obj ca_tyr conn o.dat sel_off ;; sel_prop atom_name = ca on sel_prop residue_type = tyr on sel_vis z ; end sel_on ;; sel_vis
Note that the connectivity file is o.dat and not all.dat. Using the latter would cause small crosses to be drawn at non-tyrosine residues.
In the next example, we display the poly-Gly backbone:
obj poly_g conn all.dat sel_off ;; sel_prop atom_name = n on sel_prop atom_name = ca on sel_prop atom_name = c on sel_prop atom_name = o on sel_vis z ; end
Now, display all residues with bad rms pep-flip values:
obj flip sel_prop residue_pepflip > 2.5 on sel_vis z ; end
In this last example, the residue property called _residue_pepflip must have been calculated in advance by the Pep_flip option.
Paint acidic residues red, basic residues blue, all other residues white:
sel_on ;; paint_sel white sel_off ;; sel_prop residue_type = asp on sel_prop residue_type = glu on paint_sel red sel_off ;; sel_prop residue_type = lys on sel_prop residue_type = arg on sel_prop residue_type = his on paint_sel blue obj chrg z ; end