8cyb

Electron Microscopy
2.7Å resolution

SARS-CoV-2 Spike protein in complex with a pan-sarbecovirus nanobody 1-8

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
PDBe Complex ID:
PDB-CPX-210417 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (9 distinct):
Spike glycoprotein Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 1273 amino acids
Theoretical weight: 141.26 KDa
Source organism: Severe acute respiratory syndrome coronavirus 2
Expression system: Homo sapiens
UniProt:
  • Canonical: P0DTC2 (Residues: 1-1273; Coverage: 100%)
Gene names: 2, S
Sequence domains:
pan-sarbecovirus nanobody 1-8 Chain: D
Molecule details ›
Chain: D
Length: 127 amino acids
Theoretical weight: 14.13 KDa
Source organism: Lama glama
Expression system: Escherichia coli

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer : NEW Components: NAG, BMA, FUC, GAL
Carbohydrate polymer : NEW Components: NAG, BMA
Carbohydrate polymer : NEW Components: NAG, BMA, FUC
Carbohydrate polymer : NEW Components: NAG, BMA, MAN
Carbohydrate polymer : NEW Components: NAG, FUC
2 bound ligands:
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 2.7Å
Relevant EMDB volumes: EMD-27073
Expression systems:
  • Homo sapiens
  • Escherichia coli