› 7the

Electron Microscopy
3.87Å resolution

Structure of RBD directed antibody DH1042 in complex with SARS-CoV-2 spike: Local refinement of RBD-Fab interface

Released:
DOI: 10.2210/pdb7the/pdb
PDB entry 7the coloured by chain, front view.
PDB entry 7the coloured by chain, side view.
PDB entry 7the coloured by chain, top view.
Source organisms:
Primary publication:
Structural diversity of the SARS-CoV-2 Omicron spike.
Gobeil SM, Henderson R, Stalls V, Janowska K, Huang X, May A, Speakman M, Beaudoin E, Manne K, Li D, Parks R, Barr M, Deyton M, Martin M, Mansouri K, Edwards RJ, Eaton A, Montefiori DC, Sempowski GD, Saunders KO, Wiehe K, Williams W, Korber B, Haynes BF, Acharya P
OpenAccess logo Mol Cell 82 2050-2068.e6 (2022)
PMID: 35447081
Related structures: EMD-25893

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-225199 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Spike protein S1 Chain: A
Molecule details ›
Chain: A
Length: 195 amino acids
Theoretical weight: 21.87 KDa
Source organism: Severe acute respiratory syndrome coronavirus 2
Expression system: Homo sapiens
UniProt:
  • Canonical: P0DTC2 (Residues: 333-527; Coverage: 16%)
Gene names: 2, S
Sequence domains: Betacoronavirus spike glycoprotein S1, receptor binding
DH1042 Fab Heavy Chain Chain: B
Molecule details ›
Chain: B
Length: 122 amino acids
Theoretical weight: 13.48 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
DH1042 Fab Light Chain Chain: C

Ligands and Environments

1 bound ligand:
Ligand NAG 1 x NAG
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this EM entry.
Resolution: 3.87Å
Relevant EMDB volumes: EMD-25893
Expression system: Homo sapiens

Quick links

Citations

13 review citations

Omicron variant (B.1.1.529) and its sublineages: What do we know so far amid the emergence of recombinant variants of SARS-CoV-2?
Dhawan et al. (2022)
12 more

4 mentions without citation

A systematic review of the characteristics of data assessment tools to measure medical doctors' work-related quality of life.
Ezura et al. (2023)
3 more