Automatically extracting functionally equivalent proteins from SwissProt

Background: There is a frequent need to obtain sets of functionally equivalent homologous proteins (FEPs) from different species. While it is usually the case that orthology implies functional equivalence, this is not always true; therefore datasets of orthologous proteins are not appropriate. The information relevant to extracting FEPs is contained in databanks such as UniProtKB/SwissProt and a manual analysis of these data allow FEPs to be extracted on a one-off basis. However there has been no resource allowing the easy, automatic extraction of groups of FEPs

• Type: Journal
• Year: 2008
• Where: BMCBI
• Authors: Lisa E. M. McMillan, Andrew C. R. Martin
• Keywords: BMCBI 2008, FEPs, Functional Equivalence, Proteins