I have a 5 similar domains (struct.pdb) aligned on another one
(rcsb.pdb). I made a copy of one of them and translated it 37
angstroms to the right. translate [37, 0, 0 ].
But I did not get a simple translation. The two molecules end up
having a rotation between them.
Here's the script. I need an "origin" command or other...?
thanks,
Dave
#macpymol-1_1r1.tgz
reinitialize
bg_color white
set antialias , 1
set ray_trace_fog=0
set depth_cue=0
set direct, 0.7
set ribbon_smooth, 1
set ribbon_width, 3
set_view (\
-0.342648655, 0.901220083, -0.265300900,\
0.939403236, 0.325558662, -0.107372068,\
-0.010394786, -0.286019355, -0.958166420,\
0.000000000, 0.000000000, -128.319412231,\
22.162364960, 43.079395294, 12.406776428,\
101.167999268, 155.470825195, 0.000000000 )
load rcsb.pdb, rcsb2
load rcsb.pdb, a33alone
#1kcg:A
load struct(2).pdb, 22
#1e8i:A
load struct(3).pdb, 33
#1ypo:A
load struct(4).pdb, 44
#1B6E_dimer.pdb:A
load struct(5).pdb, 55
#1qo3:C
load struct(6).pdb, 66
hide lines, /rcsb2//*
hide nonbonded, /rcsb2//*
hide lines, /a33alone//*
hide nonbonded, /a33alone//*
hide lines, /22//*
hide nonbonded, /22//*
hide lines, /33//*
hide nonbonded, /33//*
hide lines, /44//*
hide nonbonded, /44//*
hide lines, /55//*
hide nonbonded, /55//*
hide lines, /66//*
hide nonbonded, /66//*
color red, /a33alone//*
show ribbon, /a33alone//* and (name ca or name c or name n)
color red, /rcsb2//*
show ribbon, /rcsb2//* and (name ca or name c or name n)
color yelloworange, /22//*
color blue, /22//A/98-134/*
color blue, /22//A/190-215/*
show ribbon, /22//* and (name ca or name c or name n)
color yelloworange, /33//*
color blue, /33//A/83-121/*
color blue, /33//A/174-199/*
show ribbon, /33//* and (name ca or name c or name n)
color yelloworange, /44//*
color blue, /44//A/142-180/*
color blue, /44//A/244-269/*
show ribbon, /44//* and (name ca or name c or name n)
color yelloworange, /55//*
color blue, /55//A/60-97/*
color blue, /55//A/153-179/*
show ribbon, /55//* and (name ca or name c or name n)
color yelloworange, /66//*
color blue, /66//C/144-175/*
color blue, /66//C/233-258/*
show ribbon, /66//* and (name ca or name c or name n)
hide ribbon, /66//C/140-143/*
rotate y, 30
set_view (\
-0.287066191, 0.957891881, 0.004756007,\
0.607159078, 0.178112596, 0.774357498,\
0.740909398, 0.225178465, -0.632728696,\
0.000000000, 0.000000000, -191.885284424,\
24.745697021, 46.720252991, 14.490940094,\
151.283813477, 232.486755371, 0.000000000 )
translate [37, 0, 0 ], a33alone
zoom complete=1
#ray 4800,4800
#png /Users/dgarboczi/Documents/A_on_A/A_on_A_2_newview_4.png, dpi=600
--
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