You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
I am trying to find stabilizing mutations on a cytochrome tetramer(with 4 identical chains) using a mutants file. I ran a successful test when using one of the chains with and without a mutants file. Whenever I try to perform the pmutscan analysis with the tetramer structure, I get the following error:
[FILE]: src/core/conformation/Conformation.hh [LINE]: 509 [START_MESSAGE] [ ERROR ] UtilityExitException ERROR: Error in core::conformation::Conformation::residue(): The sequence position requested was 0. Pose numbering starts at 1.
I used this command : /opt/apps/rosetta/3.13/bin/pmut_scan_parallel.hdf5.linuxgccrelease -database $ROSETTA3DB -s $PDB -ex1 -ex2 -extrachi_cutoff 1 -use_input_sc -ignore_unrecognized_res -no_his_his_pairE -multi_cool_annealer 10 -mute basic core -mutants_list $Mut_file
I used the clean_pdb_keep_ligand.py tool to get the tetramer ready for pmutscan
Every file I used is included in the 1.zip 1.zip
reacted with thumbs up emoji reacted with thumbs down emoji reacted with laugh emoji reacted with hooray emoji reacted with confused emoji reacted with heart emoji reacted with rocket emoji reacted with eyes emoji
-
I am trying to find stabilizing mutations on a cytochrome tetramer(with 4 identical chains) using a mutants file. I ran a successful test when using one of the chains with and without a mutants file. Whenever I try to perform the pmutscan analysis with the tetramer structure, I get the following error:
[FILE]: src/core/conformation/Conformation.hh [LINE]: 509 [START_MESSAGE] [ ERROR ] UtilityExitException ERROR: Error in core::conformation::Conformation::residue(): The sequence position requested was 0. Pose numbering starts at 1.
I used this command :
/opt/apps/rosetta/3.13/bin/pmut_scan_parallel.hdf5.linuxgccrelease -database $ROSETTA3DB -s $PDB -ex1 -ex2 -extrachi_cutoff 1 -use_input_sc -ignore_unrecognized_res -no_his_his_pairE -multi_cool_annealer 10 -mute basic core -mutants_list $Mut_file
I used the
clean_pdb_keep_ligand.py
tool to get the tetramer ready for pmutscanEvery file I used is included in the 1.zip
1.zip
Beta Was this translation helpful? Give feedback.
All reactions