Estrogen Receptor beta with Selective Triazine Modulator

Experimental Data Snapshot

  • Resolution: 3.00 Å
  • R-Value Free: 0.273 
  • R-Value Work: 0.240 
  • R-Value Observed: 0.240 

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Ligand Structure Quality Assessment 

This is version 1.4 of the entry. See complete history


A New Series of Estrogen Receptor Modulators That Display Selectivity for Estrogen Receptor beta

Henke, B.R.Consler, T.G.Go, N.Hale, R.L.Hohman, D.R.Jones, S.A.Lu, A.T.Moore, L.B.Moore, J.T.Orband-Miller, L.A.Robinett, R.G.Shearin, J.Spearing, P.K.Stewart, E.L.Turnbull, P.S.Weaver, S.L.Williams, S.P.Wisely, G.B.Lambert, M.H.

(2002) J Med Chem 45: 5492-5505

  • DOI: https://doi.org/10.1021/jm020291h
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    A series of 1,3,5-triazine-based estrogen receptor (ER) modulators that are modestly selective for the ERbeta subtype are reported. Compound 1, which displayed modest potency and selectivity for ERbeta vs ERalpha, was identified via high-throughput screening utilizing an ERbeta SPA-based binding assay. Subsequent analogue preparation resulted in the identification of compounds such as 21 and 43 that display 25- to 30-fold selectivity for ERbeta with potencies in the 10-30 nM range. These compounds profile as full antagonists at ERbeta and weak partial agonists at ERalpha in a cell-based reporter gene assay. In addition, the X-ray crystal structure of compound 15 complexed with the ligand binding domain of ERbeta has been solved and was utilized in the design of more conformationally restrained analogues such as 31 in an attempt to increase selectivity for the ERbeta subtype.

  • Organizational Affiliation

    GlaxoSmithKline Research and Development, Research Triangle Park, North Carolina 27709, USA. brh14990@gsk.com

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Estrogen receptor beta255Homo sapiensMutation(s): 0 
Gene Names: ESTRB
UniProt & NIH Common Fund Data Resources
Find proteins for Q92731 (Homo sapiens)
Explore Q92731 
Go to UniProtKB:  Q92731
GTEx:  ENSG00000140009 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ92731
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on MON

Download Ideal Coordinates CCD File 
C24 H29 Cl N6 O S
Binding Affinity Annotations 
IDSourceBinding Affinity
MON BindingDB:  1NDE Ki: 15 (nM) from 1 assay(s)
IC50: 6 (nM) from 1 assay(s)
PDBBind:  1NDE Ki: 15 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Resolution: 3.00 Å
  • R-Value Free: 0.273 
  • R-Value Work: 0.240 
  • R-Value Observed: 0.240 
  • Space Group: P 61 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 65.558α = 90
b = 65.558β = 90
c = 239.3γ = 120
Software Package:
Software NamePurpose
MAR345data collection
SCALEPACKdata scaling

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2002-12-18
    Type: Initial release
  • Version 1.1: 2008-04-28
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Derived calculations, Version format compliance
  • Version 1.3: 2017-10-11
    Changes: Refinement description
  • Version 1.4: 2023-08-16
    Changes: Data collection, Database references, Derived calculations, Refinement description