7BTV image
Deposition Date 2020-04-03
Release Date 2020-11-11
Last Version Date 2023-11-29
Entry Detail
PDB ID:
7BTV
Keywords:
TRANSFERASE
Title:
Crystal structure of EHMT2 SET domain in complex with compound 5.
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Escherichia coli BL21(DE3)
Method Details:
Experimental Method:
X-RAY DIFFRACTION
Resolution:
2.00 Å
R-Value Free:
0.24
R-Value Work:
0.19
R-Value Observed:
0.19
Space Group:
P 1 21 1
7BTV validation report
Macromolecular Entities
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Histone-lysine N-methyltransferase EHMT2
Gene (Uniprot):EHMT2
Chain IDs:A, B
Chain Length:283
Number of Molecules:2
Biological Source:Homo sapiens
UniProt ID:Q96KQ7 Pfam ID:PF05033, PF00856 EC:2.1.1.355
Ligand Molecules
N47
SAM
ZN
Primary Citation
Discovery of novel histone lysine methyltransferase G9a/GLP (EHMT2/1) inhibitors: Design, synthesis, and structure-activity relationships of 2,4-diamino-6-methylpyrimidines.
Bioorg.Med.Chem.Lett. 30 127475 127475 (2020)
PMID: 32781218 DOI: 10.1016/j.bmcl.2020.127475

Abstact

The discovery and optimization of a novel series of G9a/GLP (EHMT2/1) inhibitors are described. Starting from known G9a/GLP inhibitor 5, efforts to explore the structure-activity relationship and optimize drug properties led to a novel compound 13, the side chain of which was converted to tetrahydroazepine. Compound 13 showed increased G9a/GLP inhibitory activity compared with compound 5. In addition, compound 13 exhibited improved human ether-a-go-go related gene (hERG) inhibitory activity over compound 5 and also improved pharmacokinetic profile in mice (oral bioavailability: 17 to 40%). Finally, the co-crystal structure of G9a in complex with compound 13 provides the basis for the further development of tetrahydroazepine-based G9a/GLP inhibitors.

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Primary Citation of related structures
7BTV