Table 7.
New options in the BIOPEP-UWM database and modifications of existing ones, not described in the previous publications [8,9].
| Option | Description |
|---|---|
| Peptide annotation | Possibility of annotation of peptides containing D-amino acids |
| Search options 1 | Search on the basis of InChIKey; addition of “exact match” search as user’s choice, designed especially for sequence search |
| List of peptide activities | List of peptide activities rearranged and enriched |
| Proteolytic enzyme annotation | Updated list of bonds susceptible to proteolytic enzyme action |
| New search options | Search on the basis of InChIKey; addition of “exact match” search as user’s choice |
| “SMILES” tab 1 | Application converting amino acid sequences into the SMILES code |
| New options available via the “enzyme(s) action” tab | New quantitative parameters describing possibility of release of bioactive peptides by proteolytic enzymes—Equations (5)–(7) in Table 5, option enabling finding enzyme with a given specificity among proteinases annotated in the database |
| “find the enzymes for peptide release” tab | Option which enables finding proteolytic enzymes liberating of N- and C-termini of bioactive peptides |
| “find” tab | Shortcut to the list of peptides with a given activity |
| Batch processing | Option which enables finding profiles of potential biological activity of fragments, calculating quantitative parameters that characterize protein or peptide, and simulating proteolysis for a set of sequences |
| Quantitative parameters characterizing occurrence and possibility of release of bioactive peptide from a set of sequences | Parameters calculated via the “batch processing” option—Equations (8)–(10) and (12)–(14) in the Table 5 |
| The “BIOPEP-UWM news” tab | Tab designed to provide important news concerning the database |
1 Application serving for conversion amino acid sequences into SMILES code has been announced in [4].