This entry is not up to date with the most recent version of PDB-REDO.
Please log in
to request an update.
Structure of the DP10.7 TCR with CD1d-sulfatide |
This entry was created with PDB-REDO version 8.03. |
From original header | |||||||
---|---|---|---|---|---|---|---|
Spacegroup | P 32 | a: 229.333 Å | b: 229.333 Å | c: 52.646 Å | α: 90.00° | β: 90.00° | γ: 120.00° |
Resolution | 3.01 Å | Reflections | 61091 | Test set | 3093 (5.1%) | ||
R | 0.1779 | R-free | 0.2068 | ||||
According to PDB-REDO | |||||||
Resolution | 3.01 Å | Reflections | 61091 | Test set | 3093 (5.1%) | ||
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 | 0.1906 | 0.1653 |
R-free | 0.2164 | 0.1938 |
Bond length RMS Z-score | 0.468 | 0.408 |
Bond angle RMS Z-score | 0.596 | 0.619 |
Model quality | ||
Ramachandran plot normality | -0.754 60 | -1.942 31 |
Rotamer normality | -0.668 83 | -2.797 43 |
Coarse packing | -0.033 60 | 0.058 65 |
Fine packing | -0.697 64 | -0.282 77 |
Bump severity | 0.268 4 | 0.237 4 |
Hydrogen bond satisfaction | 0.721 2 | 0.891 39 |
WHAT_CHECK | Report | Report |
Kleywegt-like plot |
Description | Count |
---|---|
Rotamers changed | 18 |
Side chains flipped | 41 |
Waters removed | 2 |
Peptides flipped | 3 |
Chiralities fixed | 0 |
Residues fitting density better | 20 |
Residues fitting density worse | 0 |