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Using subsite coupling to predict signal peptides.

K C Chou
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Abstract

Given a nascent protein sequence, how can one predict its signal peptide or "Zipcode" sequence? This is a first important problem for scientists to use signal peptides as a vehicle to find new drugs or to reprogram cells for gene therapy. Based on a model that takes into account the coupling effect among some key subsites, the so-called [-3, -1, +1] coupling model, a new prediction algorithm is developed. The overall rate of correct prediction for 1939 secretory proteins and 1440 non-secretary proteins was over 92%. It has not escaped our attention that the new method may also serve as a useful tool for helping investigate further many unclear details regarding the molecular mechanism of the ZIP code protein-sorting system in cells.

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AlgorithmsAmino Acid SequenceAnimalsAutomationComputer SimulationComputer-Aided DesignEukaryotic CellsHumansMembrane ProteinsModels, StatisticalPredictive Value of TestsProkaryotic CellsProtein Sorting SignalsProtein TransportProteinsSequence AlignmentSerine EndopeptidasesStructure-Activity RelationshipJournal Article

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K C Chou. 2001. Using subsite coupling to predict signal peptides.. https://doi.org/10.1093/protein%2F14.2.75

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