5NJ8

Structural basis for aryl hydrocarbon receptor mediated gene activation


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.30 Å
  • R-Value Free: 0.333 
  • R-Value Work: 0.292 
  • R-Value Observed: 0.294 

wwPDB Validation 3D Report Full Report



Literature

Structural Basis for Aryl Hydrocarbon Receptor-Mediated Gene Activation.

Schulte, K.W.Green, E.Wilz, A.Platten, M.Daumke, O.

(2017) Structure 25: 1025-1033.e3

  • DOI: 10.1016/j.str.2017.05.008
  • Primary Citation of Related Structures:  
    5NJ8

  • PubMed Abstract: 
  • The aryl hydrocarbon receptor (AHR) and the AHR nuclear translocator (ARNT) constitute a heterodimeric basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain containing transcription factor with central functions in development and cellular homeostasis ...

    The aryl hydrocarbon receptor (AHR) and the AHR nuclear translocator (ARNT) constitute a heterodimeric basic helix-loop-helix-Per-ARNT-Sim (bHLH-PAS) domain containing transcription factor with central functions in development and cellular homeostasis. AHR is activated by xenobiotics, notably dioxin, as well as by exogenous and endogenous metabolites. Modulation of AHR activity holds promise for the treatment of diseases featuring altered cellular homeostasis, such as cancer or autoimmune disorders. Here, we present the crystal structure of a heterodimeric AHR:ARNT complex containing the PAS A and bHLH domain bound to its target DNA. The structure provides insights into the DNA binding mode of AHR and elucidates how stable dimerization of AHR:ARNT is achieved through sophisticated domain interplay via three specific interfaces. Using mutational analyses, we prove the relevance of the observed interfaces for AHR-mediated gene activation. Thus, our work establishes the structural basis of AHR assembly and DNA interaction and provides a template for targeted drug design.


    Organizational Affiliation

    Crystallography Department, Max-Delbrück-Center for Molecular Medicine, Robert-Rössle-Strasse 10, 13125 Berlin, Germany; Institute of Chemistry and Biochemistry, Freie Universität Berlin, Takustrasse 6, 14195 Berlin, Germany. Electronic address: oliver.daumke@mdc-berlin.de.



Macromolecules

Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Aryl hydrocarbon receptorAC254Homo sapiensMutation(s): 0 
Gene Names: AHRBHLHE76
Find proteins for P35869 (Homo sapiens)
Explore P35869 
Go to UniProtKB:  P35869
NIH Common Fund Data Resources
PHAROS  P35869
Protein Feature View
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  • Reference Sequence
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Aryl hydrocarbon receptor nuclear translocatorBD239Mus musculusMutation(s): 1 
Gene Names: ARNT
Find proteins for P27540 (Homo sapiens)
Explore P27540 
Go to UniProtKB:  P27540
NIH Common Fund Data Resources
PHAROS  P27540
Protein Feature View
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  • Reference Sequence
  • Find similar nucleic acids by:  Sequence   |   Structure
  • Entity ID: 3
    MoleculeChainsLengthOrganismImage
    DNA (5'-D(*GP*GP*TP*CP*AP*CP*GP*CP*AP*AP*CP*C)-3')E, G12Homo sapiens
    • Find similar nucleic acids by:  Sequence   |   Structure
    • Entity ID: 4
      MoleculeChainsLengthOrganismImage
      DNA (5'-D(*GP*GP*TP*TP*GP*CP*GP*TP*GP*AP*CP*C)-3')F, H12Homo sapiens
      Small Molecules
      Ligands 2 Unique
      IDChainsName / Formula / InChI Key2D Diagram3D Interactions
      ER3
      Query on ER3

      Download CCD File 
      A, B, C, D, H
      ERBIUM (III) ION
      Er
      JHFPQYFEJICGKC-UHFFFAOYSA-N
       Ligand Interaction
      ACT
      Query on ACT

      Download CCD File 
      A
      ACETATE ION
      C2 H3 O2
      QTBSBXVTEAMEQO-UHFFFAOYSA-M
       Ligand Interaction
      Experimental Data & Validation

      Experimental Data

      • Method: X-RAY DIFFRACTION
      • Resolution: 3.30 Å
      • R-Value Free: 0.333 
      • R-Value Work: 0.292 
      • R-Value Observed: 0.294 
      • Space Group: P 65 2 2
      Unit Cell:
      Length ( Å )Angle ( ˚ )
      a = 91.321α = 90
      b = 91.321β = 90
      c = 464.914γ = 120
      Software Package:
      Software NamePurpose
      PHENIXrefinement
      XDSdata reduction
      XDSdata scaling
      AutoSolphasing

      Structure Validation

      View Full Validation Report



      Entry History 

      Deposition Data

      Revision History 

      • Version 1.0: 2017-06-28
        Type: Initial release
      • Version 1.1: 2017-07-19
        Changes: Database references
      • Version 2.0: 2020-02-05
        Changes: Advisory, Atomic model, Data collection, Database references, Derived calculations, Polymer sequence, Source and taxonomy, Structure summary