5FL7

Structure of the F1c10 complex from Yarrowia lipolytica ATP synthase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • R-Value Free: 0.305 
  • R-Value Work: 0.274 
  • R-Value Observed: 0.275 

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Literature

Structure of a Complete ATP Synthase Dimer Reveals the Molecular Basis of Inner Mitochondrial Membrane Morphology.

Hahn, A.Parey, K.Bublitz, M.Mills, D.J.Zickermann, V.Vonck, J.Kuhlbrandt, W.Meier, T.

(2016) Mol Cell 63: 445

  • DOI: 10.1016/j.molcel.2016.05.037
  • Primary Citation of Related Structures:  
    5FL7

  • PubMed Abstract: 
  • We determined the structure of a complete, dimeric F1Fo-ATP synthase from yeast Yarrowia lipolytica mitochondria by a combination of cryo-EM and X-ray crystallography. The final structure resolves 58 of the 60 dimer subunits. Horizontal helices of subunit a in Fo wrap around the c-ring rotor, and a total of six vertical helices assigned to subunits a, b, f, i, and 8 span the membrane ...

    We determined the structure of a complete, dimeric F1Fo-ATP synthase from yeast Yarrowia lipolytica mitochondria by a combination of cryo-EM and X-ray crystallography. The final structure resolves 58 of the 60 dimer subunits. Horizontal helices of subunit a in Fo wrap around the c-ring rotor, and a total of six vertical helices assigned to subunits a, b, f, i, and 8 span the membrane. Subunit 8 (A6L in human) is an evolutionary derivative of the bacterial b subunit. On the lumenal membrane surface, subunit f establishes direct contact between the two monomers. Comparison with a cryo-EM map of the F1Fo monomer identifies subunits e and g at the lateral dimer interface. They do not form dimer contacts but enable dimer formation by inducing a strong membrane curvature of ∼100°. Our structure explains the structural basis of cristae formation in mitochondria, a landmark signature of eukaryotic cell morphology.


    Organizational Affiliation

    Department of Structural Biology, Max Planck Institute of Biophysics, Max-von-Laue-Str. 3, 60438 Frankfurt am Main, Germany. Electronic address: t.meier@imperial.ac.uk.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ATP SYNTHASE SUBUNIT ALPHAA, B, C536Yarrowia lipolyticaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q6C326 (Yarrowia lipolytica (strain CLIB 122 / E 150))
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Go to UniProtKB:  Q6C326
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
ATP SYNTHASE SUBUNIT BETAD, E, F509Yarrowia lipolyticaMutation(s): 0 
EC: 3.6.3.14 (PDB Primary Data), 7.1.2.2 (UniProt)
Membrane Entity: Yes 
UniProt
Find proteins for Q6CFT7 (Yarrowia lipolytica (strain CLIB 122 / E 150))
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
ATP SYNTHASE SUBUNIT GAMMA CHAIN, MITOCHONDRIALG293Yarrowia lipolyticaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q6C338 (Yarrowia lipolytica (strain CLIB 122 / E 150))
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
ATP SYNTHASE DELTA CHAIN, MITOCHONDRIALH137Yarrowia lipolyticaMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q6C877 (Yarrowia lipolytica (strain CLIB 122 / E 150))
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
ATP SYNTHASE EPSILON CHAIN, MITOCHONDRIALI16Yarrowia lipolyticaMutation(s): 0 
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
ATP SYNTHASE SUBUNIT 9, MITOCHONDRIAL76Yarrowia lipolyticaMutation(s): 0 
EC: 3.6.3.14
Membrane Entity: Yes 
UniProt
Find proteins for Q37695 (Yarrowia lipolytica (strain CLIB 122 / E 150))
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Go to UniProtKB:  Q37695
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Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.50 Å
  • R-Value Free: 0.305 
  • R-Value Work: 0.274 
  • R-Value Observed: 0.275 
  • Space Group: P 21 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 169.5α = 90
b = 182.2β = 90
c = 193γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-06-29
    Type: Initial release
  • Version 1.1: 2016-07-20
    Changes: Database references
  • Version 1.2: 2016-08-24
    Changes: Database references