› 6vfb

X-ray diffraction
1.55Å resolution

DNA Polymerase Mu, 8-oxorGTP:Ct Reaction State Ternary Complex, 50 mM Mn2+ (960 min)

Released:
DOI: 10.2210/pdb6vfb/pdb
PDB entry 6vfb coloured by chain, front view.
PDB entry 6vfb coloured by chain, side view.
PDB entry 6vfb coloured by chain, top view.
Source organisms:
Entry authors: Jamsen JA, Wilson SH

Function and Biology Details

Reaction catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-120768 (preferred)
Entry contents:
1 distinct polypeptide molecule
3 distinct DNA molecules
Macromolecules (4 distinct):
DNA-directed DNA/RNA polymerase mu Chain: A
Molecule details ›
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
Sequence domains:
DNA (5'-D(*CP*GP*GP*CP*CP*TP*AP*CP*G)-3') Chain: T
Molecule details ›
Chain: T
Length: 9 nucleotides
Theoretical weight: 2.72 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(*CP*GP*TP*AP*(8GM))-3') Chain: P
Molecule details ›
Chain: P
Length: 5 nucleotides
Theoretical weight: 1.55 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(P*GP*CP*CP*G)-3') Chain: D
Molecule details ›
Chain: D
Length: 4 nucleotides
Theoretical weight: 1.19 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

7 bound ligands:
Ligand EDO 4 x EDO
Ligand MN 7 x MN
Ligand NA 1 x NA
Ligand EPE 1 x EPE
Ligand 8GT 1 x 8GT
Ligand DTT 1 x DTT
Ligand PPV 1 x PPV
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 22-ID
Spacegroup: P212121
Unit cell:
a: 60.198Å b: 62.334Å c: 118.756Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.168 0.167 0.182
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

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