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7dgk redone
The Co-bound dimeric structure of K78H/G80A/H82A myoglobin

This information was created with PDB-REDO version 7.34. Please log in to request an update.

Crystallographic data
From PDB header
Spacegroup P 21 21 21 a: 55.202 Å b: 62.409 Å c: 82.553 Å α: 90.00° β: 90.00° γ: 90.00°
Resolution 1.75 Å Reflections 29414 Test set 1470 (5.0%)
R 0.2060 R-free 0.2510
According to PDB-REDO
Resolution 1.75 Å Reflections 29414 Test set 1470 (5.0%) Twin false
PDB-REDO files
Re-refined and rebuilt structure
( PDB | mmCIF | MTZ)
Re-refined (only) structure
( PDB | MTZ)
All files
(compressed)
Links
PDBe RCSB PDB 3D bionotes Proteopedia
Validation metrics from PDB-REDO
PDB PDB-REDO
Crystallographic refinement
R 0.2086 0.2146
R-free 0.2542 0.2490
Bond length RMS Z-score 0.790 0.524
Bond angle RMS Z-score 1.107 0.750
Model quality (raw scores | percentiles)
Ramachandran plot appearance -1.423 42 0.365 87
Rotamer normality -2.725 44 -1.762 63
Coarse packing 1.475 98 1.617 98
Fine packing 0.850 94 0.993 95
Bump severity 0.040 23 0.018 42
Hydrogen bond satisfaction 0.932 88 0.940 93
WHAT_CHECK Report Report

Kleywegt-like plot

Model quality compared to resolution neighbours
Significant model changes
Description Count
Rotamers changed 5
Side chains flipped 0
Waters removed 9
Peptides flipped 0
Chiralities fixed 0
Residues fitting density better 0
Residues fitting density worse 0
Change in density map fit (RSCC)