6MGQ

ERAP1 in the open conformation bound to 10mer phosphinic inhibitor DG014

6MGQ の概要

• エントリーDOI: 10.2210/pdb6mgq/pdb
• 関連するBIRD辞書のPRD_ID: PRD_002326
• 分子名称: Endoplasmic reticulum aminopeptidase 1, Phosphinic inhibitor DG014, alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ... (8 entities in total)
• 機能のキーワード: inhibitor, aminopeptidase, immune system, hydrolase, hydrolase-inhibitor complex, hydrolase/inhibitor
• 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: 332958.36

構造登録者

Stern, L.J.,Maben, Z. (登録日: 2018-09-14, 公開日: 2019-12-18, 最終更新日: 2023-10-11)

主引用文献

Maben, Z.,Arya, R.,Georgiadis, D.,Stratikos, E.,Stern, L.J.
Conformational dynamics linked to domain closure and substrate binding explain the ERAP1 allosteric regulation mechanism.
Nat Commun, 12:5302-5302, 2021

PubMed Abstract: The endoplasmic-reticulum aminopeptidase ERAP1 processes antigenic peptides for loading on MHC-I proteins and recognition by CD8 T cells as they survey the body for infection and malignancy. Crystal structures have revealed ERAP1 in either open or closed conformations, but whether these occur in solution and are involved in catalysis is not clear. Here, we assess ERAP1 conformational states in solution in the presence of substrates, allosteric activators, and inhibitors by small-angle X-ray scattering. We also characterize changes in protein conformation by X-ray crystallography, and we localize alternate C-terminal binding sites by chemical crosslinking. Structural and enzymatic data suggest that the structural reconfigurations of ERAP1 active site are physically linked to domain closure and are promoted by binding of long peptide substrates. These results clarify steps required for ERAP1 catalysis, demonstrate the importance of conformational dynamics within the catalytic cycle, and provide a mechanism for the observed allosteric regulation and Lys/Arg528 polymorphism disease association.

PubMed: 34489420
DOI: 10.1038/s41467-021-25564-w

実験手法

X-RAY DIFFRACTION (2.92 Å)