Design

I am teaching myself rosetta scripts. I followed the tutorial https://www.rosettacommons.org/demos/latest/tutorials/scripting_with_rosettascripts/scripting_with_rosettascripts#altering-the-pose-movers_packing_repacking-sidechains

One of the interesting thing is

I want Rosetta to use only a specific rotamer of Histidine that I have in a pdb when designing. Is there any way to do this? I have tried using SampleRotamersFromPDB but I am unsure how to provide the pdb and I get the following error:

I include this in the command line: -packing::unboundrot his_rotamer.pdb

Error messages were:

From line 12:

Error: Element 'SampleRotamersFromPDB': This element is not expected.

 7:             <ScoreFunction name="score" weights="ref2015"/>

Hello

I want to design my protein by Rossetta according to DDMI protocol that is used in article"computational design of PAK1 binding protein".In this article designing of protein PAK1 done by protocol DDMI in Rossetta version 2.1. but i could not find this protocol in Rossetta 3.0. Do this protocol exist in Rossetta 3.0 with different name or this protocol removed in Rossetta3.0?the command line of this protocol according to the article mentions below:

Hi all. 

I want to predict the effect of a point mutation in a protein stability. I have the .pdb crystal structure of the wild type.

After a literature search, I think this paper presents the most comprehensive study of different methods for this analysis DOI:10.1002/prot.22921. So I want to do the prediction using their protocol 16. I also found python code for this protocol here: https://github.com/Kortemme-Lab/ddg/tree/master/protocols/ddg_monomer_16.