ISDA

Deposition Date 2020-08-14

Release Date 2021-08-11

Last Version Date 2024-05-22

Entry Detail

PDB ID:

7JS8

Keywords:

HYDROLASE

Title:

STRUCTURE OF HUMAN HDAC2 IN COMPLEX WITH AN ETHYL KETONE INHIBITOR CONTAINING A SPIRO-BICYCLIC GROUP (COMPOUND 22)

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)

Host Organism:

Spodoptera frugiperda

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.63 Å

R-Value Free:

0.18

R-Value Work:

0.16

R-Value Observed:

0.16

Space Group:

P 21 21 21

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Histone deacetylase 2
Gene (Uniprot):HDAC2
Chain IDs:A, B, C
Chain Length:376
Number of Molecules:3
Biological Source:Homo sapiens

UniProt ID:Q92769 Pfam ID:PF00850 EC:3.5.1.98

Ligand Molecules

PEG

SO4

VJV

Primary Citation

Discovery of Ethyl Ketone-Based Highly Selective HDACs 1, 2, 3 Inhibitors for HIV Latency Reactivation with Minimum Cellular Potency Serum Shift and Reduced hERG Activity.

Yu, W, Liu, J, Clausen, D, Yu, Y, Duffy, J.L, Wang, M, Xu, S, Deng, L, Suzuki, T, Chung, C.C, Myers, R.W, Klein, D.J, Fells, J.I, Holloway, M.K, Wu, J, Wu, G, Howell, B.J, Barnard, R.J.O, Kozlowski, J.Show

J.Med.Chem. 64 4709 4729 (2021)

PMID: 33797924 DOI: 10.1021/acs.jmedchem.0c02150

Abstact

We describe the discovery of histone deacetylase (HDACs) 1, 2, and 3 inhibitors with ethyl ketone as the zinc-binding group. These HDACs 1, 2, and 3 inhibitors have good enzymatic and cellular activity. Their serum shift in cellular potency has been minimized, and selectivity against hERG has been improved. They are also highly selective over HDACs 6 and 8. These inhibitors contain a variety of substituted heterocycles on the imidazole or oxazole scaffold. Compounds 31 and 48 stand out due to their good potency, high selectivity over HDACs 6 and 8, reduced hERG activity, optimized serum shift in cellular potency, and good rat and dog PK profiles.

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