8JYO

Structure of SARS-CoV-2 XBB.1.5 spike glycoprotein in complex with ACE2 (2-up state)

8JYO の概要

• エントリーDOI: 10.2210/pdb8jyo/pdb
• EMDBエントリー: 36728
• 分子名称: Spike glycoprotein, Processed angiotensin-converting enzyme 2, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, ... (6 entities in total)
• 機能のキーワード: spike protein, glycoprotein, virus, viral protein-protein binding complex, viral protein/protein binding
• 由来する生物種: Severe acute respiratory syndrome coronavirus 2 (2019-nCoV, SARS-CoV-2); 詳細
• タンパク質・核酸の鎖数: 5
• 化学式量合計: 571333.56

構造登録者

Yajima, H.,Anraku, Y.,Kita, S.,Kimura, K.,Sasaki, J.,Sasaki-Tabata, K.,Maenaka, K.,Hashiguchi, T. (登録日: 2023-07-03, 公開日: 2024-01-03, 最終更新日: 2025-01-15)

主引用文献

Tamura, T.,Irie, T.,Deguchi, S.,Yajima, H.,Tsuda, M.,Nasser, H.,Mizuma, K.,Plianchaisuk, A.,Suzuki, S.,Uriu, K.,Begum, M.M.,Shimizu, R.,Jonathan, M.,Suzuki, R.,Kondo, T.,Ito, H.,Kamiyama, A.,Yoshimatsu, K.,Shofa, M.,Hashimoto, R.,Anraku, Y.,Kimura, K.T.,Kita, S.,Sasaki, J.,Sasaki-Tabata, K.,Maenaka, K.,Nao, N.,Wang, L.,Oda, Y.,Ikeda, T.,Saito, A.,Matsuno, K.,Ito, J.,Tanaka, S.,Sato, K.,Hashiguchi, T.,Takayama, K.,Fukuhara, T.
Virological characteristics of the SARS-CoV-2 Omicron XBB.1.5 variant.
Nat Commun, 15:1176-1176, 2024

PubMed Abstract: Circulation of SARS-CoV-2 Omicron XBB has resulted in the emergence of XBB.1.5, a new Variant of Interest. Our phylogenetic analysis suggests that XBB.1.5 evolved from XBB.1 by acquiring the S486P spike (S) mutation, subsequent to the acquisition of a nonsense mutation in ORF8. Neutralization assays showed similar abilities of immune escape between XBB.1.5 and XBB.1. We determine the structural basis for the interaction between human ACE2 and the S protein of XBB.1.5, showing similar overall structures between the S proteins of XBB.1 and XBB.1.5. We provide the intrinsic pathogenicity of XBB.1 and XBB.1.5 in hamsters. Importantly, we find that the ORF8 nonsense mutation of XBB.1.5 resulted in impairment of MHC suppression. In vivo experiments using recombinant viruses reveal that the XBB.1.5 mutations are involved with reduced virulence of XBB.1.5. Together, our study identifies the two viral functions defined the difference between XBB.1 and XBB.1.5.

PubMed: 38332154
DOI: 10.1038/s41467-024-45274-3

実験手法

ELECTRON MICROSCOPY (3.2 Å)