Date: Sun Aug 23 2020 - 15:19:33 CDT

I have placed an organic nanotube in bilayer following the tutorial but
only with the PDB files. As the NT is non-protein and contain 700 atoms, I
haven't generated the PSF files. Is it possible to remove the bad lipids
and lipids within the NT without having PSF file?

*1. Upload the membrane pdb2. set popc [atomselect top all]3. set nt [mol
new nt.pdb] 4. set roll [atomselect top "resname ROL"]
  5. $popc moveby [vecinvert [measure center $popc weight mass]] 6. $popc
writepdb popc_TEMP.pdb7. set vest [atomselect $nt "resname ROL"]8. $roll
moveby [vecinvert [measure center $vest weight mass]]9. display resetview *

*10. $roll move [transaxis z -25] 11. $roll writepdb nt_temp.pdb *

*These are my commands. *

*Rahul *