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How to Annotate and Submit a Short Linear Motif to the Eukaryotic Linear Motif Resource

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Intrinsically Disordered Proteins

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2141))

Abstract

Over the past few years, it has become apparent that approximately 35% of the human proteome consists of intrinsically disordered regions. Many of these disordered regions are rich in short linear motifs (SLiMs) which mediate protein–protein interactions. Although these motifs are short and often partially conserved, they are involved in many important aspects of protein function, including cleavage, targeting, degradation, docking, phosphorylation, and other posttranslational modifications. The Eukaryotic Linear Motif resource (ELM) was established over 15 years ago as a repository to store and catalogue the scientific discoveries of motifs. Each motif in the database is annotated and curated manually, based on the experimental evidence gathered from publications. The entries themselves are submitted to ELM by filling in two annotation templates designed for motif class and motif instance annotation. In this protocol, we describe the steps involved in annotating new motifs and how to submit them to ELM.

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Acknowledgments

We would like to thank Rita Pancsa and Athina Diakogianni for their valuable feedback on the manuscript and the team of annotators and curators who have contributed their time, knowledge, and efforts to the ELM database. JC was supported by the European Union’s Horizon 2020 research and innovation programme under the Marie Sklodowska-Curie grant agreement No. 675341 (PDZnet).

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Authors and Affiliations

  1. Structural and Computational Biology Unit, European Molecular Biology Laboratory, Heidelberg, Germany

    Marc Gouw, Jesús Alvarado-Valverde, Jelena Čalyševa, Francesca Diella, Manjeet Kumar, Sushama Michael, Kim Van Roey & Toby J. Gibson

  2. Faculty of Biosciences, Collaboration for Joint PhD Degree between EMBL and Heidelberg University, Heidelberg, Germany

    Jesús Alvarado-Valverde & Jelena Čalyševa

  3. Max Planck Institute for Biological Cybernetics, Tübingen, Germany

    Holger Dinkel

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  1. Marc Gouw
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  2. Jesús Alvarado-Valverde
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  4. Francesca Diella
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  5. Manjeet Kumar
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  6. Sushama Michael
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  7. Kim Van Roey
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  8. Holger Dinkel
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  9. Toby J. Gibson
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Correspondence to Toby J. Gibson .

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Editors and Affiliations

  1. Structural Biology and NMR Laboratory, Department of Biology, University of Copenhagen, København N, Denmark

    Birthe B. Kragelund

  2. Linderstrøm-Lang Centre for Protein Science, Department of Biology, University of Copenhagen, Copenhagen, Denmark

    Karen Skriver

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Gouw, M. et al. (2020). How to Annotate and Submit a Short Linear Motif to the Eukaryotic Linear Motif Resource. In: Kragelund, B.B., Skriver, K. (eds) Intrinsically Disordered Proteins. Methods in Molecular Biology, vol 2141. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-0524-0_4

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  • DOI: https://doi.org/10.1007/978-1-0716-0524-0_4

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-0716-0523-3

  • Online ISBN: 978-1-0716-0524-0

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