› 6fj5

X-ray diffraction
2.05Å resolution

New Insights into the Role of DNA Shape on Its Recognition by p53 Proteins (complex p53DBD-AGG-HG)

Released:
DOI: 10.2210/pdb6fj5/pdb
PDB entry 6fj5 coloured by chain, front view.
PDB entry 6fj5 coloured by chain, side view.
PDB entry 6fj5 coloured by chain, top view.
Source organisms:
Primary publication:
New Insights into the Role of DNA Shape on Its Recognition by p53 Proteins.
Golovenko D, Bräuning B, Vyas P, Haran TE, Rozenberg H, Shakked Z
Structure 26 1237-1250.e6 (2018)
PMID: 30057026

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-119904 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
Cellular tumor antigen p53 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 200 amino acids
Theoretical weight: 22.51 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P04637 (Residues: 94-293; Coverage: 51%)
Gene names: P53, TP53
Sequence domains: P53 DNA-binding domain
Structure domains: Immunoglobulin-like
DNA Chains: F, G
Molecule details ›
Chains: F, G
Length: 21 nucleotides
Theoretical weight: 6.44 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand ZN 4 x ZN
Ligand EDO 14 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID29
Spacegroup: P21
Unit cell:
a: 68.517Å b: 98.024Å c: 73.171Å
α: 90° β: 93.39° γ: 90°
R-values:
R R work R free
0.2 0.199 0.244
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

2 review citations

Facilitated Diffusion Mechanisms in DNA Base Excision Repair and Transcriptional Activation.
Esadze et al. (2018)
1 more

3 mentions without citation

Distinct mechanisms control genome recognition by p53 at its target genes linked to different cell fates.
Farkas et al. (2021)
2 more