Analysis and prediction of leucine-rich nuclear export signals

T. La Cour, Lars Kiemer, Anne Mølgaard, Ramneek Gupta, K. Skriver, Søren Brunak

    Research output: Contribution to journalJournal articleResearchpeer-review

    Abstract

    We present a thorough analysis of nuclear export signals and a prediction server, which we have made publicly available. The machine learning prediction method is a significant improvement over the generally used consensus patterns. Nuclear export signals (NESs) are extremely important regulators of the subcellular location of proteins. This regulation has an impact on transcription and other nuclear processes, which are fundamental to the viability of the cell. NESs are studied in relation to cancer, the cell cycle, cell differentiation and other important aspects of molecular biology. Our conclusion from this analysis is that the most important properties of NESs are accessibility and flexibility allowing relevant proteins to interact with the signal. Furthermore, we show that not only the known hydrophobic residues are important in defining a nuclear export signals. We employ both neural networks and hidden Markov models in the prediction algorithm and verify the method on the most recently discovered NESs. The NES predictor (NetNES) is made available for general use at http://www.cbs.dtu.dk/.
    Original languageEnglish
    JournalProtein Engineering Design & Selection
    Volume17
    Pages (from-to)527-536
    Publication statusPublished - 2004

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