4IBY

Human p53 core domain with hot spot mutation R273H and second-site suppressor mutation S240R

Summary for 4IBY

• Entry DOI: 10.2210/pdb4iby/pdb
• Related: 4IBQ 4IBS 4IBT 4IBU 4IBV 4IBW 4IBZ 4IJT
• Descriptor: Cellular tumor antigen p53, ZINC ION, 1,2-ETHANEDIOL, ... (4 entities in total)
• Functional Keywords: metal-binding, loop-sheet-helix motif, transcription, activator, anti-oncogene, apoptosis, cell cycle, disease mutation, rescue mutation, tumor suppressor, dna binding protein
• Biological source: Homo sapiens (human)
• Cellular location: Cytoplasm. Isoform 1: Nucleus. Isoform 2: Nucleus. Isoform 3: Nucleus. Isoform 4: Nucleus. Isoform 7: Nucleus. Isoform 8: Nucleus. Isoform 9: Cytoplasm: P04637
• Total number of polymer chains: 2
• Total formula weight: 45678.59

Authors

Eldar, A.,Rozenberg, H.,Diskin-Posner, Y.,Shakked, Z. (deposition date: 2012-12-09, release date: 2013-08-14, Last modification date: 2023-09-20)

Primary citation

Eldar, A.,Rozenberg, H.,Diskin-Posner, Y.,Rohs, R.,Shakked, Z.
Structural studies of p53 inactivation by DNA-contact mutations and its rescue by suppressor mutations via alternative protein-DNA interactions.
Nucleic Acids Res., 41:8748-8759, 2013

PubMed Abstract: A p53 hot-spot mutation found frequently in human cancer is the replacement of R273 by histidine or cysteine residues resulting in p53 loss of function as a tumor suppressor. These mutants can be reactivated by the incorporation of second-site suppressor mutations. Here, we present high-resolution crystal structures of the p53 core domains of the cancer-related proteins, the rescued proteins and their complexes with DNA. The structures show that inactivation of p53 results from the incapacity of the mutated residues to form stabilizing interactions with the DNA backbone, and that reactivation is achieved through alternative interactions formed by the suppressor mutations. Detailed structural and computational analysis demonstrates that the rescued p53 complexes are not fully restored in terms of DNA structure and its interface with p53. Contrary to our previously studied wild-type (wt) p53-DNA complexes showing non-canonical Hoogsteen A/T base pairs of the DNA helix that lead to local minor-groove narrowing and enhanced electrostatic interactions with p53, the current structures display Watson-Crick base pairs associated with direct or water-mediated hydrogen bonds with p53 at the minor groove. These findings highlight the pivotal role played by R273 residues in supporting the unique geometry of the DNA target and its sequence-specific complex with p53.

PubMed: 23863845
DOI: 10.1093/nar/gkt630

Experimental method

X-RAY DIFFRACTION (1.45 Å)