The problem hasn't been solved
Hello everyone, while running a scoring file, I entered the following command line:
Hello world,
How can I dock one protein into interface between two proteins? I am new to rosetta software and I am still leraning. I study a protein that bridges two other proteins togeter and I was wondering how can I model that? I would apreciate your input in directing me to the tutorials or documentation.
Thanks. Cheems
Hello Rosetta people,
I performed a protein protein docking of a protain A + ligand A (74 atoms) noted as binary_complex to protein B, and got warning of missing atoms, still could get docked P-P poses, however, the ligand is not intact, some atoms missed in the output binary_complex. I also added the -ignore_unrecognized_res flag in the command.
Hello Rosetta people,
I performed a protein protein docking of a protain A + ligand A (74 atoms) noted as binary_complex to protein B, and got warning of missing atoms, still could get docked P-P poses, however, the ligand is not intact, some atoms missed in the output binary_complex. I also added the -ignore_unrecognized_res flag in the command.
Hi,
I am trying to access the Rosie webserver, but apparently it is not recognizing my institutional email.
Institution: Universitat Autònoma de Barcelona (Barcelona, Spain)
Domain: @uab.cat
Hi,
I am trying to reproduce the the results from this paper 'Automatic and accurate ligand structure determination guided by cryo-electron microscopy maps', but when I try to run the script from the paper (de3mo) i'm getting the following error:
File: src/utility/options/OptionCollection.cc:1467
Option matching -in:file:override_database_params not found in command line top-level context
How many rifdock can I run at a time on a 64 CPUs and 512GB memory server?
I tried 8 rif_dock_test running at a time, but I lost connection with my server several hours later(maybe 5 or 6 hours). My guess is the server was overloaded, so that the connection was lost.
I used uptime command to check out, the system load is nearly 800%, does that mean I can only run one rif_dock at a time?
Hi, I wonder if there is a general way to generate the correct params file of new beta and gamma NCAA ? I am trying to parameterize a customized gamma amino acid residue for GenKIC application. I used the molfile_to_params_polymer.py to generate .params file from the .mol file attached below:
4CG.pdb
OpenBabel04262311383D
29 28 0 0 1 0 0 0 0 0999 V2000
-5.3100 -4.8280 2.6840 N 0 0 0 0 0 0 0 0 0 0 0 0
Can you help validate my email address to access ROSIE via Github. Could you please help me with the verification?
My institution is the Soochow University in China
my email is yuanxu0000@163.com
Thank you very much!
Flora
Dear all,
I am designing some peptides with the anchor_design approach. I am using the dG_separated values to compare them. For this, I included an InterfaceAnalyzer mover in my anchor_design xml script as follows:
