7LCY

Crystal structure of the ligand-free ARM domain from Drosophila SARM1


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.35 Å
  • R-Value Free: 0.272 
  • R-Value Work: 0.244 
  • R-Value Observed: 0.246 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

SARM1 is a metabolic sensor activated by an increased NMN/NAD + ratio to trigger axon degeneration.

Figley, M.D.Gu, W.Nanson, J.D.Shi, Y.Sasaki, Y.Cunnea, K.Malde, A.K.Jia, X.Luo, Z.Saikot, F.K.Mosaiab, T.Masic, V.Holt, S.Hartley-Tassell, L.McGuinness, H.Y.Manik, M.K.Bosanac, T.Landsberg, M.J.Kerry, P.S.Mobli, M.Hughes, R.O.Milbrandt, J.Kobe, B.DiAntonio, A.Ve, T.

(2021) Neuron 109: 1118

  • DOI: https://doi.org/10.1016/j.neuron.2021.02.009
  • Primary Citation of Related Structures:  
    7LCY, 7LCZ, 7LD0

  • PubMed Abstract: 

    Axon degeneration is a central pathological feature of many neurodegenerative diseases. Sterile alpha and Toll/interleukin-1 receptor motif-containing 1 (SARM1) is a nicotinamide adenine dinucleotide (NAD + )-cleaving enzyme whose activation triggers axon destruction. Loss of the biosynthetic enzyme NMNAT2, which converts nicotinamide mononucleotide (NMN) to NAD + , activates SARM1 via an unknown mechanism. Using structural, biochemical, biophysical, and cellular assays, we demonstrate that SARM1 is activated by an increase in the ratio of NMN to NAD + and show that both metabolites compete for binding to the auto-inhibitory N-terminal armadillo repeat (ARM) domain of SARM1. We report structures of the SARM1 ARM domain bound to NMN and of the homo-octameric SARM1 complex in the absence of ligands. We show that NMN influences the structure of SARM1 and demonstrate via mutagenesis that NMN binding is required for injury-induced SARM1 activation and axon destruction. Hence, SARM1 is a metabolic sensor responding to an increased NMN/NAD + ratio by cleaving residual NAD + , thereby inducing feedforward metabolic catastrophe and axonal demise.


  • Organizational Affiliation

    Department of Developmental Biology, Washington University School of Medicine in Saint Louis, St. Louis, MO, USA; Needleman Center for Neurometabolism and Axonal Therapeutics, Washington University School of Medicine in Saint Louis, St. Louis, MO, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Isoform B of NAD(+) hydrolase sarm1
A, B, C
367Drosophila melanogasterMutation(s): 0 
Gene Names: SarmEct4CG43119
EC: 3.2.2.6
UniProt
Find proteins for Q6IDD9 (Drosophila melanogaster)
Explore Q6IDD9 
Go to UniProtKB:  Q6IDD9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ6IDD9
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.35 Å
  • R-Value Free: 0.272 
  • R-Value Work: 0.244 
  • R-Value Observed: 0.246 
  • Space Group: P 1 21 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 63.301α = 90
b = 101.363β = 103.769
c = 98.574γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
PHASERphasing
XDSdata reduction
Aimlessdata scaling

Structure Validation

View Full Validation Report



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)AustraliaFL180100109
Australian Research Council (ARC)AustraliaDE170100783

Revision History  (Full details and data files)

  • Version 1.0: 2021-03-10
    Type: Initial release
  • Version 1.1: 2021-03-17
    Changes: Database references
  • Version 1.2: 2021-04-21
    Changes: Database references