The Structure of Estrogen Receptor in Complex with a Selective and Potent Tetrahydroisochiolin Ligand.

Experimental Data Snapshot

  • Resolution: 2.28 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.235 

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Estrogen Receptor Modulators: Identification and Structure-Activity Relationships of Potent Eralpha-Selective Tetrahydroisoquinoline Ligands

Renaud, J.Bischoff, S.F.Buhl, T.Floersheim, P.Fournier, B.Halleux, C.Kallen, J.Keller, H.Schlaeppi, J.-M.Stark, W.

(2003) J Med Chem 46: 2945

  • DOI: https://doi.org/10.1021/jm030086h
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 

    As part of a program aimed at the development of selective estrogen receptor modulators (SERMs), tetrahydroisoquinoline derivative 27 was discovered by high throughput screening. Successive replacements of the p-F substituent of 27 by an aminoethoxy side chain and of the 1-H of the tetrahydroisoquinoline core by a 1-Me group provided analogues 19 and 20. These compounds showed potencies in a cell-based reporter gene assay (ERE assay) varying between 0.6 and 20 nM and displayed antagonist behaviors in the MCF-7 human breast adenocarcinoma cell line with IC(50)s in the range of 2-36 nM. The effect of N-phenyl substituents on the activity and pharmacokinetic properties of tetrahydroisoquinoline analogues was explored. As a result of this investigation, two potent derivatives bearing a p-F N-aryl group, 19c and 20c, were discovered as candidates suitable for further profiling. To gain insight into the ligand-receptor interaction, the X-ray crystallographic structure of the 1-H tetrahydroisoquinoline derivative (R)-18a in complex with ERalpha-ligand binding domain (LBD)(301)(-)(553)/C-->S triple mutant was solved to 2.28 A. An overlay of this X-ray crystal structure with that reported for the complex of ERalpha-LBD(301)(-)(553)/carboxymethylated C and raloxifene (5) shows that both compounds bind to the same cleft of the receptor and display comparable binding modes, with differences being observed in the conformation of their "D-ring" phenyl groups.

  • Organizational Affiliation

    Novartis Pharma Research, WKL-136.3.25, CH-4002 Basel, Switzerland. johanne.renaud@pharma.novartis.com

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ESTROGEN RECEPTOR254Homo sapiensMutation(s): 3 
UniProt & NIH Common Fund Data Resources
Find proteins for P03372 (Homo sapiens)
Explore P03372 
Go to UniProtKB:  P03372
GTEx:  ENSG00000091831 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP03372
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on PTI

Download Ideal Coordinates CCD File 
C28 H32 N2 O2
Binding Affinity Annotations 
IDSourceBinding Affinity
PTI BindingDB:  1UOM IC50: min: 16.48, max: 19.01 (nM) from 3 assay(s)
EC50: 16.5 (nM) from 1 assay(s)
Binding MOAD:  1UOM IC50: 19 (nM) from 1 assay(s)
PDBBind:  1UOM IC50: 19 (nM) from 1 assay(s)
Experimental Data & Validation

Experimental Data

  • Resolution: 2.28 Å
  • R-Value Free: 0.287 
  • R-Value Work: 0.235 
  • Space Group: P 65 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 58.2α = 90
b = 58.2β = 90
c = 274.6γ = 120
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

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Ligand Structure Quality Assessment 

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2003-07-03
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2023-12-13
    Changes: Data collection, Database references, Other, Refinement description