[Chimera-users] any aid for dock3.5 score?

Elaine Meng meng at cgl.ucsf.edu
Wed May 6 17:20:26 PDT 2009

Hi Francesco,
If by "the grid" you mean the potential map from DelPhi:

If you have the academic version of DelPhi from the Honig Lab, you  
can run it with the Chimera tool DelPhiController (under Tools...  
Surface/Binding Analysis):

This allows entering all the DelPhi run parameters and input/output  
filenames into a GUI instead of the text files needed to run DelPhi  
"manually."  However, it does not help you make sure parameters are  
correctly assigned; you are still responsible for figuring out which  
DelPhi charge and radius files (also from the Honig lab) to use and  
making sure the atoms in your structure are named correctly to match  
with the parameters in these files.

Also, DelPhiController is one of our older tools and may not be very  
easy to use.
Elaine C. Meng, Ph.D.                          meng at cgl.ucsf.edu
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco

On May 6, 2009, at 10:14 AM, Francesco Pietra wrote:

> Hi:
> I am considering to use dock3.5 score in DOCK6.2, which makes use of
> Delphi. Is any aid in chimera for builing the grid?
> thanks
> francesco

More information about the Chimera-users mailing list