Ornitine decarboxylase antizyme

Ornitine decarboxylase antizyme is a negative regulator of polyamine levels in the cell. It inhibits ornitine decarboxylase, which is a key enzyme catalyzing the rate limiting step in polyamine biosynthesis pathway. Antizyme also negatively regulate transport of polyamines into the cell. In virtually all eukaryotic organisms where it is found, antizyme is encoded in two overlapping open reading frames and is expressed via programmed ribosomal frameshifting. Such organization of antizyme ODC complicates identification and annotation of antizyme encoding genes by means of standard sequence analysis tools.

Ornitine decarboxylase Antizyme Finder

Ornitine decarboxylase Antizyme Finder (OAF) is a specialized software tool for identification of genes encoding antizyme and for annotating the sites of programmed ribosomal frameshifting utilized in antizyme genes expression. As input, it takes nucleotide sequences in fasta format or Genbank accession numbers. If OAF identifies a gene encoding Antizyme, it generates its annotation in Fasta, genbank, raw or XML formats. A unique feature of OAF is its ability to predict programmed ribosomal frameshifting that takes place during expression of genes encoding ornitine decarboxylase antizyme.

You could use OAF via the web interface. However, the on-line analysis is limited to single short sequences. You need to download and install a local version of OAF for large scale analyses. You will need Bioperl, Fasta and HMMER.

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