7KV6

Surface glycan-binding protein B from Bacteroides fluxus in complex with mixed-linkage glucotriose

This is a non-PDB format compatible entry.

Summary for 7KV6

• Entry DOI: 10.2210/pdb7kv6/pdb
• Descriptor: PKD domain protein, beta-D-glucopyranose-(1-4)-beta-D-glucopyranose-(1-3)-beta-D-glucopyranose, GUANIDINE, ... (4 entities in total)
• Functional Keywords: cbm, sugar binding protein, lectin
• Biological source: Bacteroides fluxus YIT 12057
• Total number of polymer chains: 1
• Total formula weight: 31808.12

Authors

Tamura, K.,Brumer, H.,Van Petegem, F. (deposition date: 2020-11-26, release date: 2021-02-17, Last modification date: 2024-03-06)

Primary citation

Tamura, K.,Dejean, G.,Van Petegem, F.,Brumer, H.
Distinct protein architectures mediate species-specific beta-glucan binding and metabolism in the human gut microbiota.
J.Biol.Chem., 296:100415-100415, 2021

PubMed Abstract: Complex glycans that evade our digestive system are major nutrients that feed the human gut microbiota (HGM). The prevalence of Bacteroidetes in the HGM of populations worldwide is engendered by the evolution of polysaccharide utilization loci (PULs), which encode concerted protein systems to utilize the myriad complex glycans in our diets. Despite their crucial roles in glycan recognition and transport, cell-surface glycan-binding proteins (SGBPs) remained understudied cogs in the PUL machinery. Here, we report the structural and biochemical characterization of a suite of SGBP-A and SGBP-B structures from three syntenic β(1,3)-glucan utilization loci (1,3GULs) from Bacteroides thetaiotaomicron (Bt), Bacteroides uniformis (Bu), and B. fluxus (Bf), which have varying specificities for distinct β-glucans. Ligand complexes provide definitive insight into β(1,3)-glucan selectivity in the HGM, including structural features enabling dual β(1,3)-glucan/mixed-linkage β(1,3)/β(1,4)-glucan-binding capability in some orthologs. The tertiary structural conservation of SusD-like SGBPs-A is juxtaposed with the diverse architectures and binding modes of the SGBPs-B. Specifically, the structures of the trimodular BtSGBP-B and BuSGBP-B revealed a tandem repeat of carbohydrate-binding module-like domains connected by long linkers. In contrast, BfSGBP-B comprises a bimodular architecture with a distinct β-barrel domain at the C terminus that bears a shallow binding canyon. The molecular insights obtained here contribute to our fundamental understanding of HGM function, which in turn may inform tailored microbial intervention therapies.

PubMed: 33587952
DOI: 10.1016/j.jbc.2021.100415

Experimental method

X-RAY DIFFRACTION (1.6 Å)