Summary
PDB 4IJT deposited: 2012-12-23 modified: 2013-10-23
Title Human p53 core domain with hot spot mutation R273C (form II)
Authors Diskin-Posner, Y., Eldar, A., Rohs, R., Rozenberg, H., Shakked, Z.
Method X-RAY DIFFRACTION
Structure factors resolution 1.78 rfactor 0.1616 rfree 0.1937
DPI 0.32 theoretical min: 0.12
Related PDB Entries 4IBQ 4IBS 4IBT 4IBU 4IBV 4IBW 4IBY 4IBZ
Citations

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.

Nucleic Acids Res. 2013 Oct; 41(18):8748-8759 doi:10.1093/nar/gkt630

Cross References
Database source Identifier Description
PubMed 23863845 NARHAD
Biomolecule Structure Assembly Serial Assembly Type Conformational State Chains Ligands Atoms
4IJT/0 4IJT 0 monomer 0 1 6 1791