8H9J

Human ATP synthase state2 subregion 3


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.26 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

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, L.W.Liu, F.Gao, Y.Rao, Z.Gong, H.

(2023) Mol Cell 83: 2137

  • DOI: https://doi.org/10.1016/j.molcel.2023.04.029
  • Primary Citation of Related Structures:  
    8H9E, 8H9F, 8H9G, 8H9I, 8H9J, 8H9K, 8H9L, 8H9M, 8H9N, 8H9P, 8H9Q, 8H9R, 8H9S, 8H9T, 8H9U, 8H9V

  • PubMed Abstract: 

    Biological energy currency ATP is produced by F 1 F o -ATP synthase. However, the molecular mechanism for human ATP synthase action remains unknown. Here, we present snapshot images for three main rotational states and one substate of human ATP synthase using cryoelectron microscopy. These structures reveal that the release of ADP occurs when the β subunit of F 1 F o -ATP synthase is in the open conformation, showing how ADP binding is coordinated during synthesis. The accommodation of the symmetry mismatch between F 1 and F o motors is resolved by the torsional flexing of the entire complex, especially the γ subunit, and the rotational substep of the c subunit. Water molecules are identified in the inlet and outlet half-channels, suggesting that the proton transfer in these two half-channels proceed via a Grotthus mechanism. Clinically relevant mutations are mapped to the structure, showing that they are mainly located at the subunit-subunit interfaces, thus causing instability of the complex.


  • Organizational Affiliation

    State Key Laboratory of Medicinal Chemical Biology and Frontiers Science Center for Cell Responses, College of Life Sciences, Nankai University, Tianjin 300071, China; Institute for Immunology, College of Life Sciences, Nankai University, Tianjin 300071, China.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase F(0) complex subunit C1, mitochondrial75Homo sapiensMutation(s): 0 
Membrane Entity: Yes 
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GTEx:  ENSG00000159199 
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UniProt GroupP05496
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit gamma, mitochondrialI [auth G]273Homo sapiensMutation(s): 0 
Membrane Entity: Yes 
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GTEx:  ENSG00000165629 
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit delta, mitochondrialJ [auth H]146Homo sapiensMutation(s): 0 
Membrane Entity: Yes 
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GTEx:  ENSG00000099624 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit epsilon, mitochondrialK [auth I]51Homo sapiensMutation(s): 0 
Membrane Entity: Yes 
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GTEx:  ENSG00000124172 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase F(0) complex subunit B1, mitochondrialL [auth K]214Homo sapiensMutation(s): 0 
Membrane Entity: Yes 
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GTEx:  ENSG00000116459 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit d, mitochondrial160Homo sapiensMutation(s): 0 
Membrane Entity: Yes 
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GTEx:  ENSG00000167863 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit a226Homo sapiensMutation(s): 0 
Membrane Entity: Yes 
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GTEx:  ENSG00000198899 
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit ATP5MJ, mitochondrialO [auth P]58Homo sapiensMutation(s): 0 
Membrane Entity: Yes 
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GTEx:  ENSG00000156411 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit f, mitochondrialP [auth R]93Homo sapiensMutation(s): 0 
Membrane Entity: Yes 
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GTEx:  ENSG00000241468 
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit g, mitochondrialQ [auth S]102Homo sapiensMutation(s): 0 
Membrane Entity: Yes 
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GTEx:  ENSG00000167283 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit e, mitochondrialR [auth T]69Homo sapiensMutation(s): 0 
Membrane Entity: Yes 
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GTEx:  ENSG00000169020 
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase protein 8S [auth Q]68Homo sapiensMutation(s): 0 
Membrane Entity: Yes 
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GTEx:  ENSG00000228253 
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.26 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China81520108019
National Natural Science Foundation of China (NSFC)China813300237
National Natural Science Foundation of China (NSFC)China32100976
National Natural Science Foundation of China (NSFC)China82222042

Revision History  (Full details and data files)

  • Version 1.0: 2023-05-31
    Type: Initial release
  • Version 1.1: 2023-06-07
    Changes: Database references
  • Version 1.2: 2023-07-05
    Changes: Database references
  • Version 1.3: 2024-07-03
    Changes: Data collection