Use a selection in your commands in your scripts. Set the selection to one of your proteins in one of your script and the selection to the other one in the other script.

On 4/24/20 3:02 PM, George Tzotzos via PyMOL-users wrote:
Below is a summary of a task I’m trying to implement in pymol

1. Load 2 proteins
2. Align them (align prt1, prt2)
3. Use grid_slot to display the proteins side by side
4. Load two different scripts (one for each protein)

Step 4 is where I get stuck. Each script is applied to both proteins.

Is there a way to apply each script to one grid only?

Thanks in advance for any suggestions

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