› 1xdk

X-ray diffraction
2.9Å resolution

Crystal Structure of the RARbeta/RXRalpha Ligand Binding Domain Heterodimer in Complex with 9-cis Retinoic Acid and a Fragment of the TRAP220 Coactivator

Released:
DOI: 10.2210/pdb1xdk/pdb
PDB entry 1xdk coloured by chain, front view.
PDB entry 1xdk coloured by chain, side view.
PDB entry 1xdk coloured by chain, top view.
Source organism: Mus musculus
Primary publication:
Characterization of the interaction between retinoic acid receptor/retinoid X receptor (RAR/RXR) heterodimers and transcriptional coactivators through structural and fluorescence anisotropy studies.
Pogenberg V, Guichou JF, Vivat-Hannah V, Kammerer S, Pérez E, Germain P, de Lera AR, Gronemeyer H, Royer CA, Bourguet W
J Biol Chem 280 1625-33 (2005)
PMID: 15528208

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:
Structure domain:

Structure analysis Details

Assemblies composition:
hetero tetramer (preferred)
hetero octamer
PDBe Complex ID:
PDB-CPX-149675 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Retinoic acid receptor RXR-alpha Chains: A, E
Molecule details ›
Chains: A, E
Length: 238 amino acids
Theoretical weight: 26.58 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P28700 (Residues: 230-467; Coverage: 51%)
Gene names: Nr2b1, Rxra
Sequence domains: Ligand-binding domain of nuclear hormone receptor
Structure domains: Retinoid X Receptor
Retinoic acid receptor beta Chains: B, F
Molecule details ›
Chains: B, F
Length: 303 amino acids
Theoretical weight: 33.98 KDa
Source organism: Mus musculus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P22605 (Residues: 180-482; Coverage: 63%)
Gene names: Nr1b2, Rarb
Sequence domains: Ligand-binding domain of nuclear hormone receptor
Structure domains: Retinoid X Receptor
Mediator of RNA polymerase II transcription subunit 1 Chains: C, D, G, H
Molecule details ›
Chains: C, D, G, H
Length: 14 amino acids
Theoretical weight: 1.61 KDa
Source organism: Mus musculus
Expression system: Not provided
UniProt:
  • Canonical: Q925J9 (Residues: 641-654; Coverage: 1%)
Gene names: Crsp210, Drip205, Med1, Pbp, Pparbp, Trap220, Trip2

Ligands and Environments

1 bound ligand:
Ligand 9CR 4 x 9CR
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE BM30A
Spacegroup: P3121
Unit cell:
a: 115.7Å b: 115.7Å c: 247.2Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.253 0.253 0.296
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

12 review citations

Retinoid X receptors: common heterodimerization partners with distinct functions.
Lefebvre et al. (2010)
11 more

19 mentions without citation

The retinoid X receptors and their ligands.
Dawson et al. (2012)
18 more