8F5I

SARS-CoV-2 S2 helix epitope scaffold bound by antibody DH1057.1

Summary for 8F5I

• Entry DOI: 10.2210/pdb8f5i/pdb
• Descriptor: Specialized acyl carrier protein, DH1057.1 HC, DH1057.1 LC, ... (6 entities in total)
• Functional Keywords: epitope scaffold, s2 helix, dh1057.1, fab, spike, immune system
• Biological source: Rhodopseudomonas palustris; More
• Total number of polymer chains: 6
• Total formula weight: 119809.40

Authors

Kapingidza, A.B.,Wrapp, D.,Winters, K.,Azoitei, M.L. (deposition date: 2022-11-14, release date: 2023-10-11, Last modification date: 2024-10-16)

Primary citation

Kapingidza, A.B.,Marston, D.J.,Harris, C.,Wrapp, D.,Winters, K.,Mielke, D.,Xiaozhi, L.,Yin, Q.,Foulger, A.,Parks, R.,Barr, M.,Newman, A.,Schafer, A.,Eaton, A.,Flores, J.M.,Harner, A.,Catanzaro Jr., N.J.,Mallory, M.L.,Mattocks, M.D.,Beverly, C.,Rhodes, B.,Mansouri, K.,Van Itallie, E.,Vure, P.,Dunn, B.,Keyes, T.,Stanfield-Oakley, S.,Woods, C.W.,Petzold, E.A.,Walter, E.B.,Wiehe, K.,Edwards, R.J.,Montefiori, D.C.,Ferrari, G.,Baric, R.,Cain, D.W.,Saunders, K.O.,Haynes, B.F.,Azoitei, M.L.
Engineered immunogens to elicit antibodies against conserved coronavirus epitopes.
Nat Commun, 14:7897-7897, 2023

PubMed Abstract: Immune responses to SARS-CoV-2 primarily target the receptor binding domain of the spike protein, which continually mutates to escape acquired immunity. Other regions in the spike S2 subunit, such as the stem helix and the segment encompassing residues 815-823 adjacent to the fusion peptide, are highly conserved across sarbecoviruses and are recognized by broadly reactive antibodies, providing hope that vaccines targeting these epitopes could offer protection against both current and emergent viruses. Here we employ computational modeling to design scaffolded immunogens that display the spike 815-823 peptide and the stem helix epitopes without the distracting and immunodominant receptor binding domain. These engineered proteins bind with high affinity and specificity to the mature and germline versions of previously identified broadly protective human antibodies. Epitope scaffolds interact with both sera and isolated monoclonal antibodies with broadly reactivity from individuals with pre-existing SARS-CoV-2 immunity. When used as immunogens, epitope scaffolds elicit sera with broad betacoronavirus reactivity and protect as "boosts" against live virus challenge in mice, illustrating their potential as components of a future pancoronavirus vaccine.

PubMed: 38036525
DOI: 10.1038/s41467-023-43638-9

Experimental method

X-RAY DIFFRACTION (1.9 Å)