6D0H image
Deposition Date 2018-04-10
Release Date 2019-01-09
Last Version Date 2024-03-13
Entry Detail
PDB ID:
6D0H
Keywords:
Title:
ParT: Prs ADP-ribosylating toxin bound to cognate antitoxin ParS
Biological Source:
Source Organism:
Host Organism:
Method Details:
Experimental Method:
Resolution:
1.50 Å
R-Value Free:
0.17
R-Value Work:
0.14
R-Value Observed:
0.14
Space Group:
P 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:ParT: COG5654 (RES domain) toxin
Gene (Uniprot):parT
Chain IDs:A, C
Chain Length:160
Number of Molecules:2
Biological Source:Sphingobium sp. YBL2
Polymer Type:polypeptide(L)
Molecule:ParS: COG5642 (DUF2384) antitoxin
Gene (Uniprot):parS
Chain IDs:B, D
Chain Length:72
Number of Molecules:2
Biological Source:Sphingobium sp. YBL2
Ligand Molecules
Primary Citation
ParST is a widespread toxin-antitoxin module that targets nucleotide metabolism.
Proc. Natl. Acad. Sci. U.S.A. 116 826 834 (2019)
PMID: 30598453 DOI: 10.1073/pnas.1814633116

Abstact

Toxin-antitoxin (TA) systems interfere with essential cellular processes and are implicated in bacterial lifestyle adaptations such as persistence and the biofilm formation. Here, we present structural, biochemical, and functional data on an uncharacterized TA system, the COG5654-COG5642 pair. Bioinformatic analysis showed that this TA pair is found in 2,942 of the 16,286 distinct bacterial species in the RefSeq database. We solved a structure of the toxin bound to a fragment of the antitoxin to 1.50 Å. This structure suggested that the toxin is a mono-ADP-ribosyltransferase (mART). The toxin specifically modifies phosphoribosyl pyrophosphate synthetase (Prs), an essential enzyme in nucleotide biosynthesis conserved in all organisms. We propose renaming the toxin ParT for Prs ADP-ribosylating toxin and ParS for the cognate antitoxin. ParT is a unique example of an intracellular protein mART in bacteria and is the smallest known mART. This work demonstrates that TA systems can induce bacteriostasis through interference with nucleotide biosynthesis.

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Primary Citation of related structures