› 6b8h

Electron Microscopy
3.6Å resolution

Mosaic model of yeast mitochondrial ATP synthase monomer

Released:
DOI: 10.2210/pdb6b8h/pdb
PDB entry 6b8h coloured by chain, front view.
PDB entry 6b8h coloured by chain, side view.
PDB entry 6b8h coloured by chain, top view.
Source organisms:
Primary publication:
Atomic model for the dimeric FO region of mitochondrial ATP synthase.
Guo H, Bueler SA, Rubinstein JL
Science 358 936-940 (2017)
PMID: 29074581
Related structures: EMD-7067

Function and Biology Details

Reaction catalysed: 
ATP + H(2)O + 4 H(+)(Side 1) = ADP + phosphate + 4 H(+)(Side 2)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 60-mer (preferred)
PDBe Complex ID:
PDB-CPX-123200 (preferred)
Entry contents:
17 distinct polypeptide molecules
Macromolecules (17 distinct):
ATP synthase subunit 9, mitochondrial Chains: 0, 1, 2, 3, 4, 5, 6, 7, 8, 9, J, L, M, N, P, Q, R, S, T, U
Molecule details ›
Chains: 0, 1, 2, 3, 4, 5, 6, 7, 8, 9, J, L, M, N, P, Q, R, S, T, U
Length: 76 amino acids
Theoretical weight: 7.76 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P61829 (Residues: 1-76; Coverage: 100%)
Gene names: ATP9, OLI1, OLI3, PHO2, Q0130
Sequence domains: ATP synthase subunit C
Structure domains: F1F0 ATP synthase subunit C
ATP synthase protein 8 Chains: A, V
Molecule details ›
Chains: A, V
Length: 48 amino acids
Theoretical weight: 5.83 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P00856 (Residues: 1-48; Coverage: 100%)
Gene names: AAP1, ATP8, Q0080
Sequence domains: Fungal ATP synthase protein 8 (A6L)
ATP synthase subunit a Chains: a, p
Molecule details ›
Chains: a, p
Length: 249 amino acids
Theoretical weight: 27.9 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P00854 (Residues: 11-259; Coverage: 96%)
Gene names: ATP6, OLI2, OLI4, PHO1, Q0085
Sequence domains: ATP synthase A chain
ATP synthase subunit 4, mitochondrial Chains: b, q
Molecule details ›
Chains: b, q
Length: 209 amino acids
Theoretical weight: 23.19 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P05626 (Residues: 36-244; Coverage: 86%)
Gene names: ATP4, LPF7C, YPL078C
Sequence domains: Mitochondrial ATP synthase B chain precursor (ATP-synt_B)
ATP synthase subunit d, mitochondrial Chains: d, r
Molecule details ›
Chains: d, r
Length: 173 amino acids
Theoretical weight: 19.71 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P30902 (Residues: 2-174; Coverage: 99%)
Gene names: ATP7, YKL016C
Sequence domains: ATP synthase D chain, mitochondrial (ATP5H)
ATP synthase subunit e, mitochondrial Chains: e, s
Molecule details ›
Chains: e, s
Length: 49 amino acids
Theoretical weight: 4.19 KDa
Source organism: Saccharomyces cerevisiae S288C
ATP synthase subunit f, mitochondrial Chains: f, t
Molecule details ›
Chains: f, t
Length: 95 amino acids
Theoretical weight: 10.58 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q06405 (Residues: 7-101; Coverage: 94%)
Gene names: ATP17, D9481.21, YDR377W
Sequence domains: Mitochondrial F1-F0 ATP synthase subunit F of fungi
AATP synthase subunit g Chains: g, u
Molecule details ›
Chains: g, u
Length: 106 amino acids
Theoretical weight: 9.04 KDa
Source organism: Saccharomyces cerevisiae S288C
ATP synthase subunit J, mitochondrial Chains: i, w
Molecule details ›
Chains: i, w
Length: 59 amino acids
Theoretical weight: 6.7 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P81450 (Residues: 1-59; Coverage: 100%)
Gene names: ATP18, YML081BC, YML081C-A
Sequence domains: ATP synthase j chain
ATP synthase subunit K, mitochondrial Chains: k, x
Molecule details ›
Chains: k, x
Length: 68 amino acids
Theoretical weight: 7.55 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P81451 (Residues: 1-68; Coverage: 100%)
Gene names: ATP19, YOL077W-A, YOL078BW
Sequence domains: ATP synthase subunit K
ATP synthase subunit alpha, mitochondrial Chains: B, C, K, W, X, n
Molecule details ›
Chains: B, C, K, W, X, n
Length: 510 amino acids
Theoretical weight: 55.01 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P07251 (Residues: 36-545; Coverage: 94%)
Gene names: ATP1, YBL0827, YBL099W
Sequence domains:
Structure domains:
ATP synthase subunit beta, mitochondrial Chains: D, E, F, Y, Z, c
Molecule details ›
Chains: D, E, F, Y, Z, c
Length: 478 amino acids
Theoretical weight: 51.18 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P00830 (Residues: 34-511; Coverage: 94%)
Gene names: ATP2, J2041, YJR121W
Sequence domains:
Structure domains:
ATP synthase subunit gamma, mitochondrial Chains: G, j
Molecule details ›
Chains: G, j
Length: 278 amino acids
Theoretical weight: 30.66 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P38077 (Residues: 34-311; Coverage: 89%)
Gene names: ATP3, ATP3a, ATP3b, YBR039W, YBR0408
Sequence domains: ATP synthase
Structure domains:
ATP synthase subunit delta, mitochondrial Chains: H, l
Molecule details ›
Chains: H, l
Length: 138 amino acids
Theoretical weight: 14.57 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: Q12165 (Residues: 23-160; Coverage: 86%)
Gene names: ATP16, D2935, YD8119.03, YDL004W
Sequence domains:
ATP synthase catalytic sector F1 epsilon subunit Chains: I, m
Molecule details ›
Chains: I, m
Length: 61 amino acids
Theoretical weight: 6.64 KDa
Source organism: Saccharomyces cerevisiae
UniProt:
  • Canonical: E9P9X4 (Residues: 2-62; Coverage: 98%)
Sequence domains: Mitochondrial ATP synthase epsilon chain
Structure domains: ATP synthase, F1 complex, epsilon subunit superfamily, mitochondrial
ATP synthase subunit 5, mitochondrial Chains: O, o
Molecule details ›
Chains: O, o
Length: 195 amino acids
Theoretical weight: 20.9 KDa
Source organism: Saccharomyces cerevisiae S288C
UniProt:
  • Canonical: P09457 (Residues: 18-212; Coverage: 92%)
Gene names: ATP5, D9740.11, OSCP, YDR298C
Sequence domains: ATP synthase delta (OSCP) subunit
ATP synthase subunit h Chains: h, v
Molecule details ›
Chains: h, v
Length: 21 amino acids
Theoretical weight: 1.81 KDa
Source organism: Saccharomyces cerevisiae S288C

Ligands and Environments

2 bound ligands:
Ligand ANP 10 x ANP
Ligand MG 10 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.6Å
Relevant EMDB volumes: EMD-7067

Quick links

Citations

25 review citations

The mitochondrial permeability transition: Recent progress and open questions.
Bernardi et al. (2022)
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18 mentions without citation

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Sharma et al. (2019)
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