6FHY image
Deposition Date 2018-01-16
Release Date 2019-01-30
Last Version Date 2024-11-20
Entry Detail
PDB ID:
6FHY
Title:
Photorhabdus asymbiotica lectin (PHL) in complex with synthetic C-fucoside
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Resolution:
1.86 Å
R-Value Free:
0.21
R-Value Work:
0.18
R-Value Observed:
0.18
Space Group:
P 32 2 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Lectin PHL
Gene (Uniprot):PAU_00698
Chain IDs:A, B
Chain Length:369
Number of Molecules:2
Biological Source:Photorhabdus asymbiotica
Primary Citation
Fucosylated inhibitors of recently identified bangle lectin from Photorhabdus asymbiotica.
Sci Rep 9 14904 14904 (2019)
PMID: 31624296 DOI: 10.1038/s41598-019-51357-9

Abstact

A recently described bangle lectin (PHL) from the bacterium Photorhabdus asymbiotica was identified as a mainly fucose-binding protein that could play an important role in the host-pathogen interaction and in the modulation of host immune response. Structural studies showed that PHL is a homo-dimer that contains up to seven L-fucose-specific binding sites per monomer. For these reasons, potential ligands of the PHL lectin: α-L-fucopyranosyl-containing mono-, di-, tetra-, hexa- and dodecavalent ligands were tested. Two types of polyvalent structures were investigated - calix[4]arenes and dendrimers. The shared feature of all these structures was a C-glycosidic bond instead of the more common but physiologically unstable O-glycosidic bond. The inhibition potential of the tested structures was assessed using different techniques - hemagglutination, surface plasmon resonance, isothermal titration calorimetry, and cell cross-linking. All the ligands proved to be better than free L-fucose. The most active hexavalent dendrimer exhibited affinity three orders of magnitude higher than that of standard L-fucose. To determine the binding mode of some ligands, crystal complex PHL/fucosides 2 - 4 were prepared and studied using X-ray crystallography. The electron density in complexes proved the presence of the compounds in 6 out of 7 fucose-binding sites.

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