The Eukaryotic Linear Motif resource for
Functional Sites in Proteins

ELM related links

ELM associated resources

  • Conservation Scorer - The ELM Conservation Scorer assigns a score to each ELM which corresponds to this ELM's conservation throughout homologous sequences
  • iElm server - Exploring Interactions of Linear Motifs
  • Phospho.ELM - The Phospho.ELM database contains a collection of experimentally verified Serine, Threonine and Tyrosine sites in metazoan proteins
  • Switches.ELM - the compendium of conditional regulatory interaction interfaces

Other general motif resources

  • HPRD - The Human Protein Reference Database
  • PROSITE - Database of protein families and domains (includes patterns describing some functional sites)

Specialised motif resources

  • big-PI - GPI Modification Site Prediction
  • ChloroP - Predicts the presence of chloroplast transit peptides
  • DoReMi - context-based prioritization of linear motif matches
  • Merops - Database of peptidases (also termed proteases, proteinases and proteolytic enzymes)
  • MITOPROT - Prediction of mitochondrial targeting sequences
  • NetNGlyc - Predicts N-Glycosylation sites in human proteins
  • NetOGlyc - Predictions of mucin type GalNAc O-glycosylation sites in mammalian proteins
  • NetPhos - Prediction of phosphorylation sites
  • NMT - prediction of N-terminal N-myristoylation of proteins
  • O-GlycBase - Database of O- and C-glycosylated proteins
  • P3DB - Plant Protein Phosphorylation DataBase
  • PepCyber - Phosphopeptide-binding domain resource
  • PhosphoSitePlus - online systems biology resource providing comprehensive information and tools for the study of protein post-translational modifications
  • PredictNLS - Prediction and analysis of nuclear localization signals
  • Predotar - A prediction service for identifying putative mitochondrial and plastid targeting sequences
  • ProteomeScout - A database of proteins and post-translational modifications
  • PSORT - Predicts protein sorting signals and localization sites in amino acid sequences
  • PTMFunc - Database of PTM functional predictions
  • RESID - Database of annotations and structures for protein modifications
  • Scansite - Searches for phosphorylation sites and motifs that bind to domains such as SH2, 14-3-3 or PDZ .
  • SignalP - Prediction of cleavage sites and signal peptide/non-signal peptide prediction
  • TargetP - Prediction of subcellular location
  • The Sulfinator - Predicts tyrosine sulfation sites in protein sequences
  • YinOYang - predictions for O-beta-GlcNAc attachment sites in eukaryotic protein sequences

Protein interaction links

  • DIP - Database of interacting proteins
  • IntAct - Interaction database
  • KEGG Pathways - Wiring diagrams of molecular interactions, reactions, and relations
  • MINT - Molecular interaction database
  • ProNet - Protein interactions
  • STRING - proteins and their interactions

Motif discovery and search tools

  • DILIMOT - Explore interaction data for linear motif candidates
  • DoReMi - context-based prioritization of linear motif matches
  • eMOTIF - Motif discovery and searching
  • Glam2 - Motif finding software
  • PATTINPROT - Scan a protein database or sequence for a pattern
  • PepSite - structural method to predict peptide/protein binding
  • Pratt - Pattern discovery
  • ScanProsite - Scan a protein sequence for the occurrence of patterns or search protein databases with a user-entered pattern
  • SIRW - Combines the ability to search protein databases with keywords and a sequence motif
  • SLIMFinder - Explore interaction data for linear motif candidates
  • Swiss Shop - Service that allows you to automatically obtain (by email) new sequence entries by pattern matching.

Protein architecture links

  • 3did - a catalog of domain-based interactions of known three-dimensional structure
  • Aquaria - Insight from protein structures
  • Blocks - Database of multiply aligned ungapped segments corresponding to the most highly conserved regions of proteins
  • Compartments - Subcellular loalization database
  • D2P2 - Database of Disordered Protein Predictions
  • DisEMBL - Predictors of protein disorder
  • Diseases - Disease-gene associations mined from literature
  • DisPROT - IUP resource with native disorder DB, predictors and more
  • GlobPlot - Discover protein sequence disorder and globularity
  • InterPro - Provides an integrated view of the commonly used signature databases
  • IUPRED - predict native disorder/IUP
  • MobiDB - A database of protein disorder and mobility annotations
  • Pfam - Protein families database of alignments and HMMs
  • PredictProtein - Structure prediction and sequence analysis
  • PRINTS - Protein fingerprints database
  • ProDom - Protein domain database (automatically generated)
  • SMART - Protein domain prediction (HMMs) and annotation
  • SWISS-PROT - A curated protein sequence database
  • Tissues - Tissue expression database
  • TMHMM - Prediction of transmembrane helices in proteins
  • TMpred - Prediction of transmembrane regions and orientation

Other interesting links

  • Chimera - Extensible Molecular Modeling System
  • DEPOD - The human DEPhOsphorylation Database
  • GO - Gene Ontology - dynamic controlled vocabulary for gene and protein roles in cells
  • GOtcha - Predict function (GO terms) of proteins
  • JalView - Annotated alignment visualisation tool (Jalview Training Channel at Youtube )
  • NAR - Nucleic Acids Research Journal - Database Issue
  • SignaLink - a signaling pathway resource with multi-layered regulatory networks
  • UTOPIA/CINEMA - Annotated alignment visualisation tool
Please cite: ELM 2016-data update and new functionality of the eukaryotic linear motif resource. (PMID:26615199)

ELM data can be downloaded & distributed for non-commercial use according to the ELM Software License Agreement
feedback@elm.eu.org