Biological Assembly 1  

 3D View: Structure | Electron Density | Ligand Interaction

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Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PQS (software)

Macromolecule Content

• Total Structure Weight: 28489.02 
• Atom Count: 1888 
• Residue Count: 243 
• Unique protein chains: 1

1H9G

FadR, FATTY ACID RESPONSIVE TRANSCRIPTION FACTOR FROM E. COLI, in complex with myristoyl-CoA

• DOI: 10.2210/pdb1H9G/pdb

• Classification: TRANSCRIPTIONAL REGULATION
• Organism(s): Escherichia coli (strain K12)
• Expression System: Escherichia coli


• Deposited: 2001-03-09 Released: 2001-03-09 
• Deposition Author(s): Van Aalten, D.M.F., Dirusso, C.C., Knudsen, J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.1 Å
• R-Value Free: 0.256 
• R-Value Work: 0.226 

Literature

The Structural Basis of Acyl Coenzyme A-Dependent Regulation of the Transcription Factor Fadr

Van Aalten, D.M.F., Dirusso, C.C., Knudsen, J.

(2001) Embo J. 20: 2041

• PubMed: 11296236 
• DOI: 10.1093/emboj/20.8.2041
• Primary Citation of Related Structures:  
  1H9T


• PubMed Abstract: 
  

FadR is an acyl-CoA-responsive transcription factor, regulating fatty acid biosynthetic and degradation genes in Escherichia coli. The apo-protein binds DNA as a homodimer, an interaction that is disrupted by binding of acyl-COA: The recently described structure of apo-FadR shows a DNA binding domain coupled to an acyl-CoA binding domain with a novel fold, but does not explain how binding of the acyl-CoA effector molecule > 30 A away from the DNA binding site affects transcriptional regulation. Here, we describe the structures of the FadR-operator and FadR- myristoyl-CoA binary complexes. The FadR-DNA complex reveals a novel winged helix-turn-helix protein-DNA interaction, involving sequence-specific contacts from the wing to the minor groove. Binding of acyl-CoA results in dramatic conformational changes throughout the protein, with backbone shifts up to 4.5 A. The net effect is a rearrangement of the DNA binding domains in the dimer, resulting in a change of 7.2 A in separation of the DNA recognition helices and the loss of DNA binding, revealing the molecular basis of acyl-CoA-responsive regulation.

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Related Citations: 

• Crystal Structure of Fadr, a Fatty Acid-Responsive Transcription Factor with a Novel Acyl Coenzyme A-Binding Fold
  Van Aalten, D.M.,Dirusso, C.C.,Knudsen, J.,Wierenga, R.K.
  (2000) Embo J. 19: 5167
• Crystallization and X-Ray Diffraction Studies of the Fatty-Acid Responsive Transcription Factor Fadr from Escherichia Coli
  Van Aalten, D.M.F.,Knudsen, J.,Dirusso, C.C.,Kokko, T.,Wierenga, R.K.
  (2000) Acta Crystallogr.,Sect.D 56: 469




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Organizational Affiliation: 

Wellcome Trust Biocentre, Division of Biological Chemistry and Molecular Microbiology, School of Life Sciences, University of Dundee, Dow Street, Dundee DD1 5EH, UK. [e-mail]

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
FATTY ACID METABOLISM REGULATOR PROTEIN	A	243	Escherichia coli (strain K12)	Mutation(s): 0  Gene Names: fadR (oleR, thdB)
Find proteins for P0A8V6 (Escherichia coli (strain K12)) Go to UniProtKB:  P0A8V6

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
MYR	A	MYRISTIC ACID C14 H28 O2 TUNFSRHWOTWDNC-UHFFFAOYSA-N
COA	A	COENZYME A C21 H36 N7 O16 P3 S RGJOEKWQDUBAIZ-IBOSZNHHSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.1 Å
• R-Value Free: 0.256 
• R-Value Work: 0.226 
• Space Group: P 6₁ 2 2

Unit Cell:

Length (Å)	Angle (°)
a = 59.476	α = 90.00
b = 59.476	β = 90.00
c = 290.483	γ = 120.00

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2001-03-09 
• Released Date: 2001-03-09 
• Deposition Author(s): Van Aalten, D.M.F., Dirusso, C.C., Knudsen, J.

Revision History 

• Version 1.0: 2001-03-09
  Type: Initial release
• Version 1.1: 2011-05-07
  Type: Version format compliance
• Version 1.2: 2011-07-13
  Type: Version format compliance