2QE7

Crystal structure of the f1-atpase from the thermoalkaliphilic bacterium bacillus sp. ta2.a1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.06 Å
  • R-Value Free: 0.306 
  • R-Value Work: 0.252 

Starting Model: experimental
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This is version 1.3 of the entry. See complete history


Literature

The Structural Basis for Unidirectional Rotation of Thermoalkaliphilic F(1)-ATPase.

Stocker, A.Keis, S.Vonck, J.Cook, G.M.Dimroth, P.

(2007) Structure 15: 904-914

  • DOI: https://doi.org/10.1016/j.str.2007.06.009
  • Primary Citation of Related Structures:  
    2QE7

  • PubMed Abstract: 

    The ATP synthase of the thermoalkaliphilic Bacillus sp. TA2.A1 operates exclusively in ATP synthesis direction. In the crystal structure of the nucleotide-free alpha(3)beta(3)gamma epsilon subcomplex (TA2F(1)) at 3.1 A resolution, all three beta subunits adopt the open beta(E) conformation. The structure shows salt bridges between the helix-turn-helix motif of the C-terminal domain of the beta(E) subunit (residues Asp372 and Asp375) and the N-terminal helix of the gamma subunit (residues Arg9 and Arg10). These electrostatic forces pull the gamma shaft out of the rotational center and impede rotation through steric interference with the beta(E) subunit. Replacement of Arg9 and Arg10 with glutamines eliminates the salt bridges and results in an activation of ATP hydrolysis activity, suggesting that these salt bridges prevent the native enzyme from rotating in ATP hydrolysis direction. A similar bending of the gamma shaft as in the TA2F(1) structure was observed by single-particle analysis of the TA2F(1)F(o) holoenzyme.


  • Organizational Affiliation

    Institute of Microbiology ETH Zürich, ETH Hönggerberg, Wolfgang-Pauli-Strasse 10, CH-8093 Zürich, Switzerland.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit alpha
A, B, C
502Bacillus sp. TA2.A1Mutation(s): 0 
Gene Names: atpA
UniProt
Find proteins for Q71CG5 (Bacillus sp. TA2.A1)
Explore Q71CG5 
Go to UniProtKB:  Q71CG5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ71CG5
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit beta
D, E, F
462Bacillus sp. TA2.A1Mutation(s): 0 
Gene Names: atpD
UniProt
Find proteins for Q71CG3 (Bacillus sp. TA2.A1)
Explore Q71CG3 
Go to UniProtKB:  Q71CG3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ71CG3
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit gamma286Bacillus sp. TA2.A1Mutation(s): 0 
Gene Names: atpG
UniProt
Find proteins for Q71CG4 (Bacillus sp. TA2.A1)
Explore Q71CG4 
Go to UniProtKB:  Q71CG4
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UniProt GroupQ71CG4
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
ATP synthase subunit epsilon135Bacillus sp. TA2.A1Mutation(s): 0 
Gene Names: atpC
UniProt
Find proteins for Q71CG2 (Bacillus sp. TA2.A1)
Explore Q71CG2 
Go to UniProtKB:  Q71CG2
Entity Groups  
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UniProt GroupQ71CG2
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.06 Å
  • R-Value Free: 0.306 
  • R-Value Work: 0.252 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 123.21α = 90
b = 173.02β = 90
c = 218.05γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PDB_EXTRACTdata extraction
MAR345dtbdata collection
XDSdata reduction
XDSdata scaling
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2007-08-21
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Source and taxonomy, Version format compliance
  • Version 1.2: 2013-05-08
    Changes: Refinement description
  • Version 1.3: 2023-08-30
    Changes: Data collection, Database references, Refinement description