› 6adl

Electron Microscopy
3.08Å resolution

Anthrax Toxin Receptor 1-bound spent particles of Seneca Valley Virus in acidic conditions

Released:
DOI: 10.2210/pdb6adl/pdb
PDB entry 6adl coloured by chain, front view.
PDB entry 6adl coloured by chain, side view.
PDB entry 6adl coloured by chain, top view.
Source organisms:
Primary publication:
Seneca Valley virus attachment and uncoating mediated by its receptor anthrax toxin receptor 1.
Cao L, Zhang R, Liu T, Sun Z, Hu M, Sun Y, Cheng L, Guo Y, Fu S, Hu J, Li X, Yu C, Wang H, Chen H, Li X, Fry EE, Stuart DI, Qian P, Lou Z, Rao Z
Proc Natl Acad Sci U S A 115 13087-13092 (2018)
PMID: 30514821
Related structures: EMD-9607

Function and Biology Details

Reactions catalysed: 
Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)
Thiol-dependent hydrolysis of ester, thioester, amide, peptide and isopeptide bonds formed by the C-terminal Gly of ubiquitin (a 76-residue protein attached to proteins as an intracellular targeting signal).
Selective cleavage of Gln-|-Gly bond in the poliovirus polyprotein. In other picornavirus reactions Glu may be substituted for Gln, and Ser or Thr for Gly.
ATP + H(2)O = ADP + phosphate
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
hetero 240-mer (preferred)
PDBe Complex ID:
PDB-CPX-103494 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
VP1 Chain: A
Molecule details ›
Chain: A
Length: 230 amino acids
Theoretical weight: 25.79 KDa
Source organism: Senecavirus A
UniProt:
  • Canonical: A0A1I9WAH6 (Residues: 702-931; Coverage: 11%)
VP3 Chain: C
Molecule details ›
Chain: C
Length: 238 amino acids
Theoretical weight: 26.26 KDa
Source organism: Senecavirus A
UniProt:
  • Canonical: A0A1I9WAH6 (Residues: 435-672; Coverage: 11%)
Sequence domains: picornavirus capsid protein
Capsid protein VP2 Chain: B
Molecule details ›
Chain: B
Length: 246 amino acids
Theoretical weight: 27.72 KDa
Source organism: Senecavirus A
UniProt:
  • Canonical: Q155Z9 (Residues: 182-427; Coverage: 11%)
Sequence domains: picornavirus capsid protein
Anthrax toxin receptor 1 Chain: R
Molecule details ›
Chain: R
Length: 185 amino acids
Theoretical weight: 21.32 KDa
Source organism: Homo sapiens
Expression system: Enterobacteria phage L1
UniProt:
  • Canonical: Q9H6X2 (Residues: 38-220; Coverage: 34%)
Gene names: ANTXR1, ATR, TEM8
Sequence domains: von Willebrand factor type A domain

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
Resolution: 3.08Å
Relevant EMDB volumes: EMD-9607
Expression system: Enterobacteria phage L1

Quick links

Citations

3 review citations

Molecular profiles of small cell lung cancer subtypes: therapeutic implications.
Schwendenwein et al. (2021)
2 more

1 mention without citation

Seneca Valley virus attachment and uncoating mediated by its receptor anthrax toxin receptor 1.
Cao et al. (2018)