# # - ChimeraX command script: assign Kyte-Doolittle amino acid hydrophobicity # as residue attribute, show protein surface, color by attribute using # same colors as in the Chimera hydrophobicity preset; also color ribbons # - put this file in custom preset folder, see ChimeraX Startup preferences # # Kyte-Doolittle hydrophobicity + make MSE same as MET # A simple method for displaying the hydropathic character of a protein. # Kyte J, Doolittle RF. J Mol Biol. 1982 May 5;157(1):105-32. # setattr :asp res kdh -3.5 create t setattr :glu res kdh -3.5 create t setattr :asn res kdh -3.5 create t setattr :gln res kdh -3.5 create t setattr :lys res kdh -3.9 create t setattr :arg res kdh -4.5 create t setattr :his res kdh -3.2 create t setattr :gly res kdh -0.4 create t setattr :pro res kdh -1.6 create t setattr :ser res kdh -0.8 create t setattr :thr res kdh -0.7 create t setattr :cys res kdh 2.5 create t setattr :met res kdh 1.9 create t setattr :mse res kdh 1.9 create t setattr :ala res kdh 1.8 create t setattr :val res kdh 4.2 create t setattr :ile res kdh 4.5 create t setattr :leu res kdh 3.8 create t setattr :phe res kdh 2.8 create t setattr :trp res kdh -0.9 create t setattr :tyr res kdh -1.3 create t surf protein; hide protein atoms color byattribute kdh protein target rs palette dodgerblue:white:orangered novalue gray