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This article is part of the supplement: Eighth International Conference on Bioinformatics (InCoB2009): Computational Biology

Open Access Proceedings

MitoInteractome: Mitochondrial protein interactome database, and its application in 'aging network' analysis

Rohit Reja12, AJ Venkatakrishnan1, Jungwoo Lee3, Byoung-Chul Kim1, Jea-Woon Ryu1, Sungsam Gong4, Jong Bhak12* and Daeui Park1*

Author Affiliations

1 Korean Bioinformation Center, KRIBB, Daejeon, 305-806, Korea

2 Bioinformatics department, University of Science and Technology, Daejeon, 305-806, Korea

3 Scotch College, 1 Morrison Street, Hawthorn, VIC 3122, Australia

4 Department of Biochemistry, Biocomputing Group, University of Cambridge, Cambridge, CB2 1QW, UK

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BMC Genomics 2009, 10(Suppl 3):S20  doi:10.1186/1471-2164-10-S3-S20

Published: 3 December 2009

Abstract

Background

Mitochondria play a vital role in the energy production and apoptotic process of eukaryotic cells. Proteins in the mitochondria are encoded by nuclear and mitochondrial genes. Owing to a large increase in the number of identified mitochondrial protein sequences and completed mitochondrial genomes, it has become necessary to provide a web-based database of mitochondrial protein information.

Results

We present 'MitoInteractome', a consolidated web-based portal containing a wealth of information on predicted protein-protein interactions, physico-chemical properties, polymorphism, and diseases related to the mitochondrial proteome. MitoInteractome contains 6,549 protein sequences which were extracted from the following databases: SwissProt, MitoP, MitoProteome, HPRD and Gene Ontology database. The first general mitochondrial interactome has been constructed based on the concept of 'homologous interaction' using PSIMAP (Protein Structural Interactome MAP) and PEIMAP (Protein Experimental Interactome MAP). Using the above mentioned methods, protein-protein interactions were predicted for 74 species. The mitochondrial protein interaction data of humans was used to construct a network for the aging process. Analysis of the 'aging network' gave us vital insights into the interactions among proteins that influence the aging process.

Conclusion

MitoInteractome is a comprehensive database that would (1) aid in increasing our understanding of the molecular functions and interaction networks of mitochondrial proteins, (2) help in identifying new target proteins for experimental research using predicted protein-protein interaction information, and (3) help in identifying biomarkers for diagnosis and new molecular targets for drug development related to mitochondria. MitoInteractome is available at http://mitointeractome.kobic.kr/ webcite.