› 6kbb

X-ray diffraction
2.36Å resolution

Role of the DEF/Y motif of Swc5 in histone H2A.Z deposition

Released:
DOI: 10.2210/pdb6kbb/pdb
PDB entry 6kbb coloured by chain, front view.
PDB entry 6kbb coloured by chain, side view.
PDB entry 6kbb coloured by chain, top view.
Source organisms:
Primary publication:
Role of a DEF/Y motif in histone H2A-H2B recognition and nucleosome editing.
Huang Y, Sun L, Pierrakeas L, Dai L, Pan L, Luk E, Zhou Z
Proc Natl Acad Sci U S A 117 3543-3550 (2020)
PMID: 32001508

Function and Biology Details

Biochemical function:
Biological process:
  • not assigned
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-149026 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Histone H2A type 1-D Chains: A, C
Molecule details ›
Chains: A, C
Length: 96 amino acids
Theoretical weight: 10.47 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P20671 (Residues: 14-107; Coverage: 72%)
Gene names: H2AC7, H2AFG, HIST1H2AD
Sequence domains:
Histone H2B type 2-E Chains: B, D
Molecule details ›
Chains: B, D
Length: 104 amino acids
Theoretical weight: 11.65 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q16778 (Residues: 27-126; Coverage: 79%)
Gene names: H2BC21, H2BFQ, HIST2H2BE
Sequence domains: Core histone H2A/H2B/H3/H4
SWR1-complex protein 5 Chains: E, F
Molecule details ›
Chains: E, F
Length: 81 amino acids
Theoretical weight: 8.94 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Escherichia coli
UniProt:
  • Canonical: P38326 (Residues: 1-79; Coverage: 26%)
Gene names: AOR1, SWC5, YBR1529, YBR231C

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL19U1
Spacegroup: C2
Unit cell:
a: 107.072Å b: 65.521Å c: 84.821Å
α: 90° β: 122.83° γ: 90°
R-values:
R R work R free
0.189 0.188 0.226
Expression system: Escherichia coli

Quick links

Citations

1 review citation

Collaboration through chromatin: motors of transcription and chromatin structure.
Gamarra et al. (2021)
6 other articles

2 mentions without citation

Role of a DEF/Y motif in histone H2A-H2B recognition and nucleosome editing.
Huang et al. (2020)
1 more