6O6P | pdb_00006o6p

Structure of the regulator FasR from Mycobacterium tuberculosis in complex with DNA


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.85 Å
  • R-Value Free: 
    0.332 (Depositor), 0.305 (DCC) 
  • R-Value Work: 
    0.287 (Depositor) 
  • R-Value Observed: 
    0.292 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.2 of the entry. See complete history

Literature

Mycobacterium tuberculosis FasR senses long fatty acyl-CoA through a tunnel and a hydrophobic transmission spine.

Lara, J.Diacovich, L.Trajtenberg, F.Larrieux, N.Malchiodi, E.L.Fernandez, M.M.Gago, G.Gramajo, H.Buschiazzo, A.

(2020) Nat Commun 11: 3703-3703

  • DOI: https://doi.org/10.1038/s41467-020-17504-x
  • Primary Citation Related Structures: 
    6O6N, 6O6O, 6O6P

  • PubMed Abstract: 

    Mycobacterium tuberculosis is a pathogen with a unique cell envelope including very long fatty acids, implicated in bacterial resistance and host immune modulation. FasR is a TetR-like transcriptional activator that plays a central role in sensing mycobacterial long-chain fatty acids and regulating lipid biosynthesis. Here we disclose crystal structures of M. tuberculosis FasR in complex with acyl effector ligands and with DNA, uncovering its molecular sensory and switching mechanisms. A long tunnel traverses the entire effector-binding domain, enabling long fatty acyl effectors to bind. Only when the tunnel is entirely occupied, the protein dimer adopts a rigid configuration with its DNA-binding domains in an open state, leading to DNA dissociation. The protein-folding hydrophobic core connects the two domains, and is completed into a continuous spine when the effector binds. Such a transmission spine is conserved in a large number of TetR-like regulators, offering insight into effector-triggered allosteric functional control.


  • Organizational Affiliation
    • Laboratory of Physiology and Genetics of Actinomycetes, Instituto de Biología Molecular y Celular de Rosario (IBR-CONICET), Facultad de Ciencias Bioquímicas y Farmacéuticas, Universidad Nacional de Rosario, Rosario, 2000, Argentina.

Macromolecule Content 

  • Total Structure Weight: 69.93 kDa 
  • Atom Count: 3,803 
  • Modeled Residue Count: 421 
  • Deposited Residue Count: 546 
  • Unique protein chains: 1
  • Unique nucleic acid chains: 2

Macromolecules


Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
TetR family transcriptional regulator
A, B
248Mycobacterium tuberculosisMutation(s): 0 
Gene Names: Rv3208
UniProt
Find proteins for O05858 (Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv))
Explore O05858 
Go to UniProtKB:  O05858
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO05858
Sequence Annotations
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Reference Sequence
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Entity ID: 2
MoleculeChains LengthOrganismImage
DNA-forward25Mycobacterium tuberculosis
Sequence Annotations
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Reference Sequence
Find similar nucleic acids by:  Sequence
Entity ID: 3
MoleculeChains LengthOrganismImage
DNA-reverse25Mycobacterium tuberculosis
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.85 Å
  • R-Value Free:  0.332 (Depositor), 0.305 (DCC) 
  • R-Value Work:  0.287 (Depositor) 
  • R-Value Observed: 0.292 (Depositor) 
Space Group: C 2 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 61.697α = 90
b = 174.68β = 90
c = 158.169γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
Aimlessdata scaling
TRUNCATEdata reduction
PHASERphasing

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2020-03-11
    Type: Initial release
  • Version 1.1: 2020-09-23
    Changes: Database references
  • Version 1.2: 2023-10-11
    Changes: Data collection, Database references, Refinement description