Fragment Generation

I am now working on a protein with multiple chains, and the total amino acids exceeds 1000. So I need to submit each chain one by one, get the individual 3-mer and 9-mer fragments, then concatenate them.

http://old.robetta.org/fragmentsubmit.jsp

The attachment is the 3-mer file. After concatenating them, do I only need to adjust these three places?

I will then use the 3-mer and 9-mer for the RosettaCM.

Hi，i want to use fragment_picker to get 3-mer and 9-mer fragment,with only .fasta and .psipred.Cause i do not have pdb file ,i remove the -in::file::s .pdb

When i run fragment_picker,it tell me "can not read a referrence file"

I want to know how to solve this,thank you 

Dear fellows,

Hello Rosetta community,

I'm having trouble finding the fragment generation application "kcenters_clustering_of_fragments." The application is mentioned as publically available in the methods section of D.A. Silva et al (2019). De novo design of potent and selective mimics of IL-2 and IL-15. Nature. Link: https://www.nature.com/articles/s41586-018-0830-7?WT.feed_name=subjects_computational-biology-and-bioinformatics