[Dock-fans] prepare_amber.pl with phosphorylated residues

Rebekah Baskin rebekah_lou at yahoo.com
Wed Oct 6 11:28:52 PDT 2010


I want to use the command prepare_amber.pl to prepare my receptor for AMBER 
scoring, but my protein has phosphotyrosine residues in its active site 
(designated as PTR). These are not being recognized by the program. How can I 
fix this so that the residue names are in an Amber readable format?



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