1UHL

Crystal structure of the LXRalfa-RXRbeta LBD heterodimer


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.326 
  • R-Value Work: 0.219 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Crystal structure of the heterodimeric complex of LXRalpha and RXRbeta ligand-binding domains in a fully agonistic conformation

Svensson, S.Ostberg, T.Jacobsson, M.Norstrom, C.Stefansson, K.Hallen, D.Johansson, I.C.Zachrisson, K.Ogg, D.Jendeberg, L.

(2003) Embo J. 22: 4625-4633

  • DOI: 10.1093/emboj/cdg456

  • PubMed Abstract: 
  • The nuclear receptor heterodimers of liver X receptor (LXR) and retinoid X receptor (RXR) are key transcriptional regulators of genes involved in lipid homeostasis and inflammation. We report the crystal structure of the ligand-binding domains (LBDs) ...

    The nuclear receptor heterodimers of liver X receptor (LXR) and retinoid X receptor (RXR) are key transcriptional regulators of genes involved in lipid homeostasis and inflammation. We report the crystal structure of the ligand-binding domains (LBDs) of LXRalpha and RXRbeta complexed to the synthetic LXR agonist T-0901317 and the RXR agonist methoprene acid (Protein Data Base entry 1UHL). Both LBDs are in agonist conformation with GRIP-1 peptides bound at the coactivator binding sites. T-0901317 occupies the center of the LXR ligand-binding pocket and its hydroxyl head group interacts with H421 and W443, residues identified by mutational analysis as critical for ligand-induced transcriptional activation by T-0901317 and various endogenous oxysterols. The topography of the pocket suggests a common anchoring of these oxysterols via their 22-, 24- or 27-hydroxyl group to H421 and W443. Polyunsaturated fatty acids act as LXR antagonists and an E267A mutation was found to enhance their transcriptional inhibition. The present structure provides a powerful tool for the design of novel modulators that can be used to characterize further the physiological functions of the LXR-RXR heterodimer.


    Organizational Affiliation

    Department of Structural Chemistry, Biovitrum AB, Lindhagensgatan 133, SE-112 76 Stockholm, Sweden. stefan.j.svensson@biovitrum.com




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Retinoic acid receptor RXR-beta
A
236Homo sapiensMutation(s): 0 
Gene Names: RXRB (NR2B2)
Find proteins for P28702 (Homo sapiens)
Go to Gene View: RXRB
Go to UniProtKB:  P28702
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Oxysterols receptor LXR-alpha
B
242Homo sapiensMutation(s): 0 
Gene Names: NR1H3 (LXRA)
Find proteins for Q13133 (Homo sapiens)
Go to Gene View: NR1H3
Go to UniProtKB:  Q13133
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
10-mer peptide from Nuclear receptor coactivator 2
C, D
10Homo sapiensMutation(s): 0 
Gene Names: NCOA2 (BHLHE75, SRC2, TIF2)
Find proteins for Q15596 (Homo sapiens)
Go to Gene View: NCOA2
Go to UniProtKB:  Q15596
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MEI
Query on MEI

Download SDF File 
Download CCD File 
A
(2E,4E)-11-METHOXY-3,7,11-TRIMETHYLDODECA-2,4-DIENOIC ACID
METOPRENIC ACID
C16 H28 O3
MNYBEULOKRVZKY-ATCPXPEISA-N
 Ligand Interaction
444
Query on 444

Download SDF File 
Download CCD File 
B
N-(2,2,2-TRIFLUOROETHYL)-N-{4-[2,2,2-TRIFLUORO-1-HYDROXY-1-(TRIFLUOROMETHYL)ETHYL]PHENYL}BENZENESULFONAMIDE
C17 H12 F9 N O3 S
SGIWFELWJPNFDH-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.326 
  • R-Value Work: 0.219 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 67.634α = 90.00
b = 88.996β = 90.00
c = 90.795γ = 90.00
Software Package:
Software NamePurpose
MOLREPphasing
REFMACrefinement
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2004-06-01
    Type: Initial release
  • Version 1.1: 2008-04-27
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2018-05-23
    Type: Data collection