5F1L

Crystal structure of the bromodomain of BRD9 in complex with compound 9.

Summary for 5F1L

• Entry DOI: 10.2210/pdb5f1l/pdb
• Related: 5EU1 5F1H
• Descriptor: Bromodomain-containing protein 9, 5-[3,5-dimethoxy-4-[(3-oxidanylazetidin-1-yl)methyl]phenyl]-1,3-dimethyl-pyridin-2-one (3 entities in total)
• Functional Keywords: bromodomain, inhibitor, transcription
• Biological source: Homo sapiens (Human)
• Total number of polymer chains: 2
• Total formula weight: 29188.34

Authors

Bader, G.,Martin, L.J.,Steurer, S.,Weiss-Puxbaum, A.,Zoephel, A. (deposition date: 2015-11-30, release date: 2016-03-09, Last modification date: 2024-01-10)

Primary citation

Martin, L.J.,Koegl, M.,Bader, G.,Cockcroft, X.L.,Fedorov, O.,Fiegen, D.,Gerstberger, T.,Hofmann, M.H.,Hohmann, A.F.,Kessler, D.,Knapp, S.,Knesl, P.,Kornigg, S.,Muller, S.,Nar, H.,Rogers, C.,Rumpel, K.,Schaaf, O.,Steurer, S.,Tallant, C.,Vakoc, C.R.,Zeeb, M.,Zoephel, A.,Pearson, M.,Boehmelt, G.,McConnell, D.
Structure-Based Design of an in Vivo Active Selective BRD9 Inhibitor.
J.Med.Chem., 59:4462-4475, 2016

PubMed Abstract: Components of the chromatin remodelling switch/sucrose nonfermentable (SWI/SNF) complex are recurrently mutated in tumors, suggesting that altering the activity of the complex plays a role in oncogenesis. However, the role that the individual subunits play in this process is not clear. We set out to develop an inhibitor compound targeting the bromodomain of BRD9 in order to evaluate its function within the SWI/SNF complex. Here, we present the discovery and development of a potent and selective BRD9 bromodomain inhibitor series based on a new pyridinone-like scaffold. Crystallographic information on the inhibitors bound to BRD9 guided their development with respect to potency for BRD9 and selectivity against BRD4. These compounds modulate BRD9 bromodomain cellular function and display antitumor activity in an AML xenograft model. Two chemical probes, BI-7273 (1) and BI-9564 (2), were identified that should prove to be useful in further exploring BRD9 bromodomain biology in both in vitro and in vivo settings.

PubMed: 26914985
DOI: 10.1021/acs.jmedchem.5b01865

Experimental method

X-RAY DIFFRACTION (2.3 Å)