Peptide building

[Anonymous]

Hi Dear Rosetta Users/Developer

I have 1000 3-mer peptide sequence like as GSH, SAD, GPN, PWW, …
Now, I would like to build them in a fast way using Rosetta scripts.

Would you please advise me on how to do it?

I will be grateful for any help.

Best,
Berk.

[Anonymous]

You can use PyRosetta to get the job done!
here is the piece of code for that,

---

import sys, os
from rosetta import *
rosetta.init()

peptide = Pose()
peptide = pose_from_sequence(str(sys.argv[1]),”fa_standard”)
peptide.dump_pdb(“peptide.pdb”)

---

Add a loop inside this python code or use shell for loop to pass the sequences.
best!

[Anonymous]

You may also be able to use the BuildPeptide application (https://www.rosettacommons.org/docs/latest/application_documentation/utilities/build-peptide), if you want to stick with the commandline version of Rosetta.

[Author]

Posts