7DVD image
Deposition Date 2021-01-13
Release Date 2021-08-04
Last Version Date 2024-10-23
Entry Detail
PDB ID:
7DVD
Title:
The crystal structure of p53 DNA binding domain and PUMA complex
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Method Details:
Experimental Method:
Resolution:
2.59 Å
R-Value Free:
0.31
R-Value Work:
0.26
R-Value Observed:
0.27
Space Group:
P 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cellular tumor antigen p53
Gene (Uniprot):TP53
Chain IDs:A, B, C, D
Chain Length:205
Number of Molecules:4
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Bcl-2-binding component 3, isoforms 1/2
Gene (Uniprot):BBC3
Chain IDs:E
Chain Length:15
Number of Molecules:1
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
Structural basis of the p53 DNA binding domain and PUMA complex.
Biochem.Biophys.Res.Commun. 548 39 46 (2021)
PMID: 33631672 DOI: 10.1016/j.bbrc.2021.02.049

Abstact

PUMA (p53-upregulated modulator of apoptosis) is localized in mitochondria and a direct target in p53-mediated apoptosis. p53 elicits mitochondrial apoptosis via transcription-dependent and independent mechanisms. p53 is known to induce apoptosis via the transcriptional induction of PUMA, which encodes proapoptotic BH3-only members of the Bcl-2 protein family. However, the transcription-independent mechanisms of human PUMA remain poorly defined. For example, it is not known whether PUMA interacts directly with the DNA binding domain (DBD: residues 92-293) of p53 in vitro. Here, the structure of the complex between the DBD of p53 and PUMA peptide was elucidated by X-ray crystallography. Isothermal titration calorimetry showed that PUMA peptide binds strongly with p53 DBD, and the crystal structure of p53-PUMA peptide complex revealed it contains four molecules of p53 DBD and one PUMA peptide per asymmetric unit in space group P1. PUMA peptide bound to the N-terminal residues of p53 DBD. A cell proliferation assay demonstrated PUMA peptide inhibited the growth of a lung cancer cell line. These results contribute to understanding of the mechanism responsible for p53-mediated apoptosis.

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