5MTW

Mycobacterium tuberculosis Rv1957 SecB-like chaperone in complex with a ChAD peptide from Rv1956 HigA1 antitoxin


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.84 Å
  • R-Value Free: 0.265 
  • R-Value Work: 0.212 
  • R-Value Observed: 0.214 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Structural insights into chaperone addiction of toxin-antitoxin systems.

Guillet, V.Bordes, P.Bon, C.Marcoux, J.Gervais, V.Sala, A.J.Dos Reis, S.Slama, N.Mares-Mejia, I.Cirinesi, A.M.Maveyraud, L.Genevaux, P.Mourey, L.

(2019) Nat Commun 10: 782-782

  • DOI: 10.1038/s41467-019-08747-4
  • Primary Citation of Related Structures:  
    5MTW

  • PubMed Abstract: 
  • SecB chaperones assist protein export by binding both unfolded proteins and the SecA motor. Certain SecB homologs can also control toxin-antitoxin (TA) systems known to modulate bacterial growth in response to stress. In such TA-chaperone (TAC) systems, SecB assists the folding and prevents degradation of the antitoxin, thus facilitating toxin inhibition ...

    SecB chaperones assist protein export by binding both unfolded proteins and the SecA motor. Certain SecB homologs can also control toxin-antitoxin (TA) systems known to modulate bacterial growth in response to stress. In such TA-chaperone (TAC) systems, SecB assists the folding and prevents degradation of the antitoxin, thus facilitating toxin inhibition. Chaperone dependency is conferred by a C-terminal extension in the antitoxin known as chaperone addiction (ChAD) sequence, which makes the antitoxin aggregation-prone and prevents toxin inhibition. Using TAC of Mycobacterium tuberculosis, we present the structure of a SecB-like chaperone bound to its ChAD peptide. We find differences in the binding interfaces when compared to SecB-SecA or SecB-preprotein complexes, and show that the antitoxin can reach a functional form while bound to the chaperone. This work reveals how chaperones can use discrete surface binding regions to accommodate different clients or partners and thereby expand their substrate repertoire and functions.


    Related Citations: 
    • Chaperone addiction of toxin-antitoxin systems.
      Bordes, P., Sala, A.J., Ayala, S., Texier, P., Slama, N., Cirinesi, A.M., Guillet, V., Mourey, L., Genevaux, P.
      (2016) Nat Commun 7: 13339

    Organizational Affiliation

    Institut de Pharmacologie et de Biologie Structurale, IPBS, Université de Toulouse, CNRS, UPS, 31077, Toulouse, France. lionel.mourey@ipbs.fr.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
SecB-like chaperone Rv1957C [auth A], D [auth B], A [auth C], B [auth D]184Mycobacterium tuberculosis H37RvMutation(s): 0 
Gene Names: secBLRv1957
UniProt
Find proteins for P95257 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
Explore P95257 
Go to UniProtKB:  P95257
Protein Feature View
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  • Reference Sequence
  • Find similar proteins by:  Sequence   |   Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Antitoxin HigA1E, F, G13Mycobacterium tuberculosis H37RvMutation(s): 0 
Gene Names: higA1higARv1956
UniProt
Find proteins for P9WJA7 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
Explore P9WJA7 
Go to UniProtKB:  P9WJA7
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
DMS
Query on DMS

Download Ideal Coordinates CCD File 
H [auth C], K [auth B]DIMETHYL SULFOXIDE
C2 H6 O S
IAZDPXIOMUYVGZ-UHFFFAOYSA-N
 Ligand Interaction
CA
Query on CA

Download Ideal Coordinates CCD File 
I [auth D], J [auth A], L [auth B]CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.84 Å
  • R-Value Free: 0.265 
  • R-Value Work: 0.212 
  • R-Value Observed: 0.214 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 86.86α = 90
b = 89.96β = 90
c = 91.34γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

View Full Validation Report




Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
French National Research AgencyFranceANR-13-BSV8-0010-01

Revision History  (Full details and data files)

  • Version 1.0: 2018-10-24
    Type: Initial release
  • Version 1.1: 2019-02-27
    Changes: Data collection, Database references