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 

wwPDB Validation 3D Report Full Report


This is version 1.2 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: 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 subu ...

    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
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ATP synthase subunit alphaA, B, C502Bacillus sp. TA2.A1Mutation(s): 0 
Gene Names: atpA
EC: 7.1.2.2
Find proteins for Q71CG5 (Bacillus sp. TA2.A1)
Explore Q71CG5 
Go to UniProtKB:  Q71CG5
Protein Feature View
Expand
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
ATP synthase subunit betaD, E, F462Bacillus sp. TA2.A1Mutation(s): 0 
Gene Names: atpD
EC: 7.1.2.2
Find proteins for Q71CG3 (Bacillus sp. TA2.A1)
Explore Q71CG3 
Go to UniProtKB:  Q71CG3
Protein Feature View
Expand
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
ATP synthase subunit gammaG286Bacillus sp. TA2.A1Mutation(s): 0 
Gene Names: atpG
Find proteins for Q71CG4 (Bacillus sp. TA2.A1)
Explore Q71CG4 
Go to UniProtKB:  Q71CG4
Protein Feature View
Expand
 ( Mouse scroll to zoom / Hold left click to move )
  • Reference Sequence
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
ATP synthase subunit epsilonH135Bacillus sp. TA2.A1Mutation(s): 0 
Gene Names: atpC
Find proteins for Q71CG2 (Bacillus sp. TA2.A1)
Explore Q71CG2 
Go to UniProtKB:  Q71CG2
Protein Feature View
Expand
 ( Mouse scroll to zoom / Hold left click to move )
  • 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

View Full Validation Report


View more in-depth experimental data

Entry History 

Deposition Data

Revision History 

  • 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