7N8H image
Entry Detail
PDB ID:
7N8H
EMDB ID:
Title:
SARS-CoV-2 S (B.1.429 / epsilon variant) + S2M11 + S2L20 Global Refinement
Biological Source:
PDB Version:
Deposition Date:
2021-06-14
Release Date:
2021-07-14
Method Details:
Experimental Method:
Resolution:
2.30 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Spike glycoprotein
Chain IDs:A, F, K
Chain Length:1277
Number of Molecules:3
Biological Source:Severe acute respiratory syndrome coronavirus 2
Polymer Type:polypeptide(L)
Description:S2L20 Fab Light Chain variable region
Chain IDs:D (auth: B), I, N
Chain Length:106
Number of Molecules:3
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:S2L20 Fab Heavy Chain variable region
Chain IDs:E (auth: C), J, O
Chain Length:121
Number of Molecules:3
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:S2M11 Fab Light Chain variable region
Chain IDs:B (auth: D), G, L
Chain Length:104
Number of Molecules:3
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Description:S2M11 Fab Heavy Chain variable region
Chain IDs:C (auth: E), H, M
Chain Length:122
Number of Molecules:3
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation

Abstact

A novel variant of concern (VOC) named CAL.20C (B.1.427/B.1.429), which was originally detected in California, carries spike glycoprotein mutations S13I in the signal peptide, W152C in the N-terminal domain (NTD), and L452R in the receptor-binding domain (RBD). Plasma from individuals vaccinated with a Wuhan-1 isolate-based messenger RNA vaccine or from convalescent individuals exhibited neutralizing titers that were reduced 2- to 3.5-fold against the B.1.427/B.1.429 variant relative to wild-type pseudoviruses. The L452R mutation reduced neutralizing activity in 14 of 34 RBD-specific monoclonal antibodies (mAbs). The S13I and W152C mutations resulted in total loss of neutralization for 10 of 10 NTD-specific mAbs because the NTD antigenic supersite was remodeled by a shift of the signal peptide cleavage site and the formation of a new disulfide bond, as revealed by mass spectrometry and structural studies.

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Protein

Chemical

Disease

Primary Citation of related structures