Databases

• UniProtKB/Swiss-Prot • protein sequence database • [more]
  UniProtKB/Swiss-Prot  •  UniProtKB/Swiss-Prot is the manually annotated component of UniProtKB. It contains manually-annotated (reviewed) records with information extracted from the literature and curator-evaluated computational analysis. [less]

• GlycoSuiteDB • glycan database • [more]
  GlycoSuiteDB  •  GlycoSuiteDB is a curated and annotated glycan database [less]
• SugarBind • pathogen sugar-binding • [more]
  SugarBind  •  This database provides a list of known carbohydrate sequences to which pathogenic organisms specifically adhere. The data were compiled through an exhaustive search of literature published over the past 30 years by glycobiologists, microbiologists, and medical histologists.  [less]

Tools

• FindMod • protein post-translational modification prediction • [more]
  FindMod  •  Predict potential protein post-translational modifications (PTM) and find potential single amino acid substitutions in peptides. The experimentally measured peptide masses are compared with the theoretical peptides calculated from a specified Swiss-Prot/TrEMBL entry or from a user-entered sequence, and mass differences are used to better characterise the protein of interest. [less]
• GlycanMass • oligosaccharide structure mass calculation • [more]
  GlycanMass  •  Calculate the mass of an oligosaccharide structure. [less]
• GlycoMod • oligosaccharide structure prediction • [more]
  GlycoMod  •  Predict possible oligosaccharide structures that occur on proteins from their experimentally determined masses. The program can be used for free or derivatized oligosaccharides and for glycopeptides. [less]
• Myristoylator • N-terminal myristoylation prediction • [more]
  Myristoylator  •  Predict N-terminal myristoylation of proteins by neural networks. Myristoylator uses ensembles of neural networks, in order to learn to discriminate positive and negative sequences for N-myristoylation. [less]
• QuickMod • identification of ms/ms data • [more]
  QuickMod  •  QuickMod is a spectral library search based MSMS data analysis tool, designed to identify modified peptides. The QuickMod algorithm assumes that the precursor mass difference between a query spectrum and a candidate library spectrum can be explained by a modification. Based on this assumption the two spectra are aligned and the fit of the spectral alignment is assigned a similarity score. In a second step the most likely attachment position of the modification is determined.  [less]
• Sulfinator • tyrosine sulfation site prediction • [more]
  Sulfinator  •  The Sulfinator is a software tool able to predict tyrosine sulfation sites in protein sequences. It employs four different Hidden Markov Models that were built to recognise sulfated tyrosine residues located N-terminally, within sequence windows of more than 25 amino acids and C-terminally, as well as sulfated tyrosines clustered within 25 amino acid windows, respectively. All four HMMs contain the distilled information from one multiple sequence alignment. [less]