This entry is not up to date with the most recent version of PDB-REDO.
Please log in
to request an update.
Crystal structure of spike protein receptor-binding domain from SARS coronavirus epidemic strain complexed with human-civet chimeric receptor ACE2 |
This entry was created with PDB-REDO version 7.32. |
From original header | |||||||
---|---|---|---|---|---|---|---|
Spacegroup | P 1 21 1 | a: 81.670 Å | b: 119.523 Å | c: 113.532 Å | α: 90.00° | β: 92.50° | γ: 90.00° |
Resolution | 3.00 Å | Reflections | 41384 | Test set | 2066 (5.0%) | ||
R | 0.2390 | R-free | 0.2920 | ||||
According to PDB-REDO | |||||||
Resolution | 3.00 Å | Reflections | 41384 | Test set | 2066 (5.0%) | ||
Twin | false | Radiation damage | N/A | ||||
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 | 0.2485 | 0.2541 |
R-free | 0.3047 | 0.2901 |
Bond length RMS Z-score | 0.525 | 0.384 |
Bond angle RMS Z-score | 0.680 | 0.671 |
Model quality | ||
Ramachandran plot normality | -6.627 2 | -4.767 6 |
Rotamer normality | -5.467 12 | -5.070 15 |
Coarse packing | -1.934 3 | -1.443 7 |
Fine packing | -2.470 6 | -1.943 16 |
Bump severity | 0.038 24 | 0.123 9 |
Hydrogen bond satisfaction | 0.795 5 | 0.833 9 |
WHAT_CHECK | Report | Report |
Kleywegt-like plot |
Description | Count |
---|---|
Rotamers changed | 39 |
Side chains flipped | 0 |
Waters removed | 0 |
Peptides flipped | 35 |
Chiralities fixed | 0 |
Residues fitting density better | 26 |
Residues fitting density worse | 6 |