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Structure of human DNA polymerase beta 279NA mutant complexed with G in the template base paired with incoming non-hydrolyzable TTP and MANGANESE

X-ray diffraction
2.752Å resolution
PDB entry 4z6e coloured by chain, front view.
PDB entry 4z6e coloured by chain, side view.
PDB entry 4z6e coloured by chain, top view.
Source organism: Homo sapiens
Assembly composition:
hetero tetramer (preferred)
Entry contents: 1 distinct polypeptide molecule
3 distinct DNA molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: DNA polymerase beta and DNA
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Multimeric state: hetero tetramer
Accessible surface area: 20001.38 Å2
Buried surface area: 5165.82 Å2
Dissociation area: 646.49 Å2
Dissociation energy (ΔGdiss): 18.83 kcal/mol
Dissociation entropy (TΔSdiss): 8.03 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-118365

Macromolecules

DNA polymerase beta
Chain: A
Length: 335 amino acids
Theoretical weight: 38.2 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P06746 (Residues: 1-335; Coverage: 100%)
Gene name: POLB
Pfam:
InterPro:
CATH:
DNA polymerase beta in PDB entry 4z6e, assembly 1, front view.
DNA polymerase beta in PDB entry 4z6e, assembly 1, side view.
DNA polymerase beta in PDB entry 4z6e, assembly 1, top view.
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DNA chain T
Name: DNA (5'-D(*CP*CP*GP*AP*CP*GP*TP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3')
Representative chains: T
Source organism: Homo sapiens [9606]
Expression system: Not provided
Length: 16 nucleotides
Theoretical weight: 4.84 KDa
DNA (5'-D(*CP*CP*GP*AP*CP*GP*TP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3') in PDB entry 4z6e, assembly 1, front view.
DNA (5'-D(*CP*CP*GP*AP*CP*GP*TP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3') in PDB entry 4z6e, assembly 1, side view.
DNA (5'-D(*CP*CP*GP*AP*CP*GP*TP*CP*GP*CP*AP*TP*CP*AP*GP*C)-3') in PDB entry 4z6e, assembly 1, top view.
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DNA chain P
Name: DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*A)-3')
Representative chains: P
Source organism: Homo sapiens [9606]
Expression system: Not provided
Length: 10 nucleotides
Theoretical weight: 3.09 KDa
DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*A)-3') in PDB entry 4z6e, assembly 1, front view.
DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*A)-3') in PDB entry 4z6e, assembly 1, side view.
DNA (5'-D(*GP*CP*TP*GP*AP*TP*GP*CP*GP*A)-3') in PDB entry 4z6e, assembly 1, top view.
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DNA chain D
Name: DNA (5'-D(P*GP*TP*CP*GP*G)-3')
Representative chains: D
Source organism: Homo sapiens [9606]
Expression system: Not provided
Length: 5 nucleotides
Theoretical weight: 1.54 KDa
DNA (5'-D(P*GP*TP*CP*GP*G)-3') in PDB entry 4z6e, assembly 1, front view.
DNA (5'-D(P*GP*TP*CP*GP*G)-3') in PDB entry 4z6e, assembly 1, side view.
DNA (5'-D(P*GP*TP*CP*GP*G)-3') in PDB entry 4z6e, assembly 1, top view.
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