Hi Nick, You can easily color a protein surface by Coulombic electrostatic potential by using the "coulombic" command or simply clicking the icon in the Molecule Display tab of the toolbar across the top of the window. <https://rbvi.ucsf.edu/chimerax/docs/user/commands/coulombic.html> <https://rbvi.ucsf.edu/chimerax/docs/user/tools/moldisplay.html> See also this feature highlight and tutorial: <https://www.rbvi.ucsf.edu/chimerax/features.html#coulombic> <https://rbvi.ucsf.edu/chimerax/docs/user/tutorials/binding-sites.html#esp> With the default coloring scheme, blue areas show positive electrostatic potential. I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. UCSF Chimera(X) team Resource for Biocomputing, Visualization, and Informatics Department of Pharmaceutical Chemistry University of California, San Francisco
On Dec 18, 2024, at 7:02 AM, Christman, Nick via ChimeraX-users <chimerax-users@cgl.ucsf.edu> wrote:
Hello,
I am a graduate student at Indiana University, and I am trying to use ChimeraX to visualize positively charged surface accessible residues on some protein models. I've been trying to find the right combination of commands to get this to work but haven't been successful. I know how to calculate surface accessible residues, how to color the surface accessibility of residues within a selection on my model, and even how to calculate hydrophobicity of residues (related to charge), but I cannot figure out how to model the charge of surface exposed residues. Could you please point me in the right direction so I can get the models that I would like?
Thanks!
Nick Christman (He/Him) Dalia Lab Indiana University