7D6Q image
Deposition Date 2020-10-01
Release Date 2021-04-14
Last Version Date 2024-11-06
Entry Detail
PDB ID:
7D6Q
Keywords:
Title:
Crystal structure of the Stx2a
Biological Source:
Source Organism:
Escherichia coli (Taxon ID: 562)
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.80 Å
R-Value Free:
0.19
R-Value Work:
0.16
R-Value Observed:
0.16
Space Group:
P 61
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:rRNA N-glycosylase
Gene (Uniprot):stx2 A-subunit
Chain IDs:A
Chain Length:297
Number of Molecules:1
Biological Source:Escherichia coli
Polymer Type:polypeptide(L)
Molecule:Shiga toxin 2 B subunit
Gene (Uniprot):stxII
Chain IDs:B, C, D, E, F
Chain Length:70
Number of Molecules:5
Biological Source:Escherichia coli
Ligand Molecules
Primary Citation
Identification of a peptide motif that potently inhibits two functionally distinct subunits of Shiga toxin.
Commun Biol 4 538 538 (2021)
PMID: 33972673 DOI: 10.1038/s42003-021-02068-3

Abstact

Shiga toxin (Stx) is a major virulence factor of enterohemorrhagic Escherichia coli, which causes fatal systemic complications. Here, we identified a tetravalent peptide that inhibited Stx by targeting its receptor-binding, B-subunit pentamer through a multivalent interaction. A monomeric peptide with the same motif, however, did not bind to the B-subunit pentamer. Instead, the monomer inhibited cytotoxicity with remarkable potency by binding to the catalytic A-subunit. An X-ray crystal structure analysis to 1.6 Å resolution revealed that the monomeric peptide fully occupied the catalytic cavity, interacting with Glu167 and Arg170, both of which are essential for catalytic activity. Thus, the peptide motif demonstrated potent inhibition of two functionally distinct subunits of Stx.

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Primary Citation of related structures