2HAN

Structural basis of heterodimeric ecdysteroid receptor interaction with natural response element hsp27 gene promoter


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.180 

wwPDB Validation 3D Report Full Report


This is version 1.3 of the entry. See complete history

Literature

Novel DNA-binding element within the C-terminal extension of the nuclear receptor DNA-binding domain.

Jakob, M.Kolodziejczyk, R.Orlowski, M.Krzywda, S.Kowalska, A.Dutko-Gwozdz, J.Gwozdz, T.Kochman, M.Jaskolski, M.Ozyhar, A.

(2007) Nucleic Acids Res. 35: 2705-2718

  • DOI: 10.1093/nar/gkm162

  • PubMed Abstract: 
  • The heterodimer of the ecdysone receptor (EcR) and ultraspiracle (Usp), members of the nuclear receptors superfamily, is considered as the functional receptor for ecdysteroids initiating molting and metamorphosis in insects. Here we report the 1.95 A ...

    The heterodimer of the ecdysone receptor (EcR) and ultraspiracle (Usp), members of the nuclear receptors superfamily, is considered as the functional receptor for ecdysteroids initiating molting and metamorphosis in insects. Here we report the 1.95 A structure of the complex formed by the DNA-binding domains (DBDs) the EcR and the Usp, bound to the natural pseudopalindromic response element. Comparison of the structure with that obtained previously, using an idealized response element, shows how the EcRDBD, which has been previously reported to possess extraordinary flexibility, accommodates DNA-induced structural changes. Part of the C-terminal extension (CTE) of the EcRDBD folds into an alpha-helix whose location in the minor groove does not match any of the locations previously observed for nuclear receptors. Mutational analyses suggest that the alpha-helix is a component of EcR-box, a novel element indispensable for DNA-binding and located within the nuclear receptor CTE. This element seems to be a general feature of all known EcRs.


    Organizational Affiliation

    Department of Biochemistry, Faculty of Chemistry, Wrocław University of Technology, Wybrzeze Wyspiańskiego 27, 50-370 Wrocław, Poland.




Macromolecules

Find similar proteins by: Sequence  |  Structure


Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Protein ultraspiracle
A
93Drosophila melanogasterMutation(s): 0 
Gene Names: usp (Cf1, NR2B4)
Find proteins for P20153 (Drosophila melanogaster)
Go to UniProtKB:  P20153
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Ecdysone receptor
B
119Drosophila melanogasterMutation(s): 0 
Gene Names: EcR (NR1H1)
Find proteins for P34021 (Drosophila melanogaster)
Go to UniProtKB:  P34021
Entity ID: 1
MoleculeChainsLengthOrganism
5'-D(*CP*AP*AP*GP*GP*GP*TP*TP*CP*AP*AP*TP*GP*CP*AP*CP*TP*TP*GP*T)-3'C20N/A
Entity ID: 2
MoleculeChainsLengthOrganism
5'-D(*GP*AP*CP*AP*AP*GP*TP*GP*CP*AP*TP*TP*GP*AP*AP*CP*CP*CP*TP*T)-3'D20N/A
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

Download SDF File 
Download CCD File 
A, B
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.95 Å
  • R-Value Free: 0.217 
  • R-Value Work: 0.180 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 46.716α = 90.00
b = 59.790β = 106.70
c = 65.179γ = 90.00
Software Package:
Software NamePurpose
MAR345data collection
REFMACrefinement
SCALEPACKdata scaling
EPMRphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2007-05-22
    Type: Initial release
  • Version 1.1: 2008-05-01
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance
  • Version 1.3: 2017-10-18
    Type: Advisory, Refinement description