2F3X

Crystal structure of FapR (in complex with effector)- a global regulator of fatty acid biosynthesis in B. subtilis


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.226 
  • R-Value Work: 0.187 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural basis of lipid biosynthesis regulation in Gram-positive bacteria.

Schujman, G.E.Guerin, M.Buschiazzo, A.Schaeffer, F.Llarrull, L.I.Reh, G.Vila, A.J.Alzari, P.M.de Mendoza, D.

(2006) Embo J. 25: 4074-4083

  • DOI: 10.1038/sj.emboj.7601284
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Malonyl-CoA is an essential intermediate in fatty acid synthesis in all living cells. Here we demonstrate a new role for this molecule as a global regulator of lipid homeostasis in Gram-positive bacteria. Using in vitro transcription and binding stud ...

    Malonyl-CoA is an essential intermediate in fatty acid synthesis in all living cells. Here we demonstrate a new role for this molecule as a global regulator of lipid homeostasis in Gram-positive bacteria. Using in vitro transcription and binding studies, we demonstrate that malonyl-CoA is a direct and specific inducer of Bacillus subtilis FapR, a conserved transcriptional repressor that regulates the expression of several genes involved in bacterial fatty acid and phospholipid synthesis. The crystal structure of the effector-binding domain of FapR reveals a homodimeric protein with a thioesterase-like 'hot-dog' fold. Binding of malonyl-CoA promotes a disorder-to-order transition, which transforms an open ligand-binding groove into a long tunnel occupied by the effector molecule in the complex. This ligand-induced modification propagates to the helix-turn-helix motifs, impairing their productive association for DNA binding. Structure-based mutations that disrupt the FapR-malonyl-CoA interaction prevent DNA-binding regulation and result in a lethal phenotype in B. subtilis, suggesting this homeostatic signaling pathway as a promising target for novel chemotherapeutic agents against Gram-positive pathogens.


    Organizational Affiliation

    Instituto de BiologĂ­a Molecular y Celular de Rosario (IBR), Universidad Nacional de Rosario, Rosario, Argentina.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Transcription factor fapR
A, B
157Bacillus subtilis (strain 168)Mutation(s): 0 
Gene Names: fapR (ylpC)
Find proteins for O34835 (Bacillus subtilis (strain 168))
Go to UniProtKB:  O34835
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MLC
Query on MLC

Download SDF File 
Download CCD File 
A, B
MALONYL-COENZYME A
C24 H38 N7 O19 P3 S
LTYOQGRJFJAKNA-DVVLENMVSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.226 
  • R-Value Work: 0.187 
  • Space Group: P 41 21 2
Unit Cell:
Length (Å)Angle (°)
a = 89.441α = 90.00
b = 89.441β = 90.00
c = 162.166γ = 90.00
Software Package:
Software NamePurpose
SCALAdata scaling
AMoREphasing
MOSFLMdata reduction
PDB_EXTRACTdata extraction
CCP4data scaling
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2006-10-31
    Type: Initial release
  • Version 1.1: 2008-05-05
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance