› › Structure analysis

Crystal structure of nucleosome particle in the presence of human testis-specific histone variant, hTh2b

X-ray diffraction
2.91Å resolution
PDB entry 5gt3 coloured by chain, front view.
PDB entry 5gt3 coloured by chain, side view.
PDB entry 5gt3 coloured by chain, top view.
Source organism: Homo sapiens
Assembly composition:
hetero decamer (preferred)
Entry contents: 4 distinct polypeptide molecules
1 distinct DNA molecule

Quick links

Assemblies

Assembly 1 (preferred)
Download    3D Visualisation
Assembly Name: Nucleosome, Histone and DNA
hide full assembly name
Multimeric state: hetero decamer
Accessible surface area: 74281.61 Å2
Buried surface area: 58023.03 Å2
Dissociation area: 4,475.35 Å2
Dissociation energy (ΔGdiss): 63.25 kcal/mol
Dissociation entropy (TΔSdiss): 14.45 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-118715

Macromolecules

Histone H3.1
Chains: A, E
Length: 135 amino acids
Theoretical weight: 15.31 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P68431 (Residues: 2-136; Coverage: 99%)
Gene names: H3C1, H3C10, H3C11, H3C12, H3C2, H3C3, H3C4, H3C6, H3C7, H3C8, H3FA, H3FB, H3FC HIST1H3C, H3FD, H3FF, H3FH, H3FI, H3FJ, H3FK, H3FL, HIST1H3A, HIST1H3B, HIST1H3D, HIST1H3E, HIST1H3F, HIST1H3G, HIST1H3H, HIST1H3I, HIST1H3J
Pfam: Core histone H2A/H2B/H3/H4
InterPro:
CATH: Histone, subunit A
Histone H3.1 in PDB entry 5gt3, assembly 1, front view.
Histone H3.1 in PDB entry 5gt3, assembly 1, side view.
Histone H3.1 in PDB entry 5gt3, assembly 1, top view.
Molecule details ›

Search similar proteins

Histone H4
Chains: B, F
Length: 102 amino acids
Theoretical weight: 11.26 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P62805 (Residues: 2-103; Coverage: 99%)
Gene names: H4-16, H4/A, H4/B, H4/C, H4/D, H4/E, H4/G, H4/H, H4/I, H4/J, H4/K, H4/M, H4/N, H4/O, H4C1, H4C11, H4C12, H4C13, H4C14, H4C15, H4C16, H4C2, H4C3, H4C4, H4C5, H4C6, H4C8, H4C9, H4F2, H4FA, H4FB, H4FC, H4FD, H4FE, H4FG, H4FH, H4FI, H4FJ, H4FK, H4FM, H4FN, H4FO, HIST1H4A, HIST1H4B, HIST1H4C, HIST1H4D, HIST1H4E, HIST1H4F, HIST1H4H, HIST1H4I, HIST1H4J, HIST1H4K, HIST1H4L, HIST2H4, HIST2H4A, HIST2H4B, HIST4H4
Pfam: Centromere kinetochore component CENP-T histone fold
InterPro:
CATH: Histone, subunit A
Histone H4 in PDB entry 5gt3, assembly 1, front view.
Histone H4 in PDB entry 5gt3, assembly 1, side view.
Histone H4 in PDB entry 5gt3, assembly 1, top view.
Molecule details ›

Search similar proteins

Histone H2A type 1-D
Chains: C, G
Length: 129 amino acids
Theoretical weight: 14.01 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P20671 (Residues: 2-130; Coverage: 99%)
Gene names: H2AC7, H2AFG, HIST1H2AD
Pfam:
InterPro:
CATH: Histone, subunit A
Histone H2A type 1-D in PDB entry 5gt3, assembly 1, front view.
Histone H2A type 1-D in PDB entry 5gt3, assembly 1, side view.
Histone H2A type 1-D in PDB entry 5gt3, assembly 1, top view.
Molecule details ›

Search similar proteins

Histone H2B type 1-A
Chains: D, H
Length: 126 amino acids
Theoretical weight: 14.07 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q96A08 (Residues: 2-127; Coverage: 99%)
Gene names: H2BC1, HIST1H2BA, TSH2B
Pfam: Core histone H2A/H2B/H3/H4
InterPro:
CATH: Histone, subunit A
Histone H2B type 1-A in PDB entry 5gt3, assembly 1, front view.
Histone H2B type 1-A in PDB entry 5gt3, assembly 1, side view.
Histone H2B type 1-A in PDB entry 5gt3, assembly 1, top view.
Molecule details ›

Search similar proteins

DNA chains I, J
Name: DNA (146-MER)
Representative chains: I, J
Length: 146 nucleotides
Theoretical weight: 45.05 KDa
DNA (146-MER) in PDB entry 5gt3, assembly 1, front view.
DNA (146-MER) in PDB entry 5gt3, assembly 1, side view.
DNA (146-MER) in PDB entry 5gt3, assembly 1, top view.
Molecule details ›

Search similar DNA

Quick links