[Chimera-users] color by RMSD

[Thomas Evangelidis]

Elaine and Eric, I greatly appreciate your assistance on my problem! This
is one of the few times in my life that I feel misfortunate for using
Linux. I am looking forward for the new daily build!

cheers,
Thomas




On 4 April 2012 21:06, Elaine Meng <meng at cgl.ucsf.edu> wrote:

> Oh, I thought Thomas meant he wanted to use more atoms than CA.  If not,
> and CA-CA only values are OK (the main issue was doing the calculation for
> different chains than used for superposition), what Eric suggests is much
> simpler.
> Elaine
>
> On Apr 4, 2012, at 11:00 AM, Eric Pettersen wrote:
>
> > In addition to the methods Elaine describes, you could alternatively do
> the following.
> >
> > 1) match the B chains
> > 2) open the Sequence tool for one of the A chains
> > 3) use the Structure->Associations menu item to also associate the other
> chain A with the sequence
> > 4) show the RMSD header
> > 5) proceed as Elaine described in yesterday's mail
> >
> > Note that in order to do this you will have to download the 1.7 daily
> build since a bug got fixed yesterday that prevented RMSD attributes from
> being assigned when only a single sequence is shown in an "alignment".
>  Also, I hope you aren't using Linux since the daily build didn't
> successfully build last night for Linux, so you would have to wait until
> tomorrow's build for a Linux version...
> >
> > --Eric
> >
> >                         Eric Pettersen
> >                         UCSF Computer Graphics Lab
> >                         http://www.cgl.ucsf.edu
> >
>
>


-- 

======================================================================

Thomas Evangelidis

PhD student

Biomedical Research Foundation, Academy of Athens

4 Soranou Ephessiou , 115 27 Athens, Greece

email: tevang at bioacademy.gr

          tevang3 at gmail.com


website: https://sites.google.com/site/thomasevangelidishomepage/
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