9DZS image
Deposition Date 2024-10-17
Release Date 2025-06-11
Last Version Date 2025-12-24
Entry Detail
PDB ID:
9DZS
Keywords:
Title:
Acanthamoeba Polyphaga Mimivirus R699
Biological Source:
Source Organism(s):
Expression System(s):
Method Details:
Experimental Method:
Resolution:
1.75 Å
R-Value Free:
0.19
R-Value Work:
0.17
Space Group:
C 1 2 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:R699
Gene (Uniprot):MIMI_R699
Chain IDs:A
Chain Length:458
Number of Molecules:1
Biological Source:Acanthamoeba polyphaga mimivirus
Primary Citation
Structural basis of collagen glucosyltransferase function and its serendipitous role in kojibiose synthesis.
Nat Commun 16 6704 6704 (2025)
PMID: 40691173 DOI: 10.1038/s41467-025-61973-x

Abstact

Collagen glucosyltransferases catalyze collagen glucosylation critical for biology and diseases, yet their structural regulation remains unclear. Here, we report crystal structures of a mimiviral collagen glucosyltransferase in its apo form and in complexes with uridine diphosphate (UDP) and the disaccharide product. We reveal that the enzyme forms a homodimer, stabilized by a loop from one subunit locking into a cleft on the other, enabling UDP-glucose binding cooperativity and enzymatic activity, a property conserved in the human homolog. The structures support an induced fit model for UDP interaction. The dimerization also forms an extended cleft flanked by two active sites, likely facilitating collagen recognition. Unexpectedly, the mimiviral enzyme also synthesizes a prebiotic disaccharide kojibiose. An elongated pocket near the active site allows the enzyme to use UDP-glucose and glucose for kojibiose production. We confirm the enzyme's kojibiose synthesis activity in vitro and in vivo. These insights inform glucosyltransferase function and open new avenues for inhibitor development and kojibiose biosynthesis.

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Primary Citation of related structures
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