6FKG

Crystal structure of the M.tuberculosis MbcT-MbcA toxin-antitoxin complex.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.211 
  • R-Value Work: 0.162 
  • R-Value Observed: 0.165 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

An NAD+Phosphorylase Toxin Triggers Mycobacterium tuberculosis Cell Death.

Freire, D.M.Gutierrez, C.Garza-Garcia, A.Grabowska, A.D.Sala, A.J.Ariyachaokun, K.Panikova, T.Beckham, K.S.H.Colom, A.Pogenberg, V.Cianci, M.Tuukkanen, A.Boudehen, Y.M.Peixoto, A.Botella, L.Svergun, D.I.Schnappinger, D.Schneider, T.R.Genevaux, P.de Carvalho, L.P.S.Wilmanns, M.Parret, A.H.A.Neyrolles, O.

(2019) Mol Cell 73: 1282-1291.e8

  • DOI: 10.1016/j.molcel.2019.01.028
  • Primary Citation of Related Structures:  
    6FKG

  • PubMed Abstract: 
  • Toxin-antitoxin (TA) systems regulate fundamental cellular processes in bacteria and represent potential therapeutic targets. We report a new RES-Xre TA system in multiple human pathogens, including Mycobacterium tuberculosis. The toxin, MbcT, is bactericidal unless neutralized by its antitoxin MbcA ...

    Toxin-antitoxin (TA) systems regulate fundamental cellular processes in bacteria and represent potential therapeutic targets. We report a new RES-Xre TA system in multiple human pathogens, including Mycobacterium tuberculosis. The toxin, MbcT, is bactericidal unless neutralized by its antitoxin MbcA. To investigate the mechanism, we solved the 1.8 Å-resolution crystal structure of the MbcTA complex. We found that MbcT resembles secreted NAD + -dependent bacterial exotoxins, such as diphtheria toxin. Indeed, MbcT catalyzes NAD + degradation in vitro and in vivo. Unexpectedly, the reaction is stimulated by inorganic phosphate, and our data reveal that MbcT is a NAD + phosphorylase. In the absence of MbcA, MbcT triggers rapid M. tuberculosis cell death, which reduces mycobacterial survival in macrophages and prolongs the survival of infected mice. Our study expands the molecular activities employed by bacterial TA modules and uncovers a new class of enzymes that could be exploited to treat tuberculosis and other infectious diseases.


    Organizational Affiliation

    Institut de Pharmacologie et de Biologie Structurale, IPBS, Université de Toulouse, CNRS, UPS, 205 route de Narbonne, 31400 Toulouse, France. Electronic address: olivier.neyrolles@ipbs.fr.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Rv1989c (MbcT)A, B186Mycobacterium tuberculosis H37RvMutation(s): 0 
Gene Names: Rv1989cMTCY39.30mbcT
EC: 2.4.2
UniProt
Find proteins for P9WLP9 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
Explore P9WLP9 
Go to UniProtKB:  P9WLP9
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Rv1990c (MbcA)C, D115Mycobacterium tuberculosis H37RvMutation(s): 0 
Gene Names: Rv1990cMTCY39.29mbcA
UniProt
Find proteins for P9WLP7 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
Explore P9WLP7 
Go to UniProtKB:  P9WLP7
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download Ideal Coordinates CCD File 
E [auth B], F [auth B], G [auth C]GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.80 Å
  • R-Value Free: 0.211 
  • R-Value Work: 0.162 
  • R-Value Observed: 0.165 
  • Space Group: P 63
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 105.311α = 90
b = 105.311β = 90
c = 108.712γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
pointlessdata scaling
Aimlessdata scaling
SHELXCDphasing
SHELXDEphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2019-02-27
    Type: Initial release
  • Version 1.1: 2019-03-06
    Changes: Data collection, Database references, Source and taxonomy
  • Version 1.2: 2019-04-03
    Changes: Data collection, Database references