å | b: 107.890 Å | c: 77.572 Å | α: 90.00° | β: 90.00° | γ: 120.00° |
| Resolution | 2.65 Å | Reflections | 15431 | Test set | 772 (5.0%) | ||
| R | 0.2170 | R-free | 0.2430 | ||||
| According to PDB-REDO | |||||||
| Resolution | 2.65 Å | Reflections | 15431 | Test set | 772 (5.0%) | ||
| 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 | 0.2196 | 0.1850 |
| R-free | 0.2469 | 0.2511 |
| Bond length RMS Z-score | 0.204 | 0.544 |
| Bond angle RMS Z-score | 0.502 | 0.773 |
| Model quality | ||
| Ramachandran plot normality | -1.750 27 | -1.318 36 |
| Rotamer normality | -3.242 19 | -2.666 27 |
| Coarse packing | -0.535 N/A | -0.532 N/A |
| Fine packing | 0.273 90 | 0.387 91 |
| Bump severity | 0.039 35 | 0.002 96 |
| Hydrogen bond satisfaction | 0.900 50 | 0.899 49 |
| WHAT_CHECK | Report | Report |
Kleywegt-like plot |
| Description | Count |
|---|---|
| Rotamers changed | 3 |
| Side chains built | 0 |
| Waters removed | 3 |
| Peptides flipped | 0 |
| Chiralities fixed | 0 |
| Residues fitting density better | 50 |
| Residues fitting density worse | 0 |