Hi Raghav,

The following two procedures will let you do that. Although much easier way can be there and I hope someone will further include that later on.

1. The first easier way is that you can open your structure file (in .pdb or any other format) by a text editor and change the element only for atom index 10 to some other element which is not in your structure (e.g: If your structure contains only C,O,N,H and lets say index 10 is a N atom, then change the N to e.g Cl). Set the coloring method to Element (adjust/alter the colors in Graphics>Colors>Element) and you are good to go.

2. The second method is by TkConsole.

a. First load the molecule. Create the Representations/Drawing method as you want. In the coloring method tab select color by 'Type'

b. Open Tk Console > select atom with index 10 by,

set sel [atomselect top "index 10"]

c. Put the selected atom within a Type (e.g "A") by

$sel set type "A"

b. Go to Graphics> Colors> Select the Category 'Type'> Scroll down "Names" tab and select our defined type "A" (which should be near the end of the list) > Change color to the desired. It will reflect in the main window.

Dear Turbasu Sengupta,

Thanks a lot for that, it worked.

Regards,

Raghav