Solution structure of the N‐terminal domain of the archaeal D‐family DNA polymerase small subunit reveals evolutionary relationship to eukaryotic B‐family polymerases

@article{Yamasaki2010SolutionSO,
  title={Solution structure of the N‐terminal domain of the archaeal D‐family DNA polymerase small subunit reveals evolutionary relationship to eukaryotic B‐family polymerases},
  author={Kazuhiko Yamasaki and Yuji Urushibata and Tomoko Yamasaki and Fumio Arisaka and Ikuo Matsui},
  journal={FEBS Letters},
  year={2010},
  volume={584}
}
Archaea‐specific D‐family DNA polymerase forms a heterotetramer consisting of two large polymerase subunits and two small exonuclease subunits. We analyzed the structure of the N‐terminal 200 amino‐acid regulatory region of the small subunit by NMR and revealed that the N‐terminal ∼70 amino‐acid region is folded. The structure consists of a four‐α‐helix bundle including a short parallel β‐sheet, which is similar to the N‐terminal regions of the B subunits of human DNA polymerases α and… 
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TLDR
A method is established that prepared highly purified PolD from Thermococcus kodakarensis, and purified DP1 and DP2 proteins formed a stable complex in solution, and an intrinsically disordered region was identified in the N-terminal region of DP1, but the static light scattering analysis provided a reasonable molecular weight ofDP1.
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TLDR
The biochemical characterization of a heterodimeric polD from Thermococcus was reported and the polD incorporation fidelity was determined for the first time, suggesting that polD may be the primary replicative DNA polymerase for both leading and lagging strand synthesis.
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TLDR
It is proposed that Pol D is able to interact with uracil by looping out the single-stranded template, allowing simultaneous contact of both the base and the primer-template junction to give a polymerase-DNA complex with diminished extension ability.
An updated structural classification of replicative DNA polymerases.
TLDR
This review aims to provide an updated structural classification of all replicative DNAPs and discuss their evolutionary relationships, both regarding the DNA polymerase and proofreading active sites of PolD.
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