TaskOperations with AntibodyDesignMover
Hello all,
I am keen on creating a custom Antibody design protocol for a problem.
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Hello all,
I am keen on creating a custom Antibody design protocol for a problem.
how to generate _prepro.rama file for a customized beta-amino acid residues? I wish to generate a customized beta-amino acid residue for design applications.
Can you help validate my email address to access ROSIE via Github. Could you please help me with the verification?
My institution is the ALS Therapy Develpoment Institute, a non profit research institute in Boston, MA
my email is sperrin@als.net
Thank you very much!
Steve
I am currently working on a simple test with antibodies.
I have a question in this regard, can I use deepab instead of rosetta antibody to create antibody structures? When I looked at the snugdock paper, it seems that there is an additional protocol when using a tool other than rosetta antibody, but I know that deepab creates structures based on rosetta. So I am wondering if I can proceed in the same way as rosetta antibody when using deepab.
Hello everyone,
I ran into this problem when I compiled Rosetta-337 and my system is Ubuntu-20.04.1. The error is displayed as follows.
Hi I'm trying to fill the missing loop with remodel.linuxgccrelease in rosetta
for some pdb, there's no problem in filling missing loop
but I got following error with certain PDB
core.fragment.picking_old.vall.vall_io: Added 62471 sections to library totaling 1400124 residues.
core.fragment.picking_old.vall.eval.IdentityEval: ss = LLLLLLL | aa = .......
core.fragment.picking_old.vall.eval.ABEGOEval: abego = LLLLLLL
core.sequence.ABEGOManager: [ ERROR ] Unrecognized abego index: L
I have a 4 chain, 96 residues long PDB file. all four chains are identical, so I set up my rosettascript with the following indices to select each chain to mutate them.
<Index name="chain1" resnums="1-24"/>
<Index name="chain2" resnums="24-48"/>
<Index name="chain3" resnums="48-72"/>
<Index name="chain4" resnums="72-96"/>
However I get the follwoing error message when running this script:
Hello,
My name is Or and I'm new to this forum so I appologise if my query is trivial or if this is not the right sub forum or category.
I work as a software developer at a company that uses Rosetta, we have a commertial licence. Sometimes, we change the CPP code, for example to add a new mover.
We wish to create an inner github repo of Rosetta to keep track of our own changes.
Hello,
I am using an xml script to design macrocycle peptides similar to https://www.pnas.org/doi/abs/10.1073/pnas.2012800118.
The script runs well in my HPC machine until it crashes unexpectedly. Attached is the output with the backtrace of the error. I am using Rosetta version rosetta.source.release-314 r314 2022.11+release.512e589 512e58946eaed9de20d65cdeea465e7690dc9e9a.
I am using the same script with a different peptide sequence and it runs well, until now.