9H0O

Fucosylated Lacto-N-biose binding protein from Bifidobacterium longum subsp. infantis in complex with Lacto-N-biose

Summary for 9H0O

• Entry DOI: 10.2210/pdb9h0o/pdb
• Related PRD ID: PRD_002584
• Descriptor: Extracellular solute-binding protein, family 1, beta-D-galactopyranose-(1-3)-2-acetamido-2-deoxy-alpha-D-glucopyranose, CALCIUM ION, ... (6 entities in total)
• Functional Keywords: solute binding protein, abc importer, hmo capture, bifidobacterium longum subsp. infantis, transport protein
• Biological source: Bifidobacterium longum subsp. infantis
• Total number of polymer chains: 1
• Total formula weight: 49164.06

Authors

Jensen, M.,Hansen, M.E.,Sakanaka, H.,Slotboom, D.J.,Abou Hachem, M.,Morth, J.P. (deposition date: 2024-10-08, release date: 2025-07-02, Last modification date: 2025-07-23)

Primary citation

Ejby Hansen, M.,Sakanaka, M.,Jensen, M.,Sakanaka, H.,Pichler, M.J.,Maeda, S.,Franck Hovring, J.,Nakajima, A.,Kunstmann, S.,Nielsen, T.S.,Peters, G.H.J.,Slotboom, D.J.,Morth, J.P.,Katayama, T.,Abou Hachem, M.
Uptake of fucosylated type I human milk oligosaccharide blocks by Bifidobacterium longum subsp. infantis.
Mbio, :e0036825-e0036825, 2025

PubMed Abstract: Human milk oligosaccharides (HMOs) are uniquely rich in the type 1 building block disaccharide lacto--biose I (LNB; Galβ1,3GlcNAc), as compared to other mammals. Most HMOs are fucosylated, for example, α1,2 and α1,4 fucosylations on LNB blocks, resulting in H type 1 (H1) and Lewis a (Le) epitopes, respectively. The dominance of in breastfed infant guts hinges on the efficient uptake of HMOs by specific ATP-binding cassette (ABC) importers. However, molecular insight into uptake of fucosylated LNB blocks is lacking. Here, we analyzed the uptake of LNB and its fucosylated H1 and Le trisaccharides, as well as the mucin-derived disaccharide galacto--biose (GNB; Galβ1,3GalNAc) by an ABC importer from the HMO-utilization specialist subsp. . Structural analyses and molecular dynamics simulations explained how fucosylated and non-fucosylated LNB forms are recognized with similar affinities by the binding protein of this importer. Strikingly, we showed that two ABC importers confer to the uptake of LNB, while the Le trisaccharide is efficiently internalized by a single importer in . Phylogenetic and structural analyses of bifidobacterial ABC-associated binding proteins showed that the Le clade harbors homologs possessing internal cavities, which allows for the accommodation of branched oligosaccharides. Our work provides unique insight into the evolution and molecular basis of capture and uptake of key HMO and host-derived saccharide blocks, highlighting these compounds as hitherto unexplored candidates for fortification of infant formula.

PubMed: 40657901
DOI: 10.1128/mbio.00368-25

Experimental method

X-RAY DIFFRACTION (2.14 Å)