8K9Z image
Deposition Date 2023-08-02
Release Date 2024-07-10
Last Version Date 2024-08-07
Entry Detail
PDB ID:
8K9Z
Keywords:
Title:
Crystal structure of Vibrio vulnificus RID-dependent transforming NADase domain (RDTND)/calmodulin-binding domain of Rho inactivation domain (RID-CBD) complexed with Ca2+-bound calmodulin
Biological Source:
Source Organism:
Vibrio vulnificus (Taxon ID: 672)
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.90 Å
R-Value Free:
0.30
R-Value Work:
0.26
R-Value Observed:
0.26
Space Group:
C 1 2 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:RDTND-RID CBD
Gene (Uniprot):CRN52_02910
Chain IDs:A, C
Chain Length:405
Number of Molecules:2
Biological Source:Vibrio vulnificus
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Calmodulin-2
Gene (Uniprot):CALM2
Chain IDs:B, D
Chain Length:151
Number of Molecules:2
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Dissemination of pathogenic bacteria is reinforced by a MARTX toxin effector duet.
Nat Commun 15 6218 6218 (2024)
PMID: 39043696 DOI: 10.1038/s41467-024-50650-0

Abstact

Multiple bacterial genera take advantage of the multifunctional autoprocessing repeats-in-toxin (MARTX) toxin to invade host cells. Secretion of the MARTX toxin by Vibrio vulnificus, a deadly opportunistic pathogen that causes primary septicemia, the precursor of sepsis, is a major driver of infection; however, the molecular mechanism via which the toxin contributes to septicemia remains unclear. Here, we report the crystal and cryo-electron microscopy (EM) structures of a toxin effector duet comprising the domain of unknown function in the first position (DUF1)/Rho inactivation domain (RID) complexed with human targets. These structures reveal how the duet is used by bacteria as a potent weapon. The data show that DUF1 acts as a RID-dependent transforming NADase domain (RDTND) that disrupts NAD+ homeostasis by hijacking calmodulin. The cryo-EM structure of the RDTND-RID duet complexed with calmodulin and Rac1, together with immunological analyses in vitro and in mice, provide mechanistic insight into how V. vulnificus uses the duet to suppress ROS generation by depleting NAD(P)+ and modifying Rac1 in a mutually-reinforcing manner that ultimately paralyzes first line immune responses, promotes dissemination of invaders, and induces sepsis. These data may allow development of tools or strategies to combat MARTX toxin-related human diseases.

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Protein

Chemical

Disease

Primary Citation of related structures