ELM - Functional Sites in Proteins

ELM related links

ELM associated databases

Phospho.ELM - The Phospho.ELM database contains a collection of experimentally verified Serine, Threonine and Tyrosine sites in metazoan proteins

Other general motif resources

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

Specialised motif resources

PepCyber - Phosphopeptide-binding domain resource
NetPhos - Prediction of phosphorylation sites
Scansite - Searches for phosphorylation sites and motifs that bind to domains such as SH2, 14-3-3 or PDZ .
iSPOT - Prediction of interaction with protein domains (SH3, PDZ, WW...)
O-GlycBase - Database of O- and C-glycosylated proteins
NetOGlyc - Predictions of mucin type GalNAc O-glycosylation sites in mammalian proteins
YinOYang - predictions for O-beta-GlcNAc attachment sites in eukaryotic protein sequences
NetNGlyc - Predicts N-Glycosylation sites in human proteins
PredictNLS - Prediction and analysis of nuclear localization signals
The Sulfinator - Predicts tyrosine sulfation sites in protein sequences
NMT - prediction of N-terminal N-myristoylation of proteins
big-PI - GPI Modification Site Prediction
DGPI - Detection/prediction of GPI cleavage site (GPI-anchor) in a protein
RESID - Database of annotations and structures for protein modifications
DeltaMass - Mass database of protein post translational modifications
PSORT - Predicts protein sorting signals and localization sites in amino acid sequences
TargetP - Prediction of subcellular location
SignalP - Prediction of cleavage sites and signal peptide/non-signal peptide prediction
ChloroP - Predicts the presence of chloroplast transit peptides
MITOPROT - Prediction of mitochondrial targeting sequences
Predotar - A prediction service for identifying putative mitochondrial and plastid targeting sequences

Many of these links were collected from ExPASy and Amos' WWW links.

Protein interaction links

Motif discovery and search tools

SIRW - Combines the ability to search protein databases with keywords and a sequence motif
ScanProsite - Scan a protein sequence for the occurrence of patterns or search protein databases with a user-entered pattern
PATTINPROT - Scan a protein database or sequence for a pattern
Swiss Shop - Service that allows you to automatically obtain (by email) new sequence entries by pattern matching.
Pratt - Pattern discovery
eMOTIF - Motif discovery and searching
Teiresias - Sequence pattern discovery
FPAT - Regular expression searches of sequence databases
DILIMOT - Explore interaction data for linear motif candidates
SLIMFinder - Explore interaction data for linear motif candidates
Glam2 - Motif finding software

Protein architecture links

SWISS-PROT - A curated protein sequence database
InterPro - Provides an integrated view of the commonly used signature databases (domains and functional sites)
SMART - Protein domain prediction (HMMs) and annotation
Pfam - Protein families database of alignments and HMMs
ProDom - Protein domain database (automatically generated)
GlobPlot - Discover protein sequence disorder and globularity
DisEMBL - Predictors of protein disorder
Blocks - Databsae of multiply aligned ungapped segments corresponding to the most highly conserved regions of proteins
PRINTS - Protein fingerprints database
PredictProtein - Structure prediction and sequence analysis
TMHMM - Prediction of transmembrane helices in proteins
TMpred - Prediction of transmembrane regions and orientation
IUPRED - predict native disorder/IUP
RONN - predict native disorder/IUP
DisPROT - IUP resource with native disorder DB, predictors and more