› 7y71

Electron Microscopy
3.12Å resolution

SARS-CoV-2 spike glycoprotein trimer complexed with Fab fragment of anti-RBD antibody E7

Released:
DOI: 10.2210/pdb7y71/pdb
PDB entry 7y71 coloured by chain, front view.
PDB entry 7y71 coloured by chain, side view.
PDB entry 7y71 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Potent pan huACE2-dependent sarbecovirus neutralizing monoclonal antibodies isolated from a BNT162b2-vaccinated SARS survivor.
Chia WN, Tan CW, Tan AWK, Young B, Starr TN, Lopez E, Fibriansah G, Barr J, Cheng S, Yeoh AY, Yap WC, Lim BL, Ng TS, Sia WR, Zhu F, Chen S, Zhang J, Kwek MSS, Greaney AJ, Chen M, Au GG, Paradkar PN, Peiris M, Chung AW, Bloom JD, Lye D, Lok S, Wang LF
OpenAccess logo Sci Adv 9 eade3470 (2023)
PMID: 37494438
Related structures: EMD-33650

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-225407 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (4 distinct):
Fab E7 light chain Chain: P
Molecule details ›
Chain: P
Length: 219 amino acids
Theoretical weight: 23.92 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
Fab E7 heavy chain Chain: O
Molecule details ›
Chain: O
Length: 221 amino acids
Theoretical weight: 23.34 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
Spike glycoprotein Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 1198 amino acids
Theoretical weight: 132.86 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: P0DTC2 (Residues: 16-1213; Coverage: 95%)
Gene names: 2, S
Sequence domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
1 bound ligand:
Ligand NAG 14 x NAG
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.12Å
Relevant EMDB volumes: EMD-33650
Expression system: Homo sapiens

Quick links

Citations

1 review citation

In search of a pan-coronavirus vaccine: next-generation vaccine design and immune mechanisms.
Cankat et al. (2024)