6O1B

Crystal structure of the TIR domain G601P mutant from human SARM1, crystal form 1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.67 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.185 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

NAD+cleavage activity by animal and plant TIR domains in cell death pathways.

Horsefield, S.Burdett, H.Zhang, X.Manik, M.K.Shi, Y.Chen, J.Qi, T.Gilley, J.Lai, J.S.Rank, M.X.Casey, L.W.Gu, W.Ericsson, D.J.Foley, G.Hughes, R.O.Bosanac, T.von Itzstein, M.Rathjen, J.P.Nanson, J.D.Boden, M.Dry, I.B.Williams, S.J.Staskawicz, B.J.Coleman, M.P.Ve, T.Dodds, P.N.Kobe, B.

(2019) Science 365: 793-799

  • DOI: 10.1126/science.aax1911
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • SARM1 (sterile alpha and TIR motif containing 1) is responsible for depletion of nicotinamide adenine dinucleotide in its oxidized form (NAD <sup>+ </sup>) during Wallerian degeneration associated with neuropathies. Plant nucleotide-binding leucine-r ...

    SARM1 (sterile alpha and TIR motif containing 1) is responsible for depletion of nicotinamide adenine dinucleotide in its oxidized form (NAD + ) during Wallerian degeneration associated with neuropathies. Plant nucleotide-binding leucine-rich repeat (NLR) immune receptors recognize pathogen effector proteins and trigger localized cell death to restrict pathogen infection. Both processes depend on closely related Toll/interleukin-1 receptor (TIR) domains in these proteins, which, as we show, feature self-association-dependent NAD + cleavage activity associated with cell death signaling. We further show that SARM1 SAM (sterile alpha motif) domains form an octamer essential for axon degeneration that contributes to TIR domain enzymatic activity. The crystal structures of ribose and NADP + (the oxidized form of nicotinamide adenine dinucleotide phosphate) complexes of SARM1 and plant NLR RUN1 TIR domains, respectively, reveal a conserved substrate binding site. NAD + cleavage by TIR domains is therefore a conserved feature of animal and plant cell death signaling pathways.


    Organizational Affiliation

    Institute for Glycomics, Griffith University, Southport, QLD 4222, Australia.,Agriculture and Food, Commonwealth Scientific and Industrial Research Organisation, Urrbrae, SA 5064, Australia.,John van Geest Centre for Brain Repair, Department of Clinical Neurosciences, University of Cambridge, ED Adrian Building, Forvie Site, Robinson Way, Cambridge CB2 0PY, UK.,Department of Plant and Microbial Biology, University of California Berkeley, Berkeley, CA 94720, USA.,Macromolecular Crystallography (MX) Beamlines, Australian Synchrotron, Melbourne, VIC 3168, Australia.,Agriculture and Food, Commonwealth Scientific and Industrial Research Organisation, Canberra, ACT 2601, Australia. b.kobe@uq.edu.au t.ve@griffith.edu.au peter.dodds@csiro.au.,Centre for Microscopy and Microanalysis, University of Queensland, Brisbane, QLD 4072, Australia.,Plant Sciences Division, Research School of Biology, The Australian National University, Canberra ACT 2601, Australia.,School of Chemistry and Molecular Biosciences, Institute for Molecular Bioscience and Australian Infectious Diseases Research Centre, University of Queensland, Brisbane, QLD 4072, Australia.,Agriculture and Food, Commonwealth Scientific and Industrial Research Organisation, Canberra, ACT 2601, Australia.,School of Chemistry and Molecular Biosciences, Institute for Molecular Bioscience and Australian Infectious Diseases Research Centre, University of Queensland, Brisbane, QLD 4072, Australia. b.kobe@uq.edu.au t.ve@griffith.edu.au peter.dodds@csiro.au.,Babraham Institute, Babraham, Cambridge CB22 3AT, UK.,Disarm Therapeutics, 400 Technology Square, Cambridge, MA 02139, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Sterile alpha and TIR motif-containing protein 1
A
144Homo sapiensMutation(s): 1 
Gene Names: SARM1 (KIAA0524, SAMD2, SARM)
EC: 3.2.2.6
Find proteins for Q6SZW1 (Homo sapiens)
Go to Gene View: SARM1
Go to UniProtKB:  Q6SZW1
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
MES
Query on MES

Download SDF File 
Download CCD File 
A
2-(N-MORPHOLINO)-ETHANESULFONIC ACID
C6 H13 N O4 S
SXGZJKUKBWWHRA-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.67 Å
  • R-Value Free: 0.231 
  • R-Value Work: 0.185 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 32.737α = 90.00
b = 54.138β = 90.00
c = 74.912γ = 90.00
Software Package:
Software NamePurpose
XDSdata reduction
PHENIXrefinement
PHASERphasing
Aimlessdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Health and Medical Research Council (NHMRC, Australia)Australia1107804
National Health and Medical Research Council (NHMRC, Australia)Australia1160570
National Health and Medical Research Council (NHMRC, Australia)Australia1071659
National Health and Medical Research Council (NHMRC, Australia)Australia1108859
Australian Research Council (ARC)AustraliaDP160102244
Australian Research Council (ARC)AustraliaDP190102526

Revision History 

  • Version 1.0: 2019-09-04
    Type: Initial release
  • Version 1.1: 2020-01-01
    Type: Author supporting evidence