› 8h9s

Electron Microscopy
2.53Å resolution

Human ATP synthase state 1 (combined)

Released:
DOI: 10.2210/pdb8h9s/pdb
PDB entry 8h9s coloured by chain, front view.
PDB entry 8h9s coloured by chain, side view.
PDB entry 8h9s coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structure of the human ATP synthase.
Lai Y, Zhang Y, Zhou S, Xu J, Du Z, Feng Z, Yu L, Zhao Z, Wang W, Tang Y, Yang X, Guddat LW, Liu F, Gao Y, Rao Z, Gong H
Mol Cell (2023)
PMID: 37244256
Related structures: EMD-34580

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:

Structure analysis Details

Assembly composition:
hetero 28-mer (preferred)
PDBe Complex ID:
PDB-CPX-522243 (preferred)
Entry contents:
17 distinct polypeptide molecules
Macromolecules (17 distinct):
ATP synthase F(0) complex subunit B1, mitochondrial Chain: K
Molecule details ›
Chain: K
Length: 214 amino acids
Theoretical weight: 24.66 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P24539 (Residues: 43-256; Coverage: 84%)
Gene names: ATP5F1, ATP5PB
Sequence domains: Mitochondrial ATP synthase B chain precursor (ATP-synt_B)
ATP synthase-coupling factor 6, mitochondrial Chain: L
Molecule details ›
Chain: L
Length: 108 amino acids
Theoretical weight: 12.61 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P18859 (Residues: 1-108; Coverage: 100%)
Gene names: ATP5A, ATP5J, ATP5PF, ATPM
Sequence domains: Mitochondrial ATP synthase coupling factor 6
ATP synthase subunit d, mitochondrial Chain: M
Molecule details ›
Chain: M
Length: 160 amino acids
Theoretical weight: 18.38 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: O75947 (Residues: 2-161; Coverage: 99%)
Gene names: ATP5H, ATP5PD, My032
Sequence domains: ATP synthase D chain, mitochondrial (ATP5H)
ATP synthase subunit alpha, mitochondrial Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 510 amino acids
Theoretical weight: 55.28 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P25705 (Residues: 44-553; Coverage: 92%)
Gene names: ATP5A, ATP5A1, ATP5AL2, ATP5F1A, ATPM
Sequence domains:
ATP synthase subunit beta, mitochondrial Chains: D, E, F
Molecule details ›
Chains: D, E, F
Length: 482 amino acids
Theoretical weight: 51.82 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P06576 (Residues: 48-529; Coverage: 91%)
Gene names: ATP5B, ATP5F1B, ATPMB, ATPSB
Sequence domains:
ATP synthase subunit gamma, mitochondrial Chain: G
Molecule details ›
Chain: G
Length: 273 amino acids
Theoretical weight: 30.21 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P36542 (Residues: 26-298; Coverage: 92%)
Gene names: ATP5C, ATP5C1, ATP5CL1, ATP5F1C
Sequence domains: ATP synthase
ATPase inhibitor, mitochondrial Chain: J
Molecule details ›
Chain: J
Length: 81 amino acids
Theoretical weight: 9.54 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: Q9UII2 (Residues: 26-106; Coverage: 76%)
Gene names: ATP5IF1, ATPI, ATPIF1
Sequence domains: Mitochondrial ATPase inhibitor, IATP
ATP synthase subunit O, mitochondrial Chain: O
Molecule details ›
Chain: O
Length: 190 amino acids
Theoretical weight: 20.9 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P48047 (Residues: 24-213; Coverage: 89%)
Gene names: ATP5O, ATP5PO, ATPO
Sequence domains: ATP synthase delta (OSCP) subunit
ATP synthase F(0) complex subunit C1, mitochondrial Chains: 1, 2, 3, 4, 5, 6, 7, 8
Molecule details ›
Chains: 1, 2, 3, 4, 5, 6, 7, 8
Length: 75 amino acids
Theoretical weight: 7.61 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P05496 (Residues: 62-136; Coverage: 55%)
Gene names: ATP5G1, ATP5MC1
Sequence domains: ATP synthase subunit C
ATP synthase subunit delta, mitochondrial Chain: H
Molecule details ›
Chain: H
Length: 146 amino acids
Theoretical weight: 15.03 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P30049 (Residues: 23-168; Coverage: 87%)
Gene names: ATP5D, ATP5F1D
Sequence domains:
ATP synthase subunit epsilon, mitochondrial Chain: I
Molecule details ›
Chain: I
Length: 51 amino acids
Theoretical weight: 5.79 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P56381 (Residues: 1-51; Coverage: 100%)
Gene names: ATP5E, ATP5F1E
Sequence domains: Mitochondrial ATP synthase epsilon chain
ATP synthase subunit a Chain: N
Molecule details ›
Chain: N
Length: 226 amino acids
Theoretical weight: 24.83 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P00846 (Residues: 1-226; Coverage: 100%)
Gene names: ATP6, ATPASE6, MT-ATP6, MTATP6
Sequence domains: ATP synthase A chain
ATP synthase subunit ATP5MJ, mitochondrial Chain: P
Molecule details ›
Chain: P
Length: 58 amino acids
Theoretical weight: 6.67 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P56378 (Residues: 1-58; Coverage: 100%)
Gene names: ATP5MJ, ATP5MPL, C14orf2, MP68, PRO1574
Sequence domains: Mitochondrial proteolipid
ATP synthase protein 8 Chain: Q
Molecule details ›
Chain: Q
Length: 68 amino acids
Theoretical weight: 8 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P03928 (Residues: 1-68; Coverage: 100%)
Gene names: ATP8, ATPASE8, MT-ATP8, MTATP8
Sequence domains: ATP synthase protein 8
ATP synthase subunit f, mitochondrial Chain: R
Molecule details ›
Chain: R
Length: 93 amino acids
Theoretical weight: 10.8 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P56134 (Residues: 2-94; Coverage: 99%)
Gene names: ATP5J2, ATP5JL, ATP5MF
Sequence domains: Mitochondrial F1F0-ATP synthase, subunit f
ATP synthase subunit g, mitochondrial Chain: S
Molecule details ›
Chain: S
Length: 102 amino acids
Theoretical weight: 11.31 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: O75964 (Residues: 2-103; Coverage: 99%)
Gene names: ATP5L, ATP5MG
Sequence domains: Mitochondrial ATP synthase g subunit
ATP synthase subunit e, mitochondrial Chain: T
Molecule details ›
Chain: T
Length: 69 amino acids
Theoretical weight: 7.95 KDa
Source organism: Homo sapiens
UniProt:
  • Canonical: P56385 (Residues: 1-69; Coverage: 100%)
Gene names: ATP5I, ATP5K, ATP5ME
Sequence domains: ATP synthase E chain

Ligands and Environments

5 bound ligands:
Ligand CDL 2 x CDL
Ligand ATP 3 x ATP
Ligand MG 5 x MG
Ligand ADP 2 x ADP
Ligand 3PH 1 x 3PH
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 2.53Å
Relevant EMDB volumes: EMD-34580

Quick links

Citations

5 review citations

Identity, structure, and function of the mitochondrial permeability transition pore: controversies, consensus, recent advances, and future directions.
Bernardi et al. (2023)
4 more

4 mentions without citation

Variants in Human ATP Synthase Mitochondrial Genes: Biochemical Dysfunctions, Associated Diseases, and Therapies.
Del Dotto et al. (2024)
3 more