The restriction site search results can be filtered as follows:
- by the number of cuts an enzyme makes
- by the end structure of cut fragments
- by restriction site size
- by the residue range in which the cut site occurs.
1. The Restriction Enzyme Analysis Display dialog box is displayed on completion of each analysis. To display this dialog box at other times, for example to change the display parameters, choose Analyze | Restriction Enzyme whan any restriction analysis display result window is active.
2. To restrict the displays to enzymes that cut the sequence a limited number of times, select the # of cuts checkbox and type a number from 1 to 20 to set the upper limit for number of cuts.
3. To restrict the displays to enzymes that leave 5' ends, 3' ends, or blunt ends when they cut the sequence, select the appropriate option from the end structure drop-down menu.
If you restricted the search stage to one end type, this drop-down menu will be disabled.
4. To restrict the search to enzymes whose recognition sites are a certain size, select the site size checkbox and type the size limits into the min and max text boxes. MacVector accepts values from 1 to 100.
5. To restrict the displays to enzymes that do not cut within a given region, select the no cuts checkbox, then either type in the numbers of the bases that bracket the region, or choose a region from the features table drop-down menu at the right of the text boxes.
6. To restrict the displays to enzymes that cut only within a given region, select the cuts only checkbox, then either type in the numbers of the bases that bracket the region, or choose a region from the features table drop-down menu at the right of the text boxes.
7. To restrict the displays to enzymes that cut only within a given reading frame, select the cuts only checkbox, then choose a frame number from the phase drop-down menu.
TIP: If you want to specify a reading frame but not limit the displays to a region, select ALL 1- ... from the features table drop-down menu.
8. Select the Display Options as required.
These options are described in the Displaying restriction site results help topic.
9. Select OK to display the results.
Automatic Restriction Enzyme Analysis
Searching for restriction sites