9GRF image
Deposition Date 2024-09-11
Release Date 2025-12-24
Last Version Date 2025-12-24
Entry Detail
PDB ID:
9GRF
Title:
Crystal structure of X409 complexed to tetra-Tn-glycopeptide
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.14 Å
R-Value Free:
0.17
R-Value Work:
0.15
R-Value Observed:
0.15
Space Group:
P 21 21 2
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Metalloprotease StcE
Gene (Uniprot):stcE
Chain IDs:A
Chain Length:104
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:tetra-Tn-glycopeptide
Chain IDs:B (auth: M)
Chain Length:10
Number of Molecules:1
Biological Source:synthetic construct
Ligand Molecules
Primary Citation
Microbial binding module employs sophisticated clustered saccharide patches to selectively adhere to mucins.
Nat Commun 16 9058 9058 (2025)
PMID: 41083434 DOI: 10.1038/s41467-025-63756-w

Abstact

The mucus lining wet body surfaces forms the interphase and barrier for the microbiota and resident microbiomes. Large mucin proteins densely decorated with O-glycans make up the mucus lining to entrap, feed and shape the microbiota, and repress biofilm formation and virulence. How mucins exert these effects is poorly understood and critical is how the microbiota recognize, sense, and break down mucins. Here, we provide structural molecular evidence that a small mucin-binding module designated X409 recognizes clustered saccharide patches comprised of rows of inner monosaccharides in adjacent O-glycans. These patches are unique to mucins and binding to these provides an elegant mechanism to retain adherence to mucins despite trimming of O-glycans during microbial scavenging of monosaccharides from mucins. Realization of clustered saccharide patch-binding motifs provides a hitherto overlooked scenario of contextual glycan epitopes and impetus for discovery of new classes of glycan-binding proteins.

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Primary Citation of related structures
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