4myw

X-ray diffraction
3.19Å resolution

Structure of HSV-2 gD bound to nectin-1

Released:

Function and Biology Details

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
PDBe Complex ID:
PDB-CPX-136626 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
Envelope glycoprotein D Chains: A, C
Molecule details ›
Chains: A, C
Length: 294 amino acids
Theoretical weight: 32.99 KDa
Source organism: Human herpesvirus 2 strain 333
Expression system: Trichoplusia ni
UniProt:
  • Canonical: P03172 (Residues: 26-310; Coverage: 77%)
Gene names: US6, gD
Sequence domains: Herpesvirus glycoprotein D/GG/GX domain
Structure domains: Glycoprotein D; Chain: A;
Nectin-1 Chains: B, D
Molecule details ›
Chains: B, D
Length: 331 amino acids
Theoretical weight: 36.94 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q15223 (Residues: 30-335; Coverage: 63%)
Gene names: HVEC, NECTIN1, PRR1, PVRL1
Sequence domains:
Structure domains: Immunoglobulins

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
1 bound ligand:
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRF BEAMLINE BL17U
Unit cell:
a: 53.337Å b: 170.857Å c: 192.251Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.198 0.196 0.247
Expression systems:
  • Trichoplusia ni
  • Escherichia coli