ISDA: 9YTC

Deposition Date 2025-10-20

Release Date 2026-07-29

Last Version Date 2026-07-29

Entry Detail

PDB ID:

9YTC

Keywords:

VIRAL PROTEIN/IMMUNE SYSTEM

Title:

Cryo-EM structure of SARS-CoV-2 Omicron neutralizing antibody S212 with BA.5 RBD and SP1-77 Fab complex

Biological Source:

Source Organism(s):

Severe acute respiratory syndrome coronavirus (Taxon ID: 2901879)
Mus musculus (Taxon ID: 10090)

Expression System(s):

Homo sapiens

Method Details:

Experimental Method:

ELECTRON MICROSCOPY

Resolution:

2.68 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Structures with similar UniProt ID

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:Spike glycoprotein
Gene (Uniprot):S
Chain IDs:A
Chain Length:676
Number of Molecules:1
Biological Source:Severe acute respiratory syndrome coronavirus

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

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:SP1-77 Fab heavy chain
Chain IDs:B (auth: D)
Chain Length:451
Number of Molecules:1
Biological Source:Mus musculus

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:SP1-77 Fab light chain
Chain IDs:C (auth: E)
Chain Length:213
Number of Molecules:1
Biological Source:Mus musculus

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:S212 Fab heavy chain
Chain IDs:D (auth: F)
Chain Length:449
Number of Molecules:1
Biological Source:Mus musculus

Structural Superimposition Protein Blast

Polymer Type:polypeptide(L)
Molecule:S212 Fab light chain
Chain IDs:E (auth: G)
Chain Length:214
Number of Molecules:1
Biological Source:Mus musculus

Ligand Molecules

NAG

Primary Citation

Recurrent SARS-CoV-2 Omicron broadly neutralizing humanized antibodies in different single human V H 1-2-rearranging mouse models.

Batra, H, Luo, S, Saunders, K.O, Higgins, J.S, Jian, F, Zhang, J, Kibria, M.G, Jonaid, G.M, Zhou, Q.J, Eaton, A, Cronin, K, Mallory, M.L, Mattocks, M, Edwards, R.J, Parks, R, Lee, E.M, Ye, A.Y, Williams, A.C, Jung, G, Mansouri, K, Alam, S.M, Montefiori, D.C, Tian, M, Baric, R.S, Cao, Y, Haynes, B.F, Chen, B, Alt, F.W.Show

Proc.Natl.Acad.Sci.USA 123 e2537053123 e2537053123 (2026)

PMID: 41871249 DOI: 10.1073/pnas.2537053123

Primary Citation of related structures

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