Article abstract

REFERENCE

Feature based prediction of non-classical and leaderless protein secretion.
J. Dyrløv Bendtsen1, L. Juhl Jensen1, N. Blom1, G. von Heijne2 and S. Brunak1.
Protein Eng. Des. Sel., 17(4):349-356, 2004

1 Center for Biological Sequence Analysis, The Technical University of Denmark, DK-2800 Lyngby, Denmark
2 Stockholm Bioinformatics Center, Department of Biochemistry, Stockholm University, S-106 91 Stockholm, Sweden


ABSTRACT

We present a sequence based method - SecretomeP - for prediction of mammalian secretory proteins targeted to the non-classical secretory pathway, i.e. proteins without an N-terminal signal peptide. So far only a limited number of proteins have been shown experimentally to enter the non-classical secretory pathway. These are mainly fibroblast growth factors, interleukins and galectins found in the extracellular matrix. We have discovered that certain pathway independent features are shared among secreted proteins. The method presented here is also capable of predicting (signal peptide containing) secretory proteins where only the mature part of the protein has been annotated, or cases where the signal peptide remains uncleaved. By scanning the entire human proteome we identify new proteins potentially undergoing non-classical secretion.

PMID: 15115854         doi: 10.1093/protein/gzh037