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| Crystal structure of the HigBA2 toxin-antitoxin complex |
| This entry was created with PDB-REDO version 8.13 using the deposited PDB model version 1.2 |
| From original header | |||||||
|---|---|---|---|---|---|---|---|
| Spacegroup | P 21 21 2 | a: 129.000 Å | b: 119.800 Å | c: 33.400 Å | α: 90.00° | β: 90.00° | γ: 90.00° |
| Resolution | 2.99 Å | Reflections | 10916 | Test set | 546 (5.0%) | ||
| R | 0.1999 | R-free | 0.2482 | ||||
| According to PDB-REDO | |||||||
| Resolution | 2.99 Å | Reflections | 10916 | Test set | 546 (5.0%) | ||
| Twin | false | Radiation damage |
99
Data shows severe radiation damage
|
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| 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 | 0.2181 | 0.1889 |
| R-free | 0.2588 | 0.2372 |
| Bond length RMS Z-score | 0.441 | 0.374 |
| Bond angle RMS Z-score | 0.504 | 0.611 |
| Model quality | ||
| Ramachandran plot normality | -2.306 26 | -3.046 16 |
| Rotamer normality | -3.663 23 | -4.374 15 |
| Coarse packing | 0.727 78 | 1.094 87 |
| Fine packing | -1.063 50 | -0.259 77 |
| Bump severity | 0.035 24 | 0.070 13 |
| Hydrogen bond satisfaction | 0.903 54 | 0.904 55 |
| WHAT_CHECK | Report | Report |
Kleywegt-like plot |
| Description | Count |
|---|---|
| Rotamers changed | 3 |
| Side chains built | 31 |
| Waters removed | 0 |
| Peptides flipped | 12 |
| Chiralities fixed | 0 |
| Residues fitting density better | 22 |
| Residues fitting density worse | 2 |