HI all I was wondering how to color the c and n terminals of the crystal structure docked in the density map different. Thanks Dr. Anindito Sen (Ph.D) Research Associate , Dept. of Biochemistry and Molecular Genetics University of Virginia Box 800733 Charlottesville, VA 22908
Hi Andy, There are lots of different ways to specify or select the atoms you want to color, far too many to list here, but here are a few ideas. You can specify #model:residues.chain in commands, for example: color violet red #0:355-486.A or even color violet red #0:355-end.A More details on command-line specification: <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/frameatom_spec.html
Color list: <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/colortables.html> Or, if you don't know what the numbers are, you can select the residues in the sequence window (Tools... Structure Analysis... Sequence) by dragging with the mouse, and then use the Actions... Color menu to color them. Or, if it is just a few residues you want to color, you can Ctrl-click on an atom to select it, Shift-Ctrl-click on another atom to add it to the selection, press the keyboard up arrow key to "promote" the selection from atoms up to whole residues, and then use the Actions... Color menu. I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. meng@cgl.ucsf.edu UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco http://www.cgl.ucsf.edu/home/meng/index.html On Oct 6, 2008, at 3:09 PM, Anindito Sen wrote:
HI all I was wondering how to color the c and n terminals of the crystal structure docked in the density map different. Thanks
Dr. Anindito Sen (Ph.D) Research Associate , Dept. of Biochemistry and Molecular Genetics University of Virginia Box 800733 Charlottesville, VA 22908
You could also use the "rainbow" command or Tools->Depiction->Rainbow to color the whole chain from N to C using a spectrum of colors. --Eric Eric Pettersen UCSF Computer Graphics Lab http://www.cgl.ucsf.edu On Oct 8, 2008, at 4:56 PM, Elaine Meng wrote:
Hi Andy, There are lots of different ways to specify or select the atoms you want to color, far too many to list here, but here are a few ideas.
You can specify #model:residues.chain in commands, for example:
color violet red #0:355-486.A or even color violet red #0:355-end.A
More details on command-line specification: <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/frameatom_spec.html
Color list: <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/colortables.html>
Or, if you don't know what the numbers are, you can select the residues in the sequence window (Tools... Structure Analysis... Sequence) by dragging with the mouse, and then use the Actions... Color menu to color them.
Or, if it is just a few residues you want to color, you can Ctrl-click on an atom to select it, Shift-Ctrl-click on another atom to add it to the selection, press the keyboard up arrow key to "promote" the selection from atoms up to whole residues, and then use the Actions... Color menu.
I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. meng@cgl.ucsf.edu UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco http://www.cgl.ucsf.edu/home/meng/index.html
On Oct 6, 2008, at 3:09 PM, Anindito Sen wrote:
HI all I was wondering how to color the c and n terminals of the crystal structure docked in the density map different. Thanks
Dr. Anindito Sen (Ph.D) Research Associate , Dept. of Biochemistry and Molecular Genetics University of Virginia Box 800733 Charlottesville, VA 22908
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participants (3)
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Anindito Sen -
Elaine Meng -
Eric Pettersen