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Crystal structure of L3MBTL1 in complex with H4K20Me2 (residues 12-30), orthorhombic form I

X-ray diffraction
2.05Å resolution
PDB entry 2rjf coloured by chain, front view.
PDB entry 2rjf coloured by chain, side view.
PDB entry 2rjf coloured by chain, top view.
Source organism: Homo sapiens
Assemblies composition:
homo dimer
hetero tetramer (preferred)
monomeric
Entry contents: 2 distinct polypeptide molecules

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Assemblies

Assembly 1
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Assembly Name: Lethal(3)malignant brain tumor-like protein 1
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Multimeric state: homo dimer
Accessible surface area: 32566.18 Å2
Buried surface area: 223.61 Å2
Dissociation area: 111.81 Å2
Dissociation energy (ΔGdiss): -11.38 kcal/mol
Dissociation entropy (TΔSdiss): 13.4 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-195225
Assembly 2 (preferred)
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Assembly Name: Lethal(3)malignant brain tumor-like protein 1
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Multimeric state: hetero tetramer
Accessible surface area: 32826.24 Å2
Buried surface area: 3327.52 Å2
Dissociation area: 1,663.76 Å2
Dissociation energy (ΔGdiss): 1.07 kcal/mol
Dissociation entropy (TΔSdiss): 29.09 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-163225
Assembly 3
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Assembly Name: Histone h4
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Multimeric state: homo dimer
Accessible surface area: 2483.44 Å2
Buried surface area: 880.52 Å2
Dissociation area: 440.26 Å2
Dissociation energy (ΔGdiss): 1.25 kcal/mol
Dissociation entropy (TΔSdiss): 6.92 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-219437
Assembly 4
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Assembly Name: Lethal(3)malignant brain tumor-like protein 1
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Multimeric state: monomeric
Accessible surface area: 16516.78 Å2
Buried surface area: 0.0 Å2
Dissociation area: 0 Å2
Dissociation energy (ΔGdiss): 0 kcal/mol
Dissociation entropy (TΔSdiss): 0 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-195224

Macromolecules

Lethal(3)malignant brain tumor-like protein 1
Chains: A, C, E
Length: 331 amino acids
Theoretical weight: 37.75 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9Y468 (Residues: 268-598; Coverage: 39%)
Gene names: KIAA0681, L3MBT, L3MBTL, L3MBTL1
Pfam: mbt repeat
InterPro:
CATH: SH3 type barrels.
Lethal(3)malignant brain tumor-like protein 1 in PDB entry 2rjf, assembly 2, front view.
Lethal(3)malignant brain tumor-like protein 1 in PDB entry 2rjf, assembly 2, side view.
Lethal(3)malignant brain tumor-like protein 1 in PDB entry 2rjf, assembly 2, top view.
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Histone H4
Chains: B, D
Length: 20 amino acids
Theoretical weight: 2.34 KDa
Source organism: Homo sapiens
Expression system: Not provided
InterPro:
Histone H4 in PDB entry 2rjf, assembly 2, front view.
Histone H4 in PDB entry 2rjf, assembly 2, side view.
Histone H4 in PDB entry 2rjf, assembly 2, top view.
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