1E6B

Crystal structure of a Zeta class glutathione S-transferase from Arabidopsis thaliana

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.196 

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This is version 1.2 of the entry. See complete history. 


Literature

The Structure of a Zeta Class Glutathione S-Transferase from Arabidopsis Thaliana: Characterisation of a Gst with Novel Active-Site Architecture and a Putative Role in Tyrosine Catabolism.

Thom, R., Dixon, D.P., Edwards, R., Cole, D.J., Lapthorn, A.J.

(2001) J Mol Biol 308: 949

  • DOI: 10.1006/jmbi.2001.4638
  • Primary Citation of Related Structures:  
    1E6B

  • PubMed Abstract: 

    • The cis-trans isomerisation of maleylacetoacetate to fumarylacetoacetate is the penultimate step in the tyrosine/phenylalanine catabolic pathway and has recently been shown to be catalysed by glutathione S-transferase enzymes belonging to the zeta class. Given this primary metabolic role it is unsurprising that zeta class glutathione S-transferases are well conserved over a considerable period of evolution, being found in vertebrates, plants, insects and fungi ...

    The cis-trans isomerisation of maleylacetoacetate to fumarylacetoacetate is the penultimate step in the tyrosine/phenylalanine catabolic pathway and has recently been shown to be catalysed by glutathione S-transferase enzymes belonging to the zeta class. Given this primary metabolic role it is unsurprising that zeta class glutathione S-transferases are well conserved over a considerable period of evolution, being found in vertebrates, plants, insects and fungi. The structure of this glutathione S-transferase, cloned from Arabidopsis thaliana, has been solved by single isomorphous replacement with anomalous scattering and refined to a final crystallographic R-factor of 19.6% using data from 25.0 A to 1.65 A. The zeta class enzyme adopts the canonical glutathione S-transferase fold and forms a homodimer with each subunit consisting of 221 residues. In agreement with structures of glutathione S-transferases from the theta and phi classes, a serine residue (Ser17) is present in the active site, at a position that would allow it to stabilise the thiolate anion of glutathione. Site-directed mutagenesis of this residue confirms its importance in catalysis. In addition, the role of a highly conserved cysteine residue (Cys19) present in the active site of the zeta class glutathione S-transferase enzymes is discussed.

    Related Citations: 
    • Characterisation of a Zeta Class Glutathione Transferase from Arabidopsis Thaliana with a Putative Role in Tyrosine Catabolism
      Dixon, D.P., Cole, D.J., Edwards, R.
      (2000) Arch Biochem Biophys 384: 407
    Organizational Affiliation: 

    Department of Chemistry, University of Glasgow, Glasgow, G12 8QQ, UK.



Macromolecules
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(by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
GLUTATHIONE S-TRANSFERASEA221Arabidopsis thalianaMutation(s): 0 
Gene Names: GSTZ1, GST18, GSTZ, At2g02390, T16F16.18
EC: 2.5.1.18 (PDB Primary Data), 5.2.1 (UniProt)
UniProt
Find proteins for Q9ZVQ3 (Arabidopsis thaliana)
Explore Q9ZVQ3 
Go to UniProtKB:  Q9ZVQ3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9ZVQ3
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
BME
Query on BME
Download Ideal Coordinates CCD File 
B [auth A]BETA-MERCAPTOETHANOL
C2 H6 O S
DGVVWUTYPXICAM-UHFFFAOYSA-N		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.65 Å
  • R-Value Free: 0.234 
  • R-Value Work: 0.196 
  • Space Group: P 65 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 75.164α = 90
b = 75.164β = 90
c = 140.52γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling
CCP4phasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2001-06-11
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance