| Crystal structure of anti- MERS-CoV human neutralizing LCA60 antibody Fab fragment |
| This entry was created with PDB-REDO version 8.12 using the deposited PDB model version 1.5 |
| From original header | |||||||
|---|---|---|---|---|---|---|---|
| Spacegroup | P 1 21 1 | a: 70.725 Å | b: 69.575 Å | c: 93.838 Å | α: 90.00° | β: 107.65° | γ: 90.00° |
| Resolution | 3.00 Å | Reflections | 17494 | Test set | 873 (5.0%) | ||
| R | 0.2280 | R-free | 0.2827 | ||||
| According to PDB-REDO | |||||||
| Resolution | 3.00 Å | Reflections | 17494 | Test set | 873 (5.0%) | ||
| Twin | false | Radiation damage | 64 | ||||
| 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 | 0.2285 | 0.2381 |
| R-free | 0.2827 | 0.2808 |
| Bond length RMS Z-score | 1.293 | 0.376 |
| Bond angle RMS Z-score | 0.888 | 0.598 |
| Model quality | ||
| Ramachandran plot normality | -1.137 52 | -2.096 29 |
| Rotamer normality | -0.073 89 | -3.995 19 |
| Coarse packing | -0.310 35 | -0.107 44 |
| Fine packing | -0.139 80 | -0.087 81 |
| Bump severity | 0.011 54 | 0.025 32 |
| Hydrogen bond satisfaction | 0.871 22 | 0.855 15 |
| WHAT_CHECK | Report | Report |
Kleywegt-like plot |
| Description | Count |
|---|---|
| Rotamers changed | 15 |
| Side chains flipped | 0 |
| Waters removed | 0 |
| Peptides flipped | 8 |
| Chiralities fixed | 0 |
| Residues fitting density better | 0 |
| Residues fitting density worse | 0 |