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Structure paper

TitleStructure of the dimeric ATP synthase from bovine mitochondria.
Journal, issue, pagesProc Natl Acad Sci U S A, Vol. 117, Issue 38, Page 23519-23526, Year 2020
Publish dateSep 22, 2020
AuthorsTobias E Spikes / Martin G Montgomery / John E Walker /
PubMed AbstractThe structure of the dimeric ATP synthase from bovine mitochondria determined in three rotational states by electron cryo-microscopy provides evidence that the proton uptake from the mitochondrial ...The structure of the dimeric ATP synthase from bovine mitochondria determined in three rotational states by electron cryo-microscopy provides evidence that the proton uptake from the mitochondrial matrix via the proton inlet half channel proceeds via a Grotthus mechanism, and a similar mechanism may operate in the exit half channel. The structure has given information about the architecture and mechanical constitution and properties of the peripheral stalk, part of the membrane extrinsic region of the stator, and how the action of the peripheral stalk damps the side-to-side rocking motions that occur in the enzyme complex during the catalytic cycle. It also describes wedge structures in the membrane domains of each monomer, where the skeleton of each wedge is provided by three α-helices in the membrane domains of the b-subunit to which the supernumerary subunits e, f, and g and the membrane domain of subunit A6L are bound. Protein voids in the wedge are filled by three specifically bound cardiolipin molecules and two other phospholipids. The external surfaces of the wedges link the monomeric complexes together into the dimeric structures and provide a pivot to allow the monomer-monomer interfaces to change during catalysis and to accommodate other changes not related directly to catalysis in the monomer-monomer interface that occur in mitochondrial cristae. The structure of the bovine dimer also demonstrates that the structures of dimeric ATP synthases in a tetrameric porcine enzyme have been seriously misinterpreted in the membrane domains.
External linksProc Natl Acad Sci U S A / PubMed:32900941 / PubMed Central
MethodsEM (single particle)
Resolution3.23 - 6.2 Å
Structure data

EMDB-11001, PDB-6yy0:
bovine ATP synthase F1-peripheral stalk domain, state 1
Method: EM (single particle) / Resolution: 3.23 Å

EMDB-11039, PDB-6z1r:
bovine ATP synthase F1-peripheral stalk domain, state 2
Method: EM (single particle) / Resolution: 3.29 Å

EMDB-11040, PDB-6z1u:
bovine ATP synthase F1c8-peripheral stalk domain, state 3
Method: EM (single particle) / Resolution: 3.47 Å

EMDB-11149, PDB-6zbb:
bovine ATP synthase Fo domain
Method: EM (single particle) / Resolution: 3.61 Å

EMDB-11195, PDB-6zg7:
bovine ATP synthase rotor domain, state 1
Method: EM (single particle) / Resolution: 3.49 Å

EMDB-11196, PDB-6zg8:
bovine ATP synthase rotor domain state 2
Method: EM (single particle) / Resolution: 3.49 Å

EMDB-11227, PDB-6zik:
bovine ATP synthase rotor domain, state 3
Method: EM (single particle) / Resolution: 3.66 Å

EMDB-11228, PDB-6ziq:
bovine ATP synthase stator domain, state 1
Method: EM (single particle) / Resolution: 4.33 Å

EMDB-11229, PDB-6zit:
bovine ATP synthase Stator domain, state 2
Method: EM (single particle) / Resolution: 3.49 Å

EMDB-11230, PDB-6ziu:
bovine ATP synthase stator domain, state 3
Method: EM (single particle) / Resolution: 6.02 Å

EMDB-11342, PDB-6zpo:
bovine ATP synthase monomer state 1 (combined)
Method: EM (single particle) / Resolution: 4.0 Å

EMDB-11368, PDB-6zqm:
bovine ATP synthase monomer state 2 (combined)
Method: EM (single particle) / Resolution: 3.29 Å

EMDB-11369, PDB-6zqn:
bovine ATP synthase monomer state 3 (combined)
Method: EM (single particle) / Resolution: 4.0 Å

PDB-6zmr:
Porcine ATP synthase Fo domain
Method: ELECTRON MICROSCOPY / Resolution: 3.94 Å

PDB-6zna:
Porcine ATP synthase Fo domain
Method: ELECTRON MICROSCOPY / Resolution: 6.2 Å

Chemicals

ChemComp-ATP:
ADENOSINE-5'-TRIPHOSPHATE / ATP, energy-carrying molecule*YM

ChemComp-MG:
Unknown entry

ChemComp-ADP:
ADENOSINE-5'-DIPHOSPHATE / ADP, energy-carrying molecule*YM

ChemComp-HOH:
WATER

ChemComp-CDL:
CARDIOLIPIN / phospholipid*YM

ChemComp-LHG:
1,2-DIPALMITOYL-PHOSPHATIDYL-GLYCEROLE / phospholipid*YM

Source
  • bos taurus (cattle)
  • cattle (cattle)
  • Bovine (cattle)
  • synthetic construct (others)
  • sus scrofa (pig)
KeywordsHYDROLASE / ATP synthase / mitochondria / mammalian / complex / SYNTHASE / mitochondrion / porcine

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