› 5w6q

X-ray diffraction
2.66Å resolution

Structural basis for recognition of artificial DNA by an evolved KlenTaq variant

Released:
DOI: 10.2210/pdb5w6q/pdb
PDB entry 5w6q coloured by chain, front view.
PDB entry 5w6q coloured by chain, side view.
PDB entry 5w6q coloured by chain, top view.
Source organisms:
Primary publication:
Snapshots of an evolved DNA polymerase pre- and post-incorporation of an unnatural nucleotide.
Singh I, Laos R, Hoshika S, Benner SA, Georgiadis MM
Nucleic Acids Res 46 7977-7988 (2018)
PMID: 29986111

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-119333 (preferred)
Entry contents:
1 distinct polypeptide molecule
2 distinct DNA molecules
Macromolecules (3 distinct):
DNA polymerase I, thermostable Chains: A, C, G
Molecule details ›
Chains: A, C, G
Length: 540 amino acids
Theoretical weight: 60.86 KDa
Source organism: Thermus aquaticus
Expression system: Escherichia coli
UniProt:
  • Canonical: P19821 (Residues: 293-832; Coverage: 65%)
Gene names: pol1, polA
Sequence domains:
Structure domains:
DNA (5'-D(*GP*AP*CP*CP*AP*CP*GP*GP*CP*GP*CP*(1W5))-3') Chains: B, E, H
Molecule details ›
Chains: B, E, H
Length: 12 nucleotides
Theoretical weight: 3.68 KDa
Source organism: Escherichia coli
Expression system: Not provided
DNA (5'-D(P*GP*(1WA)P*GP*CP*GP*CP*CP*GP*TP*GP*GP*TP*C)-3') Chains: D, F, I
Molecule details ›
Chains: D, F, I
Length: 13 nucleotides
Theoretical weight: 4.03 KDa
Source organism: Escherichia coli
Expression system: Not provided

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 31-ID
Spacegroup: C2
Unit cell:
a: 199.282Å b: 114.611Å c: 90.516Å
α: 90° β: 91.88° γ: 90°
R-values:
R R work R free
0.213 0.211 0.247
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

2 review citations

Modified nucleic acids: replication, evolution, and next-generation therapeutics.
Duffy et al. (2020)
1 more

3 mentions without citation

Building better polymerases: Engineering the replication of expanded genetic alphabets.
Ouaray et al. (2020)
2 more