› 5mk4

X-ray diffraction
2Å resolution

Crystal structure of the Retinoid X Receptor alpha in complex with synthetic honokiol derivative 7 and a fragment of the TIF2 co-activator.

Released:
DOI: 10.2210/pdb5mk4/pdb
PDB entry 5mk4 coloured by chain, front view.
PDB entry 5mk4 coloured by chain, side view.
PDB entry 5mk4 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Ligand Dependent Switch from RXR Homo- to RXR-NURR1 Heterodimerization.
Scheepstra M, Andrei SA, de Vries RMJM, Meijer FA, Ma JN, Burstein ES, Olsson R, Ottmann C, Milroy LG, Brunsveld L
ACS Chem Neurosci 8 2065-2077 (2017)
PMID: 28691794

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-148727 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Retinoic acid receptor RXR-alpha Chains: A, C
Molecule details ›
Chains: A, C
Length: 229 amino acids
Theoretical weight: 25.67 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P19793 (Residues: 229-457; Coverage: 50%)
Gene names: NR2B1, RXRA
Sequence domains: Ligand-binding domain of nuclear hormone receptor
Structure domains: Retinoid X Receptor
Nuclear receptor coactivator 2 Chains: B, D
Molecule details ›
Chains: B, D
Length: 11 amino acids
Theoretical weight: 1.41 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: Q15596 (Residues: 686-696; Coverage: 1%)
Gene names: BHLHE75, NCOA2, SRC2, TIF2

Ligands and Environments

2 bound ligands:
Ligand I5W 2 x I5W
Ligand CL 2 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: PETRA III, DESY BEAMLINE P11
Spacegroup: P212121
Unit cell:
a: 71.699Å b: 74.14Å c: 99.21Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.174 0.171 0.229
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

2 review citations

Nuclear receptor crosstalk - defining the mechanisms for therapeutic innovation.
De Bosscher et al. (2020)
1 more

1 mention without citation

Ligand Dependent Switch from RXR Homo- to RXR-NURR1 Heterodimerization.
Scheepstra et al. (2017)