2ZSI

Structural basis of gibberellin(GA4)-induced DELLA recognition by the gibberellin receptor


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.221 
  • R-Value Work: 0.198 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Gibberellin-induced DELLA recognition by the gibberellin receptor GID1

Murase, K.Hirano, Y.Sun, T.-P.Hakoshima, T.

(2008) Nature 456: 459-463

  • DOI: 10.1038/nature07519
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Gibberellins control a range of growth and developmental processes in higher plants and have been widely used in the agricultural industry. By binding to a nuclear receptor, GIBBERELLIN INSENSITIVE DWARF1 (GID1), gibberellins regulate gene expression ...

    Gibberellins control a range of growth and developmental processes in higher plants and have been widely used in the agricultural industry. By binding to a nuclear receptor, GIBBERELLIN INSENSITIVE DWARF1 (GID1), gibberellins regulate gene expression by promoting degradation of the transcriptional regulator DELLA proteins, including GIBBERELLIN INSENSITIVE (GAI). The precise manner in which GID1 discriminates and becomes activated by bioactive gibberellins for specific binding to DELLA proteins remains unclear. Here we present the crystal structure of a ternary complex of Arabidopsis thaliana GID1A, a bioactive gibberellin and the amino-terminal DELLA domain of GAI. In this complex, GID1A occludes gibberellin in a deep binding pocket covered by its N-terminal helical switch region, which in turn interacts with the DELLA domain containing DELLA, VHYNP and LExLE motifs. Our results establish a structural model of a plant hormone receptor that is distinct from the mechanism of the hormone perception and effector recognition of the known auxin receptors.


    Organizational Affiliation

    Structural Biology Laboratory, Nara Institute of Science and Technology, 8916-5 Takayama, Ikoma, Nara 630-0192, Japan.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Probable gibberellin receptor GID1L1
A
351Arabidopsis thalianaMutation(s): 0 
Gene Names: GID1A (CXE10, GID1L1)
EC: 3.-.-.-
Find proteins for Q9MAA7 (Arabidopsis thaliana)
Go to UniProtKB:  Q9MAA7
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
DELLA protein GAI
B
110Arabidopsis thalianaMutation(s): 0 
Gene Names: GAI (RGA2)
Find proteins for Q9LQT8 (Arabidopsis thaliana)
Go to UniProtKB:  Q9LQT8
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
GA4
Query on GA4

Download SDF File 
Download CCD File 
A
GIBBERELLIN A4
C19 H24 O5
RSQSQJNRHICNNH-NFMPGMCNSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.8 Å
  • R-Value Free: 0.221 
  • R-Value Work: 0.198 
  • Space Group: P 43 21 2
Unit Cell:
Length (Å)Angle (°)
a = 81.852α = 90.00
b = 81.852β = 90.00
c = 129.737γ = 90.00
Software Package:
Software NamePurpose
HKL-2000data scaling
CNSrefinement
PHASERphasing
HKL-2000data reduction
HKL-2000data collection

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2008-11-25
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance