2IOK

Human estrogen receptor alpha ligand-binding domain in complex with compound 1D


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.323 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Estrogen receptor ligands. Part 16: 2-Aryl indoles as highly subtype selective ligands for ERalpha

Dykstra, K.D.Guo, L.Birzin, E.T.Chan, W.Yang, Y.T.Hayes, E.C.DaSilva, C.A.Pai, L.-Y.Mosley, R.T.Kraker, B.Fitzgerald, P.M.D.DiNinno, F.Rohrer, S.P.Schaeffer, J.M.Hammond, M.L.

(2007) Bioorg.Med.Chem.Lett. 17: 2322-2328

  • DOI: 10.1016/j.bmcl.2007.01.054
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • A novel class of indole ligands for estrogen receptor alpha have been discovered which exhibit potent affinity and high selectivity. Substitution of the bazedoxifene skeleton to the linker present in the HTS lead 1a provided 22b which was found to be ...

    A novel class of indole ligands for estrogen receptor alpha have been discovered which exhibit potent affinity and high selectivity. Substitution of the bazedoxifene skeleton to the linker present in the HTS lead 1a provided 22b which was found to be 130-fold alpha-selective and acted as an antagonist of estradiol activity in uterine tissue and MCF-7 cancer cells.


    Organizational Affiliation

    Department of Medicinal Chemistry, Merck Research Laboratories, PO Box 2000, 800B-109 Rahway, NJ 07065, USA. kevin_dykstra@merck.com




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Estrogen receptor
A, B
254Homo sapiensMutation(s): 0 
Gene Names: ESR1 (ESR, NR3A1)
Find proteins for P03372 (Homo sapiens)
Go to Gene View: ESR1
Go to UniProtKB:  P03372
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
IOK
Query on IOK

Download SDF File 
Download CCD File 
A, B
N-[(1R)-3-(4-HYDROXYPHENYL)-1-METHYLPROPYL]-2-(2-PHENYL-1H-INDOL-3-YL)ACETAMIDE
C26 H26 N2 O2
APLJSSOXDWUNGV-GOSISDBHSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
IOKIC50: 1 nM (100) BINDINGDB
IOKIC50: 1 nM BINDINGMOAD
IOKIC50: 1 nM PDBBIND
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.323 
  • Space Group: P 41
Unit Cell:
Length (Å)Angle (°)
a = 99.860α = 90.00
b = 99.860β = 90.00
c = 54.900γ = 90.00
Software Package:
Software NamePurpose
MERLOTphasing
SHELXLrefinement
SHELXL-97refinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2007-10-09
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance