Subject: how to setup a nice modelling environment?
From: "Ari M. Siqueira" <>
Date: Tue, 16 Apr 2002 20:45:42 -0300
Reply-to: <>
Hi,
Just out of
curiosity, and to help me configuring my own environment, what do people use
besides Modeller in their modelling projects?
I have an
Intel/Linux box, 2 IBM workstations (AIX) and an Intel/MS-Win
machine.
My interest is in
modelling peptides in the range of 40-120 amino acids, with high cysteine
contents, homology with known structures usually below 50%. I would also like to
do energy minimizations and molecular dynamics, and to analyse the MD
trajectories.
Software that I am
somewhat familiar with are:
MSI-Accelrys
InsightII
Modeller
VMD
SPDBViewer (Deep
View)
Rasmol/Rastop
Cn3D
WebLabViewer
Procheck
Antheprot
Some additional
software which I have access to but not much experience:
gOpenMol
ICMLite
MolMol
Whatif
What would you
Modellers suggest as an ideal lab setup for homology modelling + MD +
visualizations of structures and trajectories, considering the hardware
above?