› 2dur

X-ray diffraction
1.65Å resolution

Crystal structure of VIP36 exoplasmic/lumenal domain, Ca2+/Man2-bound form

Released:
DOI: 10.2210/pdb2dur/pdb
PDB entry 2dur coloured by chain, front view.
PDB entry 2dur coloured by chain, side view.
PDB entry 2dur coloured by chain, top view.
Source organism: Canis lupus familiaris
Primary publication:
Structural basis for recognition of high mannose type glycoproteins by mammalian transport lectin VIP36.
Satoh T, Cowieson NP, Hakamata W, Ideo H, Fukushima K, Kurihara M, Kato R, Yamashita K, Wakatsuki S
J Biol Chem 282 28246-55 (2007)
PMID: 17652092

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-155902 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecules (2 distinct):
Vesicular integral-membrane protein VIP36 Chains: A, B
Molecule details ›
Chains: A, B
Length: 253 amino acids
Theoretical weight: 28.93 KDa
Source organism: Canis lupus familiaris
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P49256 (Residues: 51-301; Coverage: 80%)
Gene name: LMAN2
Sequence domains: Legume-like lectin family
Structure domains: Jelly Rolls

Ligands and Environments

Carbohydrate polymer : NEW Components: MAN
Carbohydrate polymer
3 bound ligands:
Ligand CA 2 x CA
Ligand CL 8 x CL
Ligand GOL 2 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-5A
Spacegroup: C2
Unit cell:
a: 171.2Å b: 45.5Å c: 117.4Å
α: 90° β: 132.7° γ: 90°
R-values:
R R work R free
0.2 0.199 0.228
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

5 review citations

Role of N-glycosylation in trafficking of apical membrane proteins in epithelia.
Vagin et al. (2009)
4 more

8 mentions without citation

Mannose-Specific Lectins from Marine Algae: Diverse Structural Scaffolds Associated to Common Virucidal and Anti-Cancer Properties.
Barre et al. (2019)
7 more