[Dock-fans] Setting 'Anchor' and 'Rigid' Atom Sets

[Scott Brozell]

Hi,

On Tue, 7 Apr 2009, Mohd Afiq Hazlami wrote:

> Hi. I need some help. Is there any other way to set anchor and rigid atom
> sets without using Sybyl? And is it necessary to set the anchor and rigid
> atom on every ligand molecule's that I'm going to use?

I do not understand the questions.  Note that 
Manual Specification of Non-rotatable Bonds
is not currently available:
http://dock.compbio.ucsf.edu/DOCK_6/dock6_manual.htm#ManualSpecificationofNonrotatableBonds
If that does not answer your question then send more details and context.

> Can't I just use
> Chimera or other converting tools to create a mol2 file for the ligands?

Yes, that certainly is the normal route.

Scott