› 6zr3

X-ray diffraction
1.97Å resolution

Crystal structure of tetrameric fibrinogen-like recognition domain of FIBCD1 with N-acetyl-galactosamine-4-sulfate ligand bound

Released:
DOI: 10.2210/pdb6zr3/pdb
PDB entry 6zr3 coloured by chain, front view.
PDB entry 6zr3 coloured by chain, side view.
PDB entry 6zr3 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal structures of human immune protein FIBCD1 suggest an extended binding site compatible with recognition of pathogen associated carbohydrate motifs
Williams HM, Moeller JB, Burns I, Schlosser A, Sorensen GL, Greenhough TJ, Holmskov U, Shrive AK
J. Biol. Chem. (2023)

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-185399 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Fibrinogen C domain-containing protein 1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 226 amino acids
Theoretical weight: 25.69 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q8N539 (Residues: 236-461; Coverage: 49%)
Gene names: FIBCD1, UNQ701/PRO1346
Sequence domains: Fibrinogen beta and gamma chains, C-terminal globular domain

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, FUC
Carbohydrate polymer
5 bound ligands:
Ligand CA 2 x CA
Ligand SO4 3 x SO4
Ligand GOL 1 x GOL
Ligand ASG 1 x ASG
Ligand ACY 1 x ACY
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04-1
Spacegroup: P4
Unit cell:
a: 119.019Å b: 119.019Å c: 44.31Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.186 0.184 0.226
Expression system: Spodoptera frugiperda

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