8TC5

Cryo-EM Structure of Spike Glycoprotein from Civet Coronavirus SZ3 in Closed Conformation

8TC5 の概要

• エントリーDOI: 10.2210/pdb8tc5/pdb
• EMDBエントリー: 41152
• 分子名称: Spike glycoprotein, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, ... (9 entities in total)
• 機能のキーワード: spike, glycoprotein, coronavirus, viral protein
• 由来する生物種: Civet SARS CoV SZ3/2003
• タンパク質・核酸の鎖数: 3
• 化学式量合計: 395094.59

構造登録者

Bostina, M.,Hills, F.R.,Eruera, A. (登録日: 2023-06-29, 公開日: 2024-05-15, 最終更新日: 2024-11-13)

主引用文献

Hills, F.R.,Eruera, A.R.,Hodgkinson-Bean, J.,Jorge, F.,Easingwood, R.,Brown, S.H.J.,Bouwer, J.C.,Li, Y.P.,Burga, L.N.,Bostina, M.
Variation in structural motifs within SARS-related coronavirus spike proteins.
Plos Pathog., 20:e1012158-e1012158, 2024

PubMed Abstract: SARS-CoV-2 is the third known coronavirus (CoV) that has crossed the animal-human barrier in the last two decades. However, little structural information exists related to the close genetic species within the SARS-related coronaviruses. Here, we present three novel SARS-related CoV spike protein structures solved by single particle cryo-electron microscopy analysis derived from bat (bat SL-CoV WIV1) and civet (cCoV-SZ3, cCoV-007) hosts. We report complex glycan trees that decorate the glycoproteins and density for water molecules which facilitated modeling of the water molecule coordination networks within structurally important regions. We note structural conservation of the fatty acid binding pocket and presence of a linoleic acid molecule which are associated with stabilization of the receptor binding domains in the "down" conformation. Additionally, the N-terminal biliverdin binding pocket is occupied by a density in all the structures. Finally, we analyzed structural differences in a loop of the receptor binding motif between coronaviruses known to infect humans and the animal coronaviruses described in this study, which regulate binding to the human angiotensin converting enzyme 2 receptor. This study offers a structural framework to evaluate the close relatives of SARS-CoV-2, the ability to inform pandemic prevention, and aid in the development of pan-neutralizing treatments.

PubMed: 38805567
DOI: 10.1371/journal.ppat.1012158

実験手法

ELECTRON MICROSCOPY (2.11 Å)