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This article is part of the supplement: Tenth International Conference on Bioinformatics. First ISCB Asia Joint Conference 2011 (InCoB/ISCB-Asia 2011): Computational Biology

Open Access Proceedings

DetoxiProt: an integrated database for detoxification proteins

Zhen Yang1, Ying Yu2, Lei Yao1, Guangui Li2, Lin Wang2, Yiyao Hu1, Haibin Wei3, Li Wang4, Riadh Hammami5, Roxanne Razavi6, Yang Zhong7* and Xufang Liang2*

Author Affiliations

1 School of Life Science, Fudan University, HanDan Road 220#, Shanghai, 200433, China

2 College of Life Science and Technology, Jinan University, Guangzhou, 510632, China

3 Key Laboratory of Nutrition and Metabolism, Institute for Nutritional Sciences, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences; Shanghai, 200031, China

4 Shanghai Center for Bioinformation Technology, Shanghai, 200235, China

5 Department of Food Sciences and Nutrition, Pavillon Paul-Comtois, Université Laval, 2425 rue de l'Agriculture, Québec, QC, Canada G1V 0A6

6 Department of Biology, Queen's University, Kingston, Ontario, Canada K7L 3N6

7 Institute of Biodiversity Science and Geobiology, Tibet University, Lhasa, 850000, China

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BMC Genomics 2011, 12(Suppl 3):S2  doi:10.1186/1471-2164-12-S3-S2

Published: 30 November 2011

Abstract

Background

Detoxification proteins are a class of proteins for degradation and/or elimination of endogenous and exogenous toxins or medicines, as well as reactive oxygen species (ROS) produced by these materials. Most of these proteins are generated as a response to the stimulation of toxins or medicines. They are essential for the clearance of harmful substances and for maintenance of physiological balance in organisms. Thus, it is important to collect and integrate information on detoxification proteins.

Results

To store, retrieve and analyze the information related to their features and functions, we developed the DetoxiProt, a comprehensive database for annotation of these proteins. This database provides detailed introductions about different classes of the detoxification proteins. Extensive annotations of these proteins, including sequences, structures, features, inducers, inhibitors, substrates, chromosomal location, functional domains as well as physiological-biochemical properties were generated. Furthermore, pre-computed BLAST results, multiple sequence alignments and evolutionary trees for detoxification proteins are also provided for evolutionary study of conserved function and pathways. The current version of DetoxiProt contains 5956 protein entries distributed in 628 organisms. An easy to use web interface was designed, so that annotations about each detoxification protein can be retrieved by browsing with a specific method or by searching with different criteria.

Conclusions

DetoxiProt provides an effective and efficient way of accessing the detoxification protein sequences and other high-quality information. This database would be a valuable source for toxicologists, pharmacologists and medicinal chemists. DetoxiProt database is freely available at http://lifecenter.sgst.cn/detoxiprot/ webcite.