GlaxoSmithKline
R&D
presents
Deep View
Swiss-PdbViewer
by
Nicolas Guex , Alexandre Diemand
, Manuel C. Peitsch
, & Torsten Schwede
Description
Swiss-PdbViewer is an application that provides a user
friendly interface allowing to analyze several proteins at the same time.
The proteins can be superimposed in order to deduce structural alignments
and compare their active sites or any other relevant parts. Amino acid
mutations, H-bonds, angles and distances between atoms are easy to obtain
thanks to the intuitive graphic and menu interface.
Moreover, Swiss-PdbViewer is tightly linked to
Swiss-Model, an automated homology modeling
server developed within the Swiss Institute
of Bioinformatics (SIB) in collaboration between GlaxoSmithKline
R&D and the Structural
Bioinformatics Group at the Biozentrum in Basel.
Working with these two programs greatly reduces the amount
of work necessary to generate models, as it is possible to thread a protein
primary sequence onto a 3D template and get an immediate feedback of how
well the threaded protein will be accepted by the reference structure
before submitting a request to build missing loops and refine sidechain
packing.
Swiss-PdbViewer can also read electron density maps,
and provides various tools to build into the density.
In addition, various modeling tools are integrated and
command files for popular energy minimization packages can be generated.
Finally, as a special bonus, POV-Ray scenes can be generated
from the current view in order to make stunning ray-traced quality images.
An example can be found here
.
[last modified: 15. Sep. 2002 by T.S.]
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