title: Locating proteins in the cell using TargetP, SignalP and related tools.
abstract: Determining the subcellular localization of a protein is an important first step toward understanding its function. Here, we describe the properties of three well-known N-terminal sequence motifs directing proteins to the secretory pathway, mitochondria and chloroplasts, and sketch a brief history of methods to predict subcellular localization based on these sorting signals and other sequence properties. We then outline how to use a number of internet-accessible tools to arrive at a reliable subcellular localization prediction for eukaryotic and prokaryotic proteins. In particular, we provide detailed step-by-step instructions for the coupled use of the amino-acid sequence-based predictors TargetP, SignalP, ChloroP and TMHMM, which are all hosted at the Center for Biological Sequence Analysis, Technical University of Denmark. In addition, we describe and provide web references to other useful subcellular localization predictors. Finally, we discuss predictive performance measures in general and the performance of TargetP and SignalP in particular.
authors: Stockholm Bioinformatics Center, Albanova, Stockholm University, SE-10691 Stockholm, Sweden.
authors: Olof
authors: O
authors: Emanuelsson
authors: Søren
authors: S
authors: Brunak
authors: Gunnar
authors: G
authors: von Heijne
authors: Henrik
authors: H
authors: Nielsen
mesh_terms: D020816:Amino Acid Motifs; D029681:Arabidopsis Proteins / Q000032:analysis / Q000737:chemistry; D019295:Computational Biology / Q000379:methods*; D021382:Protein Sorting Signals; D011506:Proteins / Q000032:analysis*; D020539:Sequence Analysis, Protein / Q000379:methods*; D012984:Software
chemical_list: D029681:Arabidopsis Proteins; D021382:Protein Sorting Signals; D011506:Proteins