6GTS

Structure of the AtaT-AtaR complex bound DNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.36 Å
  • R-Value Free: 0.289 
  • R-Value Work: 0.264 
  • R-Value Observed: 0.265 

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:  
    6GTO, 6GTP, 6GTQ, 6GTR, 6GTS

  • 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 to its action as a transcriptional de-repressor ...

    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

    WELBIO, Brussels, Belgium. agarciap@ulb.ac.be.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
AcetyltransferaseA175Escherichia coliMutation(s): 0 
Gene Names: 
UniProt
Find proteins for A0A0K4I8K2 (Escherichia coli)
Explore A0A0K4I8K2 
Go to UniProtKB:  A0A0K4I8K2
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A0K4I8K2
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
DUF1778 domain-containing proteinB, C88Escherichia coliMutation(s): 0 
Gene Names: 
UniProt
Find proteins for J7QA90 (Escherichia coli)
Explore J7QA90 
Go to UniProtKB:  J7QA90
Entity Groups  
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UniProt GroupJ7QA90
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  • Reference Sequence
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Entity ID: 3
MoleculeChainsLengthOrganismImage
DNAD 22Escherichia coli
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.36 Å
  • R-Value Free: 0.289 
  • R-Value Work: 0.264 
  • R-Value Observed: 0.265 
  • Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 75.729α = 90
b = 87.92β = 90
c = 190.481γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

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