2GPV

Estrogen Related Receptor-gamma ligand binding domain complexed with 4-hydroxy-tamoxifen and a SMRT peptide


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.219 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

X-ray crystal structures of the estrogen-related receptor-gamma ligand binding domain in three functional states reveal the molecular basis of small molecule regulation.

Wang, L.Zuercher, W.J.Consler, T.G.Lambert, M.H.Miller, A.B.Orband-Miller, L.A.McKee, D.D.Willson, T.M.Nolte, R.T.

(2006) J.Biol.Chem. 281: 37773-37781

  • DOI: 10.1074/jbc.M608410200
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • X-ray crystal structures of the ligand binding domain (LBD) of the estrogen-related receptor-gamma (ERRgamma) were determined that describe this receptor in three distinct states: unliganded, inverse agonist bound, and agonist bound. Two structures w ...

    X-ray crystal structures of the ligand binding domain (LBD) of the estrogen-related receptor-gamma (ERRgamma) were determined that describe this receptor in three distinct states: unliganded, inverse agonist bound, and agonist bound. Two structures were solved for the unliganded state, the ERRgamma LBD alone, and in complex with a coregulator peptide representing a portion of receptor interacting protein 140 (RIP140). No significant differences were seen between these structures that both exhibited the conformation of ERRgamma seen in studies with other coactivators. Two structures were obtained describing the inverse agonist-bound state, the ERRgamma LBD with 4-hydroxytamoxifen (4-OHT), and the ERRgamma LBD with 4-OHT and a peptide representing a portion of the silencing mediator of retinoid and thyroid hormone action protein (SMRT). The 4-OHT structure was similar to other reported inverse agonist bound structures, showing reorientation of phenylalanine 435 and a displacement of the AF-2 helix relative to the unliganded structures with little other rearrangement occurring. No significant changes to the LBD appear to be induced by peptide binding with the addition of the SMRT peptide to the ERRgamma plus 4-OHT complex. The observed agonist-bound state contains the ERRgamma LBD, a ligand (GSK4716), and the RIP140 peptide and reveals an unexpected rearrangement of the phenol-binding residues. Thermal stability studies show that agonist binding leads to global stabilization of the ligand binding domain. In contrast to the conventional mechanism of nuclear receptor ligand activation, activation of ERRgamma by GSK4716 does not appear to involve a major rearrangement or significant stabilization of the C-terminal helix.


    Organizational Affiliation

    Discovery Research, GlaxoSmithKline, Research Triangle Park, North Carolina 27909, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Estrogen-related receptor gamma
A, B, C, D, E, F
230Homo sapiensMutation(s): 0 
Gene Names: ESRRG (ERR3, ERRG2, KIAA0832, NR3B3)
Find proteins for P62508 (Homo sapiens)
Go to Gene View: ESRRG
Go to UniProtKB:  P62508
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Nuclear receptor corepressor 2
G, H, I
22Tetraodon nigroviridisMutation(s): 0 
Find proteins for Q4RA23 (Tetraodon nigroviridis)
Go to UniProtKB:  Q4RA23
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
OHT
Query on OHT

Download SDF File 
Download CCD File 
A, B, C, D, E, F
4-HYDROXYTAMOXIFEN
C26 H29 N O2
TXUZVZSFRXZGTL-QPLCGJKRSA-N
 Ligand Interaction
External Ligand Annotations 
IDBinding Affinity (Sequence Identity %)
OHTIC50: 10.3 - 1350 nM (100) BINDINGDB
OHTEC50: 15 nM (100) BINDINGDB
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 0.279 
  • R-Value Work: 0.219 
  • Space Group: C 1 2 1
Unit Cell:
Length (Å)Angle (°)
a = 200.220α = 90.00
b = 117.170β = 102.36
c = 90.470γ = 90.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
MAR345data collection
SCALEPACKdata scaling
REFMACrefinement
PHENIXphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2006-09-26
    Type: Initial release
  • Version 1.1: 2007-10-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Advisory, Derived calculations, Version format compliance
  • Version 1.3: 2017-10-18
    Type: Refinement description