You are here

Zero residues error in docking

1 post / 0 new
Zero residues error in docking

Hello, I need some help.

I have no residues error during my docking process. But refining and cleaning worked well with my PDB file.

Also, 1 year ago, docking process worked well with same PDB file and older version of rosetta.

I don't know why it happened.

My PDB file is attatched. please help me.


It is my rosetta crash log.

[ROSETTA_VERSION]: 2020.08+release.cb1caba
[COMMIT_DATE]: 2020-02-21T14:46:08.581859
[APPLICATION]: ./bin/docking_protocol.static.linuxgccrelease
[MODE]: Release
[EXTRAS]: default
[OS]: GNU/Linux
[COMPILER]: GCC version "4.8.5 20150623 (Red Hat 4.8.5-16)"
[STDLIB]: libstdc++ version 20150623
 -in:file:s=/mnt/c/phyreubi/Q00987.clean.pdb /mnt/c/phyreubi/Q09472.clean.pdb -out:path:all=/mnt/e/e3dock/ -docking:randomize1 -docking:randomize2 -docking:dock_pert=3 8




[FILE]: src/core/pose/
[LINE]: 1423
[ ERROR ] UtilityExitException
ERROR: Cannot compute center of mass of zero residues!


Q00987.clean_.pdb305.17 KB
Q09472.clean_.pdb400.17 KB
Post Situation: 
Tue, 2020-07-28 19:47