› 7y8j

X-ray diffraction
1.03Å resolution

3D1 in complex with 6-mer HR1 peptide from SARS-CoV-2

Released:
DOI: 10.2210/pdb7y8j/pdb
PDB entry 7y8j coloured by chain, front view.
PDB entry 7y8j coloured by chain, side view.
PDB entry 7y8j coloured by chain, top view.
Source organisms:
Entry author: Lei Y

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-225271 (preferred)
Entry contents:
3 distinct polypeptide molecules
Macromolecules (3 distinct):
heavy chain of 3D1 Chain: H
Molecule details ›
Chain: H
Length: 122 amino acids
Theoretical weight: 13.14 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
Spike protein S2' Chain: A
Molecule details ›
Chain: A
Length: 7 amino acids
Theoretical weight: 745 Da
Source organism: Severe acute respiratory syndrome coronavirus 2
Expression system: synthetic construct
UniProt:
  • Canonical: P0DTC2 (Residues: 950-955; Coverage: 1%)
Gene names: 2, S
light chain of 3D1 Chain: L
Molecule details ›
Chain: L
Length: 114 amino acids
Theoretical weight: 11.62 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens

Ligands and Environments

No bound ligands
1 modified residue:
Ligand PCA 1 x PCA

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL19U1
Spacegroup: P21
Unit cell:
a: 36.965Å b: 69.81Å c: 51.058Å
α: 90° β: 110.46° γ: 90°
R-values:
R R work R free
0.134 0.134 0.145
Expression systems:
  • Homo sapiens
  • synthetic construct

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