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Computational prediction of short linear motifs from protein sequences
(Springer, 2015-01)
Short Linear Motifs (SLiMs) are functional protein microdomains that typically mediate interactions between a short linear region in one protein and a globular domain in another. SLiMs usually occur in structurally disordered ...
QSLiM Finder: Improved short linear motif prediction using specific query protein data
(Oxford University Press, 2015-03)
Motivation: The sensitivity of de novo short linear motif (SLiM) prediction is limited by the number of patterns (the motif space) being assessed for enrichment. QSLiMFinder uses specific query protein information to ...
The eukaryotic linear motif resource - 2018 update
(Oxford University Press, 2018-01)
Short linear motifs (SLiMs) are protein binding modules that play major roles in almost all cellular processes. SLiMs are short, often highly degenerate, difficult to characterize and hard to detect. The eukaryotic linear ...
Interplay between sequence, structure and linear motifs in the adenovirus E1A hub protein
(Academic Press Inc Elsevier Science, 2018-12)
E1A is the main transforming protein in mastadenoviruses. This work uses bioinformatics to extrapolate experimental knowledge from Human adenovirus serotype 5 and 12 E1A proteins to all known serotypes. A conserved domain ...
Thousands of protein linear motif classes may still be undiscovered
(Public Library of Science, 2021-05-03)
Linear motifs are short protein subsequences that mediate protein interactions. Hundreds of motif classes including thousands of motif instances are known. Our theory estimates how many motif classes remain undiscovered. ...
ELM—the eukaryotic linear motif resource in 2020
(Oxford University Press, 2019-11)
The eukaryotic linear motif (ELM) resource is a repository of manually curated experimentally validated short linear motifs (SLiMs). Since the initial release almost 20 years ago, ELM has become an indispensable resource ...
Short linear motif core and flanking regions modulate retinoblastoma protein binding affinity and specificity
(Oxford University Press, 2018-03)
Pocket proteins retinoblastoma (pRb), p107 and p130 are negative regulators of cellular proliferation and multifunctional proteins regulating development, differentiation and chromatin structure. The retinoblastoma protein ...
The eukaryotic linear motif resource ELM: 10 years and counting
(Oxford University Press, 2014-01)
The eukaryotic linear motif (ELM http://elm.eu.org) resource is a hub for collecting, classifying and curating information about short linear motifs (SLiMs). For >10 years, this resource has provided the scientific community ...
SLiMScape 3.x: a Cytoscape 3 app for discovery of Short Linear Motifs in protein interaction networks
(F1000 Research Ltd, 2015-08)
Short linear motifs (SLiMs) are small protein sequence patterns that mediate a large number of critical protein-protein interactions, involved in processes such as complex formation, signal transduction, localisation and ...
GibbsCluster: unsupervised clustering and alignment of peptide sequences
(Oxford University Press, 2017-04)
Receptor interactions with short linear peptide fragments (ligands) are at the base of many biological signaling processes. Conserved and information-rich amino acid patterns, commonly called sequence motifs, shape and ...