› 4o0i

X-ray diffraction
2.2Å resolution

Crystal structure of fragment DNA polymerase I from Bacillus stearothermophilus with 2'-MeSe-arabino-guanosine derivatized DNA

Released:
DOI: 10.2210/pdb4o0i/pdb
PDB entry 4o0i coloured by chain, front view.
PDB entry 4o0i coloured by chain, side view.
PDB entry 4o0i coloured by chain, top view.
Source organism: Geobacillus stearothermophilus
Entry authors: Jiang S, Gan J, Sun H, Huang Z

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-112995 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
Macromolecules (2 distinct):
DNA polymerase I Chain: A
Molecule details ›
Chain: A
Length: 580 amino acids
Theoretical weight: 66.19 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
Structure domains:
5'-D(*C*(1TW)P*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3' Chains: B, C
Molecule details ›
Chains: B, C
Length: 12 nucleotides
Theoretical weight: 3.76 KDa
Source organism: Geobacillus stearothermophilus
Expression system: Not provided

Ligands and Environments

3 bound ligands:
Ligand SO4 6 x SO4
Ligand GOL 1 x GOL
Ligand NA 2 x NA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 8.2.2
Spacegroup: P212121
Unit cell:
a: 86.77Å b: 93.967Å c: 106.041Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.179 0.176 0.228
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

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