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Bioinformatics Vol. 16 no. 5 2000
Pages 478-481
© 2000 Oxford University Press

A homolog of mammalian antizyme is present in fission yeast Schizosaccharomyces pombe but not detected in budding yeast Saccharomyces cerevisiae

Chang Zhu 1, Kevin Karplus 2, Leslie Grate 2 and Philip Coffino 1,3,*

1 Department of Microbiology and Immunology
2 Department of Computer Engineering, Jack Baskin School of Engineering, University of California, Santa Cruz, Santa Cruz, CA 95064, USA
3 Department of Medicine, University of California, San Francisco, San Francisco, CA 94143-0414, USA

Received on November 17, 1999 ; revised on January 6, 2000 ; accepted on February 21, 2000

Motivation: The antizymes (AZ) are proteins that regulate cellular polyamine pools in metazoa. To search for remote homologs in single-celled eukaryotes, we used computer software based on hidden Markov models. The most divergent homolog detected was that of the fission yeast Schizosaccharomyces pombe. Sequence identities between S.pombe AZ and known AZs are as low as 18–22% in the most conserved C-terminal regions. The authenticity of the S.pombe AZ is validated by the presence of a conserved nucleotide sequence that, in metazoa, promotes a +1 programmed ribosomal frameshift required for AZ expression. However, no homolog was detected in the completed genome of the budding yeast Saccharomyces cerevisiae. Procedural details and supplementary information can be found at http://itsa.ucsf.edu/~czhu/AZ.

Contact: pcoffin{at}itsa.ucsf.edu

* To whom correspondence should be addressed.


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