User:Wayne Decatur/Generate Unfolded Structures: Difference between revisions
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Please note this will generate a structure that is just for representational purposes and is not thermodynamically stable. To translate or rotate a chain or parts relative the rest of the structure see [[User:Wayne Decatur/Moving Components or Parts of Structures| my page on moving parts or components of structures using Pymol]]. | Please note this will generate a structure that is just for representational purposes and is not thermodynamically stable. To translate or rotate a chain or parts relative the rest of the structure see [[User:Wayne Decatur/Moving Components or Parts of Structures| my page on moving parts or components of structures using Pymol]]. | ||
Add information on breaking disulfides first and reforming others. | Add information on breaking disulfides first and reforming others. | ||
You may wish to break the disulfides to unfold the protein more than you could obtain if you did not: | |||
* Either pick the two atoms (pk1 and pk1, they will be called in the list to the side in Pymol) by going into 3 button Editing mode and selecting the bond between the two atoms and hitting Ctrl-right-click or choose pk1 first by hitting Ctrl-middle-click as you touch the atom and then selecting the next and doing the same. | |||
*Once the two atoms are chosen, breakt the bond by entering 'unbond pk1,pk2' | |||
