› 7wp8

Electron Microscopy
3.88Å resolution

Cryo-EM structure of SARS-CoV-2 recombinant spike protein STFK1628x in complex with three neutralizing antibodies

Released:
DOI: 10.2210/pdb7wp8/pdb
PDB entry 7wp8 coloured by chain, front view.
PDB entry 7wp8 coloured by chain, side view.
PDB entry 7wp8 coloured by chain, top view.
Source organisms:
Primary publication:
Lineage-mosaic and mutation-patched spike proteins for broad-spectrum COVID-19 vaccine.
Wu Y, Wang S, Zhang Y, Yuan L, Zheng Q, Wei M, Shi Y, Wang Z, Ma J, Wang K, Nie M, Xiao J, Huang Z, Chen P, Guo H, Lan M, Xu J, Hou W, Hong Y, Chen D, Sun H, Xiong H, Zhou M, Liu C, Guo W, Guo H, Gao J, Gan C, Li Z, Zhang H, Wang X, Li S, Cheng T, Zhao Q, Chen Y, Wu T, Zhang T, Zhang J, Cao H, Zhu H, Yuan Q, Guan Y, Xia N
Cell Host Microbe 30 1732-1744.e7 (2022)
PMID: 36323313
Related structures: EMD-32678

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero heptamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-225225 (preferred)
Entry contents:
7 distinct polypeptide molecules
Macromolecules (8 distinct):
83H7 light chain Chain: C
Molecule details ›
Chain: C
Length: 104 amino acids
Theoretical weight: 11.43 KDa
Source organism: Mus musculus
83H7 heavy chain Chain: D
Molecule details ›
Chain: D
Length: 118 amino acids
Theoretical weight: 13.03 KDa
Source organism: Mus musculus
2B4 heavy chain Chain: E
Molecule details ›
Chain: E
Length: 119 amino acids
Theoretical weight: 13.68 KDa
Source organism: Mus musculus
Spike protein S1 Chain: F
Molecule details ›
Chain: F
Length: 183 amino acids
Theoretical weight: 20.8 KDa
Source organism: Severe acute respiratory syndrome coronavirus 2
Expression system: Cricetulus griseus
UniProt:
  • Canonical: P0DTC2 (Residues: 336-518; Coverage: 15%)
Gene names: 2, S
Sequence domains: Betacoronavirus spike glycoprotein S1, receptor binding
2B4 light chain Chain: G
Molecule details ›
Chain: G
Length: 113 amino acids
Theoretical weight: 12.45 KDa
Source organism: Mus musculus
85F7 heavy chain Chain: H
Molecule details ›
Chain: H
Length: 118 amino acids
Theoretical weight: 13.16 KDa
Source organism: Mus musculus
85F7 light chain Chain: L
Molecule details ›
Chain: L
Length: 106 amino acids
Theoretical weight: 11.28 KDa
Source organism: Mus musculus

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
1 bound ligand:
Ligand NAG 1 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.88Å
Relevant EMDB volumes: EMD-32678
Expression system: Cricetulus griseus

Quick links

Citations

1 review citation

Challenges and developments in universal vaccine design against SARS-CoV-2 variants.
Zhao et al. (2022)
4 other articles

1 mention without citation

Lineage-mosaic and mutation-patched spike proteins for broad-spectrum COVID-19 vaccine.
Wu et al. (2022)