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Partially dissociated CAND1-CUL1-RBX1-SKP1-SKP2-CKS1-CDK2

Electron Microscopy
3.8Å resolution
PDB entry 8or4 coloured by chain, front view.
PDB entry 8or4 coloured by chain, side view.
PDB entry 8or4 coloured by chain, top view.
Source organism: Homo sapiens
Assembly composition:
hetero heptamer (preferred)
Entry contents: 7 distinct polypeptide molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: SCF E3 ubiquitin ligase complex, SKP2 variant
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Multimeric state: hetero heptamer
Accessible surface area: 106043.46 Å2
Buried surface area: 9020.82 Å2
Dissociation area: 754.67 Å2
Dissociation energy (ΔGdiss): -2.08 kcal/mol
Dissociation entropy (TΔSdiss): 14.8 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-219347

Macromolecules

Cullin-1
Chain: A
Length: 813 amino acids
Theoretical weight: 93.73 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q13616 (Residues: 1-776; Coverage: 100%)
Gene name: CUL1
Pfam:
Cullin-1 in PDB entry 8or4, assembly 1, front view.
Cullin-1 in PDB entry 8or4, assembly 1, side view.
Cullin-1 in PDB entry 8or4, assembly 1, top view.
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E3 ubiquitin-protein ligase RBX1
Chain: B
Length: 108 amino acids
Theoretical weight: 12.29 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P62877 (Residues: 1-108; Coverage: 100%)
Gene names: RBX1, RNF75, ROC1
Pfam: RING-H2 zinc finger domain
E3 ubiquitin-protein ligase RBX1 in PDB entry 8or4, assembly 1, front view.
E3 ubiquitin-protein ligase RBX1 in PDB entry 8or4, assembly 1, side view.
E3 ubiquitin-protein ligase RBX1 in PDB entry 8or4, assembly 1, top view.
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Cullin-associated NEDD8-dissociated protein 1
Chain: C
Length: 1238 amino acids
Theoretical weight: 137.36 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q86VP6 (Residues: 1-1230; Coverage: 100%)
Gene names: CAND1, KIAA0829, TIP120, TIP120A
Pfam:
Cullin-associated NEDD8-dissociated protein 1 in PDB entry 8or4, assembly 1, front view.
Cullin-associated NEDD8-dissociated protein 1 in PDB entry 8or4, assembly 1, side view.
Cullin-associated NEDD8-dissociated protein 1 in PDB entry 8or4, assembly 1, top view.
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S-phase kinase-associated protein 1
Chain: D
Length: 163 amino acids
Theoretical weight: 18.68 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P63208 (Residues: 1-163; Coverage: 100%)
Gene names: EMC19, OCP2, SKP1, SKP1A, TCEB1L
Pfam:
S-phase kinase-associated protein 1 in PDB entry 8or4, assembly 1, front view.
S-phase kinase-associated protein 1 in PDB entry 8or4, assembly 1, side view.
S-phase kinase-associated protein 1 in PDB entry 8or4, assembly 1, top view.
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S-phase kinase-associated protein 2
Chain: E
Length: 429 amino acids
Theoretical weight: 48.34 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q13309 (Residues: 1-424; Coverage: 100%)
Gene names: FBXL1, SKP2
Pfam: F-box-like
S-phase kinase-associated protein 2 in PDB entry 8or4, assembly 1, front view.
S-phase kinase-associated protein 2 in PDB entry 8or4, assembly 1, side view.
S-phase kinase-associated protein 2 in PDB entry 8or4, assembly 1, top view.
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Cyclin-dependent kinases regulatory subunit 1
Chain: G
Length: 74 amino acids
Theoretical weight: 8.89 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P61024 (Residues: 5-73; Coverage: 87%)
Gene names: CKS1, CKS1B, PNAS-143, PNAS-16
Pfam: Cyclin-dependent kinase regulatory subunit
Cyclin-dependent kinases regulatory subunit 1 in PDB entry 8or4, assembly 1, front view.
Cyclin-dependent kinases regulatory subunit 1 in PDB entry 8or4, assembly 1, side view.
Cyclin-dependent kinases regulatory subunit 1 in PDB entry 8or4, assembly 1, top view.
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Cyclin-dependent kinase 2
Chain: H
Length: 298 amino acids
Theoretical weight: 33.98 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P24941 (Residues: 1-298; Coverage: 100%)
Gene names: CDK2, CDKN2
Pfam: Protein kinase domain
Cyclin-dependent kinase 2 in PDB entry 8or4, assembly 1, front view.
Cyclin-dependent kinase 2 in PDB entry 8or4, assembly 1, side view.
Cyclin-dependent kinase 2 in PDB entry 8or4, assembly 1, top view.
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