› 6s2h

X-ray diffraction
1.8Å resolution

Structure Of D80A-Fructofuranosidase From Xanthophyllomyces Dendrorhous Complexed With Fructose And Catechol

Released:
DOI: 10.2210/pdb6s2h/pdb
PDB entry 6s2h coloured by chain, front view.
PDB entry 6s2h coloured by chain, side view.
PDB entry 6s2h coloured by chain, top view.
Source organism: Phaffia rhodozyma
Primary publication:
Deciphering the molecular specificity of phenolic compounds as inhibitors or glycosyl acceptors of β-fructofuranosidase from Xanthophyllomyces dendrorhous.
Ramirez-Escudero M, Miguez N, Gimeno-Perez M, Ballesteros AO, Fernandez-Lobato M, Plou FJ, Sanz-Aparicio J
OpenAccess logo Sci Rep 9 17441 (2019)
PMID: 31767902

Function and Biology Details

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

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-125341 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (5 distinct):
Beta-fructofuranosidase Chains: A, B
Molecule details ›
Chains: A, B
Length: 665 amino acids
Theoretical weight: 72.01 KDa
Source organism: Phaffia rhodozyma
Expression system: Komagataella phaffii GS115
UniProt:
  • Canonical: J7HDY4 (Residues: 1-664; Coverage: 100%)
Gene name: INV
Sequence domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer
4 bound ligands:
Ligand FRU 2 x FRU
Ligand EDO 2 x EDO
Ligand CAQ 2 x CAQ
Ligand NAG 25 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALBA BEAMLINE XALOC
Spacegroup: P21212
Unit cell:
a: 74.715Å b: 204.743Å c: 147.27Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.164 0.164 0.172
Expression system: Komagataella phaffii GS115

Quick links

Citations

1 citations in other articles

Analysis and validation of overall N-glycan conformation in Privateer.
Dialpuri et al. (2023)

1 mention without citation

Deciphering the molecular specificity of phenolic compounds as inhibitors or glycosyl acceptors of β-fructofuranosidase from Xanthophyllomyces dendrorhous.
Ramirez-Escudero et al. (2019)