7W5C

Crystal structure of Mitogen Activated Protein Kinase 4 (MPK4) from Arabidopsis thaliana


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.225 
  • R-Value Work: 0.176 
  • R-Value Observed: 0.179 

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Ligand Structure Quality Assessment 


This is version 1.3 of the entry. See complete history


Literature

Essential role of the CD docking motif of MPK4 in plant immunity, growth, and development.

Siodmak, A.Shahul Hameed, U.F.Rayapuram, N.Volz, R.Boudsocq, M.Alharbi, S.Alhoraibi, H.Lee, Y.H.Blilou, I.Arold, S.T.Hirt, H.

(2023) New Phytol 239: 1112-1126

  • DOI: https://doi.org/10.1111/nph.18989
  • Primary Citation of Related Structures:  
    7W5C

  • PubMed Abstract: 

    MAPKs are universal eukaryotic signaling factors whose functioning is assumed to depend on the recognition of a common docking motif (CD) by its activators, substrates, and inactivators. We studied the role of the CD domain of Arabidopsis MPK4 by performing interaction studies and determining the ligand-bound MPK4 crystal structure. We revealed that the CD domain of MPK4 is essential for interaction and activation by its upstream MAPKKs MKK1, MKK2, and MKK6. Cys181 in the CD site of MPK4 was shown to become sulfenylated in response to reactive oxygen species in vitro. To test the function of C181 in vivo, we generated wild-type (WT) MPK4-C181, nonsulfenylatable MPK4-C181S, and potentially sulfenylation mimicking MPK4-C181D lines in the mpk4 knockout background. We analyzed the phenotypes in growth, development, and stress responses, revealing that MPK4-C181S has WT activity and complements the mpk4 phenotype. By contrast, MPK4-C181D cannot be activated by upstream MAPKK and cannot complement the phenotypes of mpk4. Our findings show that the CD motif is essential and is required for activation by upstream MAPKK for MPK4 function. Furthermore, growth, development, or immunity functions require upstream activation of the MPK4 protein kinase.


  • Organizational Affiliation

    Plant Science Program, Center for Desert Agriculture, King Abdullah University of Science and Technology, Thuwal, 23955-6900, Saudi Arabia.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Mitogen-activated protein kinase 4355Arabidopsis thalianaMutation(s): 0 
Gene Names: MPK4At4g01370F2N1.1F2N1_2-t
EC: 2.7.11.24
UniProt
Find proteins for Q39024 (Arabidopsis thaliana)
Explore Q39024 
Go to UniProtKB:  Q39024
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ39024
Sequence Annotations
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  • Reference Sequence

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Mitogen-activated protein kinase kinase 1B [auth Q]13Arabidopsis thalianaMutation(s): 0 
EC: 2.7.12.2
UniProt
Find proteins for Q94A06 (Arabidopsis thaliana)
Explore Q94A06 
Go to UniProtKB:  Q94A06
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ94A06
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 0.225 
  • R-Value Work: 0.176 
  • R-Value Observed: 0.179 
  • Space Group: I 2 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 132.95α = 90
b = 132.95β = 90
c = 132.95γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XDSdata scaling
MOLREPphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Other privateKing Abdullah University of Science and Technology

Revision History  (Full details and data files)

  • Version 1.0: 2022-12-07
    Type: Initial release
  • Version 1.1: 2023-06-21
    Changes: Database references
  • Version 1.2: 2023-07-12
    Changes: Database references
  • Version 1.3: 2023-11-29
    Changes: Data collection, Refinement description