› 3bvv

X-ray diffraction
1.3Å resolution

Golgi mannosidase II D204A catalytic nucleophile mutant complex with METHYL ALPHA-D-MANNOPYRANOSYL-(1->3)-[6-THIO-ALPHA-D-MANNOPYRANOSYL-(1->6)]-BETA-D-MANNOPYRANOSIDE

Released:
DOI: 10.2210/pdb3bvv/pdb
PDB entry 3bvv coloured by chain, front view.
PDB entry 3bvv coloured by chain, side view.
PDB entry 3bvv 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: YZ0, MAN, Z4Y
Carbohydrate polymer
4 bound ligands:
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: 69.104Å b: 109.815Å c: 139.303Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.153 0.152 0.173
Expression system: Drosophila melanogaster

Quick links

Citations

1 review citation

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

3 mentions without citation

Golgi alpha-mannosidase II cleaves two sugars sequentially in the same catalytic site.
Shah et al. (2008)
2 more