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 27 member states, two prospect states, and one associate member state. EMBL was created in 1974 and ...
(EMBL)) for investigating
short linear motif
In molecular biology short linear motifs (SLiMs), linear motifs or minimotifs are short stretches of protein sequence that mediate protein–protein interaction.
The first definition was given by Tim Hunt:
"The sequences of many proteins contain s ...
s (SLiMs) in
eukaryotic
Eukaryotes () are organisms whose cells have a nucleus. All animals, plants, fungi, and many unicellular organisms, are Eukaryotes. They belong to the group of organisms Eukaryota or Eukarya, which is one of the three domains of life. Bacte ...
protein
Proteins are large biomolecules and macromolecules that comprise one or more long chains of amino acid residues. Proteins perform a vast array of functions within organisms, including catalysing metabolic reactions, DNA replication, respo ...
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
patterns using
regular expression 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 positives 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/
Pfam
Pfam is a database of protein families that includes their annotations and multiple sequence alignments generated using hidden Markov models. The most recent version, Pfam 35.0, was released in November 2021 and contains 19,632 families.
Uses
...
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.
See also
*
Phospho.ELM Phospho.ELM is a database storing the phosphorylation data extracted from the literature
Literature is any collection of written work, but it is also used more narrowly for writings specifically considered to be an art form, especially prose ...
*
Minimotif miner Minimotif Miner is a program and database designed to identify minimotifs in any protein. Minimotifs are short contiguous peptide sequences that are known to have a function in at least one protein. Minimotifs are also called sequence motifs or sh ...
References
{{reflist
External links
ELMhome page
Biological databases
Protein domains
Protein structural motifs