Ditto for Pymol, etc
_________________________________
Joel Tyndall, PhD
Senior Lecturer in Medicinal Chemistry
National School of Pharmacy
University of Otago
PO Box 56 Dunedin 9054
New Zealand
Skype: jtyndall
http://www.researcherid.com/rid/C-2803-2008
Pukeka Matua
Te Kura Taiwhanga Putaiao
Te Whare Wananga o Otago
Pouaka Poutapeta 56 Otepoti 9054
Aotearoa
Ph / Waea +64 3 4797293
Fax / Waeawhakaahua +64 3 4797034
-----Original Message-----
From: "> [mailto:">] On Behalf Of Modeller Caretaker
Sent: Wednesday, 3 March 2010 5:26 a.m.
To: Knut J Bjuland
Cc: ">
Subject: Re: [modeller_usage] ligand desgin
On 3/2/10 6:50 AM, Knut J Bjuland wrote:
> I am using a model designed with modeller to do docking. Howevere there
> is problem with ligand design. The ligand is gogin to be 4 peptides long
> and start with Ser,Ala, Gly , Val or CYS. The amino acids in the other
> postion should be any amino acid. How can I design a peptide with 20**3
> different amino acids. Or can you point me to a software that do ligand
> desing or a good database.
The last time you asked this question I told you that Modeller didn't do
protein design, and pointed you to Rosetta's design module:
http://salilab.org/archives/modeller_usage/2010/msg00051.html
Was that not suitable?
Ben Webb, Modeller Caretaker
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