7OMB

Crystal structure of KOD DNA Polymerase in a ternary complex with a p/t duplex containing an extended 5' single stranded template overhang

7OMB の概要

• エントリーDOI: 10.2210/pdb7omb/pdb
• 関連するPDBエントリー: 7OM3
• 分子名称: DNA polymerase, Template, Primer, ... (8 entities in total)
• 機能のキーワード: ternary complex, dna polymerase, replication
• 由来する生物種: Thermococcus kodakarensis KOD1; 詳細
• タンパク質・核酸の鎖数: 3
• 化学式量合計: 101201.89

構造登録者

Betz, K.,Kropp, H.M.,Diederichs, K.,Marx, A. (登録日: 2021-05-21, 公開日: 2021-10-13, 最終更新日: 2024-11-20)

主引用文献

Kropp, H.M.,Ludmann, S.,Diederichs, K.,Betz, K.,Marx, A.
Structural Basis for The Recognition of Deaminated Nucleobases by An Archaeal DNA Polymerase.
Chembiochem, 22:3060-3066, 2021

PubMed Abstract: With increasing temperature, nucleobases in DNA become increasingly damaged by hydrolysis of exocyclic amines. The most prominent damage includes the conversion of cytosine to uracil and adenine to hypoxanthine. These damages are mutagenic and put the integrity of the genome at risk if not repaired appropriately. Several archaea live at elevated temperatures and thus, are exposed to a higher risk of deamination. Earlier studies have shown that DNA polymerases of archaea have the property of sensing deaminated nucleobases in the DNA template and thereby stalling the DNA synthesis during DNA replication providing another layer of DNA damage recognition and repair. However, the structural basis of uracil and hypoxanthine sensing by archaeal B-family DNA polymerases is sparse. Here we report on three new crystal structures of the archaeal B-family DNA polymerase from Thermococcus kodakarensis (KOD) DNA polymerase in complex with primer and template strands that have extended single stranded DNA template 5'-overhangs. These overhangs contain either the canonical nucleobases as well as uracil or hypoxanthine, respectively, and provide unprecedented structural insights into their recognition by archaeal B-family DNA polymerases.

PubMed: 34486208
DOI: 10.1002/cbic.202100306

実験手法

X-RAY DIFFRACTION (2.01 Å)