› 6wz9

Electron Microscopy
2.8Å resolution

Bridging of double-strand DNA break activates PARP2/HPF1 to modify chromatin

Released:
DOI: 10.2210/pdb6wz9/pdb
PDB entry 6wz9 coloured by chain, front view.
PDB entry 6wz9 coloured by chain, side view.
PDB entry 6wz9 coloured by chain, top view.
Source organism: Xenopus laevis
Primary publication:
Bridging of DNA breaks activates PARP2-HPF1 to modify chromatin.
Bilokapic S, Suskiewicz MJ, Ahel I, Halic M
Nature 585 609-613 (2020)
PMID: 32939087
Related structures: EMD-21971

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero decamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-120891 (preferred)
Entry contents:
4 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (6 distinct):
Histone H3.2 Chains: A, E
Molecule details ›
Chains: A, E
Length: 135 amino acids
Theoretical weight: 15.3 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli
UniProt:
  • Canonical: P84233 (Residues: 2-136; Coverage: 99%)
Sequence domains: Core histone H2A/H2B/H3/H4
Histone H4 Chains: B, F
Molecule details ›
Chains: B, F
Length: 102 amino acids
Theoretical weight: 11.26 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli
UniProt:
  • Canonical: P62799 (Residues: 2-103; Coverage: 99%)
Sequence domains: Centromere kinetochore component CENP-T histone fold
Histone H2A type 1 Chains: C, G
Molecule details ›
Chains: C, G
Length: 129 amino acids
Theoretical weight: 13.98 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli
UniProt:
  • Canonical: P06897 (Residues: 2-130; Coverage: 99%)
Sequence domains:
Histone H2B 1.1 Chains: D, H
Molecule details ›
Chains: D, H
Length: 122 amino acids
Theoretical weight: 13.52 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli
UniProt:
  • Canonical: P02281 (Residues: 5-126; Coverage: 97%)
Sequence domains: Core histone H2A/H2B/H3/H4
DNA Chain: I
Molecule details ›
Chain: I
Length: 167 nucleotides
Theoretical weight: 51.78 KDa
DNA Chain: J
Molecule details ›
Chain: J
Length: 167 nucleotides
Theoretical weight: 51.33 KDa

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 2.8Å
Relevant EMDB volumes: EMD-21971
Expression system: Escherichia coli

Quick links

Citations

21 review citations

Principles of nucleosome recognition by chromatin factors and enzymes.
McGinty et al. (2021)
20 more

1 mention without citation

Bridging of DNA breaks activates PARP2-HPF1 to modify chromatin.
Bilokapic et al. (2020)