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P(3)DB: a plant protein phosphorylation database
P(3)DB (http://www.p3db.org/) provides a resource of protein phosphorylation data from multiple plants. The database was initially constructed with a dataset from oilseed rape, including 14 670 nonredundant phosphorylation sites from 6382 substrate proteins, representing the largest collection of pl...
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Formato: | Texto |
Lenguaje: | English |
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Oxford University Press
2009
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Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686431/ https://www.ncbi.nlm.nih.gov/pubmed/18931372 http://dx.doi.org/10.1093/nar/gkn733 |
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author | Gao, Jianjiong Agrawal, Ganesh Kumar Thelen, Jay J. Xu, Dong |
author_facet | Gao, Jianjiong Agrawal, Ganesh Kumar Thelen, Jay J. Xu, Dong |
author_sort | Gao, Jianjiong |
collection | PubMed |
description | P(3)DB (http://www.p3db.org/) provides a resource of protein phosphorylation data from multiple plants. The database was initially constructed with a dataset from oilseed rape, including 14 670 nonredundant phosphorylation sites from 6382 substrate proteins, representing the largest collection of plant phosphorylation data to date. Additional protein phosphorylation data are being deposited into this database from large-scale studies of Arabidopsis thaliana and soybean. Phosphorylation data from current literature are also being integrated into the P(3)DB. With a web-based user interface, the database is browsable, downloadable and searchable by protein accession number, description and sequence. A BLAST utility was integrated and a phosphopeptide BLAST browser was implemented to allow users to query the database for phosphopeptides similar to protein sequences of their interest. With the large-scale phosphorylation data and associated web-based tools, P(3)DB will be a valuable resource for both plant and nonplant biologists in the field of protein phosphorylation. |
format | Text |
id | pubmed-2686431 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2009 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-26864312009-05-26 P(3)DB: a plant protein phosphorylation database Gao, Jianjiong Agrawal, Ganesh Kumar Thelen, Jay J. Xu, Dong Nucleic Acids Res Articles P(3)DB (http://www.p3db.org/) provides a resource of protein phosphorylation data from multiple plants. The database was initially constructed with a dataset from oilseed rape, including 14 670 nonredundant phosphorylation sites from 6382 substrate proteins, representing the largest collection of plant phosphorylation data to date. Additional protein phosphorylation data are being deposited into this database from large-scale studies of Arabidopsis thaliana and soybean. Phosphorylation data from current literature are also being integrated into the P(3)DB. With a web-based user interface, the database is browsable, downloadable and searchable by protein accession number, description and sequence. A BLAST utility was integrated and a phosphopeptide BLAST browser was implemented to allow users to query the database for phosphopeptides similar to protein sequences of their interest. With the large-scale phosphorylation data and associated web-based tools, P(3)DB will be a valuable resource for both plant and nonplant biologists in the field of protein phosphorylation. Oxford University Press 2009-01 2008-10-17 /pmc/articles/PMC2686431/ /pubmed/18931372 http://dx.doi.org/10.1093/nar/gkn733 Text en © 2008 The Author(s) http://creativecommons.org/licenses/by-nc/2.0/uk/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Articles Gao, Jianjiong Agrawal, Ganesh Kumar Thelen, Jay J. Xu, Dong P(3)DB: a plant protein phosphorylation database |
title | P(3)DB: a plant protein phosphorylation database |
title_full | P(3)DB: a plant protein phosphorylation database |
title_fullStr | P(3)DB: a plant protein phosphorylation database |
title_full_unstemmed | P(3)DB: a plant protein phosphorylation database |
title_short | P(3)DB: a plant protein phosphorylation database |
title_sort | p(3)db: a plant protein phosphorylation database |
topic | Articles |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686431/ https://www.ncbi.nlm.nih.gov/pubmed/18931372 http://dx.doi.org/10.1093/nar/gkn733 |
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