Patent ID: 7587286

Claim:
A method of generating a protein with a polymeric moiety attached at a favorable attachment site comprising: a) inputting a set of coordinates for a target protein into a computer; b) inputting a set of coordinates for a plurality of polymeric moieties; c) selecting a criteria for said favorable attachment site based upon at least one desired characteristic, d) analyzing said structure using a simulation module comprising the steps of: i) computationally attaching a plurality of conformers of each of said polymeric moieties to a plurality of amino acids in said target protein; and ii) disallowing conformers at each of said amino acids on the basis of a distance cutoff; e) generating a matrix of said amino acids and said polymeric moiety that are energetically favorable; f) selecting based upon said criteria one of said amino acids for attachment of one of said polymeric moieties; and g) physically making and screening for said at least one desired characteristic said protein with said polymeric moiety attached at said favorable attachment site.