6L0W

Structure of RLD2 BRX domain bound to LZY3 CCL motif


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.59 Å
  • R-Value Free: 0.224 
  • 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

Polar recruitment of RLD by LAZY1-like protein during gravity signaling in root branch angle control.

Furutani, M.Hirano, Y.Nishimura, T.Nakamura, M.Taniguchi, M.Suzuki, K.Oshida, R.Kondo, C.Sun, S.Kato, K.Fukao, Y.Hakoshima, T.Morita, M.T.

(2020) Nat Commun 11: 76-76

  • DOI: https://doi.org/10.1038/s41467-019-13729-7
  • Primary Citation of Related Structures:  
    6L0V, 6L0W

  • PubMed Abstract: 

    In many plant species, roots maintain specific growth angles relative to the direction of gravity, known as gravitropic set point angles (GSAs). These contribute to the efficient acquisition of water and nutrients. AtLAZY1/LAZY1-LIKE (LZY) genes are involved in GSA control by regulating auxin flow toward the direction of gravity in Arabidopsis. Here, we demonstrate that RCC1-like domain (RLD) proteins, identified as LZY interactors, are essential regulators of polar auxin transport. We show that interaction of the CCL domain of LZY with the BRX domain of RLD is important for the recruitment of RLD from the cytoplasm to the plasma membrane by LZY. A structural analysis reveals the mode of the interaction as an intermolecular β-sheet in addition to the structure of the BRX domain. Our results offer a molecular framework in which gravity signal first emerges as polarized LZY3 localization in gravity-sensing cells, followed by polar RLD1 localization and PIN3 relocalization to modulate auxin flow.


  • Organizational Affiliation

    College of Life Sciences, Fujian Agriculture and Forestry University, Fuzhou, Fujian, 350002, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
RLD2
A, C
63Arabidopsis thalianaMutation(s): 1 
Gene Names: At5g12350
UniProt
Find proteins for F4K0X5 (Arabidopsis thaliana)
Explore F4K0X5 
Go to UniProtKB:  F4K0X5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupF4K0X5
Sequence Annotations
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  • Reference Sequence

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
NGR2
B, D
16Arabidopsis thalianaMutation(s): 0 
Gene Names: NGR2At1g72490T10D10.4T10D10_4
UniProt
Find proteins for Q5XVG3 (Arabidopsis thaliana)
Explore Q5XVG3 
Go to UniProtKB:  Q5XVG3
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ5XVG3
Sequence Annotations
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  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
MSE
Query on MSE
A, C
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.59 Å
  • R-Value Free: 0.224 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.193 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 37.755α = 90
b = 55.658β = 90
c = 93.03γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
HKL-2000data reduction
HKL-2000data scaling
SOLVEphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Japan Science and TechnologyJapanCREST JPMJCR14M5

Revision History  (Full details and data files)

  • Version 1.0: 2020-02-05
    Type: Initial release