Re: [PyMOL] Can I easily specify an alignment to use in the sequence display?

[Thomas H. <tho...@sc...>]

Hi Tony,

It's possible, but not out of the box. I wrote a script for this some time ago which uses biopython and emboss. If you're using Linux or MacOS, everything is prepackaged for you in Anaconda Cloud. For installation instructions and examples, see:
https://pymolwiki.org/index.php/Load_aln

Cheers,
  Thomas

> On Jan 11, 2018, at 11:40 AM, Tony Lewis <ton...@gm...> wrote:
> 
> Dear PyMOL people,
> 
> Please can anyone tell me whether there's an easy way to use an alignment of the residues in the displayed structures (say, from a FASTA file) to align the residues shown in the sequence display?
> 
> I would find this a very powerful feature.
> 
> Many thanks for any help.
> 
> Tony Lewis

--
Thomas Holder
PyMOL Principal Developer
Schrödinger, Inc.