9MDI image
Deposition Date 2024-12-05
Release Date 2025-07-16
Last Version Date 2025-08-06
Entry Detail
PDB ID:
9MDI
Keywords:
Title:
Clostridioides difficile Transferase B Component Dimer
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.56 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Adp-ribosyltransferase binding component
Gene (Uniprot):CDR20291_2492
Chain IDs:A, B
Chain Length:876
Number of Molecules:2
Biological Source:Clostridioides difficile R20291
Ligand Molecules
Primary Citation
Oligomerization of the Clostridioides difficile transferase B component proceeds through a stepwise mechanism.
Plos Pathog. 21 e1013186 e1013186 (2025)
PMID: 40690518 DOI: 10.1371/journal.ppat.1013186

Abstact

Clostridioides difficile is a gram-positive, pathogenic bacterium and is currently the leading cause of hospital-acquired, infectious diarrhea in the United States. During infection, C. difficile produces and secretes up to three toxins called Toxin A, Toxin B, and the C. difficile transferase (CDT). While Toxin A and Toxin B are thought to drive the pathology associated with the disease, strains that produce CDT have been linked to increased disease severity, higher rates of infection recurrence, and increased incidence of mortality. A basic understanding of how CDT intoxicates host cells has emerged over the past two decades and includes a framework that relies on the oligomerization of the components that comprise CDT to promote cellular intoxication. Although several key steps of this process have been biochemically described, a clear, molecular description of toxin assembly has not been resolved. We have collected cryogenic electron microscopy (Cryo-EM) data of purified, recombinant CDT. From these data, we have generated several structural snapshots of the toxin, including a series of structures that correspond to intermediates that form during oligomerization. These structures provide insight into the mechanism underlying toxin assembly and highlight a role for structural plasticity during this process. We have also shown that these partially assembled toxins are equally potent in cytotoxicity assays supporting this model in a cellular context. Finally, we show that CDTb oligomers are stabilized by CDTa and assembly is triggered by hydrophobic molecules.

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Primary Citation of related structures