Databases

• UniProtKB • functional information on proteins • [more]
  UniProtKB  •  The UniProt Knowledgebase (UniProtKB) is produced by the UniProt consortium composed of EBI (Rolf Apweiler), PIR (Cathy Wu) and SIB (Swiss-Prot group, Ioannis Xenarios). It is the central hub for the collection of functional information on proteins with accurate, consistent and rich annotation. It consists of: UniProtKB/Swiss-Prot (manually-annotated records and curator-evaluated computational analysis) and UniProtKB/TrEMBL (computationally analyzed records awaiting manual annotation). [less]
• 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]
• ViralZone • portal to viral UniProtKB entries • [more]
  ViralZone  •  ViralZone is a web resource for all viral genus and families, providing general molecular and epidemiological informations, along with virion and genome figures. Each virus or family page gives an easy access to UniProtKB/Swiss-Prot viral protein entries. [less]
• neXtProt • human proteins • [more]
  neXtProt  •  neXtProt is an innovative knowledge platform dedicated to human proteins. This resource contains a wealth of high-quality data on all the human proteins that are produced by the 20'000 protein-coding genes found in the human genome. The content of neXtProt is continuously extended so as to provide many more carefully selected data sets and analysis tools. [less]

• HAMAP • Microbial proteome annotation in UniProtKB • [more]
  HAMAP  •  HAMAP is a system, based on manual protein annotation, that identifies and semi-automatically annotates proteins that are part of well-conserved families or subfamilies: the HAMAP families. HAMAP is based on manually created family rules and is applied to bacterial, archaeal and plastid-encoded proteins. [less]
• SwissVar • variants in UniProtKB entries • [more]
  SwissVar  •  SwissVar is a portal to search variants in UniProt Knowledgebase (UniProtKB) entries, and gives direct access to manual annotation on the genotype-phenotype relationship of each specific variant based on literature, as well as pre-computed information (such as conservation scores and a list of structural features when available) to help assess the effect of the variant. [less]

Tools

• Decrease redundancy • Sequence redundancy reduction • [more]
  Decrease redundancy  •  Redundancy reduction in a set of aligned or unaligned sequences [less]
• FindPept • peptide identification from unspecific cleavage • [more]
  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. [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]
• HAMAP • Microbial proteome annotation in UniProtKB • [more]
  HAMAP  •  HAMAP is a system, based on manual protein annotation, that identifies and semi-automatically annotates proteins that are part of well-conserved families or subfamilies: the HAMAP families. HAMAP is based on manually created family rules and is applied to bacterial, archaeal and plastid-encoded proteins. [less]
• PeptideCutter • protein cleavage sites prediction • [more]
  PeptideCutter  •  Predict potential cleavage sites cleaved by proteases or chemicals in a given protein sequence. PeptideCutter returns the query sequence with the possible cleavage sites mapped on it and/or a table of cleavage site positions. [less]
• PeptideMass • peptides from protein cleavage • [more]
  PeptideMass  •  Cleave a protein sequence with a chosen enzyme, and computes the masses of the generated peptides. The tool also returns theoretical isoelectric point and mass values for the protein of interest. If desired, PeptideMass can return the mass of peptides known to carry post-translational modifications, and can highlight peptides whose masses may be affected by database conflicts, polymorphisms or splice variants. [less]
• TagIdent • protein identification with PI, Mw and tag • [more]
  TagIdent  •  Identify proteins with isoelectric point (pI), molecular weight (Mw) and sequence tag, or generate a list of proteins close to a given pI and Mw. [less]