› 3six

X-ray diffraction
2.35Å resolution

Crystal structure of NodZ alpha-1,6-fucosyltransferase soaked with GDP-fucose

Released:
DOI: 10.2210/pdb3six/pdb
PDB entry 3six coloured by chain, front view.
PDB entry 3six coloured by chain, side view.
PDB entry 3six coloured by chain, top view.
Source organism: Bradyrhizobium sp. WM9
Primary publication:
Structures of NodZ α1,6-fucosyltransferase in complex with GDP and GDP-fucose.
Brzezinski K, Dauter Z, Jaskolski M
Acta Crystallogr D Biol Crystallogr 68 160-8 (2012)
PMID: 22281745

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-189595 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
GT23 domain-containing protein Chain: A
Molecule details ›
Chain: A
Length: 330 amino acids
Theoretical weight: 37.83 KDa
Source organism: Bradyrhizobium sp. WM9
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9AQ17 (Residues: 1-324; Coverage: 100%)
Gene name: nodZ
Sequence domains: Nodulation protein Z (NodZ)
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand GDP 1 x GDP
Ligand PO4 1 x PO4
Ligand CL 1 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-BM
Spacegroup: P6522
Unit cell:
a: 128.8Å b: 128.8Å c: 91.1Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.212 0.21 0.257
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

2 review citations

3D Structure and Function of Glycosyltransferases Involved in N-glycan Maturation.
Nagae et al. (2020)
1 more

3 mentions without citation

Biological Catalysis and Information Storage Have Relied on N-Glycosyl Derivatives of β-D-Ribofuranose since the Origins of Life.
Wozniak et al. (2023)
2 more