› 1f66

X-ray diffraction
2.6Å resolution

2.6 A CRYSTAL STRUCTURE OF A NUCLEOSOME CORE PARTICLE CONTAINING THE VARIANT HISTONE H2A.Z

Released:
DOI: 10.2210/pdb1f66/pdb
PDB entry 1f66 coloured by chain, front view.
PDB entry 1f66 coloured by chain, side view.
PDB entry 1f66 coloured by chain, top view.
Source organisms:
Primary publication:
Crystal structure of a nucleosome core particle containing the variant histone H2A.Z.
Suto RK, Clarkson MJ, Tremethick DJ, Luger K
Nat Struct Biol 7 1121-4 (2000)
PMID: 11101893

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero decamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-113792 (preferred)
Entry contents:
4 distinct polypeptide molecules
1 distinct DNA molecule
Macromolecules (5 distinct):
Histone H3.2 Chains: A, E
Molecule details ›
Chains: A, E
Length: 136 amino acids
Theoretical weight: 15.51 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli
UniProt:
  • Canonical: P84233 (Residues: 1-136; Coverage: 100%)
Sequence domains: Core histone H2A/H2B/H3/H4
Structure domains: Histone, subunit A
Histone H4 Chains: B, F
Molecule details ›
Chains: B, F
Length: 103 amino acids
Theoretical weight: 11.39 KDa
Source organism: Mus musculus
Expression system: Escherichia coli
UniProt:
  • Canonical: P62806 (Residues: 1-103; Coverage: 100%)
Gene names: H4-12, H4-53, H4c1, H4c11, H4c12, H4c14, H4c16, H4c2, H4c3, H4c4, H4c6, H4c8, H4c9, H4f16, Hist1h4a, Hist1h4b, Hist1h4c, Hist1h4d, Hist1h4f, Hist1h4h, Hist1h4i, Hist1h4j, Hist1h4k, Hist1h4m, Hist2h4, Hist2h4a, Hist4h4
Sequence domains: Centromere kinetochore component CENP-T histone fold
Structure domains: Histone, subunit A
Histone H2A.Z Chains: C, G
Molecule details ›
Chains: C, G
Length: 128 amino acids
Theoretical weight: 13.58 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P0C0S5 (Residues: 1-128; Coverage: 100%)
Gene names: H2AFZ, H2AZ, H2AZ1
Sequence domains:
Structure domains: Histone, subunit A
Histone H2B 1.1 Chains: D, H
Molecule details ›
Chains: D, H
Length: 126 amino acids
Theoretical weight: 13.98 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli
UniProt:
  • Canonical: P02281 (Residues: 1-126; Coverage: 100%)
Sequence domains: Core histone H2A/H2B/H3/H4
Structure domains: Histone, subunit A
PALINDROMIC 146 BASE PAIR DNA FRAGMENT Chains: I, J
Molecule details ›
Chains: I, J
Length: 146 nucleotides
Theoretical weight: 45.05 KDa

Ligands and Environments

1 bound ligand:
Ligand MN 15 x MN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 5.0.2
Spacegroup: P212121
Unit cell:
a: 105.66Å b: 183.207Å c: 109.922Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.192 0.192 0.25
Expression system: Escherichia coli

Quick links

Citations

124 review citations

Histones: annotating chromatin.
Campos et al. (2009)
123 more

31 mentions without citation

Histone structure and nucleosome stability.
Mariño-Ramírez et al. (2005)
30 more