ISDA

Deposition Date 2023-07-22

Release Date 2023-10-18

Last Version Date 2023-12-27

Entry Detail

PDB ID:

8PX2

Keywords:

TRANSCRIPTION

Title:

C-TERMINAL BROMODOMAIN OF HUMAN BRD2 WITH 1,3-dimethyl-5-(1-((tetrahydro-2H-pyran-4-yl)methyl)-1H-benzo[d]imidazol-2-yl)pyridin-2(1H)-one

Biological Source:

Source Organism:

Homo sapiens (Taxon ID: 9606)

Host Organism:

Escherichia coli

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.62 Å

R-Value Free:

0.17

R-Value Work:

0.15

Space Group:

P 21 21 2

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Bromodomain-containing protein 2
Gene (Uniprot):BRD2
Chain IDs:A
Chain Length:115
Number of Molecules:1
Biological Source:Homo sapiens

UniProt ID:P25440 Pfam ID:PF00439

Ligand Molecules

MES

NUB

Primary Citation

Structure-Guided Design of a Domain-Selective Bromodomain and Extra Terminal N-Terminal Bromodomain Chemical Probe.

Bradley, E, Fusani, L, Chung, C.W, Craggs, P.D, Demont, E.H, Humphreys, P.G, Mitchell, D.J, Phillipou, A, Rioja, I, Shah, R.R, Wellaway, C.R, Prinjha, R.K, Palmer, D.S, Kerr, W.J, Reid, M, Wall, I.D, Cookson, R.Show

J.Med.Chem. 66 15728 15749 (2023)

PMID: 37967462 DOI: 10.1021/acs.jmedchem.3c00906

Abstact

Small-molecule-mediated disruption of the protein-protein interactions between acetylated histone tails and the tandem bromodomains of the bromodomain and extra-terminal (BET) family of proteins is an important mechanism of action for the potential modulation of immuno-inflammatory and oncology disease. High-quality chemical probes have proven invaluable in elucidating profound BET bromodomain biology, with seminal publications of both pan- and domain-selective BET family bromodomain inhibitors enabling academic and industrial research. To enrich the toolbox of structurally differentiated N-terminal bromodomain (BD1) BET family chemical probes, this work describes an analysis of the GSK BRD4 bromodomain data set through a lipophilic efficiency lens, which enabled identification of a BD1 domain-biased benzimidazole series. Structure-guided growth targeting a key Asp/His BD1/BD2 switch enabled delivery of GSK023, a high-quality chemical probe with 300-1000-fold BET BD1 domain selectivity and a phenotypic cellular fingerprint consistent with BET bromodomain inhibition.

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Protein

Chemical

Disease

Primary Citation of related structures