7KXT image
Entry Detail
PDB ID:
7KXT
Keywords:
Title:
Crystal structure of human EED
Biological Source:
Source Organism:
PDB Version:
Deposition Date:
2020-12-04
Release Date:
2021-02-24
Method Details:
Experimental Method:
Resolution:
2.15 Å
R-Value Free:
0.21
R-Value Work:
0.17
R-Value Observed:
0.17
Space Group:
P 1 21 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Polycomb protein EED
Chain IDs:A, B
Chain Length:402
Number of Molecules:2
Biological Source:Homo sapiens
Primary Citation
Structure-Guided Development of Small-Molecule PRC2 Inhibitors Targeting EZH2-EED Interaction.
J.Med.Chem. 64 8194 8207 (2021)
PMID: 34077206 DOI: 10.1021/acs.jmedchem.0c02261

Abstact

Disruption of EZH2-embryonic ectoderm development (EED) protein-protein interaction (PPI) is a new promising cancer therapeutic strategy. We have previously reported the discovery of astemizole, a small-molecule inhibitor targeting the EZH2-EED PPI. Herein, we report the cocrystal structure of EED in complex with astemizole at 2.15 Å. The structure elucidates the detailed binding mode of astemizole to EED and provides a structure-guided design for the discovery of a novel EZH2-EED interaction inhibitor, DC-PRC2in-01, with an affinity Kd of 4.56 μM. DC-PRC2in-01 destabilizes the PRC2 complex, thereby leading to the degradation of PRC2 core proteins and the decrease of global H3K27me3 levels in cancer cells. The proliferation of PRC2-driven lymphomas cells is effectively inhibited, and the cell cycle is arrested in the G0/G1 phase. Together, these data demonstrate that DC-PRC2in-01 could be an effective chemical probe for investigating the PRC2-related physiology and pathology and providing a promising chemical scaffold for further development.

Legend

Protein

Chemical

Disease

Primary Citation of related structures