Expanding Symmetry Mates

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Example of symmetry mates using O

Load the entire molecule

sam_at_in 1qbj.pdb prot mol prot ca ; end

Setup symmetry parameters

symm_setup prot 85.900 85.900 71.300 90.00 90.00 90.00

Sym> Name of spacegroup? [P4212]:

symm_sphere prot

Sym> Symmetry molecule name? [sym]:
Sym> Sphere radius [10.0]:

symm_cell

Expand and color the various groups of molecules

click Display | Molecule | SYM1
click Display | Molecule | Ca atoms
click Display | Molecule | SYM2
click Display | Molecule | Ca atoms
click Display | Molecule | SYM3
click Display | Molecule | Ca atoms

click Menus | Object_menu | SYM1 (to turn it off)
click Menus | Object_menu | SYM2 (to turn it off)
click Menus | Object_menu | SYM3 (to turn it off)

click Display | Molecule | ADAR (to activate it)
click Display | Paint mol. | white
click Display | Paint mol. | Paint object

and click on an atom in ADAR

click Display | Molecule | SYM1 (to activate it)
click Display | Paint mol. | green
click Display | Paint mol. | Paint object

and click on an atom in SYM1

 
click Display | Molecule | SYM2 (to activate it)
click Display | Paint mol. | cyan
click Display | Paint mol. | Paint object

and click on an atom in SYM2

Set the bond thickness and complexity:

sketch_set

Sketch> Setup for what type? [stick]: Sketch> Solid, line or smooth mode? [smooth]: Sketch> Radius? [ 0.4]: Sketch> Number of edges [ 5]: 10

Draw the bond cylinders:

sketch_stick prot
sketch_stick sym1ca
sketch_stick sym2ca
sketch_stick sym3ca

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Last Modified: Wednesday, 22-Sep-1999 13:01:25 EDT by P. Fleming