3OGD

AlkA Undamaged DNA Complex: Interrogation of a G*:C base pair

3OGD の概要

• エントリーDOI: 10.2210/pdb3ogd/pdb
• 関連するPDBエントリー: 3OH6 3OH9
• 分子名称: DNA-3-methyladenine glycosylase 2, 5'-D(*GP*CP*AP*GP*TP*CP*AP*TP*G)-3', 5'-D(*CP*AP*(BRU)P*GP*AP*CP*(BRU)P*GP*C)-3' (3 entities in total)
• 機能のキーワード: helix-hairpin-helix, dna repair, alkylation, hydrolase-dna complex, hydrolase/dna
• 由来する生物種: Escherichia coli
• タンパク質・核酸の鎖数: 3
• 化学式量合計: 37736.33

構造登録者

Bowman, B.R.,Lee, S.,Wang, S.,Verdine, G.L. (登録日: 2010-08-16, 公開日: 2010-09-15, 最終更新日: 2023-09-06)

主引用文献

Bowman, B.R.,Lee, S.,Wang, S.,Verdine, G.L.
Structure of Escherichia coli AlkA in Complex with Undamaged DNA.
J.Biol.Chem., 285:35783-35791, 2010

PubMed Abstract: Because DNA damage is so rare, DNA glycosylases interact for the most part with undamaged DNA. Whereas the structural basis for recognition of DNA lesions by glycosylases has been studied extensively, less is known about the nature of the interaction between these proteins and undamaged DNA. Here we report the crystal structures of the DNA glycosylase AlkA in complex with undamaged DNA. The structures revealed a recognition mode in which the DNA is nearly straight, with no amino acid side chains inserted into the duplex, and the target base pair is fully intrahelical. A comparison of the present structures with that of AlkA recognizing an extrahelical lesion revealed conformational changes in both the DNA and protein as the glycosylase transitions from the interrogation of undamaged DNA to catalysis of nucleobase excision. Modeling studies with the cytotoxic lesion 3-methyladenine and accompanying biochemical experiments suggested that AlkA actively interrogates the minor groove of the DNA while probing for the presence of lesions.

PubMed: 20843803
DOI: 10.1074/jbc.M110.155663

実験手法

X-RAY DIFFRACTION (2.8 Å)