› 3d4y

X-ray diffraction
1.52Å resolution

GOLGI MANNOSIDASE II complex with mannoimidazole

Released:
DOI: 10.2210/pdb3d4y/pdb
PDB entry 3d4y coloured by chain, front view.
PDB entry 3d4y coloured by chain, side view.
PDB entry 3d4y coloured by chain, top view.
Source organism: Drosophila melanogaster
Primary publication:
Structural analysis of Golgi alpha-mannosidase II inhibitors identified from a focused glycosidase inhibitor screen.
Kuntz DA, Tarling CA, Withers SG, Rose DR
Biochemistry 47 10058-68 (2008)
PMID: 18759458

Function and Biology Details

Reaction catalysed: 
Man(5)GlcNAc(3)-[protein] + 2 H(2)O = Man(3)GlcNAc(3)-[protein] + 2 alpha-D-mannopyranose
Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-173193 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:

Ligands and Environments

5 bound ligands:
Ligand NAG 1 x NAG
Ligand ZN 1 x ZN
Ligand MRD 1 x MRD
Ligand MVL 1 x MVL
Ligand MPD 2 x MPD
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: CHESS BEAMLINE A1
Spacegroup: P212121
Unit cell:
a: 68.634Å b: 108.798Å c: 137.035Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.186 0.186 0.208
Expression system: Drosophila melanogaster

Quick links

Citations

2 review citations

Recent developments in design and synthesis of bicyclic azasugars, carbasugars and related molecules as glycosidase inhibitors.
Lahiri et al. (2013)
1 more

4 mentions without citation

Combined inhibitor free-energy landscape and structural analysis reports on the mannosidase conformational coordinate.
Williams et al. (2014)
3 more