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| Crystal structure of decameric BFDV Capsid Protein |
| This entry was created with PDB-REDO version 8.08 using the deposited PDB model version 1.3 |
| From original header | |||||
|---|---|---|---|---|---|
| Spacegroup | P 21 21 21 | a: 78.791Å b: 148.370Å c: 188.620Å | α: 90.00° β: 90.00° γ: 90.00° | ||
| Resolution | 2.00 Å | Reflections | 148221 | Test set | 7443 (5.0%) |
| R | 0.2085 | R-free | 0.2387 | ||
| According to PDB-REDO | |||||
| Resolution | 2.00 Å | Reflections | 148221 | Test set | 7443 (5.0%) |
| Twin | false | Radiation damage | 78 | ||
| 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 | 0.2155 | 0.1995 |
| R-free | 0.2441 | 0.2330 |
| Bond length RMS Z-score | 0.436 | 0.846 |
| Bond angle RMS Z-score | 0.616 | 0.831 |
| Model quality | ||
| Ramachandran plot normality | -0.454 71 | -0.638 66 |
| Rotamer normality | 0.170 92 | -0.961 73 |
| Coarse packing | 0.186 58 | 0.212 59 |
| Fine packing | -1.400 36 | -0.923 56 |
| Bump severity | 0.012 51 | 0.115 9 |
| Hydrogen bond satisfaction | 0.891 39 | 0.883 31 |
| WHAT_CHECK | Report | Report |
Kleywegt-like plot |
| Description | Count |
|---|---|
| Rotamers changed | 29 |
| Side chains built | 10 |
| Waters removed | 124 |
| Peptides flipped | 2 |
| Chiralities fixed | 0 |
| Residues fitting density better | 25 |
| Residues fitting density worse | 0 |