Classification of the short-chain dehydrogenase/reductase superfamily using hidden Markov models.

Journal article

The short-chain dehydrogenase/reductase (SDR) superfamily now has over 47 000 members, most of which are distantly related, with typically 20-30% residue identity in pairwise comparisons, making it difficult to obtain an overview of this superfamily. We have therefore developed a family classification system, based upon hidden Markov models (HMMs). To this end, we have identified 314 SDR families, encompassing about 31,900 members. In addition, about 9700 SDR forms belong to families with too...

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Authors: Kallberg, Y; Oppermann, U; Persson, B

• Publication status: Published
• Journal: FEBS journal
• Volume: 277
• Issue: 10
• Pages: 2375-2386
• Publication date: 2010-05-01
• DOI: 10.1111/j.1742-4658.2010.07656.x
• EISSN: 1742-4658
• ISSN: 1742-464X
• Language: English
• Keywords: Sequence Alignment; Archaea; Bacteria; Rats; Eukaryota; Oxidoreductases; Animals; Markov Chains; Computational Biology; Databases, Protein; Cluster Analysis; Mice; Humans; Genome