If you want to edit one or more of the amino acids in an existing protein sequence, you must copy and paste the current protein sequence from the Sequence Editor into a text editor, edit the sequence in the text editor, save the sequence as a FASTA file, and then re-add the corrected FASTA file using the Sequence Editor.


  1. Open the Sequence Manager by selecting Sequence Manager on the BioPharma Finder home page.
  2. The Sequence Manager opens, displaying a table of all sequences loaded to the application.
  3. In the table of sequences, select the row for a protein sequence and select Edit or double-click the row.
  4. Copy (CTRL + C) the entire sequence of interest in the Protein Sequence Map pane.
  5. Paste (CTRL + V) the sequence into a text editing tool such as Notepad.
  6. In the text editor, manually edit the sequence.
  7. When you are finished editing the sequence, save the file under the same FASTA file name and folder as the original sequence.
  8. Make sure that the edited FASTA information contains comment lines that begin with the greater-than sign (>) to distinguish each chain, separate from the amino acid lines.
  9. In the Protein Sequence Editor, select Import Fasta File in the command bar and then browse to the folder containing the FASTA file.
  10. Select a FASTA file to import, and then select Open.
  11. If a FASTA file contains invalid amino acids or an invalid format, an error message appears.
  12. The application displays the protein sequence information from the FASTA file in the Protein Sequence Map pane of the Protein Sequence Editor, with cysteine residues highlighted in yellow for easy visibility.
  13. In addition, the Protein Sequence Information pane displays both the monoisotopic and average masses of the sequence in the Target Protein area and the monoisotopic and average masses of the first chain in the Chain area. To view the masses of a different chain, select the chain number from the Chain list.
  14. Save the new sequence.
  15. Because the name of the new imported FASTA file is the same as an existing protein sequence in the table on the Sequence Manager page, a message box opens with a warning that the sequence name already exists and will be overwritten. Select Yes to overwrite the existing protein sequence with the edited sequence.
  16. The application adds the saved sequence to the table on the Sequence Manager page.