Tools for peptides

PESTfind - Identification of PEST regions at EMBnet Austria

HLA_Bind - Prediction of MHC type I (HLA) peptide binding

PEPVAC - Prediction of supertypic MHC binders

RANKPEP - Prediction of peptide MHC binding

SYFPEITHI - Prediction of MHC type I and II peptide binding

ProtScale - Amino acid scale representation (Hydrophobicity, other conformational parameters, etc.)

Drawhca - Draw an HCA (Hydrophobic Cluster Analysis) plot of a protein sequence

Protein Colourer - Tool for coloring your amino acid sequence

Three To One - Tool to convert a three-letter coded amino acid sequence to single letter code

Colorseq - Tool to highlight (in red) a selected set of residues in a protein sequen

Protein identification and characterization

Identification and characterization with peptide mass fingerprinting data

Aldente - Identify proteins with peptide mass fingerprinting data. A new, fast and powerful tool that takes advantage of Hough transformation for spectra recalibration and outlier exclusion

FindMod - Predict potential protein post-translational modifications and potential single amino acid substitutions in peptides. Experimentally measured peptide masses are compared with the theoretical peptides calculated from a specified Swiss-Prot entry or from a user-entered sequence, and mass differences are used to better characterize the protein of interest.

FindPept - Identify peptides that result from unspecific cleavage of proteins from their experimental masses, taking into account artefactual chemical modifications, post-translational modifications (PTM) and protease autolytic cleavage

GlycoMod - Predict possible oligosaccharide structures that occur on proteins from their experimentally determined masses (can be used for free or derivatized oligosaccharides and for glycopeptides)