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DNA Polymerase Mu, 8-oxorGTP:At Reaction State Ternary Complex, 50 mM Mg2+ (30 min)

X-ray diffraction
1.58Å resolution
PDB entry 6vf0 coloured by chain, front view.
PDB entry 6vf0 coloured by chain, side view.
PDB entry 6vf0 coloured by chain, top view.
Source organisms:
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-directed DNA/RNA polymerase mu and DNA
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Multimeric state: hetero tetramer
Accessible surface area: 15731.41 Å2
Buried surface area: 7169.9 Å2
Dissociation area: 1,328.73 Å2
Dissociation energy (ΔGdiss): 6.36 kcal/mol
Dissociation entropy (TΔSdiss): 9.78 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-120757

Macromolecules

DNA-directed DNA/RNA polymerase mu
Chain: A
Length: 356 amino acids
Theoretical weight: 40.05 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: Q9NP87 (Residues: 132-494; Coverage: 71%)
Gene names: POLM, polmu
Pfam:
InterPro:
DNA-directed DNA/RNA polymerase mu in PDB entry 6vf0, assembly 1, front view.
DNA-directed DNA/RNA polymerase mu in PDB entry 6vf0, assembly 1, side view.
DNA-directed DNA/RNA polymerase mu in PDB entry 6vf0, assembly 1, top view.
PDBe-KB: UniProt Coverage View: Q9NP87  
135650100150200250300350
 
100200300
UniProt
Q9NP87
Chains
Domains
Secondary structure
Ligand binding sites
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DNA chain T
Name: DNA (5'-D(*CP*GP*GP*CP*AP*TP*AP*CP*G)-3')
Representative chains: T
Source organism: synthetic construct [32630]
Expression system: Not provided
Length: 9 nucleotides
Theoretical weight: 2.74 KDa
DNA (5'-D(*CP*GP*GP*CP*AP*TP*AP*CP*G)-3') in PDB entry 6vf0, assembly 1, front view.
DNA (5'-D(*CP*GP*GP*CP*AP*TP*AP*CP*G)-3') in PDB entry 6vf0, assembly 1, side view.
DNA (5'-D(*CP*GP*GP*CP*AP*TP*AP*CP*G)-3') in PDB entry 6vf0, assembly 1, top view.
19123456789
 
246810CGGCATACG
Chains
Chain B (auth T)
Ligand binding sites
Interaction interfaces
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DNA chain P
Name: DNA (5'-D(*CP*GP*TP*AP*(8GM))-3')
Representative chains: P
Source organism: synthetic construct [32630]
Expression system: Not provided
Length: 5 nucleotides
Theoretical weight: 1.55 KDa
DNA (5'-D(*CP*GP*TP*AP*(8GM))-3') in PDB entry 6vf0, assembly 1, front view.
DNA (5'-D(*CP*GP*TP*AP*(8GM))-3') in PDB entry 6vf0, assembly 1, side view.
DNA (5'-D(*CP*GP*TP*AP*(8GM))-3') in PDB entry 6vf0, assembly 1, top view.
151.01.52.02.53.03.54.04.55.0
 
246CGTA*
Chains
Chain C (auth P)
Ligand binding sites
Interaction interfaces
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DNA chain D
Name: DNA (5'-D(P*GP*CP*CP*G)-3')
Representative chains: D
Source organism: synthetic construct [32630]
Expression system: Not provided
Length: 4 nucleotides
Theoretical weight: 1.19 KDa
DNA (5'-D(P*GP*CP*CP*G)-3') in PDB entry 6vf0, assembly 1, front view.
DNA (5'-D(P*GP*CP*CP*G)-3') in PDB entry 6vf0, assembly 1, side view.
DNA (5'-D(P*GP*CP*CP*G)-3') in PDB entry 6vf0, assembly 1, top view.
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