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Ternary complex of gamma-OHPDG adduct modified dna (zero primer) with dna polymerase iv and incoming dgtp

X-ray diffraction
2.65Å resolution
PDB entry 4juz coloured by chain, front view.
PDB entry 4juz coloured by chain, side view.
PDB entry 4juz coloured by chain, top view.
Source organism: Saccharolobus solfataricus P2
Assembly composition:
hetero trimer (preferred)
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 IV and DNA
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Multimeric state: hetero trimer
Accessible surface area: 19622.35 Å2
Buried surface area: 6032.78 Å2
Dissociation area: 1,728.94 Å2
Dissociation energy (ΔGdiss): 27.72 kcal/mol
Dissociation entropy (TΔSdiss): 11.95 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-117712

Macromolecules

DNA polymerase IV
Chain: A
Length: 347 amino acids
Theoretical weight: 39.85 KDa
Source organism: Saccharolobus solfataricus P2
Expression system: Escherichia coli
UniProt:
  • Canonical: Q97W02 (Residues: 1-341; Coverage: 97%)
Gene names: SSO2448, dbh, dpo4
Pfam:
InterPro:
CATH:
DNA polymerase IV in PDB entry 4juz, assembly 1, front view.
DNA polymerase IV in PDB entry 4juz, assembly 1, side view.
DNA polymerase IV in PDB entry 4juz, assembly 1, top view.
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DNA chain B
Name: DNA (5'-D(P*CP*(KAG)P*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3')
Representative chains: B
Source organism: Saccharolobus solfataricus P2 [273057]
Expression system: Not provided
Length: 15 nucleotides
Theoretical weight: 4.54 KDa
DNA (5'-D(P*CP*(KAG)P*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3') in PDB entry 4juz, assembly 1, front view.
DNA (5'-D(P*CP*(KAG)P*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3') in PDB entry 4juz, assembly 1, side view.
DNA (5'-D(P*CP*(KAG)P*GP*AP*AP*TP*CP*CP*TP*TP*CP*CP*CP*CP*C)-3') in PDB entry 4juz, assembly 1, top view.
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DNA chain C
Name: DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*CP*C)-3')
Representative chains: C
Source organism: Saccharolobus solfataricus P2 [273057]
Expression system: Not provided
Length: 14 nucleotides
Theoretical weight: 4.39 KDa
DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*CP*C)-3') in PDB entry 4juz, assembly 1, front view.
DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*CP*C)-3') in PDB entry 4juz, assembly 1, side view.
DNA (5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*CP*C)-3') in PDB entry 4juz, assembly 1, top view.
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