› 1y4m

X-ray diffraction
1.6Å resolution

Crystal structure of human endogenous retrovirus HERV-FRD envelope protein (syncitin-2)

Released:
DOI: 10.2210/pdb1y4m/pdb
PDB entry 1y4m coloured by chain, front view.
PDB entry 1y4m coloured by chain, side view.
PDB entry 1y4m coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal structure of a pivotal domain of human syncytin-2, a 40 million years old endogenous retrovirus fusogenic envelope gene captured by primates.
Renard M, Varela PF, Letzelter C, Duquerroy S, Rey FA, Heidmann T
J Mol Biol 352 1029-34 (2005)
PMID: 16140326

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domain:
Structure domain:

Structure analysis Details

Assemblies composition:
homo trimer (preferred)
homo dodecamer
Assembly name:
PDBe Complex ID:
PDB-CPX-158028 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Transmembrane protein Chains: A, B, C
Molecule details ›
Chains: A, B, C
Length: 53 amino acids
Theoretical weight: 5.79 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P60508 (Residues: 391-443; Coverage: 10%)
Gene names: ERVFRD-1, ERVFRDE1, UNQ6191/PRO20218
Structure domains: Helix Hairpins

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-1
Spacegroup: I4
Unit cell:
a: 90.404Å b: 90.404Å c: 38.654Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.262 0.248 0.262
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

8 review citations

Virus and cell fusion mechanisms.
Podbilewicz B. (2014)
7 more

9 mentions without citation

Virus membrane fusion.
Weissenhorn et al. (2007)
8 more