ISDA

Deposition Date 2016-07-07

Release Date 2016-08-17

Last Version Date 2023-10-04

Entry Detail

PDB ID:

5KR7

Keywords:

OXIDOREDUCTASE

Title:

KDM4C bound to pyrazolo-pyrimidine scaffold

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.90 Å

R-Value Free:

0.23

R-Value Work:

0.19

R-Value Observed:

0.19

Space Group:

P 21 21 21

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Lysine-specific demethylase 4C
Gene (Uniprot):KDM4C
Chain IDs:A, B
Chain Length:367
Number of Molecules:2
Biological Source:Homo sapiens

UniProt ID:Q9H3R0 Pfam ID:PF02375, PF02373 EC:1.14.11.27

Ligand Molecules

6X9

FE2

Primary Citation

Identification of potent, selective KDM5 inhibitors.

Gehling, V.S, Bellon, S.F, Harmange, J.C, LeBlanc, Y, Poy, F, Odate, S, Buker, S, Lan, F, Arora, S, Williamson, K.E, Sandy, P, Cummings, R.T, Bailey, C.M, Bergeron, L, Mao, W, Gustafson, A, Liu, Y, VanderPorten, E, Audia, J.E, Trojer, P, Albrecht, B.K.Show

Bioorg.Med.Chem.Lett. 26 4350 4354 (2016)

PMID: 27476424 DOI: 10.1016/j.bmcl.2016.07.026

Abstact

This communication describes the identification and optimization of a series of pan-KDM5 inhibitors derived from compound 1, a hit initially identified against KDM4C. Compound 1 was optimized to afford compound 20, a 10nM inhibitor of KDM5A. Compound 20 is highly selective for the KDM5 enzymes versus other histone lysine demethylases and demonstrates activity in a cellular assay measuring the increase in global histone 3 lysine 4 tri-methylation (H3K4me3). In addition compound 20 has good ADME properties, excellent mouse PK, and is a suitable starting point for further optimization.

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Primary Citation of related structures