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MDM2 in complex with SAR405838

X-ray diffraction
2.1Å resolution
PDB entry 5trf coloured by chain, front view.
PDB entry 5trf coloured by chain, side view.
PDB entry 5trf coloured by chain, top view.
Source organism: Homo sapiens
Assemblies composition:
monomeric (preferred)
homo dimer
Entry contents: 1 distinct polypeptide molecule

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Assemblies

Assembly 1
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Assembly Name: E3 ubiquitin-protein ligase Mdm2
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Multimeric state: monomeric
Accessible surface area: 5885.5 Å2
Buried surface area: 547.49 Å2
Dissociation area: 40.78 Å2
Dissociation energy (ΔGdiss): -0.84 kcal/mol
Dissociation entropy (TΔSdiss): 0.85 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-169499
Assembly 2
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Assembly Name: E3 ubiquitin-protein ligase Mdm2
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Multimeric state: monomeric
Accessible surface area: 5756.66 Å2
Buried surface area: 418.43 Å2
Dissociation area: 94.32 Å2
Dissociation energy (ΔGdiss): -0.67 kcal/mol
Dissociation entropy (TΔSdiss): 0.94 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-169499
Assembly 3 (preferred)
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Assembly Name: E3 ubiquitin-protein ligase Mdm2
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Multimeric state: monomeric
Accessible surface area: 5691.85 Å2
Buried surface area: 514.51 Å2
Dissociation area: 81.39 Å2
Dissociation energy (ΔGdiss): 0.58 kcal/mol
Dissociation entropy (TΔSdiss): 0.87 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-169499
Assembly 4
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Assembly Name: E3 ubiquitin-protein ligase Mdm2
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Multimeric state: monomeric
Accessible surface area: 5479.04 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-169499
Assembly 5
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Assembly Name: E3 ubiquitin-protein ligase Mdm2
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Multimeric state: monomeric
Accessible surface area: 5670.37 Å2
Buried surface area: 146.71 Å2
Dissociation area: 73.35 Å2
Dissociation energy (ΔGdiss): 12.39 kcal/mol
Dissociation entropy (TΔSdiss): 0.58 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-169499
Assembly 6
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Assembly Name: E3 ubiquitin-protein ligase Mdm2
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Multimeric state: homo dimer
Accessible surface area: 10481.98 Å2
Buried surface area: 2387.79 Å2
Dissociation area: 645.25 Å2
Dissociation energy (ΔGdiss): 3.44 kcal/mol
Dissociation entropy (TΔSdiss): 11.1 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-169503
Assembly 7
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Assembly Name: E3 ubiquitin-protein ligase Mdm2
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Multimeric state: homo dimer
Accessible surface area: 9649.59 Å2
Buried surface area: 2000.14 Å2
Dissociation area: 804.35 Å2
Dissociation energy (ΔGdiss): 3.16 kcal/mol
Dissociation entropy (TΔSdiss): 11.09 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-169503
Assembly 8
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Assembly Name: E3 ubiquitin-protein ligase Mdm2
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Multimeric state: homo dimer
Accessible surface area: 9928.43 Å2
Buried surface area: 2478.5 Å2
Dissociation area: 723.09 Å2
Dissociation energy (ΔGdiss): 0.38 kcal/mol
Dissociation entropy (TΔSdiss): 11.17 kcal/mol
Symmetry number: 2
PDBe Complex ID: PDB-CPX-169503

Macromolecules

E3 ubiquitin-protein ligase Mdm2
Chains: A, B, C, D, E
Length: 109 amino acids
Theoretical weight: 12.51 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q00987 (Residues: 10-118; Coverage: 22%)
Gene name: MDM2
Pfam: SWIB/MDM2 domain
InterPro:
CATH: SWIB/MDM2 domain
E3 ubiquitin-protein ligase Mdm2 in PDB entry 5trf, assembly 3, front view.
E3 ubiquitin-protein ligase Mdm2 in PDB entry 5trf, assembly 3, side view.
E3 ubiquitin-protein ligase Mdm2 in PDB entry 5trf, assembly 3, top view.
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