8Y7P image
Entry Detail
PDB ID:
8Y7P
Keywords:
Title:
Crystal structure of human GFOD1
Biological Source:
Source Organism:
Host Organism:
PDB Version:
Deposition Date:
2024-02-04
Release Date:
2024-12-04
Method Details:
Experimental Method:
Resolution:
2.60 Å
R-Value Free:
0.24
R-Value Work:
0.19
R-Value Observed:
0.19
Space Group:
H 3
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Glucose-fructose oxidoreductase domain-containing protein 1
Chain IDs:A, B
Chain Length:391
Number of Molecules:2
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Molecular insight into the potential functional role of pseudoenzyme GFOD1 via interaction with NKIRAS2.
Acta Biochim.Biophys.Sin. 56 1256 1266 (2024)
PMID: 38946427 DOI: 10.3724/abbs.2024105

Abstact

The glucose-fructose oxidoreductase/inositol dehydrogenase/rhizopine catabolism protein (Gfo/Idh/MocA) family includes a variety of oxidoreductases with a wide range of substrates that utilize NAD or NADP as redox cofactor. Human contains two members of this family, namely glucose-fructose oxidoreductase domain-containing protein 1 and 2 (GFOD1 and GFOD2). While GFOD1 exhibits low tissue specificity, it is notably expressed in the brain, potentially linked to psychiatric disorders and severe diseases. Nevertheless, the specific function, cofactor preference, and enzymatic activity of GFOD1 remain largely unknown. In this work, we find that GFOD1 does not bind to either NAD or NADP. Crystal structure analysis unveils that GFOD1 exists as a typical homodimer resembling other family members, but lacks essential residues required for cofactor binding, suggesting that it may function as a pseudoenzyme. Exploration of GFOD1-interacting partners in proteomic database identifies NF-κB inhibitor-interacting Ras-like 2 (NKIRAS2) as one potential candidate. Co-immunoprecipitation (co-IP) analysis indicates that GFOD1 interacts with both GTP- and GDP-bound forms of NKIRAS2. The predicted structural model of the GFOD1-NKIRAS2 complex is validated in cells using point mutants and shows that GFOD1 selectively recognizes the interswitch region of NKIRAS2. These findings reveal the distinct structural properties of GFOD1 and shed light on its potential functional role in cellular processes.

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Primary Citation of related structures