Tandem repeats (TR) in proteins are common in nature and have several unique functions. They come in various forms that are frequently difficult to recognize from a sequence. A previously proposed structural classification has been recently implemented in the RepeatsDB database. This defines five main classes, mainly based on repeat unit length, with subclasses representing specific folds. Sequence-based classifications, such as Pfam, provide an alternative classification based on evolutionarily conserved repeat families. Here, we discuss a detailed comparison between the structural classes in RepeatsDB and the corresponding Pfam repeat families and clans. Most instances are found to map one-to-one between structure and sequence. Some notable exceptions such as leucine-rich repeats (LRRs) and α-solenoids are discussed.
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October 2015
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Review Article|
October 09 2015
Comparison of protein repeat classifications based on structure and sequence families
Lisanna Paladin;
Lisanna Paladin
*Department of Biomedical Sciences, University of Padua, viale G. Colombo 3, 35121 Padova, Italy
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Silvio C.E. Tosatto
Silvio C.E. Tosatto
1
*Department of Biomedical Sciences, University of Padua, viale G. Colombo 3, 35121 Padova, Italy
1To whom correspondence should be addressed (emailsilvio.tosatto@unipd.it).
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Publisher: Portland Press Ltd
Received:
April 21 2015
Online ISSN: 1470-8752
Print ISSN: 0300-5127
© 2015 Authors; published by Portland Press Limited
2015
Biochem Soc Trans (2015) 43 (5): 832–837.
Article history
Received:
April 21 2015
Citation
Lisanna Paladin, Silvio C.E. Tosatto; Comparison of protein repeat classifications based on structure and sequence families. Biochem Soc Trans 1 October 2015; 43 (5): 832–837. doi: https://doi.org/10.1042/BST20150079
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