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 mouse Protocadherin-15 EC9-MAD12 |
This entry was created with PDB-REDO version 8.03. |
From original header | |||||||
---|---|---|---|---|---|---|---|
Spacegroup | C 2 2 21 | a: 129.507 Å | b: 170.059 Å | c: 91.528 Å | α: 90.00° | β: 90.00° | γ: 90.00° |
Resolution | 3.23 Å | Reflections | 16533 | Test set | 790 (4.8%) | ||
R | 0.1757 | R-free | 0.2339 | ||||
According to PDB-REDO | |||||||
Resolution | 3.23 Å | Reflections | 16533 | Test set | 790 (4.8%) | ||
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 | 0.1775 | 0.1896 |
R-free | 0.2360 | 0.2290 |
Bond length RMS Z-score | 0.942 | 0.351 |
Bond angle RMS Z-score | 0.804 | 0.582 |
Model quality | ||
Ramachandran plot normality | -4.535 7 | -3.624 11 |
Rotamer normality | -5.499 11 | -4.027 25 |
Coarse packing | -0.285 47 | -0.163 53 |
Fine packing | -1.132 47 | -1.008 53 |
Bump severity | 0.336 3 | 0.022 37 |
Hydrogen bond satisfaction | 0.854 15 | 0.872 23 |
WHAT_CHECK | Report | Report |
Kleywegt-like plot |
Description | Count |
---|---|
Rotamers changed | 4 |
Side chains flipped | 0 |
Waters removed | 0 |
Peptides flipped | 1 |
Chiralities fixed | 0 |
Residues fitting density better | 1 |
Residues fitting density worse | 3 |