› 1vyb

X-ray diffraction
1.8Å resolution

Endonuclease domain of human LINE1 ORF2p

Released:
DOI: 10.2210/pdb1vyb/pdb
PDB entry 1vyb coloured by chain, front view.
PDB entry 1vyb coloured by chain, side view.
PDB entry 1vyb coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal structure of the targeting endonuclease of the human LINE-1 retrotransposon.
Weichenrieder O, Repanas K, Perrakis A
Structure 12 975-86 (2004)
PMID: 15274918

Function and Biology Details

Reaction catalysed: 
Deoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
Biochemical function:
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:
Structure domain:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-126251 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
LINE-1 retrotransposable element ORF2 protein Chains: A, B
Molecule details ›
Chains: A, B
Length: 238 amino acids
Theoretical weight: 27.15 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: O00370 (Residues: 1-238; Coverage: 19%)
Sequence domains: Endonuclease/Exonuclease/phosphatase family
Structure domains: Endonuclease/exonuclease/phosphatase

Ligands and Environments

3 bound ligands:
Ligand SO4 7 x SO4
Ligand SO3 2 x SO3
Ligand GOL 1 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-2
Spacegroup: P21212
Unit cell:
a: 91.044Å b: 126.477Å c: 43.004Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.188 0.186 0.223
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

6 review citations

Human apurinic/apyrimidinic endonuclease 1.
Li et al. (2014)
5 more

9 mentions without citation

Structure and biological activities of beta toxin from Staphylococcus aureus.
Huseby et al. (2007)
8 more