› 7so9

Electron Microscopy
2.4Å resolution

SARS-CoV-2 S B.1.617.2 delta variant + S2M11 + S2L20 Global Refinement

Released:
DOI: 10.2210/pdb7so9/pdb
PDB entry 7so9 coloured by chain, front view.
PDB entry 7so9 coloured by chain, side view.
PDB entry 7so9 coloured by chain, top view.
Source organisms:
Primary publication:
Molecular basis of immune evasion by the Delta and Kappa SARS-CoV-2 variants.
McCallum M, Walls AC, Sprouse KR, Bowen JE, Rosen LE, Dang HV, De Marco A, Franko N, Tilles SW, Logue J, Miranda MC, Ahlrichs M, Carter L, Snell G, Pizzuto MS, Chu HY, Van Voorhis WC, Corti D, Veesler D
Science 374 1621-1626 (2021)
PMID: 34751595
Related structures: EMD-25263

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero pentadecamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-210305 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (6 distinct):
Spike glycoprotein Chains: A, F, K
Molecule details ›
Chains: A, F, K
Length: 1275 amino acids
Theoretical weight: 141.52 KDa
Source organism: Severe acute respiratory syndrome coronavirus 2
Expression system: Homo sapiens
UniProt:
  • Canonical: P0DTC2 (Residues: 1-1208; Coverage: 95%)
Gene names: 2, S
Sequence domains:
S2M11 Fab light chain Chains: D, G, L
Molecule details ›
Chains: D, G, L
Length: 104 amino acids
Theoretical weight: 11.21 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
S2M11 Fab heavy chain Chains: E, H, M
S2L20 Fab light chain Chains: B, I, N
S2L20 Fab heavy chain Chains: C, J, O

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, FUC
Carbohydrate polymer
1 bound ligand:
Ligand NAG 45 x NAG
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this EM entry.
Resolution: 2.4Å
Relevant EMDB volumes: EMD-25263
Expression system: Homo sapiens

Quick links

Citations

21 review citations

The Evolution and Biology of SARS-CoV-2 Variants.
Telenti et al. (2022)
20 more

4 mentions without citation

Comprehensive structural analysis reveals broad-spectrum neutralizing antibodies against SARS-CoV-2 Omicron variants.
Chi et al. (2023)
3 more