4J5X

Crystal Structure of the SR12813-bound PXR/RXRalpha LBD Heterotetramer Complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.245 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structural and Functional Analysis of the Human Nuclear Xenobiotic Receptor PXR in Complex with RXRalpha.

Wallace, B.D.Betts, L.Talmage, G.Pollet, R.M.Holman, N.S.Redinbo, M.R.

(2013) J.Mol.Biol. 425: 2561-2577

  • DOI: 10.1016/j.jmb.2013.04.012
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The human nuclear xenobiotic receptor PXR recognizes a range of potentially harmful drugs and endobiotic chemicals but must complex with the nuclear receptor RXRα to control the expression of numerous drug metabolism genes. To date, the structural ba ...

    The human nuclear xenobiotic receptor PXR recognizes a range of potentially harmful drugs and endobiotic chemicals but must complex with the nuclear receptor RXRα to control the expression of numerous drug metabolism genes. To date, the structural basis and functional consequences of this interaction have remained unclear. Here we present 2.8-Å-resolution crystal structures of the heterodimeric complex formed between the ligand-binding domains of human PXR and RXRα. These structures establish that PXR and RXRα form a heterotetramer unprecedented in the nuclear receptor family of ligand-regulated transcription factors. We further show that both PXR and RXRα bind to the transcriptional coregulator SRC-1 with higher affinity when they are part of the PXR/RXRα heterotetramer complex than they do when each ligand-binding domain is examined alone. Furthermore, we purify the full-length forms of each receptor from recombinant bacterial expression systems and characterize their interactions with a range of direct and everted repeat DNA elements. Taken together, these data advance our understanding of PXR, the master regulator of drug metabolism gene expression in humans, in its functional partnership with RXRα.


    Organizational Affiliation

    Department of Chemistry, Biochemistry and Microbiology, University of North Carolina at Chapel Hill, 250 Bell Tower Drive, Chapel Hill, NC 27599, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Retinoic acid receptor RXR-alpha, Nuclear receptor coactivator 1
D, C
264Homo sapiensMutation(s): 0 
Gene Names: RXRA (NR2B1), NCOA1 (BHLHE74, SRC1)
EC: 2.3.1.48
Find proteins for P19793 (Homo sapiens)
Go to Gene View: RXRA
Go to UniProtKB:  P19793
Find proteins for Q15788 (Homo sapiens)
Go to Gene View: NCOA1
Go to UniProtKB:  Q15788
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Nuclear receptor subfamily 1 group I member 2, Nuclear receptor coactivator 1
A, B
336Homo sapiensMutation(s): 0 
Gene Names: NR1I2 (PXR), NCOA1 (BHLHE74, SRC1)
EC: 2.3.1.48
Find proteins for O75469 (Homo sapiens)
Go to Gene View: NR1I2
Go to UniProtKB:  O75469
Find proteins for Q15788 (Homo sapiens)
Go to Gene View: NCOA1
Go to UniProtKB:  Q15788
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SRL
Query on SRL

Download SDF File 
Download CCD File 
A, B
[2-(3,5-DI-TERT-BUTYL-4-HYDROXY-PHENYL)-1-(DIETHOXY-PHOSPHORYL)-VINYL]-PHOSPHONIC ACID DIETHLYL ESTER
SR12813
C24 H42 O7 P2
YQLJDECYQDRSBI-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.8 Å
  • R-Value Free: 0.298 
  • R-Value Work: 0.245 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 70.090α = 90.00
b = 120.300β = 90.00
c = 175.790γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
PHENIXrefinement
JBluIce-EPICSdata collection
XSCALEdata scaling
PDB_EXTRACTdata extraction
XDSdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2013-08-21
    Type: Initial release
  • Version 1.1: 2017-08-16
    Type: Source and taxonomy
  • Version 1.2: 2017-11-15
    Type: Refinement description