Quoting Miguel <[EMAIL PROTECTED]>:
So, in DNA and RNA the sugar forms five-membered rings with the main atoms
C1', C2', C3', C4', O4'.
Note that in some PDB files instead of the prime '
a star * is used (C1*, C2*, C3*, C4*, O4*).
Yes. Jmol supports this.
In fact, I think that all of the .p
Thanks, Miguel. Teamwork!
To those who were reading some of the exchanges between Toby White and me,
here's a synopsis that Toby is free to expand upon:
Jmol can work in an "XML/XHTML" environment as well as "HTML".
Most of us are somewhere along the way to understanding some of this. If you
>
> It's done :) and committed in CVS.
> So it will be in the next prerelease.
Excellent. Thank you for taking care of this Nico.
Miguel
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>> Q: Can someone tell me which atoms make up the sugur?
>
> A detailed atom numbering scheme of the nucleic acid backbone is available
> in
> Fig 2. of http://www.imb-jena.de/ImgLibDoc/nana/IMAGE_NANA.html.
Thanks
> So, in DNA and RNA the sugar forms five-membered rings with the main atoms
> C1'
Now that is service !! ThanksPhilOn Sep 18, 2005, at 11:06 AM, Nicolas Vervelle wrote:It's done :) and committed in CVS.So it will be in the next prerelease.NicolasNicolas Vervelle wrote: I can add it, I am looking into it ;)Philip Bays wrote: Any chance that stereo viewing will make it into the
It's done :) and committed in CVS.
So it will be in the next prerelease.
Nicolas
Nicolas Vervelle wrote:
I can add it, I am looking into it ;)
Philip Bays wrote:
Any chance that stereo viewing will make it into the applet's
contextual menu?
---
I can add it, I am looking into it ;)
Nicolas
Philip Bays wrote:
Any chance that stereo viewing will make it into the applet's
contextual menu?
Phil
J. Philip Bays
Professor of Chemistry
Science Hall 158
Saint Mary's College
Notre Dame IN 46556
(574) 284-4663
--
Any chance that stereo viewing will make it into the applet's contextual menu?Phil J. Philip Bays Professor of Chemistry Science Hall 158 Saint Mary's College Notre Dame IN 46556 (574) 284-4663
- Forwarded message from [EMAIL PROTECTED] -
Date: Sun, 18 Sep 2005 17:20:26 +0200
From: Jürgen Sühnel <[EMAIL PROTECTED]>
Reply-To: Jürgen Sühnel <[EMAIL PROTECTED]>
Subject: Re: [Jmol-users] DNA rendering
To: Miguel <[EMAIL PROTECTED]>
Quoting Miguel <[EMAIL PROTECTED]>:
On Sunday 18 September 2005 15:37, Miguel wrote:
> Q: Can someone tell me which atoms make up the sugur?
Sugar rings consist of five or six ring system, such as that of glucose, see
[1]. In DNA, two OH are replaced by two OR, where R=phosphate or base.
The sugar ring in DNA is actually a five rin
> I have a few comments on nucleic acid rendering.
> For illustrative examples look at http://www.fli-leibniz.de/js/Jmol/DNA/ .
>
> 1. Generating ladders is simple for regular structures, see example 1.
> Nevertheless, you have always to perform an analysis of base
> pairing patterns in th
On Sep 18, 2005, at 3:17 AM, Juergen Suehnel wrote:
I have a few comments on nucleic acid rendering.
For illustrative examples look at
http://www.fli-leibniz.de/js/Jmol/DNA/ .
2. A way to overcome this problem is to represent single bases as
tubes along the
major axis of the bases, se
On Sep 18, 2005, at 1:11 AM, Miguel wrote:
I am a little confused ... I thought that point would get connected to
the
corresponding point on the other side.
I was thinking that the rungs would be interrupted as you described
below.
If we draw the line to the N1/3 then there will be a
I have a few comments on nucleic acid rendering.
For illustrative examples look at http://www.fli-leibniz.de/js/Jmol/DNA/ .
1. Generating ladders is simple for regular structures, see example 1.
Nevertheless, you have always to perform an analysis of base
pairing patterns in the nucleic aci
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