I have used PyMol for years and have done numerous posts related to it. However, that may soon come to an end. The reason being that Discovery Studio Visualizer 2.5 (DSV) is just better. I am still getting used to the program, but wanted to share with you three ways to ’select a region’ to get you pumped up!
1) Highlight amino acid sequence
You can display the amino acid sequence by Sequence -> Show Sequence
When you highlight on the sequence – the structure is also highlighted.
The structure can be viewed on the other tab (I really like having tabs instead of separate windows):
Simply draw over the region you would like to be selected.
An atom can simply be selected with the pointer and with a right click, pertinent information will be displayed. In this example, I have double clicked which highlights the residue.
Four clicks will select a chain.
Six will select the entire structure.
Once a selection is made you can then easily make adjustments using the display tab (I previously mentioned this here).
DSV has a ligand script so that can VERY quickly generate the following figure
Scripts -> Ligand Interactions -> Show Ligand Interactions with Atoms:
A couple of changes and you can have a publication quality figure in no time.