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Structure prediction

Modeling-Using RosettaCM

Category: 
Structure prediction

Hello,

I am new to Rosetta3 and was just suggested to use the RosettaCM protocol rather than minirosetta. I tried to carry out this protocol however, I keep coming to the same error (attached screenshot). I have included my input files as well. I prepared the template PDB as instructuded and inclded necessary target fasta file, and target tempalte alignment file (grishin format). To upload file names were changed to include .txt. Any insight would be helpful.

Justin

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RosettaAntibody3 core.pose.util error

Category: 
Structure prediction

I'm using rosetta_src_2020.08.61146_bundle. I'm trying to use the RosettaAntibody3 workflow as documented here, but am running into the following error when I run the following command:

module load rosetta/2020.08 blast/2.10.0+ gcc/9.1.0
antibody.default.linuxgccrelease -ignore_unrecognized_res true -fasta IL6antibody.fasta -out:path:all antibodied

Here is the IL6antibody.fasta file:

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Comparative modeling of metalloproteins

Category: 
Structure prediction

Hi,

Hope everybody is doing well. 

I'm just getting used to using Rosetta and would appreciate some pointers with regards to comparative modeling of metalloproteins. 

I have a protein (155 amino acids) that binds to Zn. I know exactly which amino acids the zn atoms interacts with and I have 2 homologs for templates with homology in the 65% region. I've been reading this tutorial

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