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Updated: Nov 25, 2025

Structural Biology and Analytical Chemistry Approaches for Characterizing C-Glycoside Metabolic Enzymes in Human Gut Microbiota
Published on: May 23, 2025
A structurally unique Fusobacterium nucleatum tannase provides detoxicant activity against gallotannins and pathogen
José Miguel Mancheño1, Estíbaliz Atondo2, Julen Tomás-Cortázar2,3
1Departamento de Cristalografía y Biología Estructural, Instituto de Química-Física "Rocasolano" (IQFR-CSIC), Madrid, 28006, Spain.
Abstract:
Colorectal cancer pathogenesis and progression is associated with the presence of Fusobacterium nucleatum and the reduction of acetylated derivatives of spermidine, as well as dietary components such as tannin-rich foods. We show that a new tannase orthologue of F. nucleatum (TanBFnn ) has significant structural differences with its Lactobacillus plantarum counterpart affecting the flap covering the active site and the accessibility of substrates. Crystallographic and molecular dynamics analysis revealed binding of polyamines to a small cavity that connects the active site with the bulk solvent which interact with catalytically indispensable residues. As a result, spermidine and its derivatives, particularly N8 -acetylated spermidine, inhibit the hydrolytic activity of TanBFnn and increase the toxicity of gallotannins to F. nucleatum. Our results support a model in which the balance between the detoxicant activity of TanBFnn and the presence of metabolic inhibitors can dictate either conducive or unfavourable conditions for the survival of F. nucleatum.
Insights
Fusobacterium nucleatum utilizes a tannase enzyme (TanBFnn) that is inhibited by spermidine derivatives. This interaction impacts gallotannin toxicity, influencing bacterial survival in colorectal cancer.
Area of Science:
- Microbiology
- Biochemistry
- Cancer Biology
Background:
- Colorectal cancer progression is linked to Fusobacterium nucleatum and reduced spermidine acetylation.
- Dietary tannins are also implicated in colorectal cancer pathogenesis.
Purpose of the Study:
- To investigate the structural and functional differences of a novel F. nucleatum tannase (TanBFnn) compared to its Lactobacillus plantarum counterpart.
- To elucidate the inhibitory mechanisms of polyamines, specifically acetylated spermidine derivatives, on TanBFnn activity.
- To understand how TanBFnn activity and metabolic inhibitors affect F. nucleatum survival.
Main Methods:
- X-ray crystallography and molecular dynamics simulations were employed to analyze TanBFnn structure and substrate interactions.
- Biochemical assays were performed to assess the hydrolytic activity of TanBFnn.
- Studies examined the impact of spermidine derivatives and gallotannins on F. nucleatum growth and toxicity.
Main Results:
- F. nucleatum tannase (TanBFnn) exhibits significant structural differences from L. plantarum tannase, particularly in its active site flap and substrate accessibility.
- Polyamines, including N8-acetylated spermidine, bind to a cavity near the active site and inhibit TanBFnn activity.
- Spermidine derivatives potentiate the toxicity of gallotannins to F. nucleatum.
Conclusions:
- The activity of TanBFnn is modulated by polyamine binding, affecting its ability to process dietary tannins.
- The interplay between TanBFnn's detoxicant function and the presence of spermidine derivatives influences F. nucleatum's viability.
- These findings offer insights into the metabolic strategies of F. nucleatum in the context of colorectal cancer.
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