Structure analysis

Crystal structure of human JMJD2D/KDM4D in complex with an H3K9me3 peptide and 2-oxoglutarate

X-ray diffraction
1.799Å resolution
Source organism: Homo sapiens
Assembly composition:
hetero dimer (preferred)
Entry contents: 2 distinct polypeptide molecules

Assemblies

Assembly 1 (preferred)
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Multimeric state: hetero dimer
Accessible surface area: 15000 Å2
Buried surface area: 4900 Å2
Dissociation area: 850 Å2
Dissociation energy (ΔGdiss): 1 kcal/mol
Dissociation entropy (TΔSdiss): 7 kcal/mol
Interface energy (ΔGint): -4 kcal/mol
Symmetry number: 1
Assembly 2
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Multimeric state: hetero dimer

Binding statistics and energies are not available for this assembly

Macromolecules

Chains: A, B
Length: 330 amino acids
Theoretical weight: 38.14 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q6B0I6 (Residues: 12-341; Coverage: 63%)
Gene names: JHDM3D, JMJD2D, KDM4D
Pfam:
InterPro:
CATH: Cupin

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Chains: F, G
Length: 10 amino acids
Theoretical weight: 1.02 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P68431 (Residues: 7-16; Coverage: 7%)
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

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