The problem hasn't been solved
Dear all,
I am trying to access the Rosie webserver, but apparently it is not recognizing my institutional email.
Institution: Instituto Superior Técnico, Universidade de Lisboa
Domain: @ctn.tecnico.ulisboa.pt
Hello,
I am running a design xml script and for some of my systems the run crashes with the following error:
I am trying to score how well different protein models fit into one electron desity map. I have tried using the score_jd2 tool with the flags:
"-database /programs/PDB/rosetta-3.13/main/database -in:file:s ./structures/*.pdb -edensity:mapfile ./emd_12705.map -edensity:mapreso 3.6 -edensity::realign min -cryoem_scatterers true -grid_spacing 2.0 -fastdens_wt 35.0"
Hello, i am a masters student trying to play around with rosetta. And i have a project in mind. I have two protein structures: nanocages. each with 60 monomers but the chains are a little bit different with different aa profiles. Now what I want to do is to make a structure with the backbone conformation profile of one of the nanocages but with the amino acid profile of the other one. How do i go about doing this? I'm sorry if I wasn't clear english is not my native language.
Thanks for your help in advance.
The tutorial (https://nbviewer.org/github/RosettaCommons/PyRosetta.notebooks/blob/master/notebooks/14.00-RNA-Basics.ipynb) claims that using:
Hello, I am using rosetta docking_protocol compiled with Intel MPI (from Intel® oneAPI Toolkits 2020), and I have some problems / bug reports.
I requested 3 output poses with '-nstruct 3' and I ran 'mpirun -n 3 docking_protocol.mpi.linuxiccrelease ...' to start one master rank and two slave ranks. However, when one slave (rank 2) finished its jobs and master will send spin down signal:
Hello,
I am trying to calculate the per residue SAP scores of a protein structure using Rosetta scripts. The .xml script I am using is shown below.
<ROSETTASCRIPTS>
<SCOREFXNS>
</SCOREFXNS>
<RESIDUE_SELECTORS>
</RESIDUE_SELECTORS>
<FILTERS>
</FILTERS>
<SIMPLE_METRICS>
<PerResidueSapScoreMetric name="sapscore"/>
</SIMPLE_METRICS>
I am working with a polymer with a non-aminoacidic backbone comprising two subunits, each defined as individual residues. I have already defined the params file for both subunits; however, I am experiencing issues exploring torsions between these connected residues. I am setting the angle movement using pose.conformation().set_torsion_angle(). This function has worked for angles between atoms inside the same subunit. However, when trying to set_torsion_angle() for atoms residing in different residues, I get the following error:
Hi all,
I'm trying to use simple_cycpep_predict with crosslinker BBMB, and the generated structure (see attached) does crosslink with BBMB. However, it also does a head-to-tail cyclization between the 2 termini and I would like to not have that happen. It's not clear to me from the help file how to do that as the default uses head-to-tail cyclization. Is there a way to turn that off?
Here is the sequence file, the parameters that I'm using, as well as one of the generated structures to illustrate what I am having issues with.
Hello everyone, while running a scoring file, I entered the following command line:
