› 6o7t

Electron Microscopy
3.2Å resolution

Saccharomyces cerevisiae V-ATPase Vph1-VO

Released:
DOI: 10.2210/pdb6o7t/pdb
PDB entry 6o7t coloured by chain, front view.
PDB entry 6o7t coloured by chain, side view.
PDB entry 6o7t coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
Structural comparison of the vacuolar and Golgi V-ATPases from Saccharomyces cerevisiae.
Vasanthakumar T, Bueler SA, Wu D, Beilsten-Edmands V, Robinson CV, Rubinstein JL
Proc Natl Acad Sci U S A 116 7272-7277 (2019)
PMID: 30910982
Related structures: EMD-0644

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero pentadecamer (preferred)
PDBe Complex ID:
PDB-CPX-143033 (preferred)
Entry contents:
8 distinct polypeptide molecules
Macromolecules (8 distinct):
V-type proton ATPase subunit a, vacuolar isoform Chain: a
Molecule details ›
Chain: a
Length: 862 amino acids
Theoretical weight: 98.34 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P32563 (Residues: 1-840; Coverage: 100%)
Gene names: VPH1, YOR270C
Sequence domains: V-type ATPase 116kDa subunit family
V0 assembly protein 1 Chain: b
Molecule details ›
Chain: b
Length: 265 amino acids
Theoretical weight: 29.69 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P53262 (Residues: 1-265; Coverage: 100%)
Gene names: VOA1, YGR106C
Sequence domains: V0 complex accessory subunit Ac45/VOA1 transmembrane domain
V-type proton ATPase subunit c'' Chain: c
Molecule details ›
Chain: c
Length: 213 amino acids
Theoretical weight: 22.61 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P23968 (Residues: 1-213; Coverage: 100%)
Gene names: PPA1, VMA16, YHR026W
Sequence domains: ATP synthase subunit C
V-type proton ATPase subunit d Chain: d
Molecule details ›
Chain: d
Length: 345 amino acids
Theoretical weight: 39.82 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P32366 (Residues: 1-345; Coverage: 100%)
Gene names: L9324.8, VMA6, YLR447C
Sequence domains: ATP synthase (C/AC39) subunit
V-type proton ATPase subunit f Chain: f
Molecule details ›
Chain: f
Length: 85 amino acids
Theoretical weight: 9.37 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P0C5R9 (Residues: 1-85; Coverage: 100%)
Gene name: YPR170W-B
V-type proton ATPase subunit c Chains: g, h, i, j, k, l, m, n
Molecule details ›
Chains: g, h, i, j, k, l, m, n
Length: 160 amino acids
Theoretical weight: 16.36 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P25515 (Residues: 1-160; Coverage: 100%)
Gene names: CLS7, CUP5, GEF2, VMA3, YEL027W
Sequence domains: ATP synthase subunit C
V-type proton ATPase subunit c' Chain: o
Molecule details ›
Chain: o
Length: 164 amino acids
Theoretical weight: 17.05 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: P32842 (Residues: 1-164; Coverage: 100%)
Gene names: CLS9, P1064, TFP3, VMA11, YPL234C
Sequence domains: ATP synthase subunit C
V-type proton ATPase subunit e Chain: e
Molecule details ›
Chain: e
Length: 73 amino acids
Theoretical weight: 8.39 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q3E7B6 (Residues: 1-73; Coverage: 100%)
Gene names: CWH36, LDB10, VMA9, YCL005W-A
Sequence domains: ATP synthase subunit H

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.2Å
Relevant EMDB volumes: EMD-0644

Quick links

Citations

7 review citations

Regulation and function of V-ATPases in physiology and disease.
Collins et al. (2020)
6 more

4 mentions without citation

Structural comparison of the vacuolar and Golgi V-ATPases from Saccharomyces cerevisiae.
Vasanthakumar et al. (2019)
3 more