Bmi1/Ring1b-UbcH5c complex structure |
This entry was created with PDB-REDO version 8.18 using the deposited PDB model version 1.2 |
From original header | |||||||
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Spacegroup | P 32 2 1 | a: 107.890 Å | b: 107.890 Å | c: 77.572 Å | α: 90.00° | β: 90.00° | γ: 120.00° |
Resolution | 2.65 Å | Reflections | 15431 | Test set | 772 (5.0%) | ||
R | 0.2173 | R-free | 0.2431 | ||||
According to PDB-REDO | |||||||
Resolution | 2.65 Å | Reflections | 15431 | Test set | 772 (5.0%) | ||
Twin | false | Radiation damage | 31 | ||||
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 | 0.2197 | 0.1853 |
R-free | 0.2475 | 0.2450 |
Bond length RMS Z-score | 1.001 | 0.464 |
Bond angle RMS Z-score | 0.747 | 0.674 |
Model quality | ||
Ramachandran plot normality | -2.540 22 | -2.209 27 |
Rotamer normality | -2.410 43 | -2.237 46 |
Coarse packing | 0.130 55 | 0.214 59 |
Fine packing | 0.614 92 | 0.709 93 |
MolProbity Clashscore | 11.930 18 | 3.560 68 |
Hydrogen bond satisfaction | 0.880 29 | 0.883 31 |
WHAT_CHECK | Report | Report |
Kleywegt-like plot |
Description | Count |
---|---|
Rotamers changed | 3 |
Side chains built | 0 |
Waters removed | 4 |
Peptides flipped | 0 |
Chiralities fixed | 0 |
Residues fitting density better | 2 |
Residues fitting density worse | 0 |