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PREX: PeroxiRedoxin classification indEX, a database of subfamily assignments across the diverse peroxiredoxin family

Fetrow, Jacquelyn S.

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title
PREX: PeroxiRedoxin classification indEX, a database of subfamily assignments across the diverse peroxiredoxin family
author
Soito, Laura
author
Williamson, Chris
author
Knutson, Stacy T.
author
Fetrow, Jacquelyn S.
author
Poole, Leslie B.
author
Nelson, Kimberly J.
abstract
PREX (http://www.csb.wfu.edu/prex/) is a database of currently 3516 peroxiredoxin (Prx or PRDX) protein sequences unambiguously classified into one of six distinct subfamilies. Peroxiredoxins are a diverse and ubiquitous family of highly expressed, cysteine-dependent peroxidases that are important for antioxidant defense and for the regulation of cell signaling pathways in eukaryotes. Subfamily members were identified using the Deacon Active Site Profiler (DASP) bioinformatics tool to focus in on functionally relevant sequence fragments surrounding key residues required for protein activity. Searches of this database can be conducted by protein annotation, accession number, PDB ID, organism name or protein sequence. Output includes the subfamily to which each classified Prx belongs, accession and GI numbers, genus and species and the functional site signature used for classification. The query sequence is also presented aligned with a select group of Prxs for manual evaluation and interpretation by the user. A synopsis of the characteristics of members of each subfamily is also provided along with pertinent references.
citation
Supplement 1 (issue)
39 (volume)
date
2014-01-13T18:56:23Z (accessioned)
2014-01-13T18:56:23Z (available)
2010 (issued)
identifier
Soito, L.; Williamson, C.; Knutson, S.T.; Fetrow, J.S.; Poole, L.B.; Nelson, K.J. (2010). "PREX: PeroxiRedoxin classification indEX, a database of subfamily assignments across the diverse peroxiredoxin family." Nucleic Acids Research, 39(suppl 1):D332-D337. Available at http://dx.doi.org/10.1093/nar/gkq1060. (citation)
http://hdl.handle.net/10339/39108 (uri)
http://dx.doi.org/10.1093/nar/gkq1060 (uri)
publisher
Oxford University Press
source
Nucleic Acids Research
type
Article

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