Orient
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.