2YJD

Stapled peptide bound to Estrogen Receptor Beta


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.93 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.226 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Design and Structure of Stapled Peptides Binding to Estrogen Receptors.

Phillips, C.Roberts, L.R.Schade, M.Bazin, R.Bent, A.Davies, N.L.Moore, R.Pannifer, A.D.Pickford, A.R.Prior, S.H.Read, C.M.Scott, A.Brown, D.G.Xu, B.Irving, S.L.

(2011) J Am Chem Soc 133: 9696

  • DOI: 10.1021/ja202946k
  • Primary Citation of Related Structures:  
    2LDA, 2LDD, 2LDC, 2YJA, 2YJD

  • PubMed Abstract: 
  • Synthetic peptides that specifically bind nuclear hormone receptors offer an alternative approach to small molecules for the modulation of receptor signaling and subsequent gene expression. Here we describe the design of a series of novel stapled peptides that bind the coactivator peptide site of estrogen receptors ...

    Synthetic peptides that specifically bind nuclear hormone receptors offer an alternative approach to small molecules for the modulation of receptor signaling and subsequent gene expression. Here we describe the design of a series of novel stapled peptides that bind the coactivator peptide site of estrogen receptors. Using a number of biophysical techniques, including crystal structure analysis of receptor-stapled peptide complexes, we describe in detail the molecular interactions and demonstrate that all-hydrocarbon staples modulate molecular recognition events. The findings have implications for the design of stapled peptides in general.


    Organizational Affiliation

    Department of Chemistry, Pfizer, Sandwich CT13 9NJ, UK. Chris.Phillips@famco.co.uk



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ESTROGEN RECEPTOR BETA AB240Homo sapiensMutation(s): 0 
Gene Names: ESR2ESTRBNR3A2
Find proteins for Q92731 (Homo sapiens)
Explore Q92731 
Go to UniProtKB:  Q92731
NIH Common Fund Data Resources
PHAROS:  Q92731
Protein Feature View
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  • Reference Sequence
  • Find similar proteins by:  Sequence   |   Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
STAPLED PEPTIDE CD13Homo sapiensMutation(s): 0 
Gene Names: NCOA2BHLHE75SRC2TIF2
Find proteins for Q15596 (Homo sapiens)
Explore Q15596 
Go to UniProtKB:  Q15596
NIH Common Fund Data Resources
PHAROS:  Q15596
Protein Feature View
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
YJD
Query on YJD

Download Ideal Coordinates CCD File 
A, B
4-(2-PROPAN-2-YLOXYBENZIMIDAZOL-1-YL)PHENOL
C16 H16 N2 O2
IRWOSCQWORJIQP-UHFFFAOYSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MK8
Query on MK8
C,DL-PEPTIDE LINKINGC7 H15 N O2LEU
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.93 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.225 
  • R-Value Observed: 0.226 
  • Space Group: I 4
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 102.62α = 90
b = 102.62β = 90
c = 102.62γ = 90
Software Package:
Software NamePurpose
BUSTERrefinement

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2011-08-03
    Type: Initial release
  • Version 1.1: 2017-01-25
    Changes: Atomic model, Other