7UWG

The crystal structure of the TIR domain-containing protein from Acinetobacter baumannii (AbTir)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.16 Å
  • R-Value Free: 0.230 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.194 

Starting Model: experimental
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Ligand Structure Quality Assessment 


This is version 1.3 of the entry. See complete history


Literature

Cyclic ADP ribose isomers: Production, chemical structures, and immune signaling.

Manik, M.K.Shi, Y.Li, S.Zaydman, M.A.Damaraju, N.Eastman, S.Smith, T.G.Gu, W.Masic, V.Mosaiab, T.Weagley, J.S.Hancock, S.J.Vasquez, E.Hartley-Tassell, L.Kargios, N.Maruta, N.Lim, B.Y.J.Burdett, H.Landsberg, M.J.Schembri, M.A.Prokes, I.Song, L.Grant, M.DiAntonio, A.Nanson, J.D.Guo, M.Milbrandt, J.Ve, T.Kobe, B.

(2022) Science 377: eadc8969-eadc8969

  • DOI: https://doi.org/10.1126/science.adc8969
  • Primary Citation of Related Structures:  
    7UWG, 7UXR, 7UXS, 7UXT, 7UXU

  • PubMed Abstract: 

    Cyclic adenosine diphosphate (ADP)-ribose (cADPR) isomers are signaling molecules produced by bacterial and plant Toll/interleukin-1 receptor (TIR) domains via nicotinamide adenine dinucleotide (oxidized form) (NAD + ) hydrolysis. We show that v-cADPR (2'cADPR) and v2-cADPR (3'cADPR) isomers are cyclized by O-glycosidic bond formation between the ribose moieties in ADPR. Structures of 2'cADPR-producing TIR domains reveal conformational changes that lead to an active assembly that resembles those of Toll-like receptor adaptor TIR domains. Mutagenesis reveals a conserved tryptophan that is essential for cyclization. We show that 3'cADPR is an activator of ThsA effector proteins from the bacterial antiphage defense system termed Thoeris and a suppressor of plant immunity when produced by the effector HopAM1. Collectively, our results reveal the molecular basis of cADPR isomer production and establish 3'cADPR in bacteria as an antiviral and plant immunity-suppressing signaling molecule.


  • Organizational Affiliation

    School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD 4072, Australia.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Molecular chaperone Tir
A, B, C, D
137Acinetobacter baumanniiMutation(s): 0 
Gene Names: APD31_10100H0529_09530
EC: 3.2.2 (UniProt), 3.2.2.6 (UniProt)
UniProt
Find proteins for A0A009IHW8 (Acinetobacter baumannii (strain 1295743))
Explore A0A009IHW8 
Go to UniProtKB:  A0A009IHW8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupA0A009IHW8
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.16 Å
  • R-Value Free: 0.230 
  • R-Value Work: 0.191 
  • R-Value Observed: 0.194 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 54.683α = 90
b = 67.77β = 110.46
c = 72.167γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PHENIXrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Health and Medical Research Council (NHMRC, Australia)Australia--

Revision History  (Full details and data files)

  • Version 1.0: 2022-09-07
    Type: Initial release
  • Version 1.1: 2022-09-14
    Changes: Database references
  • Version 1.2: 2022-10-12
    Changes: Database references
  • Version 1.3: 2023-10-18
    Changes: Data collection, Refinement description