Generate and save proteoforms - BioPharma Finder Software - Generate and save proteoforms - BioPharma Finder Software - BioPharma Finder Software

Procedure

1. When you are finished defining the modification list, select Generate Proteoform.
2. At the bottom of the pane, the All Possible Proteoforms table displays all the combinations of proteoforms generated from the chosen list of modifications, along with the monoisotopic and average masses for each proteoform. The total number of possible combinations is based on the user-defined Number of Modifications per Proteoform range.
3. If you change the Number of Modifications per Proteoform range or edit the Modification List table, the application automatically clears the All Possible Proteoforms table. You can repeat the previous steps to make changes and then select Generate Proteoform again to update the All Possible Proteoforms table.

4. 

2. To save the unmodified sequence as a proteoform in the protein sequence, select the Include Unmodified Sequence checkbox above the All Possible Proteoforms table.
3. The unmodified sequence does not contain any variable modifications; however, it can contain previously assigned static modifications.
4. When you include the unmodified sequence as a proteoform, it does not appear in the All Possible Proteoforms table.

5. NOTE

   If you define a variable modification but then assign it as a static modification, the application removes it from the list of variable modifications.

3. In the All Possible Proteoforms table, select the checkboxes for the proteoforms that you want to save with the protein sequence for a search.
4. When you select a particular proteoform, the application highlights in green the corresponding modified amino acids in the Protein Sequence Map pane.
4. Save the protein sequence and the selected proteoforms.
5. See Save a protein or peptide sequence.