5nl0

X-ray diffraction
5.4Å resolution

Crystal structure of a 197-bp palindromic 601L nucleosome in complex with linker histone H1

Released:

Function and Biology Details

Structure analysis Details

Assemblies composition:
hetero undecamer (preferred)
hetero hexamer
Entry contents:
5 distinct polypeptide molecules
2 distinct DNA molecules
Macromolecules (7 distinct):
Histone H3.2 Chains: A, E, K
Molecule details ›
Chains: A, E, K
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%)
Histone H4 Chains: B, F, L
Molecule details ›
Chains: B, F, L
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, M
Molecule details ›
Chains: C, G, M
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, N
Molecule details ›
Chains: D, H, N
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%)
Histone H1.0-B Chain: Z
Molecule details ›
Chain: Z
Length: 196 amino acids
Theoretical weight: 21.13 KDa
Source organism: Xenopus laevis
Expression system: Escherichia coli
UniProt:
  • Canonical: P22844 (Residues: 1-196; Coverage: 100%)
Gene name: h1-0-b
Sequence domains: linker histone H1 and H5 family
DNA (197-MER) Chains: I, S
Molecule details ›
Chains: I, S
Length: 197 nucleotides
Theoretical weight: 60.82 KDa
Sequence domains: microRNA mir-228
DNA (197-MER) Chains: J, T
Molecule details ›
Chains: J, T
Length: 197 nucleotides
Theoretical weight: 60.82 KDa
Sequence domains: microRNA mir-228

Ligands and Environments

No bound ligands

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID29
Spacegroup: C2221
Unit cell:
a: 61.725Å b: 405.737Å c: 348.162Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.242 0.24 0.265
Expression system: Escherichia coli