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| SOX2 bound to Importin-alpha 5 |
| This entry was created with PDB-REDO version 8.04 using the deposited PDB model version 1.3 |
| From original header | |||||
|---|---|---|---|---|---|
| Spacegroup | C 1 2 1 | a: 160.460Å b: 61.420Å c: 69.100Å | α: 90.00° β: 95.49° γ: 90.00° | ||
| Resolution | 2.80 Å | Reflections | 12845 | Test set | 626 (4.9%) |
| R | 0.2057 | R-free | 0.2506 | ||
| According to PDB-REDO | |||||
| Resolution | 2.80 Å | Reflections | 12845 | Test set | 626 (4.9%) |
| Twin | false | Radiation damage | N/A | ||
| PDB-REDO files | |||||
| Re-refined and rebuilt structure | Re-refined (only) structure |
All files
(compressed) |
|||
| Links | |||||
| PDBe | RCSB PDB | Proteopedia | |||
| Original | PDB-REDO | |
|---|---|---|
| Crystallographic refinement | ||
| R | 0.2162 | 0.2048 |
| R-free | 0.2568 | 0.2502 |
| Bond length RMS Z-score | 0.472 | 0.250 |
| Bond angle RMS Z-score | 0.682 | 0.479 |
| Model quality | ||
| Ramachandran plot normality | -3.541 12 | -3.809 10 |
| Rotamer normality | -3.591 31 | -3.472 33 |
| Coarse packing | 1.872 99 | 1.863 99 |
| Fine packing | -1.247 42 | -1.094 49 |
| Bump severity | 0.037 24 | 0.019 41 |
| Hydrogen bond satisfaction | 0.874 24 | 0.890 38 |
| WHAT_CHECK | Report | Report |
Kleywegt-like plot |
| Description | Count |
|---|---|
| Rotamers changed | 2 |
| Side chains built | 0 |
| Waters removed | 2 |
| Peptides flipped | 1 |
| Chiralities fixed | 0 |
| Residues fitting density better | 1 |
| Residues fitting density worse | 0 |