9QEN image
Deposition Date 2025-03-10
Release Date 2025-09-17
Last Version Date 2025-10-15
Entry Detail
PDB ID:
9QEN
Keywords:
Title:
Cryo-EM structure of human O-GlcNAcase
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.08 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Protein O-GlcNAcase
Gene (Uniprot):OGA
Chain IDs:A, B
Chain Length:789
Number of Molecules:2
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Multi-domain O-GlcNAcase structures reveal allosteric regulatory mechanisms.
Nat Commun 16 8828 8828 (2025)
PMID: 41044083 DOI: 10.1038/s41467-025-63893-2

Abstact

Nucleocytoplasmic protein O-GlcNAcylation is a dynamic modification catalysed by O-GlcNAc transferase (OGT) and reversed by O-GlcNAc hydrolase (OGA), whose activities are regulated through largely unknown O-GlcNAc-dependent feedback mechanisms. OGA is a homodimeric, multi-domain enzyme containing a catalytic core and a pseudo-histone acetyltransferase (pHAT) domain. While a catalytic structure has been reported, the structure and function of the pHAT domain remain elusive. Here, we report a crystal structure of the Trichoplax adhaerens pHAT domain and cryo-EM data of the multi-domain T. adhaerens and human OGAs, complemented by biophysical analyses. Here, we show that the eukaryotic OGA pHAT domain forms catalytically incompetent, symmetric homodimers, projecting a partially conserved putative peptide-binding site. In solution, OGA exist as flexible multi-domain dimers, but catalytic core-pHAT linker interactions restrict pHAT positional range. In human OGA, pHAT movements remodel the active site environment through conformational changes in a flexible arm region. These findings reveal allosteric mechanisms through which the pHAT domain contributes to O-GlcNAc homeostasis.

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Primary Citation of related structures