This entry is not up to date with the most recent version of PDB-REDO.
Please log in
to request an update.
| Structure of MERS-Coronavirus Spike Receptor-binding Domain (England1 Strain) in Complex with Vaccine-Elicited Murine Neutralizing Antibody D12 (Crystal Form 1) |
| This entry was created with PDB-REDO version 7.32. |
| From original header | |||||||
|---|---|---|---|---|---|---|---|
| Spacegroup | P 21 21 21 | a: 74.452 Å | b: 128.790 Å | c: 170.871 Å | α: 90.00° | β: 90.00° | γ: 90.00° |
| Resolution | 2.59 Å | Reflections | 51227 | Test set | 2529 (4.9%) | ||
| R | 0.2040 | R-free | 0.2440 | ||||
| According to PDB-REDO | |||||||
| Resolution | 2.59 Å | Reflections | 51227 | Test set | 2529 (4.9%) | Twin | false |
| 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 | 0.2224 | 0.2075 |
| R-free | 0.2509 | 0.2432 |
| Bond length RMS Z-score | 0.596 | 0.376 |
| Bond angle RMS Z-score | 0.586 | 0.632 |
| Model quality | ||
| Ramachandran plot normality | -0.121 77 | -0.935 55 |
| Rotamer normality | -2.314 52 | -2.304 52 |
| Coarse packing | 0.074 66 | 0.143 69 |
| Fine packing | 0.318 88 | 0.533 91 |
| Bump severity | 0.153 7 | 0.138 8 |
| Hydrogen bond satisfaction | 0.880 28 | 0.882 30 |
| WHAT_CHECK | Report | Report |
Kleywegt-like plot |
| Description | Count |
|---|---|
| Rotamers changed | 17 |
| Side chains flipped | 0 |
| Waters removed | 28 |
| Peptides flipped | 0 |
| Chiralities fixed | 0 |
| Residues fitting density better | 2 |
| Residues fitting density worse | 0 |