› 3q05

X-ray diffraction
2.4Å resolution

An induced fit mechanism regulates p53 DNA binding kinetics to confer sequence specificity

Released:
DOI: 10.2210/pdb3q05/pdb
PDB entry 3q05 coloured by chain, front view.
PDB entry 3q05 coloured by chain, side view.
PDB entry 3q05 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
An induced fit mechanism regulates p53 DNA binding kinetics to confer sequence specificity.
Petty TJ, Emamzadah S, Costantino L, Petkova I, Stavridi ES, Saven JG, Vauthey E, Halazonetis TD
EMBO J 30 2167-76 (2011)
PMID: 21522129

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-116727 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
Cellular tumor antigen p53 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 234 amino acids
Theoretical weight: 26.62 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P04637 (Residues: 94-356; Coverage: 60%)
Gene names: P53, TP53
Sequence domains:
Structure domains: Immunoglobulin-like
DNA (26-MER) Chain: K
Molecule details ›
Chain: K
Length: 26 nucleotides
Theoretical weight: 7.95 KDa
Source organism: Homo sapiens
Expression system: Not provided
DNA (26-MER) Chain: L
Molecule details ›
Chain: L
Length: 26 nucleotides
Theoretical weight: 8.03 KDa
Source organism: Homo sapiens
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand ZN 4 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-2
Spacegroup: P21212
Unit cell:
a: 163.298Å b: 169.764Å c: 55.664Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.24 0.238 0.267
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

8 review citations

The p53 Pathway: Origins, Inactivation in Cancer, and Emerging Therapeutic Approaches.
Joerger et al. (2016)
7 more

21 mentions without citation

Detecting and interpreting DNA methylation marks.
Ren et al. (2018)
20 more