Crystal structure of the core domain from the GST-like protein GDAP1

Experimental Data Snapshot

  • Resolution: 2.83 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.211 
  • R-Value Observed: 0.212 

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Structural and functional divergence of GDAP1 from the glutathione S-transferase superfamily.

Googins, M.R.Woghiren-Afegbua, A.O.Calderon, M.St Croix, C.M.Kiselyov, K.I.VanDemark, A.P.

(2020) FASEB J 34: 7192-7207

  • DOI: https://doi.org/10.1096/fj.202000110R
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    Mutations in ganglioside-induced differentiation-associated protein 1 (GDAP1) alter mitochondrial morphology and result in several subtypes of the inherited peripheral neuropathy Charcot-Marie-Tooth disease; however, the mechanism by which GDAP1 functions has remained elusive. GDAP1 contains primary sequence homology to the GST superfamily; however, the question of whether GDAP1 is an active GST has not been clearly resolved. Here, we present biochemical evidence, suggesting that GDAP1 has lost the ability to bind glutathione without a loss of substrate binding activity. We have revealed that the α-loop, located within the H-site motif is the primary determinant for substrate binding. Using structural data of GDAP1, we have found that critical residues and configurations in the G-site which canonically interact with glutathione are altered in GDAP1, rendering it incapable of binding glutathione. Last, we have found that the overexpression of GDAP1 in HeLa cells results in a mitochondrial phenotype which is distinct from oxidative stress-induced mitochondrial fragmentation. This phenotype is dependent on the presence of the transmembrane domain, as well as a unique hydrophobic domain that is not found in canonical GSTs. Together, we data point toward a non-enzymatic role for GDAP1, such as a sensor or receptor.

  • Organizational Affiliation

    Department of Biological Sciences, University of Pittsburgh, Pittsburgh, PA, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Ganglioside-induced differentiation-associated protein 1229Mus musculusMutation(s): 0 
Gene Names: Gdap1
UniProt & NIH Common Fund Data Resources
Find proteins for O88741 (Mus musculus)
Explore O88741 
Go to UniProtKB:  O88741
IMPC:  MGI:1338002
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO88741
Sequence Annotations
  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
Query on MSE
Experimental Data & Validation

Experimental Data

  • Resolution: 2.83 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.211 
  • R-Value Observed: 0.212 
  • Space Group: I 4 3 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 196.598α = 90
b = 196.598β = 90
c = 196.598γ = 90
Software Package:
Software NamePurpose
Aimlessdata scaling
PDB_EXTRACTdata extraction
XDSdata reduction

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2020-04-29
    Type: Initial release
  • Version 1.1: 2020-05-13
    Changes: Database references