Weekly releases for commercial users?
Hi Steven, Rocco, et al.,
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Hi Steven, Rocco, et al.,
Hello, friends,
I was designing the "interface" (possible contacts) of a fusion protein using FastDesign. Since I was running the appliction on a laptop, so far only 200 designed models have been genrated.
I then went on to analyze the result anyway and tried to plot Score VS caRMSD (as shown in the attached file). Here are my questions:
Hello,
I am trying to get RECON multistate Design going and have run into an issue. I have made my RECON xml script and a bash script:
I want to design peptides, allowing redesign and side-chain packing, but no backbone changes. So far I'm using PackRotamersMover, but I would like to write my packer with fixbb instead to have more control.
My question basically is: why do the two following snippets of code not do the same? And what have I missed about PackRotamersMover in my version?
code 1:
Recently I'm stumbling with rosetta RAbD application (version 2020.08.61146) in hope to modify an antibody whose antigen containing a non-canonical,N-term, and PRO-like aa ,namely the pyroglutamic acid in its epitope.
I generated params file according tutorials in :https://new.rosettacommons.org/demos/latest/public/design_with_ncaa/README,with input mol file below.
Hello
I've tried to design some miniproteins, by following up "Baker lab 2020, science" paper.
I want to use Rifgen in Rifdock to make disembodied amino acid contact.
But I don't know what flags to start.
They said the initial job of rifgen will take a long time.
On the Rifdock tutorial page, they said "to contact somebody doing some similar jobs and use their flag as a starting point"
So can somebody share your flags?
Hi all,
I recently came across the paper titled "Anchor extension: a structure-guided approach to design cyclic peptides targeting enzyme active sites" and wanted to try it out for myself. I downloaded the supplemental materials and tried to follow along the READMEs to test out Methods 1-4. But I am not able to actually get any of them to work even with the provided pdbs. Is anybody else having the same problem?
Here is what I have tried...
How i can do cst file this theozyme?
Hello folks,
this is a conceptual question.
The protein I am working with has 2 domains (2 chains), and I would like to redesign part of the surface of each domain AND the interface between those domains.
I see two possibilities here (maybe there are more):
Option #1- Break the design into three smaller problems - i.e., design only chain A, then design only chain B, and finally, design the interface (5 residues + 7 residues + 11 residues).