4CHK | pdb_00004chk

Crystal Structure of the ARF5 oligomerization domain


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free: 
    0.221 (Depositor), 0.196 (DCC) 
  • R-Value Work: 
    0.182 (Depositor), 0.192 (DCC) 
  • R-Value Observed: 
    0.184 (Depositor) 

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This is version 1.1 of the entry. See complete history

Literature

Structural Basis for Oligomerisation of Auxin Transcriptional Regulators

Nanao, M.H.Vinos-Poyo, T.Brunoud, G.Thevenon, E.Mazzoleni, M.Mast, D.Laine, S.Wang, S.Hagen, G.Li, H.Guilfoyle, T.J.Parcy, F.Vernoux, T.Dumas, R.

(2014) Nat Commun 5: 3617

  • DOI: https://doi.org/10.1038/ncomms4617
  • Primary Citation Related Structures: 
    4CHK

  • PubMed Abstract: 

    The plant hormone auxin is a key morphogenetic regulator acting from embryogenesis onwards. Transcriptional events in response to auxin are mediated by the auxin response factor (ARF) transcription factors and the Aux/IAA (IAA) transcriptional repressors. At low auxin concentrations, IAA repressors associate with ARF proteins and recruit corepressors that prevent auxin-induced gene expression. At higher auxin concentrations, IAAs are degraded and ARFs become free to regulate auxin-responsive genes. The interaction between ARFs and IAAs is thus central to auxin signalling and occurs through the highly conserved domain III/IV present in both types of proteins. Here, we report the crystal structure of ARF5 domain III/IV and reveal the molecular determinants of ARF-IAA interactions. We further provide evidence that ARFs have the potential to oligomerize, a property that could be important for gene regulation in response to auxin.


  • Organizational Affiliation
    • 1] European Molecular Biology Laboratory, 6 rue Jules Horowitz, BP 181, Grenoble 38042, France [2] Unit of Virus Host-Cell Interactions, UJF-EMBL-CNRS, UMI 3265, 6 rue Jules Horowitz, Grenoble Cedex 9 38042, France.

Macromolecule Content 

  • Total Structure Weight: 112.69 kDa 
  • Atom Count: 6,104 
  • Modeled Residue Count: 749 
  • Deposited Residue Count: 1,016 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
AUXIN RESPONSE FACTOR 5
A, B, C, D, E
A, B, C, D, E, F, G, H
127Arabidopsis thalianaMutation(s): 0 
UniProt
Find proteins for P93024 (Arabidopsis thaliana)
Explore P93024 
Go to UniProtKB:  P93024
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP93024
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.85 Å
  • R-Value Free:  0.221 (Depositor), 0.196 (DCC) 
  • R-Value Work:  0.182 (Depositor), 0.192 (DCC) 
  • R-Value Observed: 0.184 (Depositor) 
Space Group: C 1 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 196.264α = 90
b = 86.438β = 112.71
c = 91.371γ = 90
Software Package:
Software NamePurpose
XDSdata reduction
XSCALEdata scaling
SHARPphasing
SHELXDphasing
BUSTERrefinement

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2014-04-16
    Type: Initial release
  • Version 1.1: 2024-05-08
    Changes: Data collection, Database references, Other