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Human DNA polymerase lambda- Apoenzyme and complex with 6 paired DNA

X-ray diffraction
2.802Å resolution
PDB entry 5ddm coloured by chain, front view.
PDB entry 5ddm coloured by chain, side view.
PDB entry 5ddm coloured by chain, top view.
Source organisms:
Assemblies composition:
hetero trimer (preferred)
monomeric
Entry contents: 1 distinct polypeptide molecule
2 distinct DNA molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: DNA polymerase lambda and DNA
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Multimeric state: hetero trimer
Accessible surface area: 12693.58 Å2
Buried surface area: 2972.3 Å2
Dissociation area: 869.06 Å2
Dissociation energy (ΔGdiss): 8.7 kcal/mol
Dissociation entropy (TΔSdiss): 8.55 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-118559
Assembly 2
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Assembly Name: DNA polymerase lambda
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Multimeric state: monomeric
Accessible surface area: 12491.48 Å2
Buried surface area: 195.91 Å2
Dissociation area: 97.95 Å2
Dissociation energy (ΔGdiss): 14.67 kcal/mol
Dissociation entropy (TΔSdiss): 0.6 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-193722

Macromolecules

DNA polymerase lambda
Chains: A, B
Length: 335 amino acids
Theoretical weight: 37.48 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q9UGP5 (Residues: 242-575; Coverage: 58%)
Gene name: POLL
Pfam:
InterPro:
CATH:
DNA polymerase lambda in PDB entry 5ddm, assembly 1, front view.
DNA polymerase lambda in PDB entry 5ddm, assembly 1, side view.
DNA polymerase lambda in PDB entry 5ddm, assembly 1, top view.
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DNA chain P
Name: DNA (5'-D(*CP*AP*GP*TP*AP*C)-3')
Representative chains: P
Source organism: synthetic construct [32630]
Expression system: Not provided
Length: 6 nucleotides
Theoretical weight: 1.79 KDa
DNA (5'-D(*CP*AP*GP*TP*AP*C)-3') in PDB entry 5ddm, assembly 1, front view.
DNA (5'-D(*CP*AP*GP*TP*AP*C)-3') in PDB entry 5ddm, assembly 1, side view.
DNA (5'-D(*CP*AP*GP*TP*AP*C)-3') in PDB entry 5ddm, assembly 1, top view.
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DNA chain T
Name: DNA (5'-D(P*GP*TP*AP*CP*TP*G)-3')
Representative chains: T
Source organism: synthetic construct [32630]
Expression system: Not provided
Length: 6 nucleotides
Theoretical weight: 1.82 KDa
DNA (5'-D(P*GP*TP*AP*CP*TP*G)-3') in PDB entry 5ddm, assembly 1, front view.
DNA (5'-D(P*GP*TP*AP*CP*TP*G)-3') in PDB entry 5ddm, assembly 1, side view.
DNA (5'-D(P*GP*TP*AP*CP*TP*G)-3') in PDB entry 5ddm, assembly 1, top view.
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