LINKER: A program to generate linker sequences for fusion proteins

Chiquito J. Crasto, Jin An Feng

Research output: Contribution to journalArticlepeer-review

84 Scopus citations


The construction of functional fusion proteins often requires a linker sequence that adopts an extended conformation to allow for maximal flexibility. Linker sequences are generally selected based on intuition. Without a reliable selection criterion, the design of such linkers is often difficult, particularly in situations where longer linker sequences are required. Here we describe a program called LINKER which can automatically generate a set of linker sequences that are known to adopt extended conformations as determined by X-ray crystallography and MMR. The only required input to the program is the desired linker sequence length. The program is specifically designed to assist in fusion protein construction. A number of optional input parameters have been incorporated so that users are able to enhance sequence selection based on specific applications. The program output simply contains a set of sequences with a specified length. This program should be a useful tool in both the biotechnology industry and biomedical research. It can be accessed through the Web page

Original languageEnglish
Pages (from-to)309-312
Number of pages4
JournalProtein Engineering
Issue number5
StatePublished - 2000


  • Fusion protein
  • Linker sequence
  • Loop library
  • Program
  • Proteins


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