1FX0

Crystal structure of the chloroplast F1-ATPase from spinach


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.350 
  • R-Value Work: 0.319 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

The structure of the chloroplast F1-ATPase at 3.2 A resolution.

Groth, G.Pohl, E.

(2001) J.Biol.Chem. 276: 1345-1352

  • DOI: 10.1074/jbc.M008015200

  • PubMed Abstract: 
  • The structure of the F(1)-ATPase from spinach chloroplasts was determined to 3.2 A resolution by molecular replacement based on the homologous structure of the bovine mitochondrial enzyme. The crystallized complex contains four different subunits in ...

    The structure of the F(1)-ATPase from spinach chloroplasts was determined to 3.2 A resolution by molecular replacement based on the homologous structure of the bovine mitochondrial enzyme. The crystallized complex contains four different subunits in a stoichiometry of alpha(3)beta(3)gammaepsilon. Subunit delta was removed before crystallization to improve the diffraction of the crystals. The overall structure of the noncatalytic alpha-subunits and the catalytic beta-subunits is highly similar to those of the mitochondrial and thermophilic subunits. However, in the crystal structure of the chloroplast enzyme, all alpha- and beta-subunits adopt a closed conformation and appear to contain no bound adenine nucleotides. The superimposed crystallographic symmetry in the space group R32 impaired an exact tracing of the gamma- and epsilon-subunits in the complex. However, clear electron density was present at the core of the alpha(3)beta(3)-subcomplex, which probably represents the C-terminal domain of the gamma-subunit. The structure of the spinach chloroplast F(1) has a potential binding site for the phytotoxin, tentoxin, at the alphabeta-interface near betaAsp(83) and an insertion from betaGly(56)-Asn(60) in the N-terminal beta-barrel domain probably increases the thermal stability of the complex. The structure probably represents an inactive latent state of the ATPase, which is unique to chloroplast and cyanobacterial enzymes.


    Related Citations: 
    • Rapid Purification of Membrane extrinsic F1-domain of chloroplast ATP synthase in monodisperse form suitable for 3D crystallization
      Groth, G.,Schirwitz, K.
      (1999) Eur.J.Biochem. 260: 15


    Organizational Affiliation

    Heinrich-Heine-Universität, Biochemie der Pflanzen, Universitätsstrasse 1, D-40225 Düsseldorf, Germany and EMBL Hamburg, Notkestrasse 85, D-22603 Hamburg, Germany. georg.groth@uniduesseldorf.de




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
ATP SYNTHASE ALPHA CHAIN
A
507Spinacia oleraceaGene Names: atpA
EC: 3.6.3.14
Find proteins for P06450 (Spinacia oleracea)
Go to UniProtKB:  P06450
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
ATP SYNTHASE BETA CHAIN
B
498Spinacia oleraceaGene Names: atpB
EC: 3.6.3.14
Find proteins for P00825 (Spinacia oleracea)
Go to UniProtKB:  P00825
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.2 Å
  • R-Value Free: 0.350 
  • R-Value Work: 0.319 
  • Space Group: H 3 2
Unit Cell:
Length (Å)Angle (°)
a = 147.700α = 90.00
b = 147.700β = 90.00
c = 385.050γ = 120.00
Software Package:
Software NamePurpose
AMoREphasing
TRUNCATEdata reduction
CNSrefinement
CCP4data scaling
MOSFLMdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

  • Deposited Date: 2000-09-25 
  • Released Date: 2001-09-25 
  • Deposition Author(s): Groth, G., Pohl, E.

Revision History 

  • Version 1.0: 2001-09-25
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Derived calculations, Version format compliance
  • Version 1.3: 2018-01-31
    Type: Advisory, Experimental preparation