6X59

The mouse cGAS catalytic domain binding to human assembled nucleosome


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.98 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 molecular basis of tight nuclear tethering and inactivation of cGAS.

Zhao, B.Xu, P.Rowlett, C.M.Jing, T.Shinde, O.Lei, Y.West, A.P.Liu, W.R.Li, P.

(2020) Nature 587: 673-677

  • DOI: 10.1038/s41586-020-2749-z
  • Primary Citation of Related Structures:  
    6X5A, 6X59, 6XJD

  • PubMed Abstract: 
  • Nucleic acids derived from pathogens induce potent innate immune responses 1-6 . Cyclic GMP-AMP synthase (cGAS) is a double-stranded DNA sensor that catalyses the synthesis of the cyclic dinucleotide cyclic GMP-AMP, which mediates the induction of type I interferons through the STING-TBK1-IRF3 signalling axis 7-11 ...

    Nucleic acids derived from pathogens induce potent innate immune responses 1-6 . Cyclic GMP-AMP synthase (cGAS) is a double-stranded DNA sensor that catalyses the synthesis of the cyclic dinucleotide cyclic GMP-AMP, which mediates the induction of type I interferons through the STING-TBK1-IRF3 signalling axis 7-11 . cGAS was previously thought to not react with self DNA owing to its cytosolic localization 2,12,13 ; however, recent studies have shown that cGAS is localized mostly in the nucleus and has low activity as a result of tight nuclear tethering 14-18 . Here we show that cGAS binds to nucleosomes with nanomolar affinity and that nucleosome binding potently inhibits its catalytic activity. To elucidate the molecular basis of cGAS inactivation by nuclear tethering, we determined the structure of mouse cGAS bound to human nucleosome by cryo-electron microscopy. The structure shows that cGAS binds to a negatively charged acidic patch formed by histones H2A and H2B via its second DNA-binding site 19 . High-affinity nucleosome binding blocks double-stranded DNA binding and maintains cGAS in an inactive conformation. Mutations of cGAS that disrupt nucleosome binding alter cGAS-mediated signalling in cells.


    Organizational Affiliation

    Department of Biochemistry and Biophysics, Texas A&M University, College Station, TX, USA. pingwei@tamu.edu.



Macromolecules

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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H3.2A, E135Homo sapiensMutation(s): 0 
Gene Names: H3C15HIST2H3AH3C14H3F2H3FMHIST2H3CH3C13HIST2H3D
Find proteins for Q71DI3 (Homo sapiens)
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H4B, F102Homo sapiensMutation(s): 0 
Gene Names: 
Find proteins for P62805 (Homo sapiens)
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PHAROS:  P62805
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H2A type 1C, G129Homo sapiensMutation(s): 0 
Gene Names: 
Find proteins for P0C0S8 (Homo sapiens)
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PHAROS:  P0C0S8
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
Histone H2B type 1-C/E/F/G/ID, H125Homo sapiensMutation(s): 0 
Gene Names: 
Find proteins for P62807 (Homo sapiens)
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PHAROS:  P62807
Protein Feature View
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
Cyclic GMP-AMP synthaseK372Mus musculusMutation(s): 0 
Gene Names: CgasMb21d1
EC: 2.7.7.86
Find proteins for Q8C6L5 (Mus musculus)
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IMPC:  MGI:2442261
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Entity ID: 5
MoleculeChainsLengthOrganismImage
DNAI147Homo sapiens
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Entity ID: 6
MoleculeChainsLengthOrganismImage
DNAJ147Homo sapiens
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ZN
Query on ZN

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

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.98 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Welch FoundationUnited StatesGrant A-1931-20170325
NIaUnited StatesGrant R01 AI145287

Revision History  (Full details and data files)

  • Version 1.0: 2020-09-16
    Type: Initial release
  • Version 1.1: 2020-09-23
    Changes: Database references
  • Version 1.2: 2020-12-09
    Changes: Database references