this should work fine, but the restraintmask syntax might be easier.
both can be used, each has some advantages over the other.
try it out and see what happens, and let us know if you run into problems.
On Thu, Jun 18, 2009 at 2:48 PM, Vishal Maingi <maingipaws.yahoo.co.in>wrote:
>
>
> > >
> > > Dear amber users,
> > >
> > > I am new to amber and
> > > this is in continuation with query on Fix.... by
> > Yunjei Zhao
> > >
> > >
> > > as already written the input file "ambermask" I have
> > seen it
> > >
> > > can we not fix residue by using Group or atom in
> > input file after / as
> > > given in DNA amber tutorial by knowing which residue
> > is which?
> > >
> > > I am using polymer. I solvated with water and
> > hence polymer become
> > > solute. now in order to know my file I used "desc"
> > command. by this I get
> > > number of residues with my polymer being shown as
> > number res 1 (polymer now
> > > residue) and rest of being shown as wat residues.
> > >
> > > input file
> > > &cntrl
> > >
> > > *
> > > *
> > > *
> > > *
> > > /
> > > title
> > > value
> > > RES number(to be fixed)
> > > END
> > > END
> > >
> > > my question is, can we not fix the residue
> > by above type of input file
> > > as shown if we know the residue number in our
> > structure. I am not able to
> > > understand and sure about this
>
> any suggestion will be appreciated
> > >
> > > thanks
> > >
> > > Vishal
> > > India
>
>
>
> Cricket on your mind? Visit the ultimate cricket website. Enter
> http://cricket.yahoo.com
>
>
> _______________________________________________
> AMBER mailing list
> AMBER.ambermd.org
> http://lists.ambermd.org/mailman/listinfo/amber
>
_______________________________________________
AMBER mailing list
AMBER.ambermd.org
http://lists.ambermd.org/mailman/listinfo/amber
Received on Mon Jul 06 2009 - 10:03:12 PDT
