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| Crystal Structure of Sphingomonas elodea ATCC 31461 Glucose-1- phosphate uridylyltransferase in Complex with glucose-1-phosphate. |
| This entry was created with PDB-REDO version 8.10 using the deposited PDB model version 1.4 |
| From original header | |||||
|---|---|---|---|---|---|
| Spacegroup | P 1 21 1 | a: 105.600Å b: 85.700Å c: 151.800Å | α: 90.00° β: 105.20° γ: 90.00° | ||
| Resolution | 2.65 Å | Reflections | 76178 | Test set | 1992 (2.6%) |
| R | 0.2450 | R-free | 0.2950 | ||
| According to PDB-REDO | |||||
| Resolution | 2.65 Å | Reflections | 76178 | Test set | 1992 (2.6%) |
| Twin | false | Radiation damage | 87 | ||
| PDB-REDO files | |||||
| Re-refined and rebuilt structure | Re-refined (only) structure |
All files
(compressed) |
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| Links | |||||
| PDBe | RCSB PDB | Proteopedia | |||
| Original | PDB-REDO | |
|---|---|---|
| Crystallographic refinement | ||
| R | 0.2426 | 0.1929 |
| R-free | 0.2981 | 0.2379 |
| Bond length RMS Z-score | 0.778 | 0.802 |
| Bond angle RMS Z-score | 0.925 | 0.890 |
| Model quality | ||
| Ramachandran plot normality | -4.175 8 | -2.604 22 |
| Rotamer normality | -4.422 14 | -2.350 44 |
| Coarse packing | -0.097 44 | 0.149 56 |
| Fine packing | -2.054 13 | -1.400 36 |
| Bump severity | 0.082 12 | 0.037 23 |
| Hydrogen bond satisfaction | 0.867 20 | 0.874 24 |
| WHAT_CHECK | Report | Report |
Kleywegt-like plot |
| Description | Count |
|---|---|
| Rotamers changed | 52 |
| Side chains built | 8 |
| Waters removed | 16 |
| Peptides flipped | 10 |
| Chiralities fixed | 0 |
| Residues fitting density better | 187 |
| Residues fitting density worse | 0 |