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?
 
Please advise.
 
Yours thankfully,
 
Ari M. Siqueira, PhD
(a hopeful modeller...)