5H12

Crystal structure of Deep Vent DNA Polymerase

5H12 の概要

• エントリーDOI: 10.2210/pdb5h12/pdb
• 分子名称: Deep Vent DNA Polymerase (2 entities in total)
• 機能のキーワード: dna polymerase, transferase
• 由来する生物種: Pyrococcus
• タンパク質・核酸の鎖数: 1
• 化学式量合計: 90715.93

構造登録者

Hikida, Y.,Kimoto, M.,Hirao, I.,Yokoyama, S. (登録日: 2016-10-07, 公開日: 2017-01-25, 最終更新日: 2024-11-06)

主引用文献

Hikida, Y.,Kimoto, M.,Hirao, I.,Yokoyama, S.
Crystal structure of Deep Vent DNA polymerase.
Biochem. Biophys. Res. Commun., 483:52-57, 2017

PubMed Abstract: DNA polymerases are useful tools in various biochemical experiments. We have focused on the DNA polymerases involved in DNA replication including the unnatural base pair between 7-(2-thienyl)imidazo[4,5-b]pyridine (Ds) and 2-nitro-4-propynylpyrrole (Px). Many reports have described the different combinations between unnatural base pairs and DNA polymerases. As an example, for the replication of the Ds-Px pair, Deep Vent DNA polymerase exhibits high efficiency and fidelity, but Taq DNA polymerase shows much lower efficiency and fidelity. In the present study, we determined the crystal structure of Deep Vent DNA polymerase in the apo form at 2.5 Å resolution. Using this structure, we constructed structural models of Deep Vent DNA polymerase complexes with DNA containing an unnatural or natural base in the replication position. The models revealed that the unnatural Ds base in the template-strand DNA clashes with the side-chain oxygen of Thr664 in Taq DNA polymerase, but not in Deep Vent DNA polymerase.

PubMed: 28063932
DOI: 10.1016/j.bbrc.2017.01.007

実験手法

X-RAY DIFFRACTION (2.502 Å)