load $TUT/1hpv.pdb, tmp
extract lig, organic
extract prot, polymer
delete tmp
set surface_carve_cutoff, 5
set surface_carve_selection, lig
set surface_carve_normal_cutoff, -0.5
set surface_cavity_mode, 1
set surface_smooth_edges, 1
set surface_proximity, 1
set transparency, 0.6
set ray_shadows, 0
set two_sided_lighting
show surface, prot within 5 of lig
show sticks, lig
orient lig
set surface_color, limegreen
set surface_type, 2 # mesh
png overview.png, 20cm, 18cm, dpi=300, ray=1
select N1_6A, N1_trim & resid 73+74+75+76+77+78+79+82+83+84+86+87+88+177+181+182+183+184+185+204+205+208+211+212+215+269+271+272+273+275+276+277+278+279+280+281+282+284+341+342+343+345+346+458+459+460+461+462