1GDC

REFINED SOLUTION STRUCTURE OF THE GLUCOCORTICOID RECEPTOR DNA-BINDING DOMAIN


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Submitted: 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Refined solution structure of the glucocorticoid receptor DNA-binding domain.

Baumann, H.Paulsen, K.Kovacs, H.Berglund, H.Wright, A.P.Gustafsson, J.A.Hard, T.

(1993) Biochemistry 32: 13463-13471

  • Primary Citation of Related Structures:  2GDA

  • PubMed Abstract: 
  • A refined solution structure of the glucocorticoid receptor DNA-binding domain (GR DBD) has been determined using two- and three-dimensional nuclear magnetic resonance (NMR) spectroscopy on an 15N-labeled GR DBD fragment in conjunction with distance ...

    A refined solution structure of the glucocorticoid receptor DNA-binding domain (GR DBD) has been determined using two- and three-dimensional nuclear magnetic resonance (NMR) spectroscopy on an 15N-labeled GR DBD fragment in conjunction with distance geometry and simulated annealing calculations. Thirty structures of the fragment C440-R510 of the rat GR were calculated based on 906 distance constraints obtained from NOE intensities (168 intraresidue and 738 interresidue NOEs) and 43 dihedral constraints. Average atomic root mean square (rms) differences between the 24 best structures and their geometric average are 0.70 A for backbone atoms and 1.44 A for all heavy atoms. Several regions that were not well defined in a previous NMR structure determination of a similar protein fragment [Härd, T., Kellenbach, E., Boelens, R., Maler, B.A., Dahlman, K., Freedman, L.P., Carlstedt-Duke, J., Yamamoto, K.R., Gustafsson, J.-A., & Kaptein, R. (1990b) Science 249, 157-160] are now well-defined. The refined structure of the uncomplexed GR DBD is very similar to the crystal structure of GR DBD in a sequence specific DNA complex [Luisi, B. F., Xu, W. X., Otwinowski, Z., Freeman, L. P., Yamamoto, K. R., & Sigler, P. B. (1991) Nature 352, 497-505], in particular with regard to the presence and relative positions of secondary structure elements. The backbone atom rms difference between the average NMR solution structure and the crystal structure of the DNA-complexed GR DBD is 1.8 A. The most pronounced differences between the free and DNA-complexed states are found within the fragment C476-C482 in the second zinc-coordinating domain.(ABSTRACT TRUNCATED AT 250 WORDS)


    Related Citations: 
    • 1H NMR Studies of the Glucocorticoid Receptor DNA-Binding Domain: Sequential Assignments and Identification of Secondary Structure Elements
      Hard, T.,Kellenbach, E.,Boelens, R.,Kaptein, R.,Dahlman, K.,Carlstedt-Duke, J.,Freedman, L.P.,Maler, B.A.,Hyde, E.,Gustafsson, J.-A.,Yamamoto, K.R.
      (1990) Biochemistry 29: 9015
    • Crystallographic Analysis of the Interaction of the Glucocorticoid Receptor with DNA
      Luisi, B.F.,Xu, W.X.,Otwinowski, Z.,Freedman, L.P.,Yamamoto, K.R.,Sigler, P.B.
      (1991) Nature 352: 497
    • Structure and Function of the DNA-Binding Domain of the Glucocorticoid Receptor and Other Members of the Nuclear Receptor Supergene Family
      Hard, T.,Gustafsson, J.-A.
      (1993) Acc.Chem.Res. 26: 644
    • Backbone Dynamics of the Glucocorticoid Receptor DNA-Binding Domain
      Berglund, H.,Kovacs, H.,Dahlman-Wright, K.,Gustafsson, J.-A.,Hard, T.
      (1992) Biochemistry 31: 12001
    • Solution Structure of the Glucocorticoid Receptor DNA-Binding Domain
      Hard, T.,Kellenbach, E.,Boelens, R.,Maler, B.A.,Dahlman, K.,Freedman, L.P.,Carlstedt-Duke, J.,Yamamoto, K.R.,Gustafsson, J.-A.,Kaptein, R.
      (1990) Science 249: 157


    Organizational Affiliation

    Center for Structural Biochemistry, Karolinska Institutet, NOVUM, Huddinge, Sweden.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
GLUCOCORTICOID RECEPTOR
A
72Rattus norvegicusGene Names: Nr3c1 (Grl)
Find proteins for P06536 (Rattus norvegicus)
Go to UniProtKB:  P06536
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

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

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Submitted: 

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1994-06-22
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance