1YIN

Human estrogen receptor alpha ligand-binding domain in complex with compound 3F


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.296 
  • R-Value Observed: 0.179 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Estrogen receptor ligands. Part 10: Chromanes: old scaffolds for new SERAMs.

Tan, Q.Blizzard, T.A.Morgan, J.D.Birzin, E.T.Chan, W.Yang, Y.T.Pai, L.Y.Hayes, E.C.DaSilva, C.A.Warrier, S.Yudkovitz, J.Wilkinson, H.A.Sharma, N.Fitzgerald, P.M.Li, S.Colwell, L.Fisher, J.E.Adamski, S.Reszka, A.A.Kimmel, D.DiNinno, F.Rohrer, S.P.Freedman, L.P.Schaeffer, J.M.Hammond, M.L.

(2005) Bioorg Med Chem Lett 15: 1675-1681

  • DOI: 10.1016/j.bmcl.2005.01.046
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • The discovery, synthesis, and SAR of chromanes as ER alpha subtype selective ligands are described. X-ray studies revealed that the origin of the ER alpha-selectivity resulted from a C-4 trans methyl substitution to the cis-2,3-diphenyl-chromane plat ...

    The discovery, synthesis, and SAR of chromanes as ER alpha subtype selective ligands are described. X-ray studies revealed that the origin of the ER alpha-selectivity resulted from a C-4 trans methyl substitution to the cis-2,3-diphenyl-chromane platform. Selected compounds from this class demonstrated very potent in vivo antagonism of estradiol in an immature rat uterine weight assay, effectively inhibited ovariectomy-induced bone resorption in a 42 days treatment paradigm, and lowered serum cholesterol levels in ovx'd adult rat models. The best antagonists 8F and 12F also exhibited potent inhibition of MCF-7 cell growth and were shown to be estrogen receptor down-regulators (SERDs).


    Organizational Affiliation

    Department of Medicinal Chemistry, Merck Research Laboratories, PO Box 2000, RY800-B107, Rahway, NJ 07065, USA. qiang_tan@merck.com



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Estrogen receptor
A
248Homo sapiensMutation(s): 0 
Gene Names: ESR1ESRNR3A1
Find proteins for P03372 (Homo sapiens)
Go to UniProtKB:  P03372
NIH Common Fund Data Resources
PHAROS  P03372
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CM3
Query on CM3

Download CCD File 
A
(2R,3R,4S)-5-FLUORO-3-(4-HYDROXYPHENYL)-4-METHYL-2-[4-(2-PIPERIDIN-1-YLETHOXY)PHENYL]CHROMAN-6-OL
C29 H32 F N O4
KOYRLVBQHJNLQX-IFVHXUSFSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
CM3IC50:  0.800000011920929   nM  BindingDB
CM3IC50:  1.399999976158142   nM  Binding MOAD
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.296 
  • R-Value Observed: 0.179 
  • Space Group: P 65 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 58.85α = 90
b = 58.85β = 90
c = 277.83γ = 120
Software Package:
Software NamePurpose
X-GENdata scaling
X-GENdata reduction
SHELXLrefinement

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2005-07-26
    Type: Initial release
  • Version 1.1: 2008-04-30
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2017-10-11
    Changes: Refinement description