Difference between revisions of "Show"

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m (SEE ALSO)
(Example)
 
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# hide nonpolar hydrogens
 
# hide nonpolar hydrogens
 
hide (h. and (e. c extend 1))
 
hide (h. and (e. c extend 1))
 +
</source>
 +
 +
Note:
 +
 +
The above code hides all representations of nonpolar hydrogens, including surface representations, resulting in broken surface representations.  It might be better to remove the nonpolar hydrogens instead:
 +
 +
<source lang="python">
 +
# show only polar hydrogens
 +
hide everything, ele h
 +
show lines, ele h and neighbor (ele n+o)
 +
# remove nonpolar hydrogens
 +
remove (h. and (e. c extend 1))
 
</source>
 
</source>
  

Latest revision as of 13:49, 20 October 2014

Show displays atom and bond representations for certain selections.

Details

The Show command, is one of the most often used commands in PyMOL. For example, you can show certain atoms as Lines or Sticks or Cartoons or any of the following representations:

USAGE

show
show reprentation [,object]
show reprentation [,(selection)]
show (selection)

PYMOL API

cmd.show( string representation="", string selection="" )

EXAMPLES

Example

# show the backbone using lines.
show lines,(name ca or name c or name n)

Example

# show the ribbon representation for all objects
show ribbon

Example

# show all hetero atoms as spheres
show spheres, het

Example

# show only polar hydrogens
hide everything, ele h
show lines, ele h and neighbor (ele n+o)
# hide nonpolar hydrogens
hide (h. and (e. c extend 1))

Note:

The above code hides all representations of nonpolar hydrogens, including surface representations, resulting in broken surface representations. It might be better to remove the nonpolar hydrogens instead:

# show only polar hydrogens
hide everything, ele h
show lines, ele h and neighbor (ele n+o)
# remove nonpolar hydrogens
remove (h. and (e. c extend 1))

NOTES

selection can be an object name.

show alone will turn on lines and nonbonded for all bonds.

show cell will show the triclinic unit cell, provided it's described in the PDB. For cell packing, you need a script. See The Script Library or Robert Campbell's Site

SEE ALSO

Hide, Enable, Disable, Suspend_updates, Lines, Cartoon, Spheres, Mesh, Ribbon, Sticks, Dots, Surface, Label, Extent, Slice, Cell, Select, Show_as