› 7xck

Electron Microscopy
2.5Å resolution

Cryo-EM structure of SARS-CoV-2 Omicron RBD in complex with S309 fab (local refinement)

Released:
DOI: 10.2210/pdb7xck/pdb
PDB entry 7xck coloured by chain, front view.
PDB entry 7xck coloured by chain, side view.
PDB entry 7xck coloured by chain, top view.
Source organisms:
Primary publication:
Omicron SARS-CoV-2 mutations stabilize spike up-RBD conformation and lead to a non-RBM-binding monoclonal antibody escape
Zhao Z, Zhou J, Tian M, Huang M, Liu S, Xie Y, Han P, Bai C, Han P, Zheng A, Fu L, Gao Y, Peng Q, Li Y, Chai Y, Zhang Z, Zhao X, Song H, Qi J, Wang Q, Wang P, Gao GF
Nat Commun 13 4958- (2022)
Related structures: EMD-33123

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-225257 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (4 distinct):
S309 heavy chain Chain: A
Molecule details ›
Chain: A
Length: 230 amino acids
Theoretical weight: 24.57 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
S309 light chain Chain: B
Molecule details ›
Chain: B
Length: 214 amino acids
Theoretical weight: 23.2 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
Spike protein S1 Chain: M

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG, FUC
Carbohydrate polymer
No bound ligands
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this EM entry.
Resolution: 2.5Å
Relevant EMDB volumes: EMD-33123
Expression system: Homo sapiens

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