Please click the link(s) below before testing methods in this section (in order).
/apply/pymol.cmd.reinitialize
load filename, object, state, format, finish, discrete, quiet, multiplex, zoom, partial
/apply/pymol.cmd.load?filename=$PYMOL_PATH/modules/web/examples/data/ref.pdb
/apply/pymol.cmd.load?filename=$PYMOL_PATH/modules/web/examples/data/map.ccp4
enable name, parents
/apply/pymol.cmd.enable?name=map
disable name
/apply/pymol.cmd.disable?name=map
get_names type, enabled_only, selection
/apply/pymol.cmd.get_names
/apply/pymol.cmd.get_names?enabled_only=1
delete name
/apply/pymol.cmd.delete?name=ref
reinitialize what, object
/apply/pymol.cmd.reinitialize
Please click the link(s) below before testing methods in this section (in order).
/apply/pymol.cmd.reinitialize
/apply/pymol.cmd.load?filename=$PYMOL_PATH/modules/web/examples/data/ref.pdb
color color, selection, quiet, flags
/apply/pymol.cmd.color?color=yellow&selection=elem c
/apply/pymol.cmd.color?color=cyan&selection=elem c
center selection, state, origin, animate
/apply/pymol.cmd.center?selection=polymer and resi 61
zoom selection, buffer, state, complete, animate
/apply/pymol.cmd.zoom?selection=byres 50/ca&animate=1
reset object
/apply/pymol.cmd.reset
clip mode, distance, selection, state
/apply/pymol.cmd.clip?mode=slab&distance=10
/apply/pymol.cmd.clip?mode=move&distance=5
/apply/pymol.cmd.clip?mode=atoms&distance=2&selection=all
orient selection, state, animate
/apply/pymol.cmd.orient?selection=ref&animate=2
set_view view, animate, quiet, hand
/apply/pymol.cmd.set_view?view=[0.578752935,0.681042910,0.448581249,-0.788007200,0.608662128,0.092595495,-0.209973529,-0.407075256,0.888932705,0.000007167,-0.000031501,-51.499031067,32.479228973,33.349739075,16.644239426,43.353927612,59.644340515,-20.000000000]&animate=2
get_view output, quiet
/apply/pymol.cmd.get_view
Please click the link(s) below before testing methods in this section (in order).
/apply/pymol.cmd.reinitialize
/apply/pymol.cmd.load?filename=$PYMOL_PATH/test/dat/pept.pdb
distance name, selection1, selection2, cutoff, mode, zoom, width, length, gap, label, quiet, reset, state
/apply/pymol.cmd.distance?name=trp2trp&selection1=/pept/E/E/TRP`4/CD2&selection2=/pept/E/E/TRP`11/CD2
/apply/pymol.cmd.distance?name=hbonds&selection1=pept&selection2=pept&mode=2&label=0
/apply/pymol.cmd.show?representation=labels&selection=hbonds
/apply/pymol.cmd.hide?representation=labels&selection=hbonds
angle name, selection1, selection2, selection3, mode, label, reset, zoom, state, quiet
/apply/pymol.cmd.angle?name=gly-angs&selection1=gly/&selection2=gly/&selection3=gly/&mode=1
/apply/pymol.cmd.zoom?selection=gly-angs&animate=1
dihedral name, selection1, selection2, selection3, selection4, mode, label, reset, zoom, state, quiet
/apply/pymol.cmd.dihedral?name=leu-dihe&selection1=6/N&selection2=6/CA&selection3=6/C&selection4=6/O
/apply/pymol.cmd.zoom?selection=leu-dihe&animate=1
get_distance atom1, atom2, state, quiet
/apply/pymol.cmd.get_distance?atom1=1/CA&atom2=2/CA
get_angle atom1, atom2, atom3, state, quiet
/apply/pymol.cmd.get_angle?atom1=1/N&atom2=1/CA&atom3=1/C
get_dihedral atom1, atom2, atom3, atom4, state, quiet
/apply/pymol.cmd.get_dihedral?atom1=1/N&atom2=1/CA&atom3=1/C&atom4=2/N
Please click the link(s) below before testing methods in this section (in order).
/apply/pymol.cmd.reinitialize
/apply/pymol.cmd.load?filename=$PYMOL_PATH/modules/web/examples/data/ref.pdb
/apply/pymol.cmd.load?filename=$PYMOL_PATH/modules/web/examples/data/map.ccp4
isomesh name, map, level, selection, buffer, state, carve, source_state, quiet
/apply/pymol.cmd.isomesh?name=mesh&map=map&level=1.0
/apply/pymol.cmd.rock
isolevel name, level, state, query, quiet
/apply/pymol.cmd.isolevel?name=mesh&level=3.0
/apply/pymol.cmd.isolevel?name=mesh&level=-2.0
isosurface name, map, level, selection, buffer, state, carve, source_state, side, mode, quiet
/apply/pymol.cmd.isosurface?name=surf&map=map&level=5.0
/apply/pymol.cmd.color?color=red&selection=surf
Please click the link(s) below before testing methods in this section (in order).
/apply/pymol.cmd.reinitialize
/apply/pymol.cmd.load?filename=$PYMOL_PATH/modules/web/examples/data/ref.pdb
show representation, selection
/apply/pymol.cmd.show?representation=sticks
hide representation, selection
/apply/pymol.cmd.hide?representation=nonbonded
set name, value, selection, state, updates, log, quiet
/apply/pymol.cmd.set?name=stick_radius&value=0.4
/apply/pymol.cmd.set?name=stick_radius&value=0.15
get name, selection, state, quiet
/apply/pymol.cmd.get?name=stick_radius
label selection, expression, quiet
/apply/pymol.cmd.label?selection=resn sul and elem s&expression='Sulfate'
/apply/pymol.cmd.label?selection=name ca&expression=chain+' '+resi+' '+resn
/apply/pymol.cmd.label?selection=visible&expression=name
/apply/pymol.cmd.label?selection=all&expression=
Please click the link(s) below before testing methods in this section (in order).
/apply/pymol.cmd.reinitialize
/apply/pymol.cmd.load?filename=$PYMOL_PATH/modules/web/examples/data/ref.pdb
show_as representation, selection
/apply/pymol.cmd.show_as?representation=spheres
draw width, height, antialias, quiet
/apply/pymol.cmd.draw?width=1024
ray width, height, antialias, angle, shift, renderer, quiet, async
/apply/pymol.cmd.ray?async=1
Please click the link(s) below before testing methods in this section (in order).
/apply/pymol.cmd.reinitialize
/apply/pymol.cmd.load?filename=$PYMOL_PATH/test/dat/pept.pdb
select name, selection, enable, quiet, merge, state, domain
/apply/pymol.cmd.select?name=mysel1&selection=1-2/&enable=1
/apply/pymol.cmd.show?representation=spheres&selection=mysel1
origin selection, object, position, state
/apply/pymol.cmd.origin?selection=mysel1
/apply/pymol.cmd.turn?axis=x&angle=45
Please click the link(s) below before testing methods in this section (in order).
/apply/pymol.cmd.reinitialize
/apply/pymol.cmd.load?filename=$TUT/1hpv.pdb
create name, selection, source_state, target_state, discrete, zoom, quiet, singletons, extract
/apply/pymol.cmd.create?name=chA&selection=chain A
/apply/pymol.cmd.create?name=chB&selection=chain B
/apply/pymol.cmd.delete?name=1hpv
/apply/pymol.cmd.orient
align mobile, target, cutoff, cycles, gap, extend, max_gap, object, matrix, mobile_state, target_state, quiet, max_skip, transform, reset
/apply/pymol.cmd.align?mobile=chA&target=chB
Please click the link(s) below before testing methods in this section (in order).
/apply/pymol.cmd.reinitialize
/apply/pymol.cmd.load?filename=$PYMOL_PATH/modules/web/examples/data/ref.pdb
super mobile, target, cutoff, cycles, gap, extend, max_gap, object, matrix, mobile_state, target_state, quiet, max_skip, transform, reset, seq, radius, scale, base, coord, expect, window, ante
/apply/pymol.cmd.create?name=helix1&selection=polymer and 5-17/
/apply/pymol.cmd.create?name=helix2&selection=polymer and 42-60/
/apply/pymol.cmd.delete?name=ref
/apply/pymol.cmd.orient
/apply/pymol.cmd.super?mobile=helix1////CA&target=helix2////CA
window action, x, y, width, height
/apply/pymol.cmd.window?action=position&x=200&y=300
/apply/pymol.cmd.window?action=position&x=0&y=100
/apply/pymol.cmd.window?action=size&x=600&y=600
/apply/pymol.cmd.window?action=size&x=800&y=700