[chimerax-users] Some beginner's questions

[Boaz Shaanan]

Hi,

I checked the commands-user guide but couldn't find  answers:

  1.  To write out a selection of atoms to a PDB, do I need to name the selection first?
  2.  I couldn't find the clipping tool (after setting a pivot I see only small part of the model).
  3.  The min/max values of a potential from APBS (.dx) seem to be different in Chimerax than they are in Chimera. I'm working on a tetramer and while in Chimera the whole tetramer surface is covered by the potential, in Chimerax it' shown for each monomer. Is that the source of the difference?
  4.  What's the Chimerax equivalent of ~longbonds of Chimera?
  5.  Just wondering, is there a demo for  electrostatic potential surface around a ligand? I seem to be making progress on that but a demo would be most helpful.

Thanks,

           Boaz


Boaz Shaanan, Ph.D.
Dept. of Life Sciences
Ben-Gurion University of the Negev
Beer-Sheva 84105
Israel

E-mail: bshaanan at bgu.ac.il
Phone: 972-8-647-2220
Fax:   972-8-647-2992 or 972-8-646-1710




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