Protein Name

Intein PI-SceI homing endonuclease


Saccharomyces cerevisiae (Baker's yeast)

Biological Context

DNA is subject to various kinds of chemical damage. Left unfixed, DNA damage would result in incorrect proteins and through its duplication, accumulated genetic defects. To deal with such errors, enzymes called restriction endonucleases are available. They recognize certain DNA sequences and can cut the DNA at these recognition sites. This is the first step in repairing DNA damage. Homing endonucleases are endonucleases that cut at very specific, very rare sites, because the DNA sequence of their recognition sites is much longer than for normal endonucleases. DNA encoding of proteins is not strictly linear. The DNA sequence has stretches called exons which contain code for a protein, separated by stretches of sequence called introns. More than one exon may be needed for a single protein. When an intron gets translated into protein, the result is called an intein. Homing endonucleases like the one seen here are such inteins. They are called homing endonucleases, because they promote introduction of their genetic elements into strands of DNA that do not contain them. The fact that they cut at rather rare sites makes them useful tools for genome analysis.

Structure Description


The homing endonuclease consists of two domains: an endonuclease domain that interacts with DNA and a protein splicing domain which allows it to cut out protein sequences. It uses this last property for a sort of magician trick. The sequence for the endonuclease is actually contained within a sequence encoding an ATPase. The protein cuts itself out of this structure, a process called autocatalytic.

Protein Data Bank (PDB)



Hu, D. Crist, M. Duan, X. Quiocho, F.A. Gimble, F.S.; "Probing the structure of the PI-SceI-DNA complex by affinity cleavage and affinity photocross-linking."; J.Biol.Chem.; (2000) 275:2705-2712 PubMed:10644733.


author: Arno Paehler

Japanese version:PDB:1DFA