The problem hasn't been solved
Hi,
Can anyone help me to fix these issues (https://rosie.rosettacommons.org/antibody/viewjob/84749,https://rosie.rosettacommons.org/antibody/viewjob/85043)
These two jobs returns the same error "Antibody script failed to produce model.3.pdb!"
Thanks a lot
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
Hello,
I need to generate an ensemble of proteins to capture backbone flexibility in docking. I ran relax with thorough flag, but the resultants decoys are not that much different (RMSD ranges fro 0.2 to 0.7). Then I ran Backrub without defining pivot_residue and without resfile. The resultant decoys of Backrub are also similar. Does anyone have suggestions to define pivot_residue? or how can I sample conformational space enough to consider backbone flexibility?
Thanks
hi
im a doctorial student in the learning process of rosetta scripts
and i was to solve a problem like i got to design a protein complex A0_B0 with known structure and known complex of A1_B1 A2_B2 all Bi are homologs
i need to design a binder A0 that binds to B0
but I just dont know how
and a teacher told me that i needed to manually docking B0 to like a1
and to use fastdesign,fastrelax, to use taskops of layerdesign,limitaromachi2,PruneBuriedUnsats,and filters like BuriedUnsatHbonds
Dear all,
How can I insert my variable length fragmrnts library into pyrosetta?
Really looking forward your early reply, thanks!!
Best wishes,
Michelle
Dear all,
How can I insert my variable length fragmrnts library into pyrosetta?
Really looking forward your early reply, thanks!!
Best wishes,
Michelle
Dear all,
How can I insert my variable length fragmrnts library into pyrosetta?
Really looking forward your early reply, thanks!!
Best wishes,
Michelle
Dear all,
How can I insert my variable length fragmrnts library into pyrosetta?
Really looking forward your early reply, thanks!!
Best wishes,
Michelle
I had to do a hard shutdown of a workstation while remodel was running (mpiserialization, openmpi) and when it booted up, i ran remodel again. It had no issues running but checkpoint.txt has a different encoding now like this:
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I have no idea why or how, but i purged and reinstalled gedit and it stays the same. I also tried vim and it doesnt display the checkpoint number properly either. It doesn't bother me at the moment, but might be worth checking out why it happens.