LINKER: a web server to generate peptide sequences with extended conformation
1 Department of Chemistry and 2 Center for Biotechnology, Temple University, 1901 N 13th Street, Philadelphia, PA 19122, USA
* To whom correspondence should be addressed at Department of Chemistry, Temple University, 1901 N 13th Street, Philadelphia, PA 19122, USA. Tel: +1 215 204 7128; Fax: +1 215 204 1532; E-mail: feng{at}astro.temple.edu
Received February 14, 2004; Revised and Accepted April 8, 2004
LINKER was developed as an online server to assist biomedical researchers to design linker sequences for constructing functional fusion proteins. The program automatically generates a set of peptide sequences that are known to adopt extended conformations as determined by X-ray crystallography and NMR. In addition to the desired linker sequence length, the web interface provides a number of optional input parameters so that the users may enhance sequence selection based on the requirements of specific applications. The output of LINKER includes a list of peptide sequences with specified length and sequence characteristics. A graphical subroutine was implemented to highlight the chemical features of every linker sequence by hydrophobicity plots. LINKER can be accessed at http://astro.temple.edu/~feng/Servers/BioinformaticServers.htm.
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