5LOL

Glutathione-bound Dehydroascorbate Reductase 2 of Arabidopsis thaliana


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.222 
  • R-Value Work: 0.212 

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This is version 1.2 of the entry. See complete history


Literature

Arabidopsis thaliana dehydroascorbate reductase 2: Conformational flexibility during catalysis.

Bodra, N.Young, D.Astolfi Rosado, L.Pallo, A.Wahni, K.De Proft, F.Huang, J.Van Breusegem, F.Messens, J.

(2017) Sci Rep 7: 42494-42494

  • DOI: https://doi.org/10.1038/srep42494
  • Primary Citation of Related Structures:  
    5LOL

  • PubMed Abstract: 

    Dehydroascorbate reductase (DHAR) catalyzes the glutathione (GSH)-dependent reduction of dehydroascorbate and plays a direct role in regenerating ascorbic acid, an essential plant antioxidant vital for defense against oxidative stress. DHAR enzymes bear close structural homology to the glutathione transferase (GST) superfamily of enzymes and contain the same active site motif, but most GSTs do not exhibit DHAR activity. The presence of a cysteine at the active site is essential for the catalytic functioning of DHAR, as mutation of this cysteine abolishes the activity. Here we present the crystal structure of DHAR2 from Arabidopsis thaliana with GSH bound to the catalytic cysteine. This structure reveals localized conformational differences around the active site which distinguishes the GSH-bound DHAR2 structure from that of DHAR1. We also unraveled the enzymatic step in which DHAR releases oxidized glutathione (GSSG). To consolidate our structural and kinetic findings, we investigated potential conformational flexibility in DHAR2 by normal mode analysis and found that subdomain mobility could be linked to GSH binding or GSSG release.


  • Organizational Affiliation

    Center for Structural Biology, VIB, 1050 Brussels, Belgium.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Glutathione S-transferase DHAR2215Arabidopsis thalianaMutation(s): 0 
Gene Names: DHAR2DHARAt1g75270F22H5.1
EC: 2.5.1.18
UniProt
Find proteins for Q9FRL8 (Arabidopsis thaliana)
Explore Q9FRL8 
Go to UniProtKB:  Q9FRL8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9FRL8
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.222 
  • R-Value Work: 0.212 
  • Space Group: P 21 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 47.107α = 90
b = 67.002β = 90
c = 68.026γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
Aimlessdata scaling
PHASERphasing
PDB_EXTRACTdata extraction
XDSdata reduction

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Research Foundation - Flanders (FWO)BelgiumG.0305.12, and G0D7914N
Flanders Hercules FoundationBelgiumHERC16 and UABR/09/005
IIndian Council of Agricultural Research (ICAR)India--

Revision History  (Full details and data files)

  • Version 1.0: 2017-06-07
    Type: Initial release
  • Version 1.1: 2018-01-24
    Changes: Source and taxonomy
  • Version 1.2: 2024-01-10
    Changes: Author supporting evidence, Data collection, Database references, Refinement description