Figure 30.31: Adding or removing enzymes from the Side Panel.
At the top, you can choose to Use existing enzyme list. Clicking this option lets you select an enzyme list which is stored in the Navigation Area. See section Restriction enzyme list for more about creating and modifying enzyme lists.
Below there are two panels:
Select enzymes in the left side panel and add them to the right panel by double-clicking or clicking the Add button (). If you e.g. wish to use EcoRV and BamHI, select these two enzymes and add them to the right side panel.
If you wish to use all the enzymes in the list:
Click in the panel to the left | press Ctrl + A ( + A on Mac) | Add ()
The enzymes can be sorted by clicking the column headings, i.e. Name, Overhang, Methylation or Popularity. This is particularly useful if you wish to use enzymes which produce e.g. a 3' overhang. In this case, you can sort the list by clicking the Overhang column heading, and all the enzymes producing 3' overhangs will be listed together for easy selection.
When looking for a specific enzyme, it is easier to use the Filter. If you wish to find e.g. HindIII sites, simply type HindIII into the filter, and the list of enzymes will shrink automatically to only include the HindIII enzyme. This can also be used to only show enzymes producing e.g. a 3' overhang as shown in figure 30.50.
Figure 30.32: Selecting enzymes.
If you need more detailed information and filtering of the enzymes, either place your mouse cursor on an enzyme for one second to display additional information (see figure 30.51), or use the view of enzyme lists (see Restriction enzyme list).
Figure 30.33: Showing additional information about an enzyme like recognition sequence or a list of commercial vendors.
At the bottom of the dialog, you can select to save this list of enzymes as a new file. In this way, you can save the selection of enzymes for later use.
When you click Finish, the enzymes are added to the Side Panel and the cut sites are shown on the sequence.
If you have specified a set of enzymes which you always use, it will probably be a good idea to save the settings in the Side Panel for future use.