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Genomics. 2012 Sep;100(3):149-56. doi: 10.1016/j.ygeno.2012.06.008. Epub 2012 Jun 24.

VIP DB--a viral protein domain usage and distribution database.

Author information

1
Molecular Medicine Research Center, Chang Gung University, Taoyuan, Taiwan. g39328001@ym.edu.tw

Abstract

During the viral infection and replication processes, viral proteins are highly regulated and may interact with host proteins. However, the functions and interaction partners of many viral proteins have yet to be explored. Here, we compiled a VIral Protein domain DataBase (VIP DB) to associate viral proteins with putative functions and interaction partners. We systematically assign domains and infer the functions of proteins and their protein interaction partners from their domain annotations. A total of 2,322 unique domains that were identified from 2,404 viruses are used as a starting point to correlate GO classification, KEGG metabolic pathway annotation and domain-domain interactions. Of the unique domains, 42.7% have GO records, 39.6% have at least one domain-domain interaction record and 26.3% can also be found in either mammals or plants. This database provides a resource to help virologists identify potential roles for viral protein. All of the information is available at http://vipdb.cgu.edu.tw.

PMID:
22735743
DOI:
10.1016/j.ygeno.2012.06.008
[Indexed for MEDLINE]
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