KMID : 1132720050030020055
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Genomics & Informatics 2005 Volume.3 No. 2 p.55 ~ p.60
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Classification of Peroxiredoxin Subfamilies Using Regular Expressions
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Chon Jae-Kyung
Choi Jong-Keun Kim Sang-Soo
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Abstract
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Peroxiredoxins (Prx¡¯s) are a superfamily of peroxidases that are ubiquitous in all super??kingdoms. Previous biochemical and structural studies have suggested that Prx¡¯s could be divided into five subfamilies (1??Cys, Typical 2??Cys, Atypical 2??Cys C??, L????and R????types). In this work, we have developed a set of regular expression patterns describing subfamily??specific spatial constraints of the key catalytic residues. Using these patterns, 1,016 Prx¡¯s available in public databases were classified into the five subfamilies. Our method performed well for most of the types except for Atypical 2 Cys R type.
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KEYWORD
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peroxiredoxin, regular expression, subfamily classification
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