[Chimera-users] assistance changing pseudobond appearance

Arthur Szabo agszabo at outlook.com
Fri Apr 28 13:04:50 PDT 2017

Thank you for your usual prompt reply.

Will try it.



-----Original Message-----
From: Elaine Meng [mailto:meng at cgl.ucsf.edu] 
Sent: Friday, April 28, 2017 3:52 PM
To: Arthur Szabo <agszabo at outlook.com>
Cc: chimera-users at cgl.ucsf.edu BB <chimera-users at cgl.ucsf.edu>
Subject: Re: [Chimera-users] assistance changing pseudobond appearance

Hi Arthur,
First Ctrl-click on the dashed line to select it.  Then, click the green magnifying glass icon near the bottom right of the Chimera window to open the Selection Inspector.  In the Inspector window (Inspect: Pseudobond):
(1) change  “halfbond mode” to “off”, otherwise it will get colored by the atoms instead of having its own color
(2) click or doubleclick the square color thing to make the Color Editor window appear, in which you can change the color

To make the dashed line fatter, stay in the Inspector tool but now use pulldown menu to Inspect: Pseudobond group (instead of just Inspect: Pseudobond), then:
change “line width” to some bigger number

I hope this helps,
Elaine C. Meng, Ph.D.                       
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco

> On Apr 28, 2017, at 12:16 PM, Arthur Szabo <agszabo at outlook.com> wrote:
> I asked this question several months ago, but rarely have applied the answer. 
> I have a structure that has a long stretch that is disordered. In the  structure it appears as a dashed line. 
> If I highlight this section of the total sequence and then apply a color (red) the whole structure is then colored red.
> So how can I make  the dashes slightly larger, and secondly color that stretch of dashes with a particular color without coloring the rest of the molecule? 
> Thank you
> Arthur G. Szabo

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