Re: [PyMOL] Appearance of nucleotides in DNA

[DeLano S. <de...@de...>]

Yes.

set cartoon_side_chain_helper
 
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-----Original Message-----
From: pym...@li...
[mailto:pym...@li...] On Behalf Of Alex
Reynolds
Sent: Monday, June 16, 2008 1:55 PM
To: pym...@li...
Subject: [PyMOL] Appearance of nucleotides in DNA

I am looking at a PDB file (2STW) which has a protein bound to a segment of
DNA.

I am show-ing the DNA strands in "cartoon" fashion, which renders
nucleotides as little stubs.

To make the base composition clearer, I then select the chain elements to
"show-as-stick" to show the nucleotides, also leaving the backbone chains in
cartoon mode

My problem is that "nubs" of the nucleotides stick out of the backbone. 
Is there a way to hide them? When I select the nub associated with the
nucleotide, this seems to select all the atoms associated with the
nucleotide, and not the nub.

Sorry if this is a dumb question, and thanks for any tips.

-Alex

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Alex Reynolds
University of Washington Medical Genetics
2211 Elliot
Seattle, WA 98121
are...@st...

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