The Eukaryotic Linear Motif (ELM) resource is a computational biology resource (developed at the

European Molecular Biology Laboratory The European Molecular Biology Laboratory (EMBL) is an intergovernmental organization dedicated to molecular biology research and is supported by 29 member states, two prospect member states, and one associate member state. EMBL was created in ...

(EMBL)) for investigating

short linear motif In molecular biology short linear motifs (SLiMs), linear motifs or minimotifs are short stretches of protein primary structure, protein sequence that mediate protein–protein interaction. The first definition was given by Tim Hunt: "The sequences ...

s (SLiMs) in

eukaryotic The eukaryotes ( ) constitute the Domain (biology), domain of Eukaryota or Eukarya, organisms whose Cell (biology), cells have a membrane-bound cell nucleus, nucleus. All animals, plants, Fungus, fungi, seaweeds, and many unicellular organisms ...

protein Proteins are large biomolecules and macromolecules that comprise one or more long chains of amino acid residue (biochemistry), residues. Proteins perform a vast array of functions within organisms, including Enzyme catalysis, catalysing metab ...

s. It is currently the largest collection of linear motif classes with

annotated An annotation is extra information associated with a particular point in a document or other piece of information. It can be a note that includes a comment or explanation. Annotations are sometimes presented in the margin of book pages. For anno ...

and experimentally validated linear motif instances. Linear motifs are specified as

pattern A pattern is a regularity in the world, in human-made design, or in abstract ideas. As such, the elements of a pattern repeat in a predictable manner. A geometric pattern is a kind of pattern formed of geometric shapes and typically repeated l ...

s using

regular expression A regular expression (shortened as regex or regexp), sometimes referred to as rational expression, is a sequence of characters that specifies a match pattern in text. Usually such patterns are used by string-searching algorithms for "find" ...

rules. These expressions are used in the ELM prediction pipeline which detects putative motif instances in protein sequences. To improve the predictive power, context-based rules and logical filters are being developed and applied to reduce the amount of

false positive A false positive is an error in binary classification in which a test result incorrectly indicates the presence of a condition (such as a disease when the disease is not present), while a false negative is the opposite error, where the test resu ...

s matches. As of 2010 ELM contained 146 different motifs that annotate more than 1300 experimentally determined instances within proteins. The current version of the ELM server provides filtering by cell compartment, phylogeny, globular domain clash (using the

SMART ''SMart'' was a British CBBC television programme based on art, which began in 1994 and ended in 2009. The programme was recorded at BBC Television Centre in London. Previously it had been recorded in Studio A at Pebble Mill Studios in Birmingha ...

Pfam Pfam is a database of protein families that includes their annotations and multiple sequence alignments generated using hidden Markov models. The latest version of Pfam, 37.0, was released in June 2024 and contains 21,979 families. It is cur ...

databases) and structure. In addition, both the known ELM instances and any positionally conserved matches in sequences similar to ELM instance sequences are identified and displayed.

References

{{reflist

External links

ELM
home page Protein databases Protein domains Protein structural motifs

See also

References

External links