automatically extracting functionally equivalent proteins from swissprot从swissprot自动提取功能与蛋白质.pdfVIP

BMC Bioinformatics BioMed Central Database Open Access Automatically extracting functionally equivalent proteins from SwissProt Lisa EM McMillan and Andrew CR Martin* Address: Research Department of Structural Molecular Biology, University College London, Gower Street, London WC1E 6BT, UK Email: Lisa EM McMillan - mcmillan@biochem.ucl.ac.uk; Andrew CR Martin* - andrew@.uk * Corresponding author Published: 6 October 2008 Received: 3 March 2008 Accepted: 6 October 2008 BMC Bioinformatics 2008, 9:418 doi:10.1186/1471-2105-9-418 This article is available from: /1471-2105/9/418 © 2008 McMillan and Martin; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Abstract 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/Swiss- Prot 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 gr