Crystal structure of EspRdelta10, C-terminal 10 amino acids deletion mutant of EspR transcription factor from Mycobacterium tuberculosis

Experimental Data Snapshot

  • Resolution: 1.99 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.183 
  • R-Value Observed: 0.185 

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Atypical DNA recognition mechanism used by the EspR virulence regulator of Mycobacterium tuberculosis.

Blasco, B.Stenta, M.Alonso-Sarduy, L.Dietler, G.Peraro, M.D.Cole, S.T.Pojer, F.

(2011) Mol Microbiol 82: 251-264

  • DOI: https://doi.org/10.1111/j.1365-2958.2011.07813.x
  • Primary Citation of Related Structures:  
    3QF3, 3QWG, 3QYX

  • PubMed Abstract: 

    The human pathogen Mycobacterium tuberculosis requires the ESX-1 secretion system for full virulence. EspR plays a key role in ESX-1 regulation via direct binding and transcriptional activation of the espACD operon. Here, we describe the crystal structures of EspR, a C-terminally truncated form, EspRΔ10, as well as an EspR-DNA complex. EspR forms a dimer with each monomer containing an N-terminal helix-turn-helix DNA binding motif and an atypical C-terminal dimerization domain. Structural studies combined with footprinting experiments, atomic force microscopy and molecular dynamic simulations allow us to propose a model in which a dimer of EspR dimers is the minimal functional unit with two subunits binding two consecutive major grooves. The other two DNA binding domains are thus free to form higher-order oligomers and to bridge distant DNA sites in a cooperative way. These features are reminiscent of nucleoid-associated proteins and suggest a more general regulatory role for EspR than was previously suspected.

  • Organizational Affiliation

    Global Health Institute, Ecole Polytechnique Fédérale de Lausanne (EPFL), CH-1015 Lausanne, Switzerland.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ESX-1 secretion-associated regulator EspR
A, B
123Mycobacterium tuberculosisMutation(s): 0 
Gene Names: espRMT3964Rv3849
Find proteins for P9WJB7 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
Explore P9WJB7 
Go to UniProtKB:  P9WJB7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP9WJB7
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 1.99 Å
  • R-Value Free: 0.236 
  • R-Value Work: 0.183 
  • R-Value Observed: 0.185 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 46.46α = 90
b = 55.37β = 90
c = 76.55γ = 90
Software Package:
Software NamePurpose
XDSdata scaling
CCP4model building
PHENIXmodel building
XDSdata reduction

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-09-14
    Type: Initial release
  • Version 1.1: 2011-11-16
    Changes: Database references
  • Version 1.2: 2023-09-13
    Changes: Data collection, Database references, Refinement description