Nucleic Acids Research, 2001, Vol. 29, No. 5 1017-1026
© 2001 Oxford University Press
Exoribonuclease superfamilies: structural analysis and phylogenetic distribution
Department of Biochemistry and Molecular Biology, University of Miami School of Medicine, PO Box 016129, Miami, FL 33101-6129, USA
Exoribonucleases play an important role in all aspects of RNA metabolism. Biochemical and genetic analyses in recent years have identified many new RNases and it is now clear that a single cell can contain multiple enzymes of this class. Here, we analyze the structure and phylogenetic distribution of the known exoribonucleases. Based on extensive sequence analysis and on their catalytic properties, all of the exoribonucleases and their homologs have been grouped into six superfamilies and various subfamilies. We identify common motifs that can be used to characterize newly-discovered exoribonucleases, and based on these motifs we correct some previously misassigned proteins. This analysis may serve as a useful first step for developing a nomenclature for this group of enzymes.
* To whom correspondence should be addressed. Tel: +1 305 243 3150; Fax: +1 305 243 3955; Email: mdeutsch{at}med.miami.edu
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