› 4ol8

X-ray diffraction
3.1Å resolution

Ty3 reverse transcriptase bound to DNA/RNA

Released:
DOI: 10.2210/pdb4ol8/pdb
PDB entry 4ol8 coloured by chain, front view.
PDB entry 4ol8 coloured by chain, side view.
PDB entry 4ol8 coloured by chain, top view.
Source organism: Saccharomyces cerevisiae
Primary publication:
Ty3 reverse transcriptase complexed with an RNA-DNA hybrid shows structural and functional asymmetry.
Nowak E, Miller JT, Bona MK, Studnicka J, Szczepanowski RH, Jurkowski J, Le Grice SF, Nowotny M
Nat Struct Mol Biol 21 389-96 (2014)
PMID: 24608367

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-117922 (preferred)
Entry contents:
1 distinct polypeptide molecule
1 distinct DNA molecule
1 distinct RNA molecule
Macromolecules (3 distinct):
Reverse transcriptase/ribonuclease H Chains: A, B, E, F
Molecule details ›
Chains: A, B, E, F
Length: 478 amino acids
Theoretical weight: 55.06 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Escherichia coli
UniProt:
  • Canonical: Q99315 (Residues: 536-1011; Coverage: 31%)
Gene names: G5984, TY3B-G, YGR109W-B, YGRWTy3-1 POL
Sequence domains:
Structure domains:
5'-D(*CP*AP*TP*CP*TP*TP*CP*CP*TP*CP*TP*CP*TP*CP*TP*C)-3' Chains: D, H
Molecule details ›
Chains: D, H
Length: 16 nucleotides
Theoretical weight: 4.71 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Not provided
5'-R(*CP*UP*GP*AP*GP*AP*GP*AP*GP*AP*GP*GP*AP*AP*GP*AP*UP*G)-3' Chains: C, G
Molecule details ›
Chains: C, G
Length: 18 nucleotides
Theoretical weight: 5.94 KDa
Source organism: Saccharomyces cerevisiae
Expression system: Not provided

Ligands and Environments

1 bound ligand:
Ligand SO4 2 x SO4
1 modified residue:
Ligand MSE 20 x MSE

Experiments and Validation Details

Entry percentile scores
X-ray source: BESSY BEAMLINE 14.1
Spacegroup: P21212
Unit cell:
a: 320.7Å b: 75.062Å c: 108.35Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.23 0.227 0.296
Expression systems:
  • Escherichia coli
  • Not provided

Quick links

Citations

5 review citations

Viral reverse transcriptases.
Menéndez-Arias et al. (2017)
4 more

9 mentions without citation

Reverse Transcription in the Saccharomyces cerevisiae Long-Terminal Repeat Retrotransposon Ty3.
Rausch et al. (2017)
8 more