› 6r24

Electron Microscopy
7.5Å resolution

The structure of a Ty3 retrotransposon icosahedral capsid

Released:
DOI: 10.2210/pdb6r24/pdb
PDB entry 6r24 coloured by chain, front view.
PDB entry 6r24 coloured by chain, side view.
PDB entry 6r24 coloured by chain, top view.
Source organism: Saccharomyces cerevisiae S288C
Primary publication:
Structure of the Ty3/Gypsy retrotransposon capsid and the evolution of retroviruses.
Dodonova SO, Prinz S, Bilanchone V, Sandmeyer S, Briggs JAG
OpenAccess logo Proc Natl Acad Sci U S A 116 10048-10057 (2019)
PMID: 31036670
Related structures: EMD-4709

Function and Biology Details

Reactions catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Endonucleolytic cleavage to 5'-phosphomonoester.
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo 540-mer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-181653 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Capsid protein Chains: A, B, C, D, E, F, G, H, I
Molecule details ›
Chains: A, B, C, D, E, F, G, H, I
Length: 309 amino acids
Theoretical weight: 36.38 KDa
Source organism: Saccharomyces cerevisiae S288C
Expression system: Saccharomyces cerevisiae
UniProt:
  • Canonical: Q7LHG5 (Residues: 1-309; Coverage: 21%)
Gene names: TY3B-I, YIL082W-A, YILWTy3-1 POL
Sequence domains: Ty3 transposon capsid-like protein

Ligands and Environments

No bound ligands
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 7.5Å
Relevant EMDB volumes: EMD-4709
Expression system: Saccharomyces cerevisiae

Quick links

Citations

6 review citations

Human endogenous retroviruses in development and disease.
Mao et al. (2021)
5 more

7 mentions without citation

Structure of the Ty3/Gypsy retrotransposon capsid and the evolution of retroviruses.
Dodonova et al. (2019)
6 more