# pml automagically-generated by psntools 1.0

# molecule file name, you can change it with an other file of the same molecule
mol_file_name = "8EFL_nogp.pdb"

# cartoon color definition, change it as you please
set_color cartoon_color, [ 0.60, 0.60, 0.60 ]

# color definitions, change them as you please
set_color color_value_from_0_to_10,   [ 0.00, 0.00, 0.00 ]
set_color color_value_from_10_to_20,  [ 0.10, 0.10, 0.10 ]
set_color color_value_from_20_to_30,  [ 0.30, 0.30, 0.30 ]
set_color color_value_from_30_to_40,  [ 0.60, 0.60, 0.60 ]
set_color color_value_from_40_to_50,  [ 0.00, 0.00, 1.00 ]
set_color color_value_from_50_to_60,  [ 0.00, 0.50, 1.00 ]
set_color color_value_from_60_to_70,  [ 0.00, 1.00, 0.00 ]
set_color color_value_from_70_to_80,  [ 1.00, 1.00, 0.00 ]
set_color color_value_from_80_to_90,  [ 1.00, 0.60, 0.00 ]
set_color color_value_from_90_to_100, [ 1.00, 0.00, 0.00 ]

# consurf colors, change them as you please
set_color color_consurf_0, [ 0.00, 0.00, 0.00 ]
set_color color_consurf_1, [ 0.06, 0.78, 0.82 ]
set_color color_consurf_2, [ 0.55, 1.00, 1.00 ]
set_color color_consurf_3, [ 0.84, 1.00, 1.00 ]
set_color color_consurf_4, [ 0.92, 1.00, 1.00 ]
set_color color_consurf_5, [ 1.00, 1.00, 1.00 ]
set_color color_consurf_6, [ 0.99, 0.93, 0.96 ]
set_color color_consurf_7, [ 0.98, 0.79, 0.87 ]
set_color color_consurf_8, [ 0.94, 0.49, 0.67 ]
set_color color_consurf_9, [ 0.63, 0.15, 0.38 ]

# color definitions, change them as you please
set_color color_num_0,   [ 0.00, 0.00, 0.00 ]
set_color color_num_1,   [ 1.00, 0.00, 0.00 ]
set_color color_num_2,   [ 0.00, 1.00, 0.00 ]
set_color color_num_3,   [ 0.00, 0.00, 1.00 ]
set_color color_num_4,   [ 1.00, 1.00, 0.00 ]
set_color color_num_5,   [ 0.00, 1.00, 1.00 ]
set_color color_num_6,   [ 1.00, 0.00, 1.00 ]
set_color color_num_7,   [ 0.80, 1.00, 0.00 ]
set_color color_num_8,   [ 1.00, 0.70, 0.70 ]
set_color color_num_9,   [ 1.00, 0.70, 0.20 ]
set_color color_num_10,  [ 0.00, 0.60, 1.00 ]
set_color color_num_11,  [ 0.54, 0.31, 0.64 ]
set_color color_num_12,  [ 1.00, 0.50, 1.00 ]
set_color color_num_13,  [ 0.20, 0.60, 0.20 ]
set_color color_num_14,  [ 1.00, 0.12, 0.00 ]
set_color color_num_15,  [ 1.00, 0.24, 0.00 ]
set_color color_num_16,  [ 1.00, 0.36, 0.00 ]
set_color color_num_17,  [ 1.00, 0.48, 0.00 ]
set_color color_num_18,  [ 1.00, 0.60, 0.00 ]
set_color color_num_19,  [ 1.00, 0.72, 0.00 ]
set_color color_num_20,  [ 1.00, 0.84, 0.00 ]
set_color color_num_21,  [ 1.00, 0.96, 0.00 ]
set_color color_num_22,  [ 0.92, 1.00, 0.00 ]
set_color color_num_23,  [ 0.80, 1.00, 0.00 ]
set_color color_num_24,  [ 0.68, 1.00, 0.00 ]
set_color color_num_25,  [ 0.56, 1.00, 0.00 ]
set_color color_num_26,  [ 0.44, 1.00, 0.00 ]
set_color color_num_27,  [ 0.32, 1.00, 0.00 ]
set_color color_num_28,  [ 0.20, 1.00, 0.00 ]
set_color color_num_29,  [ 0.08, 1.00, 0.00 ]
set_color color_num_30,  [ 0.00, 1.00, 0.04 ]
set_color color_num_31,  [ 0.00, 1.00, 0.16 ]
set_color color_num_32,  [ 0.00, 1.00, 0.28 ]
set_color color_num_33,  [ 0.00, 1.00, 0.40 ]
set_color color_num_34,  [ 0.00, 1.00, 0.52 ]
set_color color_num_35,  [ 0.00, 1.00, 0.64 ]
set_color color_num_36,  [ 0.00, 1.00, 0.76 ]
set_color color_num_37,  [ 0.00, 1.00, 0.88 ]
set_color color_num_38,  [ 0.00, 1.00, 1.00 ]
set_color color_num_39,  [ 0.00, 0.88, 1.00 ]
set_color color_num_40,  [ 0.00, 0.76, 1.00 ]
set_color color_num_41,  [ 0.00, 0.64, 1.00 ]
set_color color_num_42,  [ 0.00, 0.52, 1.00 ]
set_color color_num_43,  [ 0.00, 0.40, 1.00 ]
set_color color_num_44,  [ 0.00, 0.28, 1.00 ]
set_color color_num_45,  [ 0.00, 0.16, 1.00 ]
set_color color_num_46,  [ 0.00, 0.04, 1.00 ]
set_color color_num_47,  [ 0.08, 0.00, 1.00 ]
set_color color_num_48,  [ 0.20, 0.00, 1.00 ]
set_color color_num_49,  [ 0.32, 0.00, 1.00 ]
set_color color_num_50,  [ 0.44, 0.00, 1.00 ]
set_color color_num_51,  [ 0.56, 0.00, 1.00 ]
set_color color_num_52,  [ 0.68, 0.00, 1.00 ]
set_color color_num_53,  [ 0.80, 0.00, 1.00 ]
set_color color_num_54,  [ 0.92, 0.00, 1.00 ]
set_color color_num_55,  [ 1.00, 0.00, 0.96 ]
set_color color_num_56,  [ 1.00, 0.00, 0.84 ]
set_color color_num_57,  [ 1.00, 0.00, 0.72 ]
set_color color_num_58,  [ 1.00, 0.00, 0.60 ]
set_color color_num_59,  [ 1.00, 0.00, 0.48 ]
set_color color_num_60,  [ 1.00, 0.00, 0.36 ]
set_color color_num_61,  [ 1.00, 0.00, 0.24 ]
set_color color_num_62,  [ 1.00, 0.00, 0.12 ]

# fixed size radius used for clusters and communities, change them as you please
link_fixed_size_value = 4.0
node_fixed_size_value = 1.0
hub_fixed_size_value  = 1.8

# link size definitions, change them as you please
link_size_value_from_0_to_10   = 2.5
link_size_value_from_10_to_20  = 3.0
link_size_value_from_20_to_30  = 3.5
link_size_value_from_30_to_40  = 4.0
link_size_value_from_40_to_50  = 4.5
link_size_value_from_50_to_60  = 5.0
link_size_value_from_60_to_70  = 5.5
link_size_value_from_70_to_80  = 6.0
link_size_value_from_80_to_90  = 6.5
link_size_value_from_90_to_100 = 7.0

# node size definitions, change them as you please
node_size_value_from_0_to_10   = 0.5
node_size_value_from_10_to_20  = 0.6
node_size_value_from_20_to_30  = 0.7
node_size_value_from_30_to_40  = 0.8
node_size_value_from_40_to_50  = 0.9
node_size_value_from_50_to_60  = 1.0
node_size_value_from_60_to_70  = 1.1
node_size_value_from_70_to_80  = 1.2
node_size_value_from_80_to_90  = 1.3
node_size_value_from_90_to_100 = 1.4

# diff colors definitions, change them as you please
set_color net1_items_color,   [ 1.0, 0.5, 0.0 ]
set_color shared_items_color, [ 0.5, 1.0, 0.0 ]
set_color net2_items_color,   [ 0.8, 0.5, 1.0 ]

# pert colors definitions, change them as you please
set_color color_pert_neg_75_100, [ 0.00, 0.00, 1.00 ]
set_color color_pert_neg_50_75,  [ 0.00, 0.37, 1.00 ]
set_color color_pert_neg_25_50,  [ 0.00, 0.75, 1.00 ]
set_color color_pert_neg_0_25,   [ 0.00, 1.00, 1.00 ]
set_color color_pert_zero,       [ 1.00, 1.00, 1.00 ]
set_color color_pert_pos_75_100, [ 1.00, 0.00, 0.00 ]
set_color color_pert_pos_50_75,  [ 1.00, 0.37, 0.00 ]
set_color color_pert_pos_25_50,  [ 1.00, 0.75, 0.00 ]
set_color color_pert_pos_0_25,   [ 1.00, 1.00, 0.00 ]

# some other graphic settings, change them as you please
cartoon automatic
set cartoon_smooth_loops=0
set cartoon_fancy_helices=1
set transparency_mode=1
set ray_shadows=0
set ray_transparency_shadows=0
set cartoon_transparency=0.6
bg_color white
set ortho=on
set depth_cue=off
set ray_trace_fog=0
set antialias=1
set dash_gap,0.0
set dash_round_ends,on
set dash_width,3.0
set dash_radius,0.0
print("this is 8EFL_nogp_comms.pml")



# =========================================== #
# PLEASE DO NOT EDIT ANYTHING BELOW THIS LINE #
# =========================================== #



cmd.load(mol_file_name, "molcart")
dss molcart
hide everything, molcart
color cartoon_color, molcart
show cartoon, molcart

sele notpol, molcart and not polymer
show sticks, notpol
cmd.load(mol_file_name, "psg")
hide everything, psg
# link: R:R:T314 R:R:T69
cmd.dist("link1", "psg and R/R/314/CA", "psg and R/R/69/CA", label = 0, width = link_fixed_size_value)
color color_num_2, link1
# link: R:R:I73 R:R:Y130
cmd.dist("link2", "psg and R/R/73/CA", "psg and R/R/130/CA", label = 0, width = link_fixed_size_value)
color color_num_2, link2
# link: R:R:H321 R:R:I73
cmd.dist("link3", "psg and R/R/321/CA", "psg and R/R/73/CA", label = 0, width = link_fixed_size_value)
color color_num_2, link3
# link: R:R:D149 R:R:Q126
cmd.dist("link4", "psg and R/R/149/CA", "psg and R/R/126/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link4
# link: R:R:Q126 R:R:Y328
cmd.dist("link5", "psg and R/R/126/CA", "psg and R/R/328/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link5
# link: L:L:?1 R:R:Q126
cmd.dist("link6", "psg and L/L/1/C08", "psg and R/R/126/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link6
# link: R:R:H321 R:R:Y130
cmd.dist("link7", "psg and R/R/321/CA", "psg and R/R/130/CA", label = 0, width = link_fixed_size_value)
color color_num_2, link7
# link: R:R:C142 R:R:W135
cmd.dist("link8", "psg and R/R/142/CA", "psg and R/R/135/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link8
# link: R:R:C219 R:R:W135
cmd.dist("link9", "psg and R/R/219/CA", "psg and R/R/135/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link9
# link: R:R:C142 R:R:C219
cmd.dist("link10", "psg and R/R/142/CA", "psg and R/R/219/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link10
# link: R:R:D149 R:R:Y328
cmd.dist("link11", "psg and R/R/149/CA", "psg and R/R/328/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link11
# link: L:L:?1 R:R:D149
cmd.dist("link12", "psg and L/L/1/C08", "psg and R/R/149/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link12
# link: R:R:T155 R:R:Y151
cmd.dist("link13", "psg and R/R/155/CA", "psg and R/R/151/CA", label = 0, width = link_fixed_size_value)
color color_num_3, link13
# link: R:R:W194 R:R:Y151
cmd.dist("link14", "psg and R/R/194/CA", "psg and R/R/151/CA", label = 0, width = link_fixed_size_value)
color color_num_3, link14
# link: R:R:S197 R:R:Y151
cmd.dist("link15", "psg and R/R/197/CA", "psg and R/R/151/CA", label = 0, width = link_fixed_size_value)
color color_num_3, link15
# link: R:R:T155 R:R:W194
cmd.dist("link16", "psg and R/R/155/CA", "psg and R/R/194/CA", label = 0, width = link_fixed_size_value)
color color_num_3, link16
# link: R:R:S197 R:R:T155
cmd.dist("link17", "psg and R/R/197/CA", "psg and R/R/155/CA", label = 0, width = link_fixed_size_value)
color color_num_3, link17
# link: R:R:L160 R:R:N334
cmd.dist("link18", "psg and R/R/160/CA", "psg and R/R/334/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link18
# link: R:R:L160 R:R:Y338
cmd.dist("link19", "psg and R/R/160/CA", "psg and R/R/338/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link19
# link: R:R:I250 R:R:S164
cmd.dist("link20", "psg and R/R/250/CA", "psg and R/R/164/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link20
# link: R:R:S164 R:R:Y254
cmd.dist("link21", "psg and R/R/164/CA", "psg and R/R/254/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link21
# link: R:R:C172 R:R:Y168
cmd.dist("link22", "psg and R/R/172/CA", "psg and R/R/168/CA", label = 0, width = link_fixed_size_value)
color color_num_4, link22
# link: R:R:H173 R:R:Y168
cmd.dist("link23", "psg and R/R/173/CA", "psg and R/R/168/CA", label = 0, width = link_fixed_size_value)
color color_num_4, link23
# link: R:R:M257 R:R:V171
cmd.dist("link24", "psg and R/R/257/CA", "psg and R/R/171/CA", label = 0, width = link_fixed_size_value)
color color_num_5, link24
# link: R:R:L261 R:R:V171
cmd.dist("link25", "psg and R/R/261/CA", "psg and R/R/171/CA", label = 0, width = link_fixed_size_value)
color color_num_5, link25
# link: R:R:C172 R:R:H173
cmd.dist("link26", "psg and R/R/172/CA", "psg and R/R/173/CA", label = 0, width = link_fixed_size_value)
color color_num_4, link26
# link: L:L:?1 R:R:C219
cmd.dist("link27", "psg and L/L/1/C08", "psg and R/R/219/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link27
# link: R:R:F239 R:R:F243
cmd.dist("link28", "psg and R/R/239/CA", "psg and R/R/243/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link28
# link: R:R:F239 R:R:I244
cmd.dist("link29", "psg and R/R/239/CA", "psg and R/R/244/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link29
# link: R:R:F239 R:R:H299
cmd.dist("link30", "psg and R/R/239/CA", "psg and R/R/299/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link30
# link: R:R:F243 R:R:I244
cmd.dist("link31", "psg and R/R/243/CA", "psg and R/R/244/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link31
# link: R:R:F243 R:R:H299
cmd.dist("link32", "psg and R/R/243/CA", "psg and R/R/299/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link32
# link: R:R:I250 R:R:Y254
cmd.dist("link33", "psg and R/R/250/CA", "psg and R/R/254/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link33
# link: R:R:F291 R:R:I250
cmd.dist("link34", "psg and R/R/291/CA", "psg and R/R/250/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link34
# link: R:R:L261 R:R:M257
cmd.dist("link35", "psg and R/R/261/CA", "psg and R/R/257/CA", label = 0, width = link_fixed_size_value)
color color_num_5, link35
# link: R:R:F291 R:R:W295
cmd.dist("link36", "psg and R/R/291/CA", "psg and R/R/295/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link36
# link: R:R:F291 R:R:N330
cmd.dist("link37", "psg and R/R/291/CA", "psg and R/R/330/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link37
# link: R:R:H299 R:R:W295
cmd.dist("link38", "psg and R/R/299/CA", "psg and R/R/295/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link38
# link: R:R:N330 R:R:W295
cmd.dist("link39", "psg and R/R/330/CA", "psg and R/R/295/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link39
# link: L:L:?1 R:R:H299
cmd.dist("link40", "psg and L/L/1/C08", "psg and R/R/299/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link40
# link: L:L:?1 R:R:Y328
cmd.dist("link41", "psg and L/L/1/C08", "psg and R/R/328/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link41
# link: R:R:N330 R:R:N334
cmd.dist("link42", "psg and R/R/330/CA", "psg and R/R/334/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link42
# link: R:R:N334 R:R:Y338
cmd.dist("link43", "psg and R/R/334/CA", "psg and R/R/338/CA", label = 0, width = link_fixed_size_value)
color color_num_1, link43
# link: R:R:I73 R:R:T69
cmd.dist("link44", "psg and R/R/73/CA", "psg and R/R/69/CA", label = 0, width = link_fixed_size_value)
color color_num_2, link44
# link: R:R:T69 R:R:V318
cmd.dist("link45", "psg and R/R/69/CA", "psg and R/R/318/CA", label = 0, width = link_fixed_size_value)
color color_num_2, link45
# link: R:R:T314 R:R:V318
cmd.dist("link46", "psg and R/R/314/CA", "psg and R/R/318/CA", label = 0, width = link_fixed_size_value)
color color_num_2, link46
# node: R:R:T314
sele node1, psg and R/R/314/CA
color color_num_2, node1
alter node1, vdw = node_fixed_size_value
show sphere, node1

# node: R:R:T69
sele node2, psg and R/R/69/CA
color color_num_2, node2
alter node2, vdw = node_fixed_size_value
show sphere, node2

# node: R:R:I73
sele node3, psg and R/R/73/CA
color color_num_2, node3
alter node3, vdw = node_fixed_size_value
show sphere, node3

# node: R:R:Y130
sele node4, psg and R/R/130/CA
color color_num_2, node4
alter node4, vdw = node_fixed_size_value
show sphere, node4

# node: R:R:H321
sele node5, psg and R/R/321/CA
color color_num_2, node5
alter node5, vdw = hub_fixed_size_value
show sphere, node5

# node: R:R:D149
sele node6, psg and R/R/149/CA
color color_num_1, node6
alter node6, vdw = hub_fixed_size_value
show sphere, node6

# node: R:R:Q126
sele node7, psg and R/R/126/CA
color color_num_1, node7
alter node7, vdw = node_fixed_size_value
show sphere, node7

# node: R:R:Y328
sele node8, psg and R/R/328/CA
color color_num_1, node8
alter node8, vdw = hub_fixed_size_value
show sphere, node8

# node: L:L:?1
sele node9, psg and L/L/1/C08
color color_num_1, node9
alter node9, vdw = hub_fixed_size_value
show sphere, node9

# node: R:R:C142
sele node10, psg and R/R/142/CA
color color_num_1, node10
alter node10, vdw = node_fixed_size_value
show sphere, node10

# node: R:R:W135
sele node11, psg and R/R/135/CA
color color_num_1, node11
alter node11, vdw = hub_fixed_size_value
show sphere, node11

# node: R:R:C219
sele node12, psg and R/R/219/CA
color color_num_1, node12
alter node12, vdw = hub_fixed_size_value
show sphere, node12

# node: R:R:T155
sele node13, psg and R/R/155/CA
color color_num_3, node13
alter node13, vdw = hub_fixed_size_value
show sphere, node13

# node: R:R:Y151
sele node14, psg and R/R/151/CA
color color_num_3, node14
alter node14, vdw = hub_fixed_size_value
show sphere, node14

# node: R:R:W194
sele node15, psg and R/R/194/CA
color color_num_3, node15
alter node15, vdw = hub_fixed_size_value
show sphere, node15

# node: R:R:S197
sele node16, psg and R/R/197/CA
color color_num_3, node16
alter node16, vdw = node_fixed_size_value
show sphere, node16

# node: R:R:L160
sele node17, psg and R/R/160/CA
color color_num_1, node17
alter node17, vdw = node_fixed_size_value
show sphere, node17

# node: R:R:N334
sele node18, psg and R/R/334/CA
color color_num_1, node18
alter node18, vdw = hub_fixed_size_value
show sphere, node18

# node: R:R:Y338
sele node19, psg and R/R/338/CA
color color_num_1, node19
alter node19, vdw = hub_fixed_size_value
show sphere, node19

# node: R:R:I250
sele node20, psg and R/R/250/CA
color color_num_1, node20
alter node20, vdw = node_fixed_size_value
show sphere, node20

# node: R:R:S164
sele node21, psg and R/R/164/CA
color color_num_1, node21
alter node21, vdw = node_fixed_size_value
show sphere, node21

# node: R:R:Y254
sele node22, psg and R/R/254/CA
color color_num_1, node22
alter node22, vdw = hub_fixed_size_value
show sphere, node22

# node: R:R:C172
sele node23, psg and R/R/172/CA
color color_num_4, node23
alter node23, vdw = node_fixed_size_value
show sphere, node23

# node: R:R:Y168
sele node24, psg and R/R/168/CA
color color_num_4, node24
alter node24, vdw = hub_fixed_size_value
show sphere, node24

# node: R:R:H173
sele node25, psg and R/R/173/CA
color color_num_4, node25
alter node25, vdw = hub_fixed_size_value
show sphere, node25

# node: R:R:M257
sele node26, psg and R/R/257/CA
color color_num_5, node26
alter node26, vdw = node_fixed_size_value
show sphere, node26

# node: R:R:V171
sele node27, psg and R/R/171/CA
color color_num_5, node27
alter node27, vdw = node_fixed_size_value
show sphere, node27

# node: R:R:L261
sele node28, psg and R/R/261/CA
color color_num_5, node28
alter node28, vdw = hub_fixed_size_value
show sphere, node28

# node: R:R:F239
sele node29, psg and R/R/239/CA
color color_num_1, node29
alter node29, vdw = hub_fixed_size_value
show sphere, node29

# node: R:R:F243
sele node30, psg and R/R/243/CA
color color_num_1, node30
alter node30, vdw = hub_fixed_size_value
show sphere, node30

# node: R:R:I244
sele node31, psg and R/R/244/CA
color color_num_1, node31
alter node31, vdw = hub_fixed_size_value
show sphere, node31

# node: R:R:H299
sele node32, psg and R/R/299/CA
color color_num_1, node32
alter node32, vdw = hub_fixed_size_value
show sphere, node32

# node: R:R:F291
sele node33, psg and R/R/291/CA
color color_num_1, node33
alter node33, vdw = hub_fixed_size_value
show sphere, node33

# node: R:R:W295
sele node34, psg and R/R/295/CA
color color_num_1, node34
alter node34, vdw = hub_fixed_size_value
show sphere, node34

# node: R:R:N330
sele node35, psg and R/R/330/CA
color color_num_1, node35
alter node35, vdw = hub_fixed_size_value
show sphere, node35

# node: R:R:V318
sele node36, psg and R/R/318/CA
color color_num_2, node36
alter node36, vdw = node_fixed_size_value
show sphere, node36

