› 2duo

X-ray diffraction
1.8Å resolution

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

Released:
DOI: 10.2210/pdb2duo/pdb
PDB entry 2duo coloured by chain, front view.
PDB entry 2duo coloured by chain, side view.
PDB entry 2duo 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
Macromolecule:
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

2 bound ligands:
Ligand CA 2 x CA
Ligand CL 11 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE AR-NW12A
Spacegroup: C2
Unit cell:
a: 170.7Å b: 45.4Å c: 116.1Å
α: 90° β: 131.5° γ: 90°
R-values:
R R work R free
0.206 0.205 0.241
Expression system: Escherichia coli BL21(DE3)

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Citations

7 review citations

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

2 mentions without citation

Predicting binding sites from unbound versus bound protein structures.
Clark et al. (2020)
1 more