1HRA

THE SOLUTION STRUCTURE OF THE HUMAN RETINOIC ACID RECEPTOR-BETA DNA-BINDING DOMAIN


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Submitted: 15 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

The solution structure of the human retinoic acid receptor-beta DNA-binding domain.

Knegtel, R.M.Katahira, M.Schilthuis, J.G.Bonvin, A.M.Boelens, R.Eib, D.van der Saag, P.T.Kaptein, R.

(1993) J.Biomol.NMR 3: 1-17


  • PubMed Abstract: 
  • The three-dimensional structure of the DNA-binding domain of the human retinoic acid receptor-beta (hRAR-beta) has been determined by nuclear magnetic resonance spectroscopy in conjunction with distance geometry, restrained molecular dynamics and ite ...

    The three-dimensional structure of the DNA-binding domain of the human retinoic acid receptor-beta (hRAR-beta) has been determined by nuclear magnetic resonance spectroscopy in conjunction with distance geometry, restrained molecular dynamics and iterative relaxation matrix calculations. A total of 1244 distance restraints were obtained from NOE intensities, of which 448 were intra-residue and 796 inter-residue restraints. In addition 23 chi and 30 phi dihedral angle restraints were obtained from J-coupling data. The two 'zinc-finger' regions of the 80-amino acid residue protein are followed by two alpha-helices that cross each other perpendicularly. There is a short stretch of b-sheet near the N-terminus. The alpha-helical core of the protein is well determined with a backbone root-mean-square deviation (r.m.s.d.) with respect to the average of 0.18 A and 0.37 A when the side chains of residues 31, 32, 36, 61, 62, 65 and 69 are included. The r.m.s.d. for the backbone of residues 5-80 is 0.76 A. For the first finger (residues 8-28), the r.m.s.d. of the backbone is 0.79 A. For the second finger (residues 44-62) the r.m.s.d. is 0.64 A. The overall structure is similar to that of the corresponding domain of the glucocorticoid receptor, although the C-terminal part of the protein is different. The second alpha-helix is two residues shorter and is followed by a well-defined region of extended backbone structure.


    Related Citations: 
    • Heteronuclear 113Cd-1H NMR Study of Metal Coordination in the Human Retinoic Acid Receptor-Beta DNA Binding Domain
      Knegtel, R.M.A.,Boelens, R.,Ganadu, M.L.,George, A.V.E.,Van Der Saag, P.T.,Kaptein, R.
      (1993) Biochem.Biophys.Res.Commun. 192: 492
    • Homo-and Heteronuclear NMR Studies of the Human Retinoic Acid Receptor Beta DNA-Binding Domain: Sequential Assignments and Identification of Secondary Structure Elements
      Katahira, M.,Knegtel, R.M.A.,Boelens, R.,Eib, D.,Schilthuis, J.G.,Van Der Saag, P.T.,Kaptein, R.
      (1992) Biochemistry 31: 6474


    Organizational Affiliation

    Department of Chemistry, University of Utrecht, The Netherlands.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
RETINOIC ACID RECEPTOR
A
80Homo sapiensGene Names: RARB (HAP, NR1B2)
Find proteins for P10826 (Homo sapiens)
Go to Gene View: RARB
Go to UniProtKB:  P10826
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: 15 
  • Olderado: 1HRA Olderado

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1994-01-31
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance