sub-cut

Tool to find which proteases cut a substrate based on sequence

Descreption

The MEROPS database is an information resource for peptidases and their substrates. I created this tool to refine the search for proteases that will cut a given peptide. sub-cut will sort all the database's proteases based on the similarity of the provided substrate sequence with the substrates that it's known to cut.

The protease-substrate data from MEROPS db are stored locally but I also provide them processed in the .data/substrates.data.json file.

Usage

• Pass the sequences that you want cut in data/target_peptides.fasta.
• Set the specificity threshold in sub-cut.py
• Run sub-cut.py

python3 sub-cut.py

• Check your results in data/<current_date_and_time>_results.xlsx
• Check out analyses.ipynb for more info and example.ipynb for an example