Orient

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Revision as of 13:19, 7 September 2010 by Jaredsampson (talk | contribs) (provided an example of orient for a model with NCS symmetry)
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orient aligns the principal components of the atoms in the selection with the XYZ axes. The function is similar to the orient command in X-PLOR.

USAGE

orient object-or-selection [, state]
orient (selection)

PYMOL API

cmd.orient( string object-or-selection [, state = 0] )

NOTES

  state = 0 (default) use all coordinate states
  state = -1 use only coordinates for the current state
  state > 0  use coordinates for a specific state

EXAMPLES

For models with NCS symmetry, orient will align the model with the symmetry axis centered along the viewport's z axis. For example,

  fetch 1hiw, async=0
  as cartoon
  remove (!chain A,B,C)
  orient
  util.cbc
  png 1hiw_orient.png, width=1200, height=1200, dpi=300, ray=1

will produce the following image.


SEE ALSO

Zoom, Origin, Reset