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## '''[[:Category:Objects and Selections|Objects and Selections]]''' ### '''[[:Category:Working with Objects|Working with Objects]]'''

==Objects and Selections== ...quires in-depth knowledge of selections & representations. You can select objects by more than just their residue name, number, etc; for example

## '''[[:Category:Objects and Selections|Objects and Selections]]''' ### '''[[:Category:Working with Objects|Working with Objects]]'''

This script returns the names of all objects (in state 1) that are within a certain cutoff distance from your provided t * Find all objects nearby 1j01 and heteroatoms that aren't water. (Contrived example)

...e can be easily extended to other types of data. For instance, I had this working for an energy vs distance data that I had generated by another script. ...he plot will display data points which can be dragged around Phi,Psi space with the corresponding residue's Phi,Psi angles changing in the structure (PyMol

...d during plugin initialization. It is passed an object which is compatible with the legacy <code>PMGApp</code> instance and provides access to the Tkinter It is important that all Tkinter objects are created with the <code>app.root</code> parent, otherwise legacy plugins won't work in Py

mtsslTrilaterate is a PyMOL plugin for the trilateration of objects based on distance restraints. ...which is defined by the distances from this object to several "reference" objects. The idea of the program is similar to the Global Positioning System (GPS)

...file is saved in [[Fetch_Path|fetch_path]], which defaults to the current working directory for PyMOL. ...gical assembly (type=pdb1) from the pdb, split the 60 states into separate objects (multiplex=1), and tell PyMOL to wait for all this to be completed before m

...ls do not require sdsorter, but it is still a very useful tool for dealing with sdf files. ...zedAffinity' which is inserted into the output sdf file after minimization with 'smina' (An enhanced version of AutoDock Vina. Available at: http://www.smi

...from ''(i)'' raw, starting data (''e.g.'', PDB files) to ''(ii)'' actual, working PyMOL or Python scripts and ''(iii)'' final output image files. # Make fancy helices with ridge on the edges like