› 2zao

X-ray diffraction
3.2Å resolution

Crystal structure of mouse SKD1/VPS4B ADP-form

Released:
DOI: 10.2210/pdb2zao/pdb
Model geometry
Fit model/data
PDB entry 2zao coloured by chain, front view.
PDB entry 2zao coloured by chain, side view.
PDB entry 2zao coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Nucleotide-dependent conformational changes and assembly of the AAA ATPase SKD1/VPS4B.
Inoue M, Kamikubo H, Kataoka M, Kato R, Yoshimori T, Wakatsuki S, Kawasaki M
Traffic 9 2180-9 (2008)
PMID: 18796009

Function and Biology Details

Reaction catalysed: 
ATP + H(2)O = ADP + phosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-155475 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Vacuolar protein sorting-associated protein 4B Chain: A
Molecule details ›
Chain: A
Length: 444 amino acids
Theoretical weight: 49.49 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: P46467 (Residues: 1-444; Coverage: 100%)
Gene names: Skd1, Vps4b
Sequence domains:
Structure domains:

Ligands and Environments

1 bound ligand:
Ligand ADP 1 x ADP
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: PHOTON FACTORY BEAMLINE AR-NW12A
Spacegroup: P65
Unit cell:
a: 75.673Å b: 75.673Å c: 132.685Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.225 0.225 0.266
Expression system: Escherichia coli

Quick links

Citations

8 review citations

Membrane budding and scission by the ESCRT machinery: it's all in the neck.
Hurley et al. (2010)
7 more

2 mentions without citation

Asymmetric ring structure of Vps4 required for ESCRT-III disassembly.
Caillat et al. (2015)
1 more