User:Wayne Decatur/Generate Unfolded Structures: Difference between revisions
No edit summary |
No edit summary |
||
| Line 7: | Line 7: | ||
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: | 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. | * 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 atom #1 (pk1) first by hitting Ctrl-middle-click as you touch the atom and then selecting the next (pk2) and doing the same. | ||
*Once the two atoms are chosen, break the bond by entering 'unbond pk1,pk2'. | *Once the two atoms are chosen, break the bond by entering 'unbond pk1,pk2' in the command line area in Pymol. | ||
*[[1gxv]] is a good structure to with which to try this. | *[[1gxv]] is a good structure to with which to try this. | ||