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| mouseZFP568-ZnF2-11 in complex with DNA |
| This entry was created with PDB-REDO version 8.01. |
| 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 | 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 | 0.2214 | 0.2314 |
| R-free | 0.2793 | 0.3090 |
| Bond length RMS Z-score | 0.765 | 0.522 |
| Bond angle RMS Z-score | 0.894 | 0.977 |
| Model quality | ||
| Ramachandran plot normality | -4.097 9 | -4.824 6 |
| Rotamer normality | -6.593 6 | -4.158 24 |
| Coarse packing | N/A N/A | -2.876 1 |
| Fine packing | N/A N/A | -3.967 0 |
| Dinucleotide conformation (CONFAL) | 47.1 52 | 57.9 74 |
| Base pair conformation | 1.7 56 | 1.1 83 |
| Bump severity | 0.142 8 | 0.077 13 |
| Hydrogen bond satisfaction | 0.715 2 | 0.694 1 |
| WHAT_CHECK | Report | Report |
Kleywegt-like plot |
| Description | Count |
|---|---|
| Rotamers changed | 5 |
| Side chains flipped | 32 |
| Waters removed | 4 |
| Peptides flipped | 5 |
| Chiralities fixed | 0 |
| Residues fitting density better | 3 |
| Residues fitting density worse | 5 |