› 1aoi

X-ray diffraction
2.8Å resolution

COMPLEX BETWEEN NUCLEOSOME CORE PARTICLE (H3,H4,H2A,H2B) AND 146 BP LONG DNA FRAGMENT

Released:
DOI: 10.2210/pdb1aoi/pdb
PDB entry 1aoi coloured by chain, front view.
PDB entry 1aoi coloured by chain, side view.
PDB entry 1aoi coloured by chain, top view.
Source organism: Xenopus laevis
Primary publication:
Crystal structure of the nucleosome core particle at 2.8 A resolution.
Luger K, Mäder AW, Richmond RK, Sargent DF, Richmond TJ
Nature 389 251-60 (1997)
PMID: 9305837

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero decamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-113434 (preferred)
Entry contents:
4 distinct polypeptide molecules
1 distinct DNA molecule
Macromolecules (5 distinct):
Histone H3.3C Chains: A, E
Molecule details ›
Chains: A, E
Length: 116 amino acids
Theoretical weight: 13.24 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli
UniProt:
  • Canonical: P02302 (Residues: 21-136; Coverage: 85%)
Gene names: h3-5, h3f3c
Sequence domains: Core histone H2A/H2B/H3/H4
Structure domains: Histone, subunit A
Histone H4 Chains: B, F
Molecule details ›
Chains: B, F
Length: 87 amino acids
Theoretical weight: 9.99 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli
UniProt:
  • Canonical: P62799 (Residues: 17-103; Coverage: 85%)
Sequence domains: Centromere kinetochore component CENP-T histone fold
Structure domains: Histone, subunit A
Histone H2A type 1 Chains: C, G
Molecule details ›
Chains: C, G
Length: 116 amino acids
Theoretical weight: 12.64 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli
UniProt:
  • Canonical: P06897 (Residues: 5-120; Coverage: 89%)
Sequence domains:
Structure domains: Histone, subunit A
Histone H2B 1.1 Chains: D, H
Molecule details ›
Chains: D, H
Length: 99 amino acids
Theoretical weight: 11.18 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli
UniProt:
  • Canonical: P02281 (Residues: 28-126; Coverage: 79%)
Sequence domains: Core histone H2A/H2B/H3/H4
Structure domains: Histone, subunit A
PALINDROMIC 146 BP DNA REPEAT 8/9 FROM HUMAN X-CHROMOSOME ALPHA SATELLITE DNA Chains: I, J
Molecule details ›
Chains: I, J
Length: 146 nucleotides
Theoretical weight: 45.05 KDa

Ligands and Environments

1 bound ligand:
Ligand MN 6 x MN
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID13
Spacegroup: P212121
Unit cell:
a: 106.04Å b: 181.78Å c: 110.12Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.224 0.224 0.302
Expression system: Escherichia coli

Quick links

Citations

1535 review citations

Regulation of chromatin by histone modifications.
Bannister et al. (2011)
1534 more

210 mentions without citation

Regulation of DNA-dependent activities by the functional motifs of the high-mobility-group chromosomal proteins.
Bustin M. (1999)
209 more