› 6p5c

X-ray diffraction
2.2Å resolution

Bacillus Fragment DNA polymerase mutant I716M

Released:
DOI: 10.2210/pdb6p5c/pdb
PDB entry 6p5c coloured by chain, front view.
PDB entry 6p5c coloured by chain, side view.
PDB entry 6p5c coloured by chain, top view.
Source organisms:
Primary publication:
The importance of Ile716 toward the mutagenicity of 8-Oxo-2'-deoxyguanosine with Bacillus fragment DNA polymerase.
Hamm ML, Garcia AA, Gilbert R, Johri M, Ricart M, Sholes SL, Murray-Nerger LA, Wu EY
DNA Repair (Amst) 89 102826 (2020)
PMID: 32113909

Function and Biology Details

Reaction catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-112996 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
DNA polymerase I Chain: A
Molecule details ›
Chain: A
Length: 581 amino acids
Theoretical weight: 66.32 KDa
Source organism: Geobacillus stearothermophilus
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: D9N168 (Residues: 1-579; Coverage: 100%)
Gene names: DPO1, polA
Sequence domains: DNA polymerase family A
DNA (5'-D(*CP*GP*AP*TP*CP*AP*CP*GP*C)-3') Chain: B
Molecule details ›
Chain: B
Length: 9 nucleotides
Theoretical weight: 2.7 KDa
Source organism: synthetic construct
Expression system: Not provided
DNA (5'-D(P*GP*CP*GP*TP*GP*AP*TP*CP*G)-3') Chain: C
Molecule details ›
Chain: C
Length: 9 nucleotides
Theoretical weight: 2.77 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand SO4 4 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: RIGAKU MICROMAX-007 HF
Spacegroup: P212121
Unit cell:
a: 88.217Å b: 93.521Å c: 105.279Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.23 0.228 0.273
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

1 review citation

Bst polymerase - a humble relative of Taq polymerase.
Oscorbin et al. (2023)