From owner-chemistry@ccl.net Tue Jul 17 06:00:00 2012
From: "Gerard Pujadas gerard.pujadas]*[gmail.com" <owner-chemistry(_)server.ccl.net>
To: CCL
Subject: CCL: Any alternative to the TOPS server for drawing topological diagrams for PDB files?
Message-Id: <-47215-120717055034-2527-bniWTpVFjQO1r4uIOKlL3g(_)server.ccl.net>
X-Original-From: Gerard Pujadas <gerard.pujadas],[gmail.com>
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Date: Tue, 17 Jul 2012 11:50:28 +0200
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Sent to CCL by: Gerard Pujadas [gerard.pujadas~!~gmail.com]
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Dear CCL list members,

first of all, sorry for cross-posting

I would like to know if there is available any webserver (or software) that
can draws topological diagrams for PDB files following the idea that was
implemented some years ago at the TOPS webserver (
http://www.tops.leeds.ac.uk/). This server is not running since 2008 and it
was quite useful in order to teach the protein architecture to my students.
Currently PDBSum provides topological diagrams for PDB entries (
http://kpwu.wordpress.com/2006/02/14/pdbsum-announces-topology-diagrams-for-protein-domains/)
but, in my opinion, those formerly provided by TOPS where more intuitive to
correlate the diagram with the folding of the domain ...

With many thanks in advances

Yours sincerely

-- 
Gerard Pujadas
http://bioquimica.urv.cat/eng/fitxa.jsp?id=22
Nutrigenomics Research Group
phone +34 977 55 (9565)
Biochemistry and Biotechnology Department
Office 106, Building N4, Campus Sescelades
Universitat Rovira i Virgili
Tarragona, Catalonia

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Dear CCL list members,<br><br>first of all, sorry for cross-posting<br><br>=
I
 would like to know if there is available any webserver (or software)=20
that can draws topological diagrams for PDB files following the idea=20
that was implemented some years ago at the TOPS webserver (<a href=3D"http:=
//www.tops.leeds.ac.uk/" target=3D"_blank">http://www.tops.leeds.ac.uk/</a>=
).
 This server is not running since 2008 and it was quite useful in order to=
=20
teach the protein architecture to my students. Currently PDBSum provides
 topological diagrams for PDB entries (<a href=3D"http://kpwu.wordpress.com=
/2006/02/14/pdbsum-announces-topology-diagrams-for-protein-domains/" target=
=3D"_blank">http://kpwu.wordpress.com/2006/02/14/pdbsum-announces-topology-=
diagrams-for-protein-domains/</a>)
 but, in my opinion, those formerly provided by TOPS where more=20
intuitive to correlate the diagram with the folding of the domain ...<br><d=
iv>
<br>With many thanks in advances<br><br>Yours sincerely</div><br>-- <br><fo=
nt style=3D"color:rgb(0,0,0)" color=3D"#888888">Gerard Pujadas<br><a href=
=3D"http://bioquimica.urv.cat/eng/fitxa.jsp?id=3D22" target=3D"_blank">http=
://bioquimica.urv.cat/eng/fitxa.jsp?id=3D22</a><br>
Nutrigenomics Research Group<br>phone +34 977 55 (9565)<br>
Biochemistry and Biotechnology Department<br>Office 106, Building N4, Campu=
s Sescelades<br>Universitat Rovira i Virgili<br>Tarragona, Catalonia</font>=
<span style=3D"color:rgb(0,0,0)"></span><br><br>

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