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Herman,
you could give buccaneer or arpwarp or phenix.autobuild your refined model and both sequences and let it build away.
Depending on how well the model refined w/o the peptide, you could add a density modification step to improve density for the peptide.

Jan

On Mon, Aug 8, 2016 at 1:52 AM, <[log in to unmask]> wrote:

Dear BB,

 

I have a protein of ~50 kDa with a peptide ligand of about 6 kDa. The protein structure has been solved and by MR and is refined. For the peptide, additional density is present, but it looks like a significant amount of work to build it manually. Any advice on how to best autobuild this peptide would be very welcome!

 

Best,

Herman

 

 

 




--
Jan Abendroth
Emerald Biostructures
Seattle / Bainbridge Island, WA, USA
home: Jan.Abendroth_at_gmail.com
work: JAbendroth_at_embios.com
http://www.emeraldbiostructures.com