| Crystal Structure of Human Complement C3b in complex with DAF (CCP2-4) |
| This entry was created with PDB-REDO version 8.13 using the deposited PDB model version 1.3 |
| From original header | |||||||
|---|---|---|---|---|---|---|---|
| Spacegroup | P 21 2 21 | a: 117.429 Å | b: 142.378 Å | c: 323.697 Å | α: 90.00° | β: 90.00° | γ: 90.00° |
| Resolution | 4.19 Å | Reflections | 38982 | Test set | 1955 (5.0%) | ||
| R | 0.2695 | R-free | 0.3073 | ||||
| According to PDB-REDO | |||||||
| Resolution | 4.19 Å | Reflections | 38982 | Test set | 1955 (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 | 0.2975 | 0.2604 |
| R-free | 0.3331 | 0.3035 |
| Bond length RMS Z-score | 1.024 | 0.370 |
| Bond angle RMS Z-score | 1.280 | 0.594 |
| Model quality | ||
| Ramachandran plot normality | -4.043 9 | -3.727 11 |
| Rotamer normality | -4.999 10 | -4.545 13 |
| Coarse packing | -1.163 8 | -1.119 9 |
| Fine packing | -3.133 2 | -2.810 3 |
| Bump severity | 0.211 5 | 0.054 16 |
| Hydrogen bond satisfaction | 0.779 4 | 0.797 5 |
| WHAT_CHECK | Report | Report |
Kleywegt-like plot |
| Description | Count |
|---|---|
| Rotamers changed | 9 |
| Side chains flipped | 0 |
| Waters removed | 0 |
| Peptides flipped | 0 |
| Chiralities fixed | 0 |
| Residues fitting density better | 188 |
| Residues fitting density worse | 0 |