Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

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

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 67.54 kDa 
• Atom Count: 4294 
• Modelled Residue Count: 482 
• Deposited Residue Count: 522 
• Unique protein chains: 1
• Unique nucleic acid chains: 2

1HW2

FADR-DNA COMPLEX: TRANSCRIPTIONAL CONTROL OF FATTY ACID METABOLISM IN ECHERICHIA COLI

• PDB DOI: 10.2210/pdb1HW2/pdb

• Classification: TRANSCRIPTION/DNA
• Organism(s): Escherichia coli
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2001-01-09 Released: 2001-01-22 
• Deposition Author(s): Xu, Y., Heath, R.J., Li, Z., Rock, C.O., White, S.W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.25 Å
• R-Value Free: 0.278 
• R-Value Work: 0.235 

Literature

The FadR.DNA complex. Transcriptional control of fatty acid metabolism in Escherichia coli.

Xu, Y., Heath, R.J., Li, Z., Rock, C.O., White, S.W.

(2001) J Biol Chem 276: 17373-17379

• PubMed: 11279025 
• DOI: 10.1074/jbc.M100195200
• Primary Citation of Related Structures:  
  1HW1, 1HW2


• PubMed Abstract: 
  

In Escherichia coli, the expression of fatty acid metabolic genes is controlled by the transcription factor, FadR. The affinity of FadR for DNA is controlled by long chain acyl-CoA molecules, which bind to the protein and modulate gene expression. The crystal structure of FadR reveals a two domain dimeric molecule where the N-terminal domains bind DNA, and the C-terminal domains bind acyl-CoA. The DNA binding domain has a winged-helix motif, and the C-terminal domain resembles the sensor domain of the Tet repressor. The FadR.DNA complex reveals how the protein interacts with DNA and specifically recognizes a palindromic sequence. Structural and functional similarities to the Tet repressor and the BmrR transcription factors suggest how the binding of the acyl-CoA effector molecule to the C-terminal domain may affect the DNA binding affinity of the N-terminal domain. We suggest that the binding of acyl-CoA disrupts a buried network of charged and polar residues in the C-terminal domain, and the resulting conformational change is transmitted to the N-terminal domain via a domain-spanning alpha-helix.

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Organizational Affiliation: 

Department of Structural Biology, St Jude Children's Research Hospital, Memphis, Tennessee 38105, USA.

Macromolecules

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
FATTY ACID METABOLISM REGULATOR PROTEIN	C [auth A], D [auth B]	239	Escherichia coli	Mutation(s): 0  Gene Names: fadR
UniProt
Find proteins for P0A8V6 (Escherichia coli (strain K12)) Explore P0A8V6  Go to UniProtKB:  P0A8V6

Entity ID: 1
Molecule	Chains	Length	Organism	Image
5'-D(*CP*GP*AP*TP*CP*TP*GP*GP*TP*CP*CP*GP*AP*CP*CP*AP*GP*AP*TP*GP*CP*T)-3'	A [auth D]	22	N/A

Entity ID: 2
Molecule	Chains	Length	Organism	Image
5'-D(*G*CP*AP*TP*CP*TP*GP*GP*TP*CP*GP*GP*AP*CP*CP*AP*GP*AP*TP*CP*GP*A)-3'	B [auth E]	22	N/A

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
MG	E	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.25 Å
• R-Value Free: 0.278 
• R-Value Work: 0.235 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 83.733	α = 90
b = 110.148	β = 90
c = 130.281	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2001-01-09 
• Released Date: 2001-01-22 
Deposition Author(s): Xu, Y., Heath, R.J., Li, Z., Rock, C.O., White, S.W.

Revision History  

• Version 1.0: 2001-01-22
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance