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Saccharomyces cerevisiae V-ATPase Stv1-V1VO State 2

Electron Microscopy
7Å resolution
PDB entry 6o7w coloured by chain, front view.
PDB entry 6o7w coloured by chain, side view.
PDB entry 6o7w coloured by chain, top view.
Source organisms:
Assembly composition:
hetero 31-mer (preferred)
Entry contents: 16 distinct polypeptide molecules

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Assemblies

Assembly 1 (preferred)
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Multimeric state: hetero 31-mer
PDBe Complex ID: PDB-CPX-109874

Macromolecules

V-type proton ATPase subunit D
Chain: M
Length: 256 amino acids
Theoretical weight: 29.24 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P32610 (Residues: 1-256; Coverage: 100%)
Gene names: SYGP-ORF11, VMA8, YEL051W
Pfam: ATP synthase subunit D
InterPro: ATPase, V1 complex, subunit D
V-type proton ATPase subunit D in PDB entry 6o7w, assembly 1, front view.
V-type proton ATPase subunit D in PDB entry 6o7w, assembly 1, side view.
V-type proton ATPase subunit D in PDB entry 6o7w, assembly 1, top view.
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V-type proton ATPase subunit F
Chain: N
Length: 118 amino acids
Theoretical weight: 13.48 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P39111 (Residues: 1-118; Coverage: 100%)
Gene names: VMA7, YGR020C
Pfam: ATP synthase (F/14-kDa) subunit
InterPro:
V-type proton ATPase subunit F in PDB entry 6o7w, assembly 1, front view.
V-type proton ATPase subunit F in PDB entry 6o7w, assembly 1, side view.
V-type proton ATPase subunit F in PDB entry 6o7w, assembly 1, top view.
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V-type proton ATPase catalytic subunit A
Chains: A, C, E
Length: 639 amino acids
Theoretical weight: 70.52 KDa
Source organism: Saccharomyces cerevisiae RM11-1a
UniProt:
  • Canonical: B3LH69 (Residues: 1-617; Coverage: 100%)
Gene name: SCRG_00677
Pfam:
InterPro:
V-type proton ATPase catalytic subunit A in PDB entry 6o7w, assembly 1, front view.
V-type proton ATPase catalytic subunit A in PDB entry 6o7w, assembly 1, side view.
V-type proton ATPase catalytic subunit A in PDB entry 6o7w, assembly 1, top view.
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V-type proton ATPase subunit B
Chains: B, D, F
Length: 517 amino acids
Theoretical weight: 57.82 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P16140 (Residues: 1-517; Coverage: 100%)
Gene names: VAT2, VMA2, YBR1002, YBR127C
Pfam:
InterPro:
V-type proton ATPase subunit B in PDB entry 6o7w, assembly 1, front view.
V-type proton ATPase subunit B in PDB entry 6o7w, assembly 1, side view.
V-type proton ATPase subunit B in PDB entry 6o7w, assembly 1, top view.
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V-type proton ATPase subunit G
Chains: H, J, L
Length: 114 amino acids
Theoretical weight: 12.74 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P48836 (Residues: 1-114; Coverage: 100%)
Gene names: VMA10, YHR039BC, YHR039C-A, YHR039C-B
Pfam: Vacuolar (H+)-ATPase G subunit
InterPro: Vacuolar (H+)-ATPase G subunit
V-type proton ATPase subunit G in PDB entry 6o7w, assembly 1, front view.
V-type proton ATPase subunit G in PDB entry 6o7w, assembly 1, side view.
V-type proton ATPase subunit G in PDB entry 6o7w, assembly 1, top view.
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V-type proton ATPase subunit E
Chains: G, I, K
Length: 233 amino acids
Theoretical weight: 26.51 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P22203 (Residues: 1-233; Coverage: 100%)
Gene names: O6241, VAT5, VMA4, YOR332W
Pfam: ATP synthase (E/31 kDa) subunit
InterPro:
V-type proton ATPase subunit E in PDB entry 6o7w, assembly 1, front view.
V-type proton ATPase subunit E in PDB entry 6o7w, assembly 1, side view.
V-type proton ATPase subunit E in PDB entry 6o7w, assembly 1, top view.
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V-type proton ATPase subunit H
Chain: P
Length: 478 amino acids
Theoretical weight: 54.48 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P41807 (Residues: 1-478; Coverage: 100%)
Gene names: CLS11, VMA13, YP3085.02, YPR036W
Pfam:
InterPro:
V-type proton ATPase subunit H in PDB entry 6o7w, assembly 1, front view.
V-type proton ATPase subunit H in PDB entry 6o7w, assembly 1, side view.
V-type proton ATPase subunit H in PDB entry 6o7w, assembly 1, top view.
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V-type proton ATPase subunit C
Chain: O
Length: 392 amino acids
Theoretical weight: 44.24 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P31412 (Residues: 1-392; Coverage: 100%)
Gene names: VAT3, VATC, VMA5, YKL080W, YKL410
Pfam: V-ATPase subunit C
InterPro:
V-type proton ATPase subunit C in PDB entry 6o7w, assembly 1, front view.
V-type proton ATPase subunit C in PDB entry 6o7w, assembly 1, side view.
V-type proton ATPase subunit C in PDB entry 6o7w, assembly 1, top view.
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V-type proton ATPase subunit a, Golgi isoform
Chain: a
Length: 890 amino acids
Theoretical weight: 101.76 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P37296 (Residues: 1-890; Coverage: 100%)
Gene names: STV1, YM9796.07, YMR054W
Pfam: V-type ATPase 116kDa subunit family
InterPro:
V-type proton ATPase subunit a, Golgi isoform in PDB entry 6o7w, assembly 1, front view.
V-type proton ATPase subunit a, Golgi isoform in PDB entry 6o7w, assembly 1, side view.
V-type proton ATPase subunit a, Golgi isoform in PDB entry 6o7w, assembly 1, top view.
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V0 assembly protein 1
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
Pfam: V0 complex accessory subunit Ac45/VOA1 transmembrane domain
InterPro: V-type proton ATPase subunit S1/VOA1, transmembrane domain
V0 assembly protein 1 in PDB entry 6o7w, assembly 1, front view.
V0 assembly protein 1 in PDB entry 6o7w, assembly 1, side view.
V0 assembly protein 1 in PDB entry 6o7w, assembly 1, top view.
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V-type proton ATPase subunit c''
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
Pfam: ATP synthase subunit C
InterPro:
V-type proton ATPase subunit c'' in PDB entry 6o7w, assembly 1, front view.
V-type proton ATPase subunit c'' in PDB entry 6o7w, assembly 1, side view.
V-type proton ATPase subunit c'' in PDB entry 6o7w, assembly 1, top view.
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V-type proton ATPase subunit d
Chain: d
Length: 345 amino acids
Theoretical weight: 39.82 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P32366 (Residues: 1-345; Coverage: 100%)
Gene names: L9324.8, VMA6, YLR447C
Pfam: ATP synthase (C/AC39) subunit
InterPro:
V-type proton ATPase subunit d in PDB entry 6o7w, assembly 1, front view.
V-type proton ATPase subunit d in PDB entry 6o7w, assembly 1, side view.
V-type proton ATPase subunit d in PDB entry 6o7w, assembly 1, top view.
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V-type proton ATPase subunit c
Chains: g, h, i, j, k, l, m, n
Length: 160 amino acids
Theoretical weight: 16.36 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P25515 (Residues: 1-160; Coverage: 100%)
Gene names: CLS7, CUP5, GEF2, VMA3, YEL027W
Pfam: ATP synthase subunit C
InterPro:
V-type proton ATPase subunit c in PDB entry 6o7w, assembly 1, front view.
V-type proton ATPase subunit c in PDB entry 6o7w, assembly 1, side view.
V-type proton ATPase subunit c in PDB entry 6o7w, assembly 1, top view.
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V-type proton ATPase subunit c'
Chain: o
Length: 164 amino acids
Theoretical weight: 17.05 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P32842 (Residues: 1-164; Coverage: 100%)
Gene names: CLS9, P1064, TFP3, VMA11, YPL234C
Pfam: ATP synthase subunit C
InterPro:
V-type proton ATPase subunit c' in PDB entry 6o7w, assembly 1, front view.
V-type proton ATPase subunit c' in PDB entry 6o7w, assembly 1, side view.
V-type proton ATPase subunit c' in PDB entry 6o7w, assembly 1, top view.
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V-type proton ATPase subunit e
Chain: e
Length: 73 amino acids
Theoretical weight: 8.39 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q3E7B6 (Residues: 1-73; Coverage: 100%)
Gene names: CWH36, LDB10, VMA9, YCL005W-A
Pfam: ATP synthase subunit H
InterPro: ATPase, V0 complex, subunit e1/e2
V-type proton ATPase subunit e in PDB entry 6o7w, assembly 1, front view.
V-type proton ATPase subunit e in PDB entry 6o7w, assembly 1, side view.
V-type proton ATPase subunit e in PDB entry 6o7w, assembly 1, top view.
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V-type proton ATPase subunit f
Chain: f
Length: 85 amino acids
Theoretical weight: 9.37 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P0C5R9 (Residues: 1-85; Coverage: 100%)
Gene name: YPR170W-B
InterPro: Ribonuclease kappa
V-type proton ATPase subunit f in PDB entry 6o7w, assembly 1, front view.
V-type proton ATPase subunit f in PDB entry 6o7w, assembly 1, side view.
V-type proton ATPase subunit f in PDB entry 6o7w, assembly 1, top view.
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