6GTS

Structure of the AtaT-AtaR complex bound DNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.357 Å
  • R-Value Free: 0.289 
  • R-Value Work: 0.264 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Mechanism of regulation and neutralization of the AtaR-AtaT toxin-antitoxin system.

Jurenas, D.Van Melderen, L.Garcia-Pino, A.

(2019) Nat. Chem. Biol. 15: 285-294

  • DOI: 10.1038/s41589-018-0216-z
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • GCN5-related N-acetyl-transferase (GNAT)-like enzymes from toxin-antitoxin modules are strong inhibitors of protein synthesis. Here, we present the bases of the regulatory mechanisms of ataRT, a model GNAT-toxin-antitoxin module, from toxin synthesis ...

    GCN5-related N-acetyl-transferase (GNAT)-like enzymes from toxin-antitoxin modules are strong inhibitors of protein synthesis. Here, we present the bases of the regulatory mechanisms of ataRT, a model GNAT-toxin-antitoxin module, from toxin synthesis to its action as a transcriptional de-repressor. We show the antitoxin (AtaR) traps the toxin (AtaT) in a pre-catalytic monomeric state and precludes the effective binding of ac-CoA and its target Met-transfer RNA fMet . In the repressor complex, AtaR intrinsically disordered region interacts with AtaT at two different sites, folding into different structures, that are involved in two separate functional roles, toxin neutralization and placing the DNA-binding domains of AtaR in a binding-compatible orientation. Our data suggests AtaR neutralizes AtaT as a monomer, right after its synthesis and only the toxin-antitoxin complex formed in this way is an active repressor. Once activated by dimerization, later neutralization of the toxin results in a toxin-antitoxin complex that is not able to repress transcription.


    Organizational Affiliation

    Cellular and Molecular Microbiology, Department of Molecular Biology, Université Libre de Bruxelles, Gosselies, Belgium.,WELBIO, Brussels, Belgium. agarciap@ulb.ac.be.,Cellular and Molecular Microbiology, Department of Molecular Biology, Université Libre de Bruxelles, Gosselies, Belgium. agarciap@ulb.ac.be.,Department of Biochemistry and Molecular biology, Vilnius University Joint Life Sciences Center, Vilnius, Lithuania.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Acetyltransferase
A
175Escherichia coliMutation(s): 0 
Find proteins for A0A0K4I8K2 (Escherichia coli)
Go to UniProtKB:  A0A0K4I8K2
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
DUF1778 domain-containing protein
B, C
88Escherichia coliMutation(s): 0 
Gene Names: ybl13 (ybl13_1)
Find proteins for J7QA90 (Escherichia coli)
Go to UniProtKB:  J7QA90
Entity ID: 3
MoleculeChainsLengthOrganism
DNAD22Escherichia coli
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.357 Å
  • R-Value Free: 0.289 
  • R-Value Work: 0.264 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 75.729α = 90.00
b = 87.920β = 90.00
c = 190.481γ = 90.00
Software Package:
Software NamePurpose
XSCALEdata scaling
PHASERphasing
PHENIXrefinement
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2019-03-06
    Type: Initial release