I am trying to compare two structures using the script colorbyrmsd.py.
If I "run colorbyrmsd.py obj1, obj2" I get an error "invalid namespace
'obj02' ". I don't know what this means. Can anyone help? Thanks.
--
Criss Hartzell
___
I have two objects of the same protein in different conformational states
and I want to show the conformational change using morph.
Each object is a homopentamer, chains A-E.
However, one object has the chains arranged in a clockwise direction and
the second object has them arranged in a
I am having trouble viewing electron density maps.
Everything works fine if I use the protein 2F67. But with 7B5C, I am
stumped.
fetch 7b5c, type=2fofc gives me an error:
Warning: failed to fetch from
https://www.ebi.ac.uk/pdbe/coordinates/files/7b5c.ccp4
Error-fetch: unable to load '7b5c'.
If
rency by
> default. Setting `transparency_mode` to 3 should show transparent objects
> beneath each other.
>
> https://pymolwiki.org/index.php/Transparency_mode
>
> Best,
>
> Jarrett J
>
> On Sat, May 8, 2021 at 10:01 AM Criss Hartzell
> wrote:
>
>> I a
, cartoon-transparency is
supposed to work on the atom level, but when I try to apply cartoon
transparency to the two helices as a selection
(cartoon_transparency,0.5,sele), the helices change color but do not become
transparent. Am I doing something wrong?
--
Criss Hartzell
