New answers tagged structural-biology
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You can use "as" to switch to a particular style (http://pymolwiki.org/index.php/As
):
as cartooon, 11AS and chain a
You can also hide everything, to remove all representations (http://pymolwiki.org/index.php/Hide):
hide every, 11AS and not (n. ca+c+n and resi 5-10)
I'm a fairly expert user of PyMOL and I've never seen an API exposed which will show ...
0
What biochemical molecule viewer allows for changes in amino acids and resulting tertiary structure?
If I understand what you're attempting to accomplish, as David said, this is a vigorous area of study in structural biology. I'll start by saying that a single amino acid substitution will often make virtually no difference in a structure, but there are proteins where a couple substitutions will convert an all alpha-helical protein to all beta-sheet, so I'll ...
0
After you load the molecule in VMD, from the menu bar select Graphics->Representations... In the box labeled Selected Atoms, type "hetero" and hit enter. You should now see only your ligand (and whatever other non-protein/DNA atoms that happen to be in your PDB file). Hit the Create Rep button, enter "protein" in the Selected Atoms box and hit enter (you can ...
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