7X2K

Crystal structure of nanobody Nb70 with antibody 1F11 fab and SARS-CoV-2 RBD

7X2K の概要

• エントリーDOI: 10.2210/pdb7x2k/pdb
• 分子名称: Spike protein S1, 1F11-H, 1F11-L, ... (6 entities in total)
• 機能のキーワード: sars-cov-2, nanobody, spike, receptor binding domain, viral protein-immune system complex, viral protein/immune system
• 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: 4
• 化学式量合計: 82195.44

構造登録者

Wang, X.Q.,Zhang, L.Q.,Ren, Y.F.,Li, M.X. (登録日: 2022-02-25, 公開日: 2022-12-21, 最終更新日: 2024-10-30)

主引用文献

Li, M.,Ren, Y.,Aw, Z.Q.,Chen, B.,Yang, Z.,Lei, Y.,Cheng, L.,Liang, Q.,Hong, J.,Yang, Y.,Chen, J.,Wong, Y.H.,Wei, J.,Shan, S.,Zhang, S.,Ge, J.,Wang, R.,Dong, J.Z.,Chen, Y.,Shi, X.,Zhang, Q.,Zhang, Z.,Chu, J.J.H.,Wang, X.,Zhang, L.
Broadly neutralizing and protective nanobodies against SARS-CoV-2 Omicron subvariants BA.1, BA.2, and BA.4/5 and diverse sarbecoviruses.
Nat Commun, 13:7957-7957, 2022

PubMed Abstract: As SARS-CoV-2 Omicron and other variants of concern (VOCs) continue spreading worldwide, development of antibodies and vaccines to confer broad and protective activity is a global priority. Here, we report on the identification of a special group of nanobodies from immunized alpaca with potency against diverse VOCs including Omicron subvariants BA.1, BA.2 and BA.4/5, SARS-CoV-1, and major sarbecoviruses. Crystal structure analysis of one representative nanobody, 3-2A2-4, discovers a highly conserved epitope located between the cryptic and the outer face of the receptor binding domain (RBD), distinctive from the receptor ACE2 binding site. Cryo-EM and biochemical evaluation reveal that 3-2A2-4 interferes structural alteration of RBD required for ACE2 binding. Passive delivery of 3-2A2-4 protects K18-hACE2 mice from infection of authentic SARS-CoV-2 Delta and Omicron. Identification of these unique nanobodies will inform the development of next generation antibody therapies and design of pan-sarbecovirus vaccines.

PubMed: 36575191
DOI: 10.1038/s41467-022-35642-2

実験手法

X-RAY DIFFRACTION (2.4 Å)