› 7m53

X-ray diffraction
1.4Å resolution

B6 Fab fragment bound to the SARS-CoV/SARS-CoV-2 spike stem helix peptide

Released:
DOI: 10.2210/pdb7m53/pdb
Model geometry
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PDB entry 7m53 coloured by chain, front view.
PDB entry 7m53 coloured by chain, side view.
PDB entry 7m53 coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis for broad coronavirus neutralization.
Sauer MM, Tortorici MA, Park YJ, Walls AC, Homad L, Acton OJ, Bowen JE, Wang C, Xiong X, de van der Schueren W, Quispe J, Hoffstrom BG, Bosch BJ, McGuire AT, Veesler D
Nat Struct Mol Biol 28 478-486 (2021)
PMID: 33981021

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-209825 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
Spike protein S2' Chain: A
Molecule details ›
Chain: A
Length: 16 amino acids
Theoretical weight: 1.99 KDa
Source organism: Severe acute respiratory syndrome coronavirus 2
Expression system: Not provided
UniProt:
  • Canonical: P0DTC2 (Residues: 1146-1161; Coverage: 1%)
Gene names: 2, S
B6 antigen-binding (Fab) fragment heavy chain Chain: H
Molecule details ›
Chain: H
Length: 220 amino acids
Theoretical weight: 23.35 KDa
Source organism: Mus musculus
Expression system: Homo sapiens
B6 antigen-binding (Fab) fragment light chain Chain: L

Ligands and Environments

1 bound ligand:
Ligand GOL 3 x GOL
No modified residues

Experiments and Validation Details

wwPDB Validation report is not available for this entry.
X-ray source: ALS BEAMLINE 5.0.1
Spacegroup: C2
Unit cell:
a: 93.183Å b: 60.36Å c: 79.699Å
α: 90° β: 93.63° γ: 90°
R-values:
R R work R free
0.146 0.144 0.174
Expression systems:
  • Not provided
  • Homo sapiens

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Citations

17 review citations

Antiviral Drug Discovery for the Treatment of COVID-19 Infections.
Ng et al. (2022)
16 more

6 mentions without citation

SARS-CoV-2 spike S2-specific neutralizing antibodies.
Li et al. (2023)
5 more

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