ISDA: 7TB8

Deposition Date 2021-12-21

Release Date 2022-03-30

Last Version Date 2024-11-13

Entry Detail

PDB ID:

7TB8

Keywords:

VIRAL PROTEIN/Immune System

Title:

Cryo-EM structure of SARS-CoV-2 spike in complex with antibodies B1-182.1 and A19-61.1

Biological Source:

Source Organism:

Severe acute respiratory syndrome coronavirus 2 (Taxon ID: 2697049)
Homo sapiens (Taxon ID: 9606)

Host Organism:

Homo sapiens

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

2.83 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

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Macromolecular Entities

Structures with similar UniProt ID

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Spike glycoprotein
Gene (Uniprot):S
Chain IDs:A, B, C
Chain Length:1195
Number of Molecules:3
Biological Source:Severe acute respiratory syndrome coronavirus 2

UniProt ID:P0DTC2 Pfam ID:PF16451, PF09408, PF19209, PF01601

Polymer Type:polypeptide(L)
Molecule:The heavy chain of SARS-CoV-2 antibody A19-61.1
Chain IDs:D, F, J
Chain Length:127
Number of Molecules:3
Biological Source:Homo sapiens

Polymer Type:polypeptide(L)
Molecule:The light chain of SARS-COV-2 antibody A19-61.1
Chain IDs:E, G, K
Chain Length:107
Number of Molecules:3
Biological Source:Homo sapiens

Polymer Type:polypeptide(L)
Molecule:The heavy chain of SARS-CoV-2 antiboddy antibody B1-182.1
Chain IDs:H
Chain Length:123
Number of Molecules:1
Biological Source:Homo sapiens

Polymer Type:polypeptide(L)
Molecule:The light chain of SARS-COV-2 antibody B1-182.1
Chain IDs:I (auth: L)
Chain Length:108
Number of Molecules:1
Biological Source:Homo sapiens

Ligand Molecules

NAG

Primary Citation

Structural basis for potent antibody neutralization of SARS-CoV-2 variants including B.1.1.529.

Zhou, T, Wang, L, Misasi, J, Pegu, A, Zhang, Y, Harris, D.R, Olia, A.S, Talana, C.A, Yang, E.S, Chen, M, Choe, M, Shi, W, Teng, I.T, Creanga, A, Jenkins, C, Leung, K, Liu, T, Stancofski, E.D, Stephens, T, Zhang, B, Tsybovsky, Y, Graham, B.S, Mascola, J.R, Sullivan, N.J, Kwong, P.D.Show

Science 376 eabn8897 eabn8897 (2022)

PMID: 35324257 DOI: 10.1126/science.abn8897

Abstact

The rapid spread of the severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) B.1.1.529 (Omicron) variant and its resistance to neutralization by vaccinee and convalescent sera are driving a search for monoclonal antibodies with potent neutralization. To provide insight into effective neutralization, we determined cryo-electron microscopy structures and evaluated receptor binding domain (RBD) antibodies for their ability to bind and neutralize B.1.1.529. Mutations altered 16% of the B.1.1.529 RBD surface, clustered on an RBD ridge overlapping the angiotensin-converting enzyme 2 (ACE2)-binding surface and reduced binding of most antibodies. Substantial inhibitory activity was retained by select monoclonal antibodies-including A23-58.1, B1-182.1, COV2-2196, S2E12, A19-46.1, S309, and LY-CoV1404-that accommodated these changes and neutralized B.1.1.529. We identified combinations of antibodies with synergistic neutralization. The analysis revealed structural mechanisms for maintenance of potent neutralization against emerging variants.

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