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. 2015 Jan;43(Database issue):D531-5.
doi: 10.1093/nar/gku1009. Epub 2014 Oct 20.

The human DEPhOsphorylation database DEPOD: a 2015 update

Guangyou Duan  1 , Xun Li  1 , Maja Köhn  2
Affiliations

The human DEPhOsphorylation database DEPOD: a 2015 update

Guangyou Duan et al. Nucleic Acids Res. 2015 Jan.

Abstract

Phosphatases are crucial enzymes in health and disease, but the knowledge of their biological roles is still limited. Identifying substrates continues to be a great challenge. To support the research on phosphatase-kinase-substrate networks we present here an update on the human DEPhOsphorylation Database: DEPOD (http://www.depod.org or http://www.koehn.embl.de/depod). DEPOD is a manually curated open access database providing human phosphatases, their protein and non-protein substrates, dephosphorylation sites, pathway involvements and external links to kinases and small molecule modulators. All internal data are fully searchable including a BLAST application. Since the first release, more human phosphatases and substrates, their associated signaling pathways (also from new sources), and interacting proteins for all phosphatases and protein substrates have been added into DEPOD. The user interface has been further optimized; for example, the interactive human phosphatase-substrate network contains now a 'highlight node' function for phosphatases, which includes the visualization of neighbors in the network.

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Figures

Figure 1.
Figure 1.
Flow chart of construction process of the DEPOD (version 1.1). The DEPOD core data are shown in red. EC, Enzyme Commission.
Figure 2.
Figure 2.
Usage screenshots of DEPOD. (A) Search of phosphatases/substrates/dephosphorylation site/pathways and sequence (BLAST); (B) Quick search of DEPOD; (C) Human phosphatase–substrate network.
See this image and copyright information in PMC

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