8XAT

Crystal structure of AtARR1(RD-DBD)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.21 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.193 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

The structure of B-ARR reveals the molecular basis of transcriptional activation by cytokinin.

Zhou, C.M.Li, J.X.Zhang, T.Q.Xu, Z.G.Ma, M.L.Zhang, P.Wang, J.W.

(2024) Proc Natl Acad Sci U S A 121: e2319335121-e2319335121

  • DOI: https://doi.org/10.1073/pnas.2319335121
  • Primary Citation of Related Structures:  
    8XAS, 8XAT

  • PubMed Abstract: 

    The phytohormone cytokinin has various roles in plant development, including meristem maintenance, vascular differentiation, leaf senescence, and regeneration. Prior investigations have revealed that cytokinin acts via a phosphorelay similar to the two-component system by which bacteria sense and respond to external stimuli. The eventual targets of this phosphorelay are type-B ARABIDOPSIS RESPONSE REGULATORS (B-ARRs), containing the conserved N-terminal receiver domain (RD), middle DNA binding domain (DBD), and C-terminal transactivation domain. While it has been established for two decades that the phosphoryl transfer from a specific histidyl residue in ARABIDOPSIS HIS PHOSPHOTRANSFER PROTEINS (AHPs) to an aspartyl residue in the RD of B-ARRs results in a rapid transcriptional response to cytokinin, the underlying molecular basis remains unclear. In this work, we determine the crystal structures of the RD-DBD of ARR1 (ARR1 RD-DBD ) as well as the ARR1 DBD -DNA complex from Arabidopsis . Analyses of the ARR1 DBD -DNA complex have revealed the structural basis for sequence-specific recognition of the GAT trinucleotide by ARR1. In particular, comparing the ARR1 RD-DBD and ARR1 DBD -DNA structures reveals that unphosphorylated ARR1 RD-DBD exists in a closed conformation with extensive contacts between the RD and DBD. In vitro and vivo functional assays have further suggested that phosphorylation of the RD weakens its interaction with DBD, subsequently permits the DNA binding capacity of DBD, and promotes the transcriptional activity of ARR1. Our findings thus provide mechanistic insights into phosphorelay activation of gene transcription in response to cytokinin.


  • Organizational Affiliation

    National Key Laboratory of Plant Molecular Genetics, Chinese Academy of Sciences Center for Excellence in Molecular Plant Sciences, Institute of Plant Physiology and Ecology, Chinese Academy of Sciences, Shanghai 200032, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Two-component response regulator ARR1
A, B
301Arabidopsis thalianaMutation(s): 0 
Gene Names: ARR1
UniProt
Find proteins for Q940D0 (Arabidopsis thaliana)
Explore Q940D0 
Go to UniProtKB:  Q940D0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ940D0
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.21 Å
  • R-Value Free: 0.223 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.193 
  • Space Group: I 2 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 73.108α = 90
b = 136.158β = 90
c = 141.057γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-3000data reduction
HKL-3000data scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China32388201
National Natural Science Foundation of China (NSFC)China31721001
National Natural Science Foundation of China (NSFC)China32025020
National Natural Science Foundation of China (NSFC)China31870720

Revision History  (Full details and data files)

  • Version 1.0: 2024-01-24
    Type: Initial release