Tools in a nutshell:
- Protein identification using calculated amino acid composition of a protein.
- e.g., AACompIdent, AACompSim
- You will have to enter the amino acid composition of the protein to identify.
SWISS-PROT and TrEMBL is currently indexed for seven
constellations to choose from.
- Protein identification using biochemical fingerprinting with values such as pI, Mw and peptide mass.
- e.g., MultiIdent, PeptIdent, TagIdent, PeptideMass
- Identification of post-translational modifications and cleavage characteristics.
- e.g., FindMod, GlycoMod, GlycanMass, FindPept, PeptideCutter
- CombSearch - An experimental unified interface to query several protein identification tools accessible on the web
(but check on-line help before using).
Results
- Responses from many programs are sent by e-mail and the results will contain the name of your query and the name of the program. Make sure to fill out the Sample name field otherwise you could easily confuse received responses without labels in your mailbox.
Example (results not returned by e-mail): Using PeptieMass and PeptideCutter for the analysis of SWISS_PROT Accn.no P35523.
- Enter the Accession no into the query box for Acc.no. and hit Submit.
- PeptideMass: What are the predicted peptide masses of the peptides when cutting with enzyme Trypsin (default) ?
- PeptideCutter: How many cleavage sites do you have when cutting the protein P35523 with Staphylococcal peptidase I? Where are the claevage sites located? (Make sure to change the radio button in the Please, select field from all available enzymes and chemicals (default) to only the following selection of enzymes and chemicals before selecting Staphylococcal peptidase I and clicking Perform. Clicking on the enzyme name has more information about the enzyme performance).
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