› 5t01

X-ray diffraction
1.89Å resolution

Human c-Jun DNA binding domain homodimer in complex with methylated DNA

Released:
DOI: 10.2210/pdb5t01/pdb
PDB entry 5t01 coloured by chain, front view.
PDB entry 5t01 coloured by chain, side view.
PDB entry 5t01 coloured by chain, top view.
Source organisms:
Primary publication:
Methyl-dependent and spatial-specific DNA recognition by the orthologous transcription factors human AP-1 and Epstein-Barr virus Zta.
Hong S, Wang D, Horton JR, Zhang X, Speck SH, Blumenthal RM, Cheng X
Nucleic Acids Res 45 2503-2515 (2017)
PMID: 28158710

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-119128 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Transcription factor Jun Chains: A, B
Molecule details ›
Chains: A, B
Length: 64 amino acids
Theoretical weight: 7.59 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P05412 (Residues: 254-315; Coverage: 19%)
Gene name: JUN
Sequence domains: bZIP transcription factor
Structure domains: Single alpha-helices involved in coiled-coils or other helix-helix interfaces
DNA (5'-D(P*CP*TP*CP*CP*TP*AP*TP*GP*AP*CP*TP*CP*GP*TP*CP*CP*AP*T)-3') Chain: C
Molecule details ›
Chain: C
Length: 19 nucleotides
Theoretical weight: 5.71 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(*AP*AP*TP*GP*GP*AP*(5CM)P*GP*AP*GP*TP*CP*AP*TP*AP*GP*GP*AP*G)-3') Chain: D
Molecule details ›
Chain: D
Length: 19 nucleotides
Theoretical weight: 5.96 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

No bound ligands
1 modified residue:
Ligand 5CM 1 x 5CM

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: C2
Unit cell:
a: 158.871Å b: 42.49Å c: 45.167Å
α: 90° β: 98.01° γ: 90°
R-values:
R R work R free
0.195 0.193 0.227
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

7 review citations

Epigenetic lifestyle of Epstein-Barr virus.
Buschle et al. (2020)
6 more

28 mentions without citation

Toward a Mechanistic Understanding of DNA Methylation Readout by Transcription Factors.
Kribelbauer et al. (2020)
27 more