Hi
Thank you Seth and Adam for vouching for the missing residue option.
Thank you Thomas for considering the request for implememntation.
Best Regards
Priyan
On Mon, Sep 29, 2014 at 7:04 PM, Thomas Holder <
thomas.hol...@schrodinger.com> wrote:
> Hi Seth and Adam,
>
> thanks a lot for the feature request and for explaining why this is
> useful. The sequence viewer part should not be too difficult, actually. Of
> course I remember the "cartoon dash" request, Seth. Working on PyMOL's
> cartoon code is not the easiest task (for historical reasons) but we are
> working on getting improvements like this in.
>
> Cheers,
> Thomas
>
> On 27 Sep 2014, at 10:22, H. Adam Steinberg <h.adam.steinb...@gmail.com>
> wrote:
>
> > Phenomenal idea! I fully agee! :)
> >
> > On Sep 27, 2014, at 2:22 AM, Seth Harris <set...@gmail.com> wrote:
> >
> >> Hi Thomas et al,
> >>
> >> There was a recent question on the board about missing residues and the
> possibility of reading SEQRES headers and PyMOL being able to show the
> missing bits in the sequence view, perhaps with the amino acid letters
> grayed out to distinguish the gap. I know the reply was "PyMOL doesn't
> currently" do this, but it seemed to then end "full stop" rather than,
> "...but it's a fantastic idea". I'd like to second the idea as a great
> addition! When building structures or viewing and hitting gaps one always
> has to shuffle off to find the sequence or jump back to see how big the gap
> is and what type of residues are supposed to be in there. This would put it
> right there integrated at one's fingertips.
> >>
> >> This also reminds me of something I suggested to you, Thomas, that
> might fit in here of having a "cartoon dash" rendering (at least for loops
> if not helices and strands?) such that one could borrow a loop from a
> homologue or build in a placeholder to provide visual continuity in a model
> while still clearly indicating the disordered regions, but now in a 3D
> ray-traced dashed line that follows the cartoon trajectory rather than the
> usual penciled in job.
> >>
> >> I know in building a new structure I don't often have any SEQRES header
> in place, but if it offered advantages like this it would be easy enough to
> install such.
> >>
> >> Thanks,
> >> Seth
>
> --
> Thomas Holder
> PyMOL Developer
> Schrödinger, Inc.
>
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