8RYG image
Entry Detail
PDB ID:
8RYG
Keywords:
Title:
VioH in complex with SAH from Cystobacter Violaceus
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2024-02-08
Release Date:
2025-01-01
Method Details:
Experimental Method:
Resolution:
2.10 Å
R-Value Free:
0.24
R-Value Work:
0.19
R-Value Observed:
0.20
Space Group:
P 21 21 2
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Methyltransferase domain-containing protein
Chain IDs:A, B
Chain Length:236
Number of Molecules:2
Biological Source:Cystobacter sp
Primary Citation
Molecular basis for azetidine-2-carboxylic acid biosynthesis.
Nat Commun 16 1348 1348 (2025)
PMID: 39905070 DOI: 10.1038/s41467-025-56610-6

Abstact

Azetidine-2-carboxylic acid (AZE) is a long-known plant metabolite. Recently, AZE synthases have been identified in bacterial natural product pathways involving non-ribosomal peptide synthetases. AZE synthases catalyse the intramolecular 4-exo-tet cyclisation of S-adenosylmethionine (SAM), yielding a highly strained heterocycle. Here, we combine structural and biochemical analyses with quantum mechanical calculations and mutagenesis studies to reveal catalytic insights into AZE synthases. The cyclisation of SAM is facilitated by an exceptional substrate conformation and supported by desolvation effects as well as cation-π interactions. In addition, we uncover related SAM lyases in diverse bacterial phyla, suggesting a wider prevalence of AZE-containing metabolites than previously expected. To explore the potential of AZE as a proline mimic in combinatorial biosynthesis, we introduce an AZE synthase into the pyrrolizixenamide pathway and thereby engineer analogues of azabicyclenes. Taken together, our findings provide a molecular framework to understand and exploit SAM-dependent cyclisation reactions.

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