› 3bvt

X-ray diffraction
1.3Å resolution

GOLGI MANNOSIDASE II D204A catalytic nucleophile mutant complex with Methyl (alpha-D-mannopyranosyl)-(1->3)-S-alpha-D-mannopyranoside

Released:
DOI: 10.2210/pdb3bvt/pdb
PDB entry 3bvt coloured by chain, front view.
PDB entry 3bvt coloured by chain, side view.
PDB entry 3bvt coloured by chain, top view.
Source organism: Drosophila melanogaster
Primary publication:
Probing the substrate specificity of Golgi alpha-mannosidase II by use of synthetic oligosaccharides and a catalytic nucleophile mutant.
Zhong W, Kuntz DA, Ember B, Singh H, Moremen KW, Rose DR, Boons GJ
J Am Chem Soc 130 8975-83 (2008)
PMID: 18558690

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
Macromolecules (2 distinct):

Ligands and Environments

Carbohydrate polymer : NEW Components: Z4R, MAN
Ligand Z4R 1 x Z4R
Ligand MAN 1 x MAN
5 bound ligands:
Ligand NAG 1 x NAG
Ligand PO4 1 x PO4
Ligand ZN 1 x ZN
Ligand MRD 1 x MRD
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: 69.04Å b: 109.847Å c: 138.627Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.174 0.174 0.192
Expression system: Drosophila melanogaster

Quick links

Citations

1 review citation

Structure, mechanism and inhibition of Golgi α-mannosidase II.
Rose DR. (2012)
25 other articles

2 mentions without citation

Probing the substrate specificity of Golgi alpha-mannosidase II by use of synthetic oligosaccharides and a catalytic nucleophile mutant.
Zhong et al. (2008)
1 more