A Comprehensive Bioinformatics Analysis of the Nudix Superfamily in Arabidopsis thaliana
Joint Authors
Gayler, K. R.
Gunawardana, D.
Likić, Vladimir A.
Source
International Journal of Genomics
Issue
Vol. 2009, Issue 2009 (31 Dec. 2009), pp.1-13, 13 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2009-05-14
Country of Publication
Egypt
No. of Pages
13
Main Subjects
Abstract EN
Nudix enzymes are a superfamily with a conserved common reaction mechanism that provides the capacity for the hydrolysis of a broad spectrum of metabolites.
We used hidden Markov models based on Nudix sequences from the PFAM and PROSITE databases to identify Nudix hydrolases encoded by the Arabidopsis genome.
25 Nudix hydrolases were identified and classified into 11 individual families by pairwise sequence alignments.
Intron phases were strikingly conserved in each family.
Phylogenetic analysis showed that all multimember families formed monophyletic clusters.
Conserved familial sequence motifs were identified with the MEME motif analysis algorithm.
One motif (motif 4) was found in three diverse families.
All proteins containing motif 4 demonstrated a degree of preference for substrates containing an ADP moiety.
We conclude that HMM model-based genome scanning and MEME motif analysis, respectively, can significantly improve the identification and assignment of function of new members of this mechanistically-diverse protein superfamily.
American Psychological Association (APA)
Gunawardana, D.& Likić, Vladimir A.& Gayler, K. R.. 2009. A Comprehensive Bioinformatics Analysis of the Nudix Superfamily in Arabidopsis thaliana. International Journal of Genomics،Vol. 2009, no. 2009, pp.1-13.
https://search.emarefa.net/detail/BIM-988532
Modern Language Association (MLA)
Gunawardana, D.…[et al.]. A Comprehensive Bioinformatics Analysis of the Nudix Superfamily in Arabidopsis thaliana. International Journal of Genomics No. 2009 (2009), pp.1-13.
https://search.emarefa.net/detail/BIM-988532
American Medical Association (AMA)
Gunawardana, D.& Likić, Vladimir A.& Gayler, K. R.. A Comprehensive Bioinformatics Analysis of the Nudix Superfamily in Arabidopsis thaliana. International Journal of Genomics. 2009. Vol. 2009, no. 2009, pp.1-13.
https://search.emarefa.net/detail/BIM-988532
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-988532