5GKH

Structure of EndoMS-dsDNA2 complex

5GKH の概要

• エントリーDOI: 10.2210/pdb5gkh/pdb
• 関連するPDBエントリー: 5GKE 5GKF 5GKG 5GKI 5GKJ
• 分子名称: Endonuclease EndoMS, DNA (5'-D(*CP*GP*TP*GP*CP*CP*AP*GP*GP*TP*GP*CP*CP*GP*T)-3'), DNA (5'-D(*AP*CP*GP*GP*CP*AP*CP*TP*TP*GP*GP*CP*AP*CP*G)-3'), ... (6 entities in total)
• 機能のキーワード: endonuclease, dna-complex, hydrolase-dna complex, hydrolase/dna
• 由来する生物種: Thermococcus kodakarensis KOD1; 詳細
• タンパク質・核酸の鎖数: 4
• 化学式量合計: 67032.63

構造登録者

Nakae, S.,Hijikata, A.,Tsuji, T.,Yonezawa, K.,Kouyama, K.,Mayanagi, K.,Ishino, S.,Ishino, Y.,Shirai, T. (登録日: 2016-07-04, 公開日: 2016-11-02, 最終更新日: 2023-11-08)

主引用文献

Nakae, S.,Hijikata, A.,Tsuji, T.,Yonezawa, K.,Kouyama, K.I.,Mayanagi, K.,Ishino, S.,Ishino, Y.,Shirai, T.
Structure of the EndoMS-DNA Complex as Mismatch Restriction Endonuclease
Structure, 24:1960-1971, 2016

PubMed Abstract: Archaeal NucS nuclease was thought to degrade the single-stranded region of branched DNA, which contains flapped and splayed DNA. However, recent findings indicated that EndoMS, the orthologous enzyme of NucS, specifically cleaves double-stranded DNA (dsDNA) containing mismatched bases. In this study, we determined the structure of the EndoMS-DNA complex. The complex structure of the EndoMS dimer with dsDNA unexpectedly revealed that the mismatched bases were flipped out into binding sites, and the overall architecture most resembled that of restriction enzymes. The structure of the apo form was similar to the reported structure of Pyrococcus abyssi NucS, indicating that movement of the C-terminal domain from the resting state was required for activity. In addition, a model of the EndoMS-PCNA-DNA complex was preliminarily verified with electron microscopy. The structures strongly support the idea that EndoMS acts in a mismatch repair pathway.

PubMed: 27773688
DOI: 10.1016/j.str.2016.09.005

実験手法

X-RAY DIFFRACTION (2.9 Å)