› 8h07

Electron Microscopy
2.9Å resolution

SARS-CoV-2 BA.4 variants S ectodomain trimer in complex with neutralizing antibody 10-5B and 6-2C

Released:
DOI: 10.2210/pdb8h07/pdb
PDB entry 8h07 coloured by chain, front view.
PDB entry 8h07 coloured by chain, side view.
PDB entry 8h07 coloured by chain, top view.
Source organisms:
Primary publication:
Inactivated vaccine-elicited potent antibodies can broadly neutralize SARS-CoV-2 circulating variants.
Liu Y, Wang Z, Zhuang X, Zhang S, Chen Z, Zou Y, Sheng J, Li T, Tai W, Yu J, Wang Y, Zhang Z, Chen Y, Tong L, Yu X, Wu L, Chen D, Zhang R, Jin N, Shen W, Zhao J, Tian M, Wang X, Cheng G
OpenAccess logo Nat Commun 14 2179 (2023)
PMID: 37069158
Related structures: EMD-34410

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero pentadecamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-273029 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (5 distinct):
Spike glycoprotein Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 1286 amino acids
Theoretical weight: 142.53 KDa
Source organism: Severe acute respiratory syndrome coronavirus 2
Expression system: Homo sapiens
UniProt:
  • Canonical: P0DTC2 (Residues: 1-214, 215-1208; Coverage: 94%)
Gene names: 2, S
Sequence domains:
10-5B H chain Chains: E, G, M
Molecule details ›
Chains: E, G, M
Length: 117 amino acids
Theoretical weight: 12.52 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
10-5B L chain Chains: H, J, P
Molecule details ›
Chains: H, J, P
Length: 107 amino acids
Theoretical weight: 11.37 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
6-2C H chain Chains: I, N, Q
Molecule details ›
Chains: I, N, Q
Length: 122 amino acids
Theoretical weight: 13.72 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
6-2C L chain Chains: K, O, R
Molecule details ›
Chains: K, O, R
Length: 107 amino acids
Theoretical weight: 11.69 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens

Ligands and Environments

1 bound ligand:
Ligand NAG 3 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 2.9Å
Relevant EMDB volumes: EMD-34410
Expression system: Homo sapiens

Quick links

Citations

2 review citations

Broadly neutralizing antibodies against COVID-19.
Zhou et al. (2023)
1 more

1 mention without citation

Identification and functional analysis of secreted effectors from phytoparasitic nematodes.
Rehman et al. (2016)