› 4wsk

X-ray diffraction
1.92Å resolution

Crystal structure of a bacterial fucosidase with phenyl((1R,2R,3R,4R,5R,6R)-2,3,4-trihydroxy-5-methyl-7-azabicyclo[4.1.0]heptan-7-yl)methanone

Released:
DOI: 10.2210/pdb4wsk/pdb
PDB 4wsk coloured by chain and viewed from the front.
PDB 4wsk coloured by chain and viewed from the side.
PDB 4wsk coloured by chain and viewed from the top.
Source organism: Bacteroides thetaiotaomicron VPI-5482
Primary publication:
In vitro andin vivocomparative and competitive activity-based protein profiling of GH29 ��-l-fucosidases.
Jiang J, Kallemeijn WW, Wright DW, van den Nieuwendijk AMCH, Rohde VC, Folch EC, van den Elst H, Florea BI, Scheij S, Donker-Koopman WE, Verhoek M, Li N, Sch��rmann M, Mink D, Boot RG, Cod��e JDC, van der Marel GA, Davies GJ, Aerts JMFG, Overkleeft HS
Chem Sci 6 2782-false (2015)
PMID: 29142681

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Alpha-L-fucosidase Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 469 amino acids
Theoretical weight: 54.13 KDa
Source organism: Bacteroides thetaiotaomicron VPI-5482
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q8A3I4 (Residues: 35-480; Coverage: 98%)
Gene name: BT_2970
Sequence domains: Alpha-L-fucosidase
Structure domains:

Ligands and Environments

3 bound ligands:
Ligand SO4 6 x SO4
Ligand 3U2 3 x 3U2
Ligand IMD 4 x IMD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: P21
Unit cell:
a: 55.65Å b: 186.52Å c: 98.15Å
α: 90° β: 94.2° γ: 90°
R-values:
R R work R free
0.185 0.182 0.232
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

2 review citations

Glucocerebrosidase: Functions in and Beyond the Lysosome.
Boer et al. (2020)
1 more

1 mention without citation

In vitro and in vivo comparative and competitive activity-based protein profiling of GH29 α-l-fucosidases.
Jiang et al. (2015)