› 8j1t

Electron Microscopy
3.3Å resolution

Local refined cryo-EM structure of Omicron BA.5 RBD in complex with 8-9D Fab

Released:
DOI: 10.2210/pdb8j1t/pdb
PDB entry 8j1t coloured by chain, front view.
PDB entry 8j1t coloured by chain, side view.
PDB entry 8j1t coloured by chain, top view.
Source organisms:
Primary publication:
A lung-selective delivery of mRNA encoding broadly neutralizing antibody against SARS-CoV-2 infection.
Tai W, Yang K, Liu Y, Li R, Feng S, Chai B, Zhuang X, Qi S, Shi H, Liu Z, Lei J, Ma E, Wang W, Tian C, Le T, Wang J, Chen Y, Tian M, Xiang Y, Yu G, Cheng G
Nat Commun 14 8042 (2023)
PMID: 38052844
Related structures: EMD-35932

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero trimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-236076 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
8-9D heavy chain Chain: H
Molecule details ›
Chain: H
Length: 115 amino acids
Theoretical weight: 12.44 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
8-9D light chain Chain: K
Molecule details ›
Chain: K
Length: 108 amino acids
Theoretical weight: 11.73 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
Spike protein S1 Chain: F
Molecule details ›
Chain: F
Length: 194 amino acids
Theoretical weight: 21.91 KDa
Source organism: Severe acute respiratory syndrome coronavirus 2
Expression system: Homo sapiens
UniProt:
  • Canonical: P0DTC2 (Residues: 334-527; Coverage: 15%)
Gene names: 2, S
Sequence domains: Betacoronavirus spike glycoprotein S1, receptor binding

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.3Å
Relevant EMDB volumes: EMD-35932
Expression system: Homo sapiens

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