handout3

handout3 - Department of Chemical Engineering University of...

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Department of Chemical Engineering ChE 170 University of California, Santa Barbara Fall 2010 Handout 3 Pymol tips Pymol resources A wiki for the Pymol program, with descriptions of commands and tutorials, is available at: http://pymolwiki.org/index.php/Main_Page For some Pymol-rendered examples for inspiration, visit: http://pymolwiki.org/index.php/Gallery http://pymolwiki.org/index.php/Covers Manipulating the view The following mouse commands in the display window are available: rotation – click and drag with the right mouse button zoom in/out – click and drag with the left mouse button translation – click and drag with the center mouse button, or with the scroll button The “Reset” button will refocus the view to fit all objects in it. Selection You can select amino acid residues by clicking on them directly. You can also select residues by going to Display > Sequence, followed by Display > Sequence Mode > Residue Codes. This will show a clickable 1-letter amino acid sequence at the top of the display window. Alternatively, you can select entire protein or ligand chains at a time by changing the sequence mode, Display > Sequence Mode > Chains. Selections create a “(sele)” group in the selection menu of the display that can be manipulated separately from other objects. Hiding and unhiding objects
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handout3 - Department of Chemical Engineering University of...

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