Amino Acid Sequence Database Suitable for the Protein and Proteome Analysis

Authors: Kawakami, Takao; Ozaki, Junko; Kondo, Kazuhiro; Sato, Shinji; Yunokawa, Harunobu

Source: Current Proteomics, Volume 5, Number 4, December 2008 , pp. 267-275(9)

Publisher: Bentham Science Publishers

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Abstract:

Amino acid sequence database is one of the essential components in the current proteomics with mass spectrometry. Protein identification routine as well as posttranslational modification analysis is based on correlation between the mass spectrometry data of peptides obtained from proteome and the entry sequences in the database. While different sequence databases are available from public resources for the correlation search, these primary sequence data can be processed into more useful forms. In alteration of the unmodified precursor sequences according to their biological processes and variations, the altered sequence database allows to output the search results on the matured polypeptides. Modification of the composition in sequence database would be practically beneficial to the wide range from the detail analysis focusing on a single protein to the biomarker discovery studies for the clinical utility.

Keywords: Alternative splicing; database search program; peptide identification; posttranslational processing; sequence annotation; sequence database; tandem mass spectrometry

Document Type: Research article

DOI: http://dx.doi.org/10.2174/157016408786733815

Publication date: 2008-12-01

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Current Proteomics research in the emerging field of proteomics is growing at an extremely rapid rate. The principal aim of Current Proteomics is to publish well-timed review articles in this fast-expanding area on topics relevant and significant to the development of proteomics. Current Proteomics is an essential journal for everyone involved in proteomics and related fields in both academia and industry.