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
• QSLiMFinder - Motif discovery from collections of interacting proteins
• 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
• PeCan - Cancer mutation visualisation
• SignaLink - a signaling pathway resource with multi-layered regulatory networks
• UTOPIA/CINEMA - Annotated alignment visualisation tool