#########################################################################
#                                                                       #
# PyMol Script to render bacteriorhodopsin backbone and bound retinal   #
# Showing protein backbone colored by polypeptide chains                #
#                                                                       #
# Esther Zhuang and Kalju Kahn, UCSB, 2003-2004                         #
#                                                                       #
#########################################################################

hide

# Generate secondary structure and display as loop cartoon
util.ss("bact_rhodps_1c3w_mmol_ret_H")
cartoon loop
show cartoon
set_color lightpink,[ 1.00, 0.36, 0.61]
recolor
color cyan, chain a
color lightpink, chain b
color wheat, chain c

# Show bound retinal as space-fill model
show sphere, resn ret
color gray, resn ret
set sphere_scale=0.8
color white, elem h and resn ret
color salmon, elem o and resn ret

# Rotate the structure to provide side view
rotate x, -90
rotate y, 90
rotate x, 10

util.performance(0)
rebuild