› 6y5d

Electron Microscopy
4.1Å resolution

Structure of human cGAS (K394E) bound to the nucleosome

Released:
DOI: 10.2210/pdb6y5d/pdb
PDB entry 6y5d coloured by chain, front view.
PDB entry 6y5d coloured by chain, side view.
PDB entry 6y5d coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural mechanism of cGAS inhibition by the nucleosome.
Pathare GR, Decout A, Glück S, Cavadini S, Makasheva K, Hovius R, Kempf G, Weiss J, Kozicka Z, Guey B, Melenec P, Fierz B, Thomä NH, Ablasser A
Nature 587 668-672 (2020)
PMID: 32911482
Related structures: EMD-10694

Function and Biology Details

Reaction catalysed: 
(1a) ATP + GTP = pppG-P(2'-5')A + diphosphate
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 22-mer (preferred)
PDBe Complex ID:
PDB-CPX-120987 (preferred)
Entry contents:
5 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (7 distinct):
Histone H3.2 Chains: A, E, M, Q
Molecule details ›
Chains: A, E, M, Q
Length: 98 amino acids
Theoretical weight: 11.46 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli K-12
UniProt:
  • Canonical: Q71DI3 (Residues: 39-136; Coverage: 72%)
Gene names: H3C13, H3C14, H3C15, H3F2, H3FM, HIST2H3A, HIST2H3C, HIST2H3D
Sequence domains: Core histone H2A/H2B/H3/H4
Histone H4 Chains: B, F, N, R
Molecule details ›
Chains: B, F, N, R
Length: 103 amino acids
Theoretical weight: 11.39 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli K-12
UniProt:
  • Canonical: P62805 (Residues: 1-103; Coverage: 100%)
Gene names: H4-16, H4/A, H4/B, H4/C, H4/D, H4/E, H4/G, H4/H, H4/I, H4/J, H4/K, H4/M, H4/N, H4/O, H4C1, H4C11, H4C12, H4C13, H4C14, H4C15, H4C16, H4C2, H4C3, H4C4, H4C5, H4C6, H4C8, H4C9, H4F2, H4FA, H4FB, H4FC, H4FD, H4FE, H4FG, H4FH, H4FI, H4FJ, H4FK, H4FM, H4FN, H4FO, HIST1H4A, HIST1H4B, HIST1H4C, HIST1H4D, HIST1H4E, HIST1H4F, HIST1H4H, HIST1H4I, HIST1H4J, HIST1H4K, HIST1H4L, HIST2H4, HIST2H4A, HIST2H4B, HIST4H4
Sequence domains: Centromere kinetochore component CENP-T histone fold
Histone H2A type 2-A Chains: C, G, O, S
Molecule details ›
Chains: C, G, O, S
Length: 130 amino acids
Theoretical weight: 14.13 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q6FI13 (Residues: 1-130; Coverage: 100%)
Gene names: H2AC18, H2AC19, H2AFO, HIST2H2AA, HIST2H2AA3, HIST2H2AA4
Sequence domains:
Histone H2B type 1-K Chains: D, H, P, T
Molecule details ›
Chains: D, H, P, T
Length: 126 amino acids
Theoretical weight: 13.92 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli K-12
UniProt:
  • Canonical: O60814 (Residues: 1-126; Coverage: 100%)
Gene names: H2BC12, H2BFT, HIRIP1, HIST1H2BK
Sequence domains: Core histone H2A/H2B/H3/H4
Cyclic GMP-AMP synthase Chains: K, L
Molecule details ›
Chains: K, L
Length: 362 amino acids
Theoretical weight: 42.4 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli K-12
UniProt:
  • Canonical: Q8N884 (Residues: 161-522; Coverage: 69%)
Gene names: C6orf150, CGAS, MB21D1
Sequence domains:
DNA (153-MER) Chains: I, U
Molecule details ›
Chains: I, U
Length: 153 nucleotides
Theoretical weight: 47 KDa
DNA (153-MER) Chains: J, V
Molecule details ›
Chains: J, V
Length: 153 nucleotides
Theoretical weight: 47.46 KDa

Ligands and Environments

2 bound ligands:
Ligand PTD 9 x PTD
Ligand ZN 2 x ZN
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 4.1Å
Relevant EMDB volumes: EMD-10694
Expression systems:
  • Escherichia coli K-12
  • Escherichia coli

Quick links

Citations

61 review citations

The cGAS-STING pathway as a therapeutic target in inflammatory diseases.
Decout et al. (2021)
60 more

1 mention without citation

Nuclear cGAS: guard or prisoner?
de Oliveira Mann et al. (2021)