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6zqx redone
Crystal structure of tetrameric fibrinogen-like recognition domain of FIBCD1 with N,N'-diacetyl chitobiose ligand bound

This information was created with PDB-REDO version 7.35. Please log in to request an update.

Crystallographic data
From PDB header
Spacegroup P 4 a: 118.670 Å b: 118.670 Å c: 44.230 Å α: 90.00° β: 90.00° γ: 90.00°
Resolution 1.84 Å Reflections 53597 Test set 2614 (4.9%)
R 0.1610 R-free 0.1760
According to PDB-REDO
Resolution 1.84 Å Reflections 53597 Test set 2614 (4.9%) 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 0.1626 0.1551
R-free 0.1776 0.1671
Bond length RMS Z-score 0.655 0.521
Bond angle RMS Z-score 0.974 0.761
Model quality (raw scores | percentiles)
Ramachandran plot appearance -2.127 27 -1.801 33
Rotamer normality -1.198 74 -0.934 79
Coarse packing -1.048 15 -1.019 15
Fine packing -1.922 16 -1.701 24
Bump severity 0.153 7 0.151 7
Hydrogen bond satisfaction 0.921 78 0.919 76
WHAT_CHECK Report Report

Kleywegt-like plot

Model quality compared to resolution neighbours
Significant model changes
Description Count
Rotamers changed 4
Side chains flipped 0
Waters removed 23
Peptides flipped 0
Chiralities fixed 0
Residues fitting density better 0
Residues fitting density worse 0
Change in density map fit (RSCC)