VIP DB - A viral protein domain usage and distribution database

Ting-Wen Chen*, Richie Ruei Chi Gan, Timothy H. Wu, Wen Chang Lin, Petrus Tang

*Corresponding author for this work

Research output: Contribution to journalArticlepeer-review

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.

Original languageEnglish
Pages (from-to)149-156
Number of pages8
JournalGenomics
Volume100
Issue number3
DOIs
StatePublished - 1 Sep 2012

Keywords

  • Domain-domain interaction
  • Protein annotation
  • Protein domain
  • Viral protein interaction

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