7P8E | pdb_00007p8e

Crystal structure of the Receiver domain of M. truncatula cytokinin receptor MtCRE1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 
    0.221 (Depositor), 0.228 (DCC) 
  • R-Value Work: 
    0.173 (Depositor), 0.188 (DCC) 
  • R-Value Observed: 
    0.176 (Depositor) 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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This is version 1.2 of the entry. See complete history

Literature

3D Domain Swapping Dimerization of the Receiver Domain of Cytokinin Receptor CRE1 From Arabidopsis thaliana and Medicago truncatula .

Tran, L.H.Urbanowicz, A.Jasinski, M.Jaskolski, M.Ruszkowski, M.

(2021) Front Plant Sci 12: 756341-756341

  • DOI: https://doi.org/10.3389/fpls.2021.756341
  • Primary Citation Related Structures: 
    7P8C, 7P8D, 7P8E

  • PubMed Abstract: 

    Cytokinins are phytohormones regulating many biological processes that are vital to plants. CYTOKININ RESPONSE1 (CRE1), the main cytokinin receptor, has a modular architecture composed of a cytokinin-binding CHASE (Cyclases/Histidine kinases Associated Sensory Extracellular) domain, followed by a transmembrane fragment, an intracellular histidine kinase (HK) domain, and a receiver domain (REC). Perception of cytokinin signaling involves (i) a hormone molecule binding to the CHASE domain, (ii) CRE1 autophosphorylation at a conserved His residue in the HK domain, followed by a phosphorelay to (iii) a conserved Asp residue in the REC domain, (iv) a histidine-containing phosphotransfer protein (HPt), and (v) a response regulator (RR). This work focuses on the crystal structures of the REC domain of CRE1 from the model plant Arabidopsis thaliana and from the model legume Medicago truncatula . Both REC domains form tight 3D-domain-swapped dimers. Dimerization of the REC domain agrees with the quaternary assembly of the entire CRE1 but is incompatible with a model of its complex with HPt, suggesting that a considerable conformational change should occur to enable the signal transduction. Indeed, phosphorylation of the REC domain can change the HPt-binding properties of CRE1, as shown by functional studies.


  • Organizational Affiliation
    • Institute of Bioorganic Chemistry, Polish Academy of Sciences, Poznań, Poland.

Macromolecule Content 

  • Total Structure Weight: 71.37 kDa 
  • Atom Count: 996 
  • Modeled Residue Count: 126 
  • Deposited Residue Count: 644 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Receiver domain of histidine kinase644Medicago truncatulaMutation(s): 0 
Gene Names: 11411168MTR_8g106150MtrunA17_Chr8g0392301
EC: 2.7.13.3
UniProt
Find proteins for G7LCC3 (Medicago truncatula)
Explore G7LCC3 
Go to UniProtKB:  G7LCC3
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupG7LCC3
Sequence Annotations
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Reference Sequence

Small Molecules

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free:  0.221 (Depositor), 0.228 (DCC) 
  • R-Value Work:  0.173 (Depositor), 0.188 (DCC) 
  • R-Value Observed: 0.176 (Depositor) 
Space Group: P 31 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 60.189α = 90
b = 60.189β = 90
c = 80.41γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
STARANISOdata scaling
PHASERphasing

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Polish National Science CentrePolandSONATA 2018/31/D/NZ1/03630

Revision History  (Full details and data files)

  • Version 1.0: 2021-10-20
    Type: Initial release
  • Version 1.1: 2022-02-02
    Changes: Structure summary
  • Version 1.2: 2024-01-31
    Changes: Data collection, Refinement description