› 5vpf

X-ray diffraction
2.69Å resolution

Transcription factor FosB/JunD bZIP domain in complex with cognate DNA, type-II crystal

Released:
DOI: 10.2210/pdb5vpf/pdb
PDB entry 5vpf coloured by chain, front view.
PDB entry 5vpf coloured by chain, side view.
PDB entry 5vpf coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Activator Protein-1: redox switch controlling structure and DNA-binding.
Yin Z, Machius M, Nestler EJ, Rudenko G
Nucleic Acids Res 45 11425-11436 (2017)
PMID: 28981703

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-119289 (preferred)
Entry contents:
2 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (4 distinct):
Protein FosB Chains: A, C
Molecule details ›
Chains: A, C
Length: 68 amino acids
Theoretical weight: 8.27 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P53539 (Residues: 153-219; Coverage: 20%)
Gene names: FOSB, G0S3
Sequence domains: bZIP transcription factor
Structure domains: Single alpha-helices involved in coiled-coils or other helix-helix interfaces
Transcription factor JunD Chains: B, D
Molecule details ›
Chains: B, D
Length: 68 amino acids
Theoretical weight: 7.99 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P17535 (Residues: 266-332; Coverage: 19%)
Gene name: JUND
Sequence domains: bZIP transcription factor
Structure domains: Single alpha-helices involved in coiled-coils or other helix-helix interfaces
DNA (5'-D(*CP*GP*TP*CP*GP*GP*TP*GP*AP*CP*TP*CP*AP*CP*CP*GP*AP*CP*G)-3') Chains: E, G
Molecule details ›
Chains: E, G
Length: 19 nucleotides
Theoretical weight: 5.81 KDa
DNA (5'-D(*CP*GP*TP*CP*GP*GP*TP*GP*AP*GP*TP*CP*AP*CP*CP*GP*AP*CP*G)-3') Chains: F, H
Molecule details ›
Chains: F, H
Length: 19 nucleotides
Theoretical weight: 5.85 KDa

Ligands and Environments

4 bound ligands:
Ligand EDO 8 x EDO
Ligand CL 2 x CL
Ligand NA 1 x NA
Ligand PO4 2 x PO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 19-ID
Spacegroup: P6122
Unit cell:
a: 119.637Å b: 119.637Å c: 249.97Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.213 0.21 0.248
Expression system: Escherichia coli

Quick links

Citations

9 review citations

Epithelial-mesenchymal transition: The history, regulatory mechanism, and cancer therapeutic opportunities.
Huang et al. (2022)
8 more

3 mentions without citation

Activator Protein-1: redox switch controlling structure and DNA-binding.
Yin et al. (2017)
2 more