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      ELM server: a new resource for investigating short functional sites in modular eukaryotic proteins

      Nucleic Acids Research
      Oxford University Press (OUP)

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          Abstract

          Multidomain proteins predominate in eukaryotic proteomes. Individual functions assigned to different sequence segments combine to create a complex function for the whole protein. While on-line resources are available for revealing globular domains in sequences, there has hitherto been no comprehensive collection of small functional sites/motifs comparable to the globular domain resources, yet these are as important for the function of multidomain proteins. Short linear peptide motifs are used for cell compartment targeting, protein-protein interaction, regulation by phosphorylation, acetylation, glycosylation and a host of other post-translational modifications. ELM, the Eukaryotic Linear Motif server at http://elm.eu.org/, is a new bioinformatics resource for investigating candidate short non-globular functional motifs in eukaryotic proteins, aiming to fill the void in bioinformatics tools. Sequence comparisons with short motifs are difficult to evaluate because the usual significance assessments are inappropriate. Therefore the server is implemented with several logical filters to eliminate false positives. Current filters are for cell compartment, globular domain clash and taxonomic range. In favourable cases, the filters can reduce the number of retained matches by an order of magnitude or more.

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          Author and article information

          Journal
          Nucleic Acids Research
          Nucleic Acids Research
          Oxford University Press (OUP)
          1362-4962
          July 01 2003
          July 01 2003
          : 31
          : 13
          : 3625-3630
          Article
          10.1093/nar/gkg545
          168952
          12824381
          9a263f82-4205-4ad9-b596-898847b45ba6
          © 2003

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