7TKM

Yeast ATP synthase State 3binding(b) with 10 mM ATP backbone model

  • Classification: HYDROLASE
  • Organism(s): Saccharomyces cerevisiae
  • Mutation(s): No 
  • Membrane Protein: Yes  mpstruc

  • Deposited: 2022-01-17 Released: 2022-05-11 
  • Deposition Author(s): Guo, H., Rubinstein, J.L.
  • Funding Organization(s): Canada Research Chairs, Canadian Institutes of Health Research (CIHR), Canada Foundation for Innovation

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structure of ATP synthase under strain during catalysis.

Guo, H.Rubinstein, J.L.

(2022) Nat Commun 13: 2232-2232

  • DOI: https://doi.org/10.1038/s41467-022-29893-2
  • Primary Citation of Related Structures:  
    7TJS, 7TJT, 7TJU, 7TJV, 7TJW, 7TJX, 7TJY, 7TJZ, 7TK0, 7TK1, 7TK2, 7TK3, 7TK4, 7TK5, 7TK6, 7TK7, 7TK8, 7TK9, 7TKA, 7TKB, 7TKC, 7TKD, 7TKE, 7TKF, 7TKG, 7TKH, 7TKI, 7TKJ, 7TKK, 7TKL, 7TKM, 7TKN, 7TKO, 7TKP, 7TKQ, 7TKR, 7TKS

  • PubMed Abstract: 

    ATP synthases are macromolecular machines consisting of an ATP-hydrolysis-driven F 1 motor and a proton-translocation-driven F O motor. The F 1 and F O motors oppose each other's action on a shared rotor subcomplex and are held stationary relative to each other by a peripheral stalk. Structures of resting mitochondrial ATP synthases revealed a left-handed curvature of the peripheral stalk even though rotation of the rotor, driven by either ATP hydrolysis in F 1 or proton translocation through F O , would apply a right-handed bending force to the stalk. We used cryoEM to image yeast mitochondrial ATP synthase under strain during ATP-hydrolysis-driven rotary catalysis, revealing a large deformation of the peripheral stalk. The structures show how the peripheral stalk opposes the bending force and suggests that during ATP synthesis proton translocation causes accumulation of strain in the stalk, which relaxes by driving the relative rotation of the rotor through six sub-steps within F 1 , leading to catalysis.


  • Organizational Affiliation

    Molecular Medicine Program, The Hospital for Sick Children, Toronto, Ontario, Canada.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit 976Saccharomyces cerevisiaeMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P61829 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit alphaK [auth A],
L [auth B],
M [auth C]
510Saccharomyces cerevisiaeMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit betaN [auth D],
O [auth E],
P [auth F]
478Saccharomyces cerevisiaeMutation(s): 0 
EC: 7.1.2.2
Membrane Entity: Yes 
UniProt
Find proteins for P00830 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit gammaQ [auth G]278Saccharomyces cerevisiaeMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P38077 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit deltaR [auth H]138Saccharomyces cerevisiaeMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q12165 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit epsilonS [auth I]61Saccharomyces cerevisiaeMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit 5T [auth O]195Saccharomyces cerevisiaeMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit aU [auth T]249Saccharomyces cerevisiaeMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit 4V [auth U]209Saccharomyces cerevisiaeMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit dW [auth V]173Saccharomyces cerevisiaeMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P30902 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit fX [auth W]95Saccharomyces cerevisiaeMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q06405 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit HY [auth X]92Saccharomyces cerevisiaeMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q12349 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit JZ [auth Y]59Saccharomyces cerevisiaeMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P81450 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase protein 8AA [auth Z]48Saccharomyces cerevisiaeMutation(s): 0 
Membrane Entity: Yes 
UniProt
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTCoot0.9.2
MODEL REFINEMENTISOLDE1.2.0
MODEL REFINEMENTPHENIX1.19.2
RECONSTRUCTIONcryoSPARC3.1.0

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Canada Research ChairsCanadaElectron Cryomicroscopy
Canadian Institutes of Health Research (CIHR)CanadaPJT162186
Canada Foundation for InnovationCanada--

Revision History  (Full details and data files)

  • Version 1.0: 2022-05-11
    Type: Initial release
  • Version 1.1: 2024-02-21
    Changes: Data collection, Refinement description