› 3tan

X-ray diffraction
1.53Å resolution

Crystal Structure of Bacillus DNA Polymerase I Large Fragment Bound to Duplex DNA with Cytosine-Adenine Mismatch at (n-1) Position

Released:
DOI: 10.2210/pdb3tan/pdb
PDB entry 3tan coloured by chain, front view.
PDB entry 3tan coloured by chain, side view.
PDB entry 3tan coloured by chain, top view.
Source organism: Geobacillus
Primary publication:
Structural evidence for the rare tautomer hypothesis of spontaneous mutagenesis.
Wang W, Hellinga HW, Beese LS
Proc Natl Acad Sci U S A 108 17644-8 (2011)
PMID: 22006298

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
PDBe Complex ID:
PDB-CPX-116925 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (4 distinct):
DNA polymerase I Chain: A
Molecule details ›
Chain: A
Length: 592 amino acids
Theoretical weight: 67.52 KDa
Source organism: Geobacillus
Expression system: Escherichia coli BL21(DE3)
Structure domains:
5'-D(*GP*CP*GP*AP*TP*CP*AP*CP*GP*C)-3' Chain: B
Molecule details ›
Chain: B
Length: 10 nucleotides
Theoretical weight: 3.03 KDa
Source organism: Geobacillus
Expression system: Not provided
5'-D(*GP*AP*CP*GP*T*AP*CP*GP*TP*GP*AP*TP*CP*GP*CP*A)-3' Chain: C
Molecule details ›
Chain: C
Length: 16 nucleotides
Theoretical weight: 4.92 KDa
Source organism: Geobacillus
Expression system: Not provided

Ligands and Environments

Carbohydrate polymer : NEW Components: GLC, FRU
Carbohydrate polymer
2 bound ligands:
Ligand SO4 4 x SO4
Ligand DCP 1 x DCP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ALS BEAMLINE 12.3.1
Spacegroup: P212121
Unit cell:
a: 87.43Å b: 93.01Å c: 105.33Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.17 0.17 0.184
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

14 review citations

RNA Structural Dynamics As Captured by Molecular Simulations: A Comprehensive Overview.
Šponer et al. (2018)
13 more

6 mentions without citation

Structural evidence for the rare tautomer hypothesis of spontaneous mutagenesis.
Wang et al. (2011)
5 more