› 1z2w

X-ray diffraction
2Å resolution

Crystal structure of mouse Vps29 complexed with Mn2+

Released:
DOI: 10.2210/pdb1z2w/pdb
PDB entry 1z2w coloured by chain, front view.
PDB entry 1z2w coloured by chain, side view.
PDB entry 1z2w coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Vps29 has a phosphoesterase fold that acts as a protein interaction scaffold for retromer assembly.
Collins BM, Skinner CF, Watson PJ, Seaman MN, Owen DJ
Nat Struct Mol Biol 12 594-602 (2005)
PMID: 15965486

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assemblies composition:
monomeric (preferred)
homo dimer
Assembly name:
PDBe Complex ID:
PDB-CPX-193065 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Vacuolar protein sorting-associated protein 29 Chains: A, B
Molecule details ›
Chains: A, B
Length: 192 amino acids
Theoretical weight: 21.63 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9QZ88 (Residues: 1-182; Coverage: 100%)
Gene name: Vps29
Sequence domains: Calcineurin-like phosphoesterase superfamily domain
Structure domains: Purple Acid Phosphatase; chain A, domain 2

Ligands and Environments

2 bound ligands:
Ligand MN 4 x MN
Ligand GOL 5 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SRS BEAMLINE PX9.6
Spacegroup: P21
Unit cell:
a: 55.914Å b: 68.953Å c: 60.519Å
α: 90° β: 106.65° γ: 90°
R-values:
R R work R free
0.179 0.176 0.237
Expression system: Escherichia coli

Quick links

Citations

26 review citations

Retrograde transport from endosomes to the trans-Golgi network.
Bonifacino et al. (2006)
25 more

2 mentions without citation

The human Vps29 retromer component is a metallo-phosphoesterase for a cation-independent mannose 6-phosphate receptor substrate peptide.
Damen et al. (2006)
1 more