2LIY | pdb_00002liy

Plant peptide hormone regulating stomatal density


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 96 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation 3D Report Full Report

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This is version 1.1 of the entry. See complete history

Literature

The NMR structure of stomagen reveals the basis of stomatal density regulation by plant peptide hormones

Ohki, S.Takeuchi, M.Mori, M.

(2011) Nat Commun 2: 512-512

  • DOI: https://doi.org/10.1038/ncomms1520
  • Primary Citation Related Structures: 
    2LIY

  • PubMed Abstract: 

    Stomatal development in plants is regulated by defensin-like secretory epidermal patterning factor (EPF) peptide hormones. Only one of these, stomagen, is a positive regulator, whereas EPF1, EPF2, and possibly others are negative regulators. Here we explore the structure-function relationships of EPFs, by integrating NMR and semi-in vitro stomagen experiments. We show that stomagen is composed of a loop and a scaffold containing three disulphide bonds. A mutant composed of the stomagen loop and the EPF2 scaffold positively regulates the stomatal density on Arabidopsis cotyledons. The reciprocal mutant composed of the EPF2 loop and the stomagen scaffold acts negatively. Deletion of the disulphide bond introduces unfolding and inactivity. Our results suggest that the loop confers the functional specificity of EPFs and that the scaffold is structurally required for their activity. This structural decomposition approach to elucidating the functional site could be adapted for the analysis of other cysteine-rich peptide families.


  • Organizational Affiliation
    • Center for Nano Materials and Technology (CNMT), Japan Advanced Institute of Science and Technology (JAIST), 1-1 Asahidai, Nomi-shi, Ishikawa 923-1292, Japan. shinya-o@jaist.ac.jp

Macromolecule Content 

  • Total Structure Weight: 5.13 kDa 
  • Atom Count: 355 
  • Modeled Residue Count: 45 
  • Deposited Residue Count: 45 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
EPIDERMAL PATTERNING FACTOR-like protein 945Arabidopsis thalianaMutation(s): 0 
Gene Names: EPFL9
UniProt
Find proteins for Q9SV72 (Arabidopsis thaliana)
Explore Q9SV72 
Go to UniProtKB:  Q9SV72
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9SV72
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 96 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy 

Structure Validation

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Entry History 

Deposition Data

  • Released Date: 2012-09-05 
  • Deposition Author(s): Ohki, S.

Revision History  (Full details and data files)

  • Version 1.0: 2012-09-05
    Type: Initial release
  • Version 1.1: 2024-10-30
    Changes: Data collection, Database references, Structure summary