ISDA

Deposition Date 2022-03-24

Release Date 2022-09-21

Last Version Date 2025-07-02

Entry Detail

PDB ID:

7XCO

Keywords:

VIRAL PROTEIN

Title:

Cryo-EM structure of SARS-CoV-2 Omicron spike protein (S-6P-RRAR) in complex with S309 fab

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:

2.50 Å

Aggregation State:

PARTICLE

Reconstruction Method:

SINGLE PARTICLE

Download Validation Report

Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:Spike glycoprotein
Gene (Uniprot):S
Chain IDs:A, B, C
Chain Length:1240
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:S309 Fab heavy chain
Chain IDs:D (auth: H), F (auth: M), H (auth: O)
Chain Length:230
Number of Molecules:3
Biological Source:Homo sapiens

Polymer Type:polypeptide(L)
Molecule:S309 fab light chain
Chain IDs:E (auth: L), G (auth: N), I (auth: P)
Chain Length:214
Number of Molecules:3
Biological Source:Homo sapiens

Ligand Molecules

NAG

Primary Citation

Omicron SARS-CoV-2 mutations stabilize spike up-RBD conformation and lead to a non-RBM-binding monoclonal antibody escape

Zhao, Z, Zhou, J, Tian, M, Huang, M, Liu, S, Xie, Y, Han, P, Bai, C, Han, P, Zheng, A, Fu, L, Gao, Y, Peng, Q, Li, Y, Chai, Y, Zhang, Z, Zhao, X, Song, H, Qi, J, Wang, Q, Wang, P, Gao, G.F.Show

Nat Commun 13 4958 ? (2022)

DOI: 10.1038/s41467-022-32665-7

Primary Citation of related structures