› 7k8s

Electron Microscopy
3.4Å resolution

Structure of the SARS-CoV-2 S 2P trimer in complex with the human neutralizing antibody Fab fragment, C002 (state 1)

Released:
DOI: 10.2210/pdb7k8s/pdb
PDB entry 7k8s coloured by chain, front view.
PDB entry 7k8s coloured by chain, side view.
PDB entry 7k8s coloured by chain, top view.
Source organisms:
Primary publication:
SARS-CoV-2 neutralizing antibody structures inform therapeutic strategies.
Barnes CO, Jette CA, Abernathy ME, Dam KA, Esswein SR, Gristick HB, Malyutin AG, Sharaf NG, Huey-Tubman KE, Lee YE, Robbiani DF, Nussenzweig MC, West AP, Bjorkman PJ
Nature 588 682-687 (2020)
PMID: 33045718
Related structures: EMD-22729

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero nonamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-535318 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (4 distinct):
Spike glycoprotein Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 1259 amino acids
Theoretical weight: 139.79 KDa
Source organism: Severe acute respiratory syndrome coronavirus 2
Expression system: Homo sapiens
UniProt:
  • Canonical: P0DTC2 (Residues: 1-1213; Coverage: 95%)
Gene names: 2, S
Sequence domains:
C002 Fab Heavy Chain Chains: H, M, O
Molecule details ›
Chains: H, M, O
Length: 236 amino acids
Theoretical weight: 25.37 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
C002 Fab Light Chain Chains: L, N, P
Molecule details ›
Chains: L, N, P
Length: 214 amino acids
Theoretical weight: 23.33 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
1 bound ligand:
Ligand NAG 27 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.4Å
Relevant EMDB volumes: EMD-22729
Expression system: Homo sapiens

Quick links

Citations

154 review citations

SARS-CoV-2 variants, spike mutations and immune escape.
Harvey et al. (2021)
153 more

22 mentions without citation

Monoclonal antibody therapies against SARS-CoV-2.
Focosi et al. (2022)
21 more