8R1C

SD1-2 Fab in complex with SARS-CoV-2 BA.2.12.1 Spike Glycoprotein

8R1C の概要

• エントリーDOI: 10.2210/pdb8r1c/pdb
• 関連するPDBエントリー: 8CIN
• EMDBエントリー: 18807
• 分子名称: Spike glycoprotein,Fibritin, SD1-2 fab heavy chain, SD1-2 fab light chain, ... (4 entities in total)
• 機能のキーワード: sars-cov-2, spike, glycoprotein, coronavirus, antibody, fab, sd1 domain, therapeutic, complex, neutralisingm convalescent sera, viral protein, immune system, sd1-2, ba.2.12.1, omicron variant, virus, ba.2.86
• 由来する生物種: Severe acute respiratory syndrome coronavirus 2; 詳細
• タンパク質・核酸の鎖数: 9
• 化学式量合計: 509054.14

構造登録者

Duyvesteyn, H.M.E.,Ren, J.,Stuart, D.I. (登録日: 2023-11-01, 公開日: 2024-03-13, 最終更新日: 2024-11-06)

主引用文献

Zhou, D.,Supasa, P.,Liu, C.,Dijokaite-Guraliuc, A.,Duyvesteyn, H.M.E.,Selvaraj, M.,Mentzer, A.J.,Das, R.,Dejnirattisai, W.,Temperton, N.,Klenerman, P.,Dunachie, S.J.,Fry, E.E.,Mongkolsapaya, J.,Ren, J.,Stuart, D.I.,Screaton, G.R.
The SARS-CoV-2 neutralizing antibody response to SD1 and its evasion by BA.2.86.
Nat Commun, 15:2734-2734, 2024

PubMed Abstract: Under pressure from neutralising antibodies induced by vaccination or infection the SARS-CoV-2 spike gene has become a hotspot for evolutionary change, leading to the failure of all mAbs developed for clinical use. Most potent antibodies bind to the receptor binding domain which has become heavily mutated. Here we study responses to a conserved epitope in sub-domain-1 (SD1) of spike which have become more prominent because of mutational escape from antibodies directed to the receptor binding domain. Some SD1 reactive mAbs show potent and broad neutralization of SARS-CoV-2 variants. We structurally map the dominant SD1 epitope and provide a mechanism of action by blocking interaction with ACE2. Mutations in SD1 have not been sustained to date, but one, E554K, leads to escape from mAbs. This mutation has now emerged in several sublineages including BA.2.86, reflecting selection pressure on the virus exerted by the increasing prominence of the anti-SD1 response.

PubMed: 38548763
DOI: 10.1038/s41467-024-46982-6

実験手法

ELECTRON MICROSCOPY (2.2 Å)