4OZT

crystal structure of the ligand binding domains of the Bovicola ovis ecdysone receptor EcR/USP heterodimer (PonA crystal)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.182 
  • R-Value Observed: 0.184 

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Ligand Structure Quality Assessment 


This is version 1.1 of the entry. See complete history


Literature

Unprecedented conformational flexibility revealed in the ligand-binding domains of the Bovicola ovis ecdysone receptor (EcR) and ultraspiracle (USP) subunits.

Ren, B.Peat, T.S.Streltsov, V.A.Pollard, M.Fernley, R.Grusovin, J.Seabrook, S.Pilling, P.Phan, T.Lu, L.Lovrecz, G.O.Graham, L.D.Hill, R.J.

(2014) Acta Crystallogr D Biol Crystallogr 70: 1954-1964

  • DOI: https://doi.org/10.1107/S1399004714009626
  • Primary Citation of Related Structures:  
    4OZR, 4OZT

  • PubMed Abstract: 

    The heterodimeric ligand-binding region of the Bovicola ovis ecdysone receptor has been crystallized either in the presence of an ecdysteroid or a synthetic methylene lactam insecticide. Two X-ray crystallographic structures, determined at 2.7 Å resolution, show that the ligand-binding domains of both subunits of this receptor, like those of other nuclear receptors, can display significant conformational flexibility. Thermal melt experiments show that while ponasterone A stabilizes the higher order structure of the heterodimer in solution, the methylene lactam destabilizes it. The conformations of the EcR and USP subunits observed in the structure crystallized in the presence of the methylene lactam have not been seen previously in any ecdysone receptor structure and represent a new level of conformational flexibility for these important receptors. Interestingly, the new USP conformation presents an open, unoccupied ligand-binding pocket.


  • Organizational Affiliation

    CSIRO Materials Science and Engineering, 343 Royal Parade, Parkville, VIC 3052, Australia.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Ecdysone receptorA [auth E]238Pediculus humanus corporisMutation(s): 0 
Gene Names: Phum_PHUM467460
UniProt
Find proteins for E0VVT4 (Pediculus humanus subsp. corporis)
Explore E0VVT4 
Go to UniProtKB:  E0VVT4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE0VVT4
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Retinoid X receptorB [auth U]195Pediculus humanus corporisMutation(s): 0 
Gene Names: Phum_PHUM164330
UniProt
Find proteins for E0VFQ5 (Pediculus humanus subsp. corporis)
Explore E0VFQ5 
Go to UniProtKB:  E0VFQ5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE0VFQ5
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
P1A
Query on P1A

Download Ideal Coordinates CCD File 
C [auth E]2,3,14,20,22-PENTAHYDROXYCHOLEST-7-EN-6-ONE
C27 H44 O6
PJYYBCXMCWDUAZ-JJJZTNILSA-N
NEQ
Query on NEQ

Download Ideal Coordinates CCD File 
D [auth U]N-ETHYLMALEIMIDE
C6 H7 N O2
HDFGOPSGAURCEO-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.70 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.182 
  • R-Value Observed: 0.184 
  • Space Group: P 43 21 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 134α = 90
b = 134β = 90
c = 95.3γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement

Structure Validation

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Ligand Structure Quality Assessment 


Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2014-07-30
    Type: Initial release
  • Version 1.1: 2023-12-27
    Changes: Data collection, Database references, Derived calculations, Other, Refinement description, Source and taxonomy, Structure summary