8OL1

cGAS-Nucleosome in complex with SPSB3-ELOBC (composite structure)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

The CRL5-SPSB3 ubiquitin ligase targets nuclear cGAS for degradation.

Xu, P.Liu, Y.Liu, C.Guey, B.Li, L.Melenec, P.Ricci, J.Ablasser, A.

(2024) Nature 627: 873-879

  • DOI: https://doi.org/10.1038/s41586-024-07112-w
  • Primary Citation of Related Structures:  
    8OKX, 8OL1

  • PubMed Abstract: 

    Cyclic GMP-AMP synthase (cGAS) senses aberrant DNA during infection, cancer and inflammatory disease, and initiates potent innate immune responses through the synthesis of 2'3'-cyclic GMP-AMP (cGAMP) 1-7 . The indiscriminate activity of cGAS towards DNA demands tight regulatory mechanisms that are necessary to maintain cell and tissue homeostasis under normal conditions. Inside the cell nucleus, anchoring to nucleosomes and competition with chromatin architectural proteins jointly prohibit cGAS activation by genomic DNA 8-15 . However, the fate of nuclear cGAS and its role in cell physiology remains unclear. Here we show that the ubiquitin proteasomal system (UPS) degrades nuclear cGAS in cycling cells. We identify SPSB3 as the cGAS-targeting substrate receptor that associates with the cullin-RING ubiquitin ligase 5 (CRL5) complex to ligate ubiquitin onto nuclear cGAS. A cryo-electron microscopy structure of nucleosome-bound cGAS in a complex with SPSB3 reveals a highly conserved Asn-Asn (NN) minimal degron motif at the C terminus of cGAS that directs SPSB3 recruitment, ubiquitylation and cGAS protein stability. Interference with SPSB3-regulated nuclear cGAS degradation primes cells for type I interferon signalling, conferring heightened protection against infection by DNA viruses. Our research defines protein degradation as a determinant of cGAS regulation in the nucleus and provides structural insights into an element of cGAS that is amenable to therapeutic exploitation.


  • Organizational Affiliation

    Global Health Institute, Swiss Federal Institute of Technology Lausanne (EPFL), Lausanne, Switzerland.


Macromolecules

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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Histone H3.2
A, E
98Homo sapiensMutation(s): 0 
Gene Names: H3C15HIST2H3AH3C14H3F2H3FMHIST2H3CH3C13HIST2H3D
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PHAROS:  Q71DI3
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UniProt GroupQ71DI3
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Histone H4
B, F
81Homo sapiensMutation(s): 0 
Gene Names: 
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Histone H2A type 1-H108Homo sapiensMutation(s): 0 
Gene Names: H2AC12HIST1H2AHHIST1H2AI
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PHAROS:  Q96KK5
GTEx:  ENSG00000274997 
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UniProt GroupQ96KK5
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Histone H2B type 1-H95Homo sapiensMutation(s): 0 
Gene Names: H2BC9H2BFJHIST1H2BH
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GTEx:  ENSG00000275713 
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Histone H2A type 1-J107Homo sapiensMutation(s): 0 
Gene Names: H2AC14H2AFEHIST1H2AJ
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GTEx:  ENSG00000276368 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Histone H2B type 1-N94Homo sapiensMutation(s): 0 
Gene Names: H2BC15H2BFDHIST1H2BN
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GTEx:  ENSG00000233822 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Cyclic GMP-AMP synthase362Homo sapiensMutation(s): 3 
Gene Names: CGASC6orf150MB21D1
EC: 2.7.7.86
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GTEx:  ENSG00000164430 
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UniProt GroupQ8N884
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
SPRY domain-containing SOCS box protein 3244Homo sapiensMutation(s): 0 
Gene Names: SPSB3C16orf31SSB3
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GTEx:  ENSG00000162032 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
Elongin-C112Homo sapiensMutation(s): 0 
Gene Names: ELOCTCEB1
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GTEx:  ENSG00000154582 
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
Elongin-B118Homo sapiensMutation(s): 0 
Gene Names: ELOBTCEB2
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GTEx:  ENSG00000103363 
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Entity ID: 7
MoleculeChains LengthOrganismImage
DNA (145-MER)145Homo sapiens
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Entity ID: 8
MoleculeChains LengthOrganismImage
DNA (145-MER)145Homo sapiens
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Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ZN (Subject of Investigation/LOI)
Query on ZN

Download Ideal Coordinates CCD File 
O [auth K]ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Molecular Biology Organization (EMBO)European UnionALTF 184-2021

Revision History  (Full details and data files)

  • Version 1.0: 2024-02-14
    Type: Initial release
  • Version 1.1: 2024-03-13
    Changes: Database references
  • Version 1.2: 2024-04-10
    Changes: Database references