Journal
JOURNAL OF MOLECULAR BIOLOGY
Volume 300, Issue 4, Pages 1005-1016Publisher
ACADEMIC PRESS LTD- ELSEVIER SCIENCE LTD
DOI: 10.1006/jmbi.2000.3903
Keywords
protein sorting; genome annotation; neural networks; targeting sequences; cleavage sites
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A neural network-based tool, TargetP, for large-scale subcellular location prediction of newly identified proteins has been developed. Using N-terminal sequence information only, it discriminates between proteins destined for the mitochondrion, the chloroplast, the secretory pathway, and other localizations with a success rate of 85 % (plant) or 90 % (non-plant) on redundancy-reduced test sets. From a TargetP analysis. of the recently sequenced Arabidopsis thaliana chromosomes 2 and 4 and the Ensembl Homo sapiens protein set, we estimate that 10 % of all plant proteins are mitochondrial and 14 % chloroplastic, and that the abundance of secretory proteins, in both Arabidopsis and Homo, is around 10 %. TargetP also predicts cleavage sites with levels of correctly predicted,sites ranging from approximately 40 % to 50 % (chloroplastic and mitochondrial presequences) to above 70 % (secretory signal peptides). TargetP is available as a web-server at http://www.cbs.dtu.dk/services/TargetP/. (C) 2000 Academic Press.
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