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 Dfg5 from Chaetomium thermophilum in complex with laminaribiose |
This entry was created with PDB-REDO version 7.32. |
From original header | |||||||
---|---|---|---|---|---|---|---|
Spacegroup | C 1 2 1 | a: 83.356 Å | b: 54.879 Å | c: 80.095 Å | α: 90.00° | β: 90.45° | γ: 90.00° |
Resolution | 1.30 Å | Reflections | 86581 | Test set | 4195 (4.8%) | ||
R | 0.0940 | R-free | 0.1190 | ||||
According to PDB-REDO | |||||||
Resolution | 1.30 Å | Reflections | 86581 | Test set | 4195 (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 | 0.0975 | 0.1039 |
R-free | 0.1215 | 0.1263 |
Bond length RMS Z-score | 0.367 | 0.538 |
Bond angle RMS Z-score | 0.756 | 0.776 |
Model quality | ||
Ramachandran plot normality | 1.176 95 | 1.100 95 |
Rotamer normality | -0.197 90 | -0.016 92 |
Coarse packing | -1.098 13 | -1.108 13 |
Fine packing | -2.203 10 | -1.944 16 |
Bump severity | 0.000 96 | 0.001 92 |
Hydrogen bond satisfaction | 0.886 34 | 0.892 40 |
WHAT_CHECK | Report | Report |
Kleywegt-like plot |
Description | Count |
---|---|
Rotamers changed | 7 |
Side chains flipped | 0 |
Waters removed | 160 |
Peptides flipped | 0 |
Chiralities fixed | 0 |
Residues fitting density better | 0 |
Residues fitting density worse | 0 |