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Crystal Structure of Human Complement C3b in complex with DAF (CCP2-4) |
This entry was created with PDB-REDO version 7.00. |
From original header | |||||||
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Spacegroup | P 21 2 21 | a: 117.429 Å | b: 142.378 Å | c: 323.697 Å | α: 90.00° | β: 90.00° | γ: 90.00° |
Resolution | 4.19 Å | Reflections | 38984 | Test set | 1955 (5.0%) | ||
R | 0.2695 | R-free | 0.3073 | ||||
According to PDB-REDO | |||||||
Resolution | 4.19 Å | Reflections | 38984 | Test set | 1955 (5.0%) | Twin | false |
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 | 0.2932 | 0.2688 |
R-free | 0.3292 | 0.3021 |
Bond length RMS Z-score | 0.622 | 0.483 |
Bond angle RMS Z-score | 0.967 | 0.737 |
Model quality | ||
Ramachandran plot normality | -3.468 8 | -2.393 17 |
Rotamer normality | -6.221 1 | -6.147 1 |
Coarse packing | -1.512 N/A | -1.564 N/A |
Fine packing | -3.160 1 | -2.887 2 |
Bump severity | 0.211 4 | 0.033 41 |
Hydrogen bond satisfaction | 0.778 4 | 0.803 7 |
WHAT_CHECK | Report | Report |
Kleywegt-like plot |
Description | Count |
---|---|
Rotamers changed | 10 |
Side chains flipped | 0 |
Waters removed | 0 |
Peptides flipped | 0 |
Chiralities fixed | 0 |
Residues fitting density better | 470 |
Residues fitting density worse | 35 |