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Human Pol Kappa holoenzyme with Ub-PCNA

Electron Microscopy
6.4Å resolution
PDB entry 7nv1 coloured by chain, front view.
PDB entry 7nv1 coloured by chain, side view.
PDB entry 7nv1 coloured by chain, top view.
Source organism: Homo sapiens
Assembly composition:
hetero hexamer (preferred)
Entry contents: 2 distinct polypeptide molecules
2 distinct DNA molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: PCNA homotrimer and DNA polymerase kappa and DNA
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Multimeric state: hetero hexamer
Accessible surface area: 61301.82 Å2
Buried surface area: 12897.67 Å2
Dissociation area: 3,200.65 Å2
Dissociation energy (ΔGdiss): 6.73 kcal/mol
Dissociation entropy (TΔSdiss): 41.29 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-121703

Macromolecules

Proliferating cell nuclear antigen
Chains: B, C, D
Length: 264 amino acids
Theoretical weight: 29.09 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P12004 (Residues: 1-261; Coverage: 100%)
Gene name: PCNA
Pfam:
InterPro:
Proliferating cell nuclear antigen in PDB entry 7nv1, assembly 1, front view.
Proliferating cell nuclear antigen in PDB entry 7nv1, assembly 1, side view.
Proliferating cell nuclear antigen in PDB entry 7nv1, assembly 1, top view.
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DNA polymerase kappa
Chain: A
Length: 870 amino acids
Theoretical weight: 98.95 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9UBT6 (Residues: 1-870; Coverage: 100%)
Gene names: DINB1, POLK
Pfam:
InterPro:
DNA polymerase kappa in PDB entry 7nv1, assembly 1, front view.
DNA polymerase kappa in PDB entry 7nv1, assembly 1, side view.
DNA polymerase kappa in PDB entry 7nv1, assembly 1, top view.
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DNA chain P
Name: DNA Primer
Representative chains: P
Length: 25 nucleotides
Theoretical weight: 7.67 KDa
DNA Primer in PDB entry 7nv1, assembly 1, front view.
DNA Primer in PDB entry 7nv1, assembly 1, side view.
DNA Primer in PDB entry 7nv1, assembly 1, top view.
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DNA chain T
Name: DNA Template
Representative chains: T
Length: 38 nucleotides
Theoretical weight: 11.68 KDa
DNA Template in PDB entry 7nv1, assembly 1, front view.
DNA Template in PDB entry 7nv1, assembly 1, side view.
DNA Template in PDB entry 7nv1, assembly 1, top view.
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