› 8x0m

Electron Microscopy
3.5Å resolution

Cryo-EM structure of Semliki Forest virus in complex with its receptor VLDLR(5-fold)

Released:
DOI: 10.2210/pdb8x0m/pdb
PDB entry 8x0m coloured by chain, front view.
PDB entry 8x0m coloured by chain, side view.
PDB entry 8x0m coloured by chain, top view.
Source organisms:
Entry authors: Gao FG, Liu S
Related structures: EMD-37982

Function and Biology Details

Reaction catalysed: 
Autocatalytic release of the core protein from the N-terminus of the togavirus structural polyprotein by hydrolysis of a -Trp-|-Ser- bond.
Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned

Structure analysis Details

Assembly composition:
hetero undecamer (preferred)
PDBe Complex ID:
PDB-CPX-579902 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (5 distinct):
Capsid protein Chains: A, E, I
Molecule details ›
Chains: A, E, I
Length: 162 amino acids
Theoretical weight: 17.85 KDa
Source organism: Semliki Forest virus
Expression system: Homo sapiens
UniProt:
  • Canonical: P03315 (Residues: 106-267; Coverage: 13%)
Sequence domains: Alphavirus core protein
Spike glycoprotein E2 Chains: B, F, J
Molecule details ›
Chains: B, F, J
Length: 418 amino acids
Theoretical weight: 46.43 KDa
Source organism: Semliki Forest virus
Expression system: Homo sapiens
p130 Chains: C, G, K
Molecule details ›
Chains: C, G, K
Length: 438 amino acids
Theoretical weight: 47.49 KDa
Source organism: Semliki Forest virus
Expression system: Homo sapiens
UniProt:
  • Canonical: A0A0F6PP03 (Residues: 816-1253; Coverage: 35%)
Sequence domains: Alphavirus E1 glycoprotein
Very low-density lipoprotein receptor Chains: D, H
Molecule details ›
Chains: D, H
Length: 37 amino acids
Theoretical weight: 4.1 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: P98155 (Residues: 113-149; Coverage: 4%)
Gene name: VLDLR
Sequence domains: Low-density lipoprotein receptor domain class A

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
2 bound ligands:
Ligand NAG 3 x NAG
Ligand CA 2 x CA
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.5Å
Relevant EMDB volumes: EMD-37982
Expression system: Homo sapiens

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