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: modeller_usage-bounces@salilab.org [mailto:modeller_usage-bounces@salilab.org] On Behalf Of Modeller Caretaker Sent: Wednesday, 3 March 2010 5:26 a.m. To: Knut J Bjuland Cc: modeller_usage@salilab.org 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