Crystal Structure of Human Glycolipid Transfer Protein complexed with glucosylceramide containing oleoyl acyl chain (18:1) |
This entry was created with PDB-REDO version 8.07. |
From original header | |||||||
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Spacegroup | P 21 21 21 | a: 50.659 Å | b: 61.646 Å | c: 61.646 Å | α: 90.00° | β: 90.00° | γ: 90.00° |
Resolution | 1.40 Å | Reflections | 41115 | Test set | 2096 (5.1%) | ||
R | 0.1500 | R-free | 0.1820 | ||||
According to PDB-REDO | |||||||
Resolution | 1.40 Å | Reflections | 41115 | Test set | 2096 (5.1%) | ||
Twin | false | Radiation damage | 42 | ||||
PDB-REDO files | |||||||
Re-refined and rebuilt structure | Re-refined (only) structure |
All files
(compressed) |
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Links | |||||||
PDBe | RCSB PDB | 3D bionotes | Proteopedia |
Original | PDB-REDO | |
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Crystallographic refinement | ||
R | 0.1507 | 0.1357 |
R-free | 0.1846 | 0.1753 |
Bond length RMS Z-score | 1.463 | 0.902 |
Bond angle RMS Z-score | 1.029 | 0.875 |
Model quality | ||
Ramachandran plot normality | 1.316 97 | 1.235 96 |
Rotamer normality | -0.294 85 | 0.337 93 |
Coarse packing | 1.739 95 | 1.740 95 |
Fine packing | -1.002 53 | -0.630 67 |
Bump severity | 0.002 85 | 0.002 85 |
Hydrogen bond satisfaction | 0.931 88 | 0.947 96 |
WHAT_CHECK | Report | Report |
Kleywegt-like plot |
Description | Count |
---|---|
Rotamers changed | 8 |
Side chains flipped | 0 |
Waters removed | 39 |
Peptides flipped | 0 |
Chiralities fixed | 0 |
Residues fitting density better | 27 |
Residues fitting density worse | 0 |