8DP8 | pdb_00008dp8

Crystal structure of the monomeric AvrM14-A Nudix hydrolase effector from Melampsora lini


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 
    0.251 (Depositor), 0.249 (DCC) 
  • R-Value Work: 
    0.183 (Depositor), 0.182 (DCC) 
  • R-Value Observed: 
    0.187 (Depositor) 

wwPDB Validation 3D Report Full Report

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This is version 1.2 of the entry. See complete history

Literature

A rust-fungus Nudix hydrolase effector decaps mRNA in vitro and interferes with plant immune pathways.

McCombe, C.L.Catanzariti, A.M.Greenwood, J.R.Desai, A.M.Outram, M.A.Yu, D.S.Ericsson, D.J.Brenner, S.E.Dodds, P.N.Kobe, B.Jones, D.A.Williams, S.J.

(2023) New Phytol 239: 222-239

  • DOI: https://doi.org/10.1111/nph.18727
  • Primary Citation Related Structures: 
    8DP8, 8DP9, 8DPA

  • PubMed Abstract: 

    To infect plants, pathogenic fungi secrete small proteins called effectors. Here, we describe the catalytic activity and potential virulence function of the Nudix hydrolase effector AvrM14 from the flax rust fungus (Melampsora lini). We completed extensive in vitro assays to characterise the enzymatic activity of the AvrM14 effector. Additionally, we used in planta transient expression of wild-type and catalytically dead AvrM14 versions followed by biochemical assays, phenotypic analysis and RNA sequencing to unravel how the catalytic activity of AvrM14 impacts plant immunity. AvrM14 is an extremely selective enzyme capable of removing the protective 5' cap from mRNA transcripts in vitro. Homodimerisation of AvrM14 promoted biologically relevant mRNA cap cleavage in vitro and this activity was conserved in related effectors from other Melampsora spp. In planta expression of wild-type AvrM14, but not the catalytically dead version, suppressed immune-related reactive oxygen species production, altered the abundance of some circadian-rhythm-associated mRNA transcripts and reduced the hypersensitive cell-death response triggered by the flax disease resistance protein M1. To date, the decapping of host mRNA as a virulence strategy has not been described beyond viruses. Our results indicate that some fungal pathogens produce Nudix hydrolase effectors with in vitro mRNA-decapping activity capable of interfering with plant immunity.


  • Organizational Affiliation
    • Plant Sciences Division, Research School of Biology, The Australian National University, Canberra, ACT, 2601, Australia.

Macromolecule Content 

  • Total Structure Weight: 49.93 kDa 
  • Atom Count: 3,326 
  • Modeled Residue Count: 399 
  • Deposited Residue Count: 444 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
AvrM14-AA [auth B],
B [auth A],
C
148Melampsora liniMutation(s): 0 
Gene Names: AvrM14
UniProt
Find proteins for A0A1B2CW89 (Melampsora lini)
Explore A0A1B2CW89 
Go to UniProtKB:  A0A1B2CW89
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A1B2CW89
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free:  0.251 (Depositor), 0.249 (DCC) 
  • R-Value Work:  0.183 (Depositor), 0.182 (DCC) 
  • R-Value Observed: 0.187 (Depositor) 
Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 37.645α = 90
b = 166.842β = 90
c = 62.911γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHENIXphasing

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Australian Research Council (ARC)AustraliaDE160100893
Australian Research Council (ARC)AustraliaFT200100135

Revision History  (Full details and data files)

  • Version 1.0: 2023-01-25
    Type: Initial release
  • Version 1.1: 2023-06-14
    Changes: Database references
  • Version 1.2: 2024-05-22
    Changes: Data collection