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I am having problems using the ROSIE antibody section for comparative modelling of a Fv fragments, job number 33253 (Mab_Top).
Previous attempents have failed, and now I made a modification on the N-terminus (because this is was not fully sequenced) and the job is flaged as finished altough without any structure, as well as without reports of potencial errors.
I guess that there was any problem with the modelling since the CPU time used was so small 0.0147222222222.
I have been recently testing pH_protocol to calculate the pKa of one of my proteins. In the original paper, the authors include the weights function to be used with the protocol:
I submitted six jobs to Rosie (28069 through 28074) under the username dstork. They failed quickly with no error messages beyond "Failed * Tech support has been notified of this error" anywhere that I can see. After waiting a few weeks the issue hasn't been resolved. What can I do to get this job to work?
My attempts to submit a job in peptiderive server become fail. I cant submit any job in peptiderive server but I am getting no input error job in this server.
Please help me to solve this problem and submit my job in peptiderive.
My attempts at ligand docking on Rosie (e.g. job 26146) keep failing after less than 15min. I am getting no input error. The json logs return the error:
"log": "\nCould not find essential file trigger-00001.ligand_docking_protocol/score.sf in DB!\n",
I used Frog2 to generate my ligand sdf file and Chimera to estimate the starting x,y,z coordinates.
Any hints at what I might be doing wrong?
I submitted a Heavy and lIght chain sequence with and without the 'multiple template grafting' and H3 loop modeling and recived the same errors each time- "Chothia numbering of FR_L1".
Does anyone know how to get around this error so that the antibody will be modeled? job #'s 24670, 24671
Dear Professor Bryan Der,
Thank you very much for your great server. I've come across two essential questions using your techniques and I really need your help so I can continue working on my PhD thesis.
I've used both supercharge methods: