9LDK

The complex structure of Escherichia coli AdhE (compact conformation)

9LDK の概要

• エントリーDOI: 10.2210/pdb9ldk/pdb
• EMDBエントリー: 63003
• 分子名称: Bifunctional aldehyde-alcohol dehydrogenase AdhE (1 entity in total)
• 機能のキーワード: complex, enzyme, biosynthetic protein
• 由来する生物種: Escherichia coli K-12
• タンパク質・核酸の鎖数: 4
• 化学式量合計: 384976.47

構造登録者

Konno, N.,Miyake, K.,Nishino, S.,Omae, K.,Yanagisawa, H.,Tsuru, S.,Kikkawa, M.,Furusawa, C.,Iwasaki, W. (登録日: 2025-01-06, 公開日: 2025-10-01, 最終更新日: 2025-10-15)

主引用文献

Konno, N.,Miyake, K.,Nishino, S.,Omae, K.,Yanagisawa, H.,Tsuru, S.,Nishimura, Y.,Kikkawa, M.,Furusawa, C.,Iwasaki, W.
Repeatability of protein structural evolution following convergent gene fusions.
Nat Commun, 16:8278-8278, 2025

PubMed Abstract: Convergent evolution of proteins provides insights into repeatability of genetic adaptation. While local convergence of proteins at residue or domain level has been characterized, global structural convergence by inter-domain/molecular interactions remains largely unknown. Here we present structural convergent evolution on fusion enzymes of aldehyde dehydrogenases (ALDHs) and alcohol dehydrogenases (ADHs). We discover BdhE (bifunctional dehydrogenase E), an enzyme clade that emerged independently from the previously known AdhE family through distinct gene fusion events. AdhE and BdhE show shared enzymatic activities and non-overlapping phylogenetic distribution, suggesting common functions in different species. Cryo-electron microscopy reveals BdhEs form donut-like homotetramers, contrasting AdhE's helical homopolymers. Intriguingly, despite distinct quaternary structures and < 30% amino acid sequence identity, both enzymes forms resemble dimeric structure units by ALDH-ADH interactions via convergently elongated loop structures. These findings suggest convergent gene fusions recurrently led to substrate channeling evolution to enhance two-step reaction efficiency. Our study unveils structural convergence at inter-domain/molecular level, expanding our knowledges on patterns behind molecular evolution exploring protein structural universe.

PubMed: 40983608
DOI: 10.1038/s41467-025-63898-x

実験手法

ELECTRON MICROSCOPY (2.79 Å)