6EG2

Crystal structure of human BRM in complex with compound 16


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.98 Å
  • R-Value Free: 0.304 
  • R-Value Work: 0.251 

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
J7J
Query on J7J

Download SDF File 
Download CCD File 
A
N-(5-amino-2-chloropyridin-4-yl)-N'-(4-bromo-3-{[3-(hydroxymethyl)phenyl]ethynyl}-1,2-thiazol-5-yl)urea
C18 H13 Br Cl N5 O2 S
SCBJKSKAVQQJMV-UHFFFAOYSA-N
 Ligand Interaction
IPA
Query on IPA

Download SDF File 
Download CCD File 
A
ISOPROPYL ALCOHOL
2-PROPANOL
C3 H8 O
KFZMGEQAYNKOFK-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.98 Å
  • R-Value Free: 0.304 
  • R-Value Work: 0.251 
  • Space Group: P 42 21 2
Unit Cell:
Length (Å)Angle (°)
a = 136.790α = 90.00
b = 136.790β = 90.00
c = 120.690γ = 90.00
Software Package:
Software NamePurpose
AutoPROCdata scaling
PDB_EXTRACTdata extraction
PHENIXphasing
BUSTERrefinement
XDSdata reduction

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