6EG3

Crystal structure of human BRM in complex with compound 15


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.84 Å
  • R-Value Free: 0.267 
  • R-Value Work: 0.229 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Discovery of Orally Active Inhibitors of Brahma Homolog (BRM)/SMARCA2 ATPase Activity for the Treatment of Brahma Related Gene 1 (BRG1)/SMARCA4-Mutant Cancers.

Papillon, J.P.N.Nakajima, K.Adair, C.D.Hempel, J.Jouk, A.O.Karki, R.G.Mathieu, S.Mobitz, H.Ntaganda, R.Smith, T.Visser, M.Hill, S.E.Hurtado, F.K.Chenail, G.Bhang, H.C.Bric, A.Xiang, K.Bushold, G.Gilbert, T.Vattay, A.Dooley, J.Costa, E.A.Park, I.Li, A.Farley, D.Lounkine, E.Yue, Q.K.Xie, X.Zhu, X.Kulathila, R.King, D.Hu, T.Vulic, K.Cantwell, J.Luu, C.Jagani, Z.

(2018) J. Med. Chem. 61: 10155-10172

  • DOI: 10.1021/acs.jmedchem.8b01318
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • SWI/SNF-related, matrix-associated, actin-dependent regulator of chromatin subfamily A member 2 (SMARCA2), also known as Brahma homologue (BRM), is a Snf2-family DNA-dependent ATPase. BRM and its close homologue Brahma-related gene 1 (BRG1), also kno ...

    SWI/SNF-related, matrix-associated, actin-dependent regulator of chromatin subfamily A member 2 (SMARCA2), also known as Brahma homologue (BRM), is a Snf2-family DNA-dependent ATPase. BRM and its close homologue Brahma-related gene 1 (BRG1), also known as SMARCA4, are mutually exclusive ATPases of the large ATP-dependent SWI/SNF chromatin-remodeling complexes involved in transcriptional regulation of gene expression. No small molecules have been reported that modulate SWI/SNF chromatin-remodeling activity via inhibition of its ATPase activity, an important goal given the well-established dependence of BRG1-deficient cancers on BRM. Here, we describe allosteric dual BRM and BRG1 inhibitors that downregulate BRM-dependent gene expression and show antiproliferative activity in a BRG1-mutant-lung-tumor xenograft model upon oral administration. These compounds represent useful tools for understanding the functions of BRM in BRG1-loss-of-function settings and should enable probing the role of SWI/SNF functions more broadly in different cancer contexts and those of other diseases.


    Organizational Affiliation

    Novartis Institutes for Biomedical Research , 5300 Chiron Way , Emeryville , California 94608 , United States.,Global Discovery Chemistry , Novartis Institutes for Biomedical Research , Basel 4002 , Switzerland.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Maltose/maltodextrin-binding periplasmic protein,Probable global transcription activator SNF2L2
A
621Escherichia coli O157:H7Homo sapiens
This entity is chimeric
Mutation(s): 0 
Gene Names: malE, SMARCA2 (BAF190B, BRM, SNF2A, SNF2L2)
EC: 3.6.4.-
Find proteins for P0AEY0 (Escherichia coli O157:H7)
Go to UniProtKB:  P0AEY0
Find proteins for P51531 (Homo sapiens)
Go to Gene View: SMARCA2
Go to UniProtKB:  P51531
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
J7G
Query on J7G

Download SDF File 
Download CCD File 
A
3-[(4-{[(2-chloropyridin-4-yl)carbamoyl]amino}pyridin-2-yl)ethynyl]benzoic acid
C20 H13 Cl N4 O3
ATBXCKLXXDLBAC-UHFFFAOYSA-N
 Ligand Interaction
EOH
Query on EOH

Download SDF File 
Download CCD File 
A
ETHANOL
C2 H6 O
LFQSCWFLJHTTHZ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.84 Å
  • R-Value Free: 0.267 
  • R-Value Work: 0.229 
  • Space Group: P 42 21 2
Unit Cell:
Length (Å)Angle (°)
a = 136.470α = 90.00
b = 136.470β = 90.00
c = 121.370γ = 90.00
Software Package:
Software NamePurpose
AutoPROCdata scaling
PHENIXphasing
XDSdata reduction
BUSTERrefinement
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2018-10-31
    Type: Initial release
  • Version 1.1: 2018-11-14
    Type: Data collection, Database references
  • Version 1.2: 2018-12-05
    Type: Data collection, Database references