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Crystal structure of an equine H7 hemagglutinin from A/equine/ NY/49/73 (H7N7) in complex with 3'-GcLN |
This entry was created with PDB-REDO version 8.04. |
From original header | |||||||
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Spacegroup | P 3 | a: 112.753 Å | b: 112.753 Å | c: 130.187 Å | α: 90.00° | β: 90.00° | γ: 120.00° |
Resolution | 2.05 Å | Reflections | 116123 | Test set | 5856 (5.0%) | ||
R | 0.2169 | R-free | 0.2453 | ||||
According to PDB-REDO | |||||||
Resolution | 2.05 Å | Reflections | 116123 | Test set | 5856 (5.0%) | ||
Twin | false | Radiation damage | N/A | ||||
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 | |
---|---|---|
Crystallographic refinement | ||
R | 0.2171 | 0.1993 |
R-free | 0.2451 | 0.2287 |
Bond length RMS Z-score | 0.817 | 0.589 |
Bond angle RMS Z-score | 0.765 | 0.715 |
Model quality | ||
Ramachandran plot normality | -1.565 39 | -1.834 33 |
Rotamer normality | -2.625 46 | -2.329 52 |
Coarse packing | -0.498 36 | -0.512 35 |
Fine packing | -1.657 25 | -1.864 18 |
Bump severity | 0.234 5 | 0.278 4 |
Hydrogen bond satisfaction | 0.875 25 | 0.860 17 |
WHAT_CHECK | Report | Report |
Kleywegt-like plot |
Description | Count |
---|---|
Rotamers changed | 30 |
Side chains flipped | 0 |
Waters removed | 91 |
Peptides flipped | 20 |
Chiralities fixed | 0 |
Residues fitting density better | 122 |
Residues fitting density worse | 8 |