| mouseZFP568-ZnF2-11 in complex with DNA |
| This entry was created with PDB-REDO version 8.13 using the deposited PDB model version 1.4 |
| From original header | |||||||
|---|---|---|---|---|---|---|---|
| Spacegroup | P 21 21 2 | a: 180.641 Å | b: 35.239 Å | c: 81.912 Å | α: 90.00° | β: 90.00° | γ: 90.00° |
| Resolution | 2.79 Å | Reflections | 13698 | Test set | 685 (5.0%) | ||
| R | 0.1928 | R-free | 0.2630 | ||||
| According to PDB-REDO | |||||||
| Resolution | 2.79 Å | Reflections | 13698 | Test set | 685 (5.0%) | ||
| Twin | false | Radiation damage | 89 | ||||
| PDB-REDO files | |||||||
| Re-refined and rebuilt structure | Re-refined (only) structure |
All files
(compressed) |
|||||
| Links | |||||||
| PDBe | RCSB PDB | 3D bionotes | Proteopedia | ||||
| Original | PDB-REDO | |
|---|---|---|
| Crystallographic refinement | ||
| R | 0.2233 | 0.2199 |
| R-free | 0.2809 | 0.2973 |
| Bond length RMS Z-score | 1.654 | 0.454 |
| Bond angle RMS Z-score | 1.336 | 0.737 |
| Model quality | ||
| Ramachandran plot normality | -4.090 9 | -4.435 7 |
| Rotamer normality | -6.587 3 | -4.389 15 |
| Coarse packing | N/A N/A | -2.322 1 |
| Fine packing | N/A N/A | -3.654 1 |
| Dinucleotide conformation (CONFAL) | 46.1 52 | 56.4 76 |
| Base pair conformation | 1.7 57 | 1.1 86 |
| Bump severity | 0.134 8 | 0.098 10 |
| Hydrogen bond satisfaction | 0.736 2 | 0.698 2 |
| WHAT_CHECK | Report | Report |
Kleywegt-like plot |
| Description | Count |
|---|---|
| Rotamers changed | 3 |
| Side chains flipped | 32 |
| Waters removed | 3 |
| Peptides flipped | 7 |
| Chiralities fixed | 0 |
| Residues fitting density better | 1 |
| Residues fitting density worse | 0 |