› 4bx9

X-ray diffraction
2.6Å resolution

Human Vps33A in complex with a fragment of human Vps16

Released:
DOI: 10.2210/pdb4bx9/pdb
PDB 4bx9 coloured by chain and viewed from the front.
PDB 4bx9 coloured by chain and viewed from the side.
PDB 4bx9 coloured by chain and viewed from the top.
Source organism: Homo sapiens
Primary publication:
Structural basis of Vps33A recruitment to the human HOPS complex by Vps16.
Graham SC, Wartosch L, Gray SR, Scourfield EJ, Deane JE, Luzio JP, Owen DJ
Proc. Natl. Acad. Sci. U.S.A. (2013)
PMID: 23901104

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
hetero dimer (preferred)
monomeric
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Vacuolar protein sorting-associated protein 33A Chains: A, B
Molecule details ›
Chains: A, B
Length: 606 amino acids
Theoretical weight: 69.08 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q96AX1 (Residues: 1-596; Coverage: 100%)
Gene name: VPS33A
Sequence domains: Sec1 family
Structure domains:
Vacuolar protein sorting-associated protein 16 homolog Chain: C
Molecule details ›
Chain: C
Length: 99 amino acids
Theoretical weight: 11.36 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9H269 (Residues: 642-736; Coverage: 11%)
Gene name: VPS16
Structure domains: Vps16, C-terminal region

Ligands and Environments

3 bound ligands:
Ligand FMT 3 x FMT
Ligand LMR 1 x LMR
Ligand MLA 1 x MLA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04-1
Spacegroup: P43212
Unit cell:
a: 128.41Å b: 128.41Å c: 263.36Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.178 0.176 0.21
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

13 review citations

Chaperoning SNARE Folding and Assembly.
Zhang et al. (2021)
12 more

2 mentions without citation

Structural basis of Vps33A recruitment to the human HOPS complex by Vps16.
Graham et al. (2013)
1 more