9H6E | pdb_00009h6e

Complex of Histidine-containing phosphotransfer 1 (AHP1) and Response regulator 1 (ARR1) from A. thaliana


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.87 Å
  • R-Value Free: 
    0.229 (Depositor), 0.230 (DCC) 
  • R-Value Work: 
    0.191 (Depositor), 0.194 (DCC) 
  • R-Value Observed: 
    0.193 (Depositor) 

Starting Models: experimental, in silico
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wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

ARR1 and AHP interactions in the multi-step phosphorelay system.

Tran, L.H.Ruszkowski, M.

(2025) Front Plant Sci 16: 1537021-1537021

  • DOI: https://doi.org/10.3389/fpls.2025.1537021
  • Primary Citation of Related Structures:  
    9H6E

  • PubMed Abstract: 

    Plants use multi-step phosphorelay (MSP) systems in response to exogenous and endogenous stimuli. Cytokinin and ethylene are among the factors that engage MSP signaling cascades but examples independent of phytohormones also exist. The MSP signaling involves four consecutive phosphorylation events at: (i) the kinase domain of the sensory histidine kinase, (ii) the receiver domain of the latter protein, (iii) the histidine-containing phosphotransfer protein, and (iv) the response regulator. In Arabidopsis thaliana , there are eight canonical histidine kinases, five histidine-containing phosphotransfer proteins (AHPs), one pseudo AHP, and 23 response regulators (ARRs). This redundancy suggests complex interactions between signaling pathways, including those involved in phytohormone cross-talk. To bring new insights at the molecular level, we investigated the structural and biophysical characteristics of the AHP1/ARR1 complex. ARR1, a type-B ARR, contains the GARP domain for DNA binding, in addition to the canonical receiver domain that mediates AHP1 interaction. We compared the ARR1 affinities across all five active AHPs and found a modest, two-fold higher affinity for AHP1. This result suggests that while ARR1 shows a slight preference for AHP1, it can also interact with AHP2-5, which potentially makes ARR1 a central node in signaling and a cross-talk modulator. In addition, we discuss the oligomerization state of AHP and related proteins utilizing all available experimental data to conclude that free AHPs are most likely monomeric.


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

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Histidine-containing phosphotransfer protein 1A [auth C],
B [auth A]
157Arabidopsis thalianaMutation(s): 0 
Gene Names: AHP1ATHP3At3g21510MIL23.8
UniProt
Find proteins for Q9ZNV9 (Arabidopsis thaliana)
Explore Q9ZNV9 
Go to UniProtKB:  Q9ZNV9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9ZNV9
Sequence Annotations
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Two-component response regulator ARR1C [auth D],
D [auth B]
275Arabidopsis thalianaMutation(s): 0 
Gene Names: ARR1At3g16857K20I9.9MUH15.1
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
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
GOL
Query on GOL

Download Ideal Coordinates CCD File 
G [auth C],
H [auth A]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
OXM
Query on OXM

Download Ideal Coordinates CCD File 
E [auth C],
I [auth A]
OXAMIC ACID
C2 H3 N O3
SOWBFZRMHSNYGE-UHFFFAOYSA-N
EDO
Query on EDO

Download Ideal Coordinates CCD File 
F [auth C],
J [auth A],
K [auth A]
1,2-ETHANEDIOL
C2 H6 O2
LYCAIKOWRPUZTN-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.87 Å
  • R-Value Free:  0.229 (Depositor), 0.230 (DCC) 
  • R-Value Work:  0.191 (Depositor), 0.194 (DCC) 
  • R-Value Observed: 0.193 (Depositor) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 84.5α = 90
b = 132.574β = 90
c = 160.672γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
MxCuBEdata collection
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2025-03-26
    Type: Initial release