› 4cn2

X-ray diffraction
2.07Å resolution

Crystal Structure of the Human Retinoid X Receptor DNA-Binding Domain Bound to the Human Ramp2 Response Element

Released:
DOI: 10.2210/pdb4cn2/pdb
PDB entry 4cn2 coloured by chain, front view.
PDB entry 4cn2 coloured by chain, side view.
PDB entry 4cn2 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis of natural promoter recognition by the retinoid X nuclear receptor.
Osz J, McEwen AG, Poussin-Courmontagne P, Moutier E, Birck C, Davidson I, Moras D, Rochel N
Sci Rep 5 8216 (2015)
PMID: 25645674

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-117293 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Retinoic acid receptor RXR-alpha Chains: C, D
Molecule details ›
Chains: C, D
Length: 87 amino acids
Theoretical weight: 10.26 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P19793 (Residues: 130-212; Coverage: 18%)
Gene names: NR2B1, RXRA
Sequence domains: Zinc finger, C4 type (two domains)
Structure domains: Erythroid Transcription Factor GATA-1, subunit A
5'-D(*TP*GP*AP*GP*TP*TP*CP*AP*AP*GP*GP*GP*TP*DC *AP*AP*TP)-3' Chain: A
Molecule details ›
Chain: A
Length: 17 nucleotides
Theoretical weight: 5.27 KDa
Source organism: Homo sapiens
Expression system: Not provided
5'-D(*AP*TP*TP*GP*AP*CP*CP*CP*TP*TP*GP*AP*AP*DC *TP*CP*AP)-3' Chain: B
Molecule details ›
Chain: B
Length: 17 nucleotides
Theoretical weight: 5.15 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

4 bound ligands:
Ligand MG 7 x MG
Ligand ZN 4 x ZN
Ligand MES 1 x MES
Ligand CL 4 x CL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-1
Spacegroup: C2
Unit cell:
a: 113.234Å b: 43.952Å c: 63.316Å
α: 90° β: 106.02° γ: 90°
R-values:
R R work R free
0.167 0.165 0.214
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

4 review citations

Binding Revisited-Avidity in Cellular Function and Signaling.
Erlendsson et al. (2020)
3 more

3 mentions without citation

Structural basis of binding of homodimers of the nuclear receptor NR4A2 to selective Nur-responsive DNA elements.
Jiang et al. (2019)
2 more