We are pleased to announce the release of a new version of our web
server for normal analysis of proteins, WEBnm { *at * } , available at
http://www.bioinfo.no/tools/normalmodes. Go and try it !
The server is meant to provide users with simple and automated
computation and analysis of low-frequency normal modes for proteins.
The
computation performed through our server should help the user
understand
whether your protein of interest undergoes large amplitude movements,
and thus decide if it is worthwile performing a complete study with
more
thorough analysis. Analysis tools provided here have been described and
successfully applied /(Reuter et al., Biophys.J., 2003)/. Normal modes
calculations are performed using the MMTK package /(K. Hinsen,
J.Comput.Chem., 2000)/.
Analysis tools available so far are:
* deformation energies for low-frequency modes;
* calculation of normalized squared atomic displacements: results are
provided either as raw data or as plots (PDF format);
* vector field representation: PNG image files or VMD state files;
* animations of the vibrations associated with the low-frequency
modes:
animated gif or dcd trajectory files.
We welcome comments and suggestions, and will surely take them into
account in future versions.
--
Nathalie Reuter
Computational Biology Unit
BCCS/Univ. of Bergen
Thormohlensgt, 55
N-5008 Bergen
Phone: +47 55 58 40 40
Fax: +47 55 58 42 95
From microelectronics-request Tue Aug 24 22:19:56 2004
From: Anatoli Korkin <korkin{at}nanoandgiga.com>
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Date: Tue, 24 Aug 2004 22:19:53 -0500 (EST)
Subject: International Journal of Nanotechnology: special issue on
"Nanotechnology Toolkit"
To: CCL List <chemistry{at}ccl.net>
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Dear Colleagues,
We invite you to submit a paper to the special issue of International
Journal of Nanotechnology on Nanotechnology Toolkit". The Special issue of
the International Journal of Nanotechnology will address the most advanced
state of the art hardware and software tools currently available or under
development for nanotechnology in manufacturing, characterization and
computer simulations. The papers on experimental and computational
(software) tools are invited and equally welcome. The deadline for the
paper submission is 1 October 2004.
This call for papers is affiliated with the Symposium and Summer School on
"Nano and Giga Challenges in Microelectronics, September 13-17, 2004,
Krakow, Poland, but not limited to the meeting participants. For further
details and paper submission, please, visit the following web site:
http://asdn.net/ngcm2004/publication-ijnt.shtml
Guests Editors of IJNT special issue on "nanotechnology Toolkit",
Anatoli Korkin, Nano & Giga Solutions, USA
Jan Labanowski, University of Notre Dame, USA,
Marek Szymonski, Jagiellonian University, Poland,
Alex A. Volinsky, University of South Florida, USA