2ZNV

Crystal structure of human AMSH-LP DUB domain in complex with Lys63-linked ubiquitin dimer

2ZNV の概要

• エントリーDOI: 10.2210/pdb2znv/pdb
• 関連するPDBエントリー: 2ZNR
• 分子名称: AMSH-like protease, Ubiquitin, ZINC ION, ... (6 entities in total)
• 機能のキーワード: protein complex, metal binding protein, alternative splicing, hydrolase, metal-binding, metalloprotease, protease, ubl conjugation pathway, zinc, cytoplasm, nucleus, phosphoprotein, hydrolase-signaling protein complex, hydrolase/signaling protein
• 由来する生物種: Homo sapiens (human); 詳細
• タンパク質・核酸の鎖数: 6
• 化学式量合計: 74743.01

構造登録者

Sato, Y.,Azusa, Y.,Yamagata, A.,Mimura, H.,Wang, X.,Yamashita, M.,Ookata, K.,Nureki, O.,Iwai, K.,Komada, M.,Fukai, S. (登録日: 2008-05-01, 公開日: 2008-09-02, 最終更新日: 2024-10-30)

主引用文献

Sato, Y.,Yoshikawa, A.,Yamagata, A.,Mimura, H.,Yamashita, M.,Ookata, K.,Nureki, O.,Iwai, K.,Komada, M.,Fukai, S.
Structural basis for specific cleavage of Lys 63-linked polyubiquitin chains
Nature, 455:358-362, 2008

PubMed Abstract: Deubiquitinating enzymes (DUBs) remove ubiquitin from conjugated substrates to regulate various cellular processes. The Zn(2+)-dependent DUBs AMSH and AMSH-LP regulate receptor trafficking by specifically cleaving Lys 63-linked polyubiquitin chains from internalized receptors. Here we report the crystal structures of the human AMSH-LP DUB domain alone and in complex with a Lys 63-linked di-ubiquitin at 1.2 A and 1.6 A resolutions, respectively. The AMSH-LP DUB domain consists of a Zn(2+)-coordinating catalytic core and two characteristic insertions, Ins-1 and Ins-2. The distal ubiquitin interacts with Ins-1 and the core, whereas the proximal ubiquitin interacts with Ins-2 and the core. The core and Ins-1 form a catalytic groove that accommodates the Lys 63 side chain of the proximal ubiquitin and the isopeptide-linked carboxy-terminal tail of the distal ubiquitin. This is the first reported structure of a DUB in complex with an isopeptide-linked ubiquitin chain, which reveals the mechanism for Lys 63-linkage-specific deubiquitination by AMSH family members.

PubMed: 18758443
DOI: 10.1038/nature07254

実験手法

X-RAY DIFFRACTION (1.6 Å)