Yes, you can use the bond command to bond specific atoms of each residue:
In tleap:
>Bond pdb1.res1.atom# pdb2.res2.atom#
You can check the listing of resname and atom # with:
>desc pdbname
Hope it helps!
Have a good day
Rodrigo
--------------
Depto de Fisicoquimica
Instituto de Quimica
UNAM
2010/7/22, Philippe Pinard <pp_amber17.yahoo.com>:
> Hi Amber users
>
> I have a quite large organic molecule (2000 atoms) that I represented in
> terms
> of 4 different residues (rea, reb, rec, red). These residues lib and frcmod
> were
> built using antechamber.
> Of course the molecule is composed of these residues (30 rea, 40 reb, 50
> rec,
> and 30 red) that are bonded in a certain way.
> I want to know whether I should use bond command to bond the residues to
> each
> other?
>
> Regards
>
> Philippe
>
>
>
>
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>
>
--
Enviado desde mi dispositivo móvil
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Received on Thu Jul 22 2010 - 11:30:03 PDT
