SLiMSearch is a short, linear motif (SLiM) discovery tool. The tool searches a proteome using a motif consensus to discover putative novel motif instances. Motif attributes known to be strong discriminators of motif functionality, such as accessibility and conservation, are calculated for each instance. Instances are also annotated with experimental, proteomic and genomic data. The tool also allows instance filtering based on keyword, interaction, localisation information. In depth ontology enrichment and conservation analysis tools are also available.
A motif discovery tool to identify relatively over-constrained proximal groupings of residues within intrinsically disordered regions, indicative of putatively functional motifs. Analysis based on least divergent orthologue alignments created using a database of EnsEMBL metazoan (plus Saccharomyces cerevisiae) genomes (release 59).
SLiMFinder is a method to find shared motifs in proteins with a common attribute such as sub-cellular location or a common interaction partner.
CompariMotif takes two lists of regular expression protein (or DNA) motifs and compares them to each other, identifying which motifs have some degree of overlap. CompariMotif outputs a table of all pairs of matching motifs, along with their degree of similarity (information content) and their relationship to each other.
SLiM Visualisation
ProViz (Protein Vizualisation) is an interactive exploration tool for investigating the functional and evolutionary features of proteins. The tool is designed to be an intuitive and accessible resource to allow users with limited bioinformatic skills to rapidly access and visualise data pertinent to their research.
SLiM Databases
The ELM resource mainly focuses on annotation and detection of eukaryotic linear motifs (ELMs) by providing both a repository of annotated motif data and an exploratory tool for motif prediction.
The switches.ELM resource consists of a database that curates experimentally validated motif-based molecular switches and a prediction tool to identify possible switching mechanisms that might regulate a user-submitted motif of interest. This tool helps to extend knowledge and direct research on how motifs mediate cooperative decision-making in a context-dependent manner and direct reliable and robust cell regulation.
Intriniscally Disordered Region Databases
DisProt is a community resource annotating protein sequences for intrinsically disorder regions from the literature. It classifies intrinsic disorder based on experimental methods and three ontologies for molecular function, transition and binding partner. See About page for more information..
MobiDB is a curated biological database designed to offer a centralized resource for annotations of intrinsic protein disorder.
Other
HIV Mutation Browser - Link
A database of mutagenesis and mutation information on Human Immunodefiency Virus (HIV). The data is collated from the scientific literature using computational text-mining tools, and presented in a "protein-centered" view
Article Supplements
PP2A discovery analysis - Link
Supplementary website for the paper: "A conserved binding motif provides substrate specificity to the PP2A-B56 phosphatase" (pubmed).
Supplementary website for the paper: “Building a regulatory network with short linear sequence motifs – lessons from the degrons of the anaphase-promoting complex“ (pubmed).
Supplementary data for the paper: “The Mitotic Checkpoint Complex requires an evolutionary conserved cassette to bind and inhibit active APC/C" (pubmed).