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- Open enzymes - open file with enzymes in the bairoch format. It is required if you want to update enzymes database or open a database with some limited amount of enzymes. See Using Custom File with Enzymes for details.
- Export enzymes - export selected enzymes to the separate file (using the bairoch format).
- Select all - check all enzymes in the tree.
- Select none - uncheck all enzymes in the tree.
- Select by length - check enzymes only if its recognition site has length more than you set in the dialog window appeared.
- Invert selection - switch checked and unchecked enzymes.
- Load selection - load selected enzymes from the file. This file should contain comma-separated enzyme name list, for example: BamHI,BglII,ClaI,DraI,EcoRI,EcoRV,HindIII,PstI,SalI,SmaI,XmaI
- Save selection - save checked enzymes to the separate file using the format, described above.
- REBASE info - open the REBASE database page of the selected enzyme.
The filter of the results number
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- Suppliers - check/uncheck suppliers, whose enzymes will be shown. By default, enzymes with undefined commercial suppliers are not shown.
- Recognition sequence length - show only enzymes, whose recognition sequence length is in bounds. NOTE: N bases are not included in recognition site. That means, that if enzyme has the following sequence:
C C N N N N N N N G G
its recognition site length will be four, not eleven. - Overhang type - show only enzymes with certain overhang type. The following options are presented:
- Any - show all enzymes.
- No overhang - site has no cuts at all. Example:
3' CTCGAG 5'
5' GAGCTC 3' - 5' - the cut of the forward strand is to the left of the cut of the reverse-complementary strand. Example:
3' C C▼T N A G G 5'
5' G G A N T▲C C 3' - 3' - the cut of the forward strand is to the right of the cut of the reverse-complementary strand. Example:
3' C G A T▼C G 5'
5' G C▲T A G C 3' - Blunt - the cut is located in the middle of the site.
- Sticky - the cut is locate anywhere but the middle of the site. It is 5' and 3' both.
- Nondegenerate sticky - the same as Sticky, but the overhang between cuts has only A, C, G or T (no extended) symbols.
- Blunt or sticky - Blunt + Sticky.
- Blunt or nondegenerate sticky - Blunt + Nondegenerate sticky.
Here you can see:
- the tree of restriction enzymes that can be used to search for restriction sites;
- the list of selected enzymes;
- control buttons on the left (see Selecting Restriction Enzymes);
- the filter of the results number - show enzyme only if there are not less than "Minimum hints" and not more than "Maximum hints" values;
- suppliers filter - show enzymes only from checked suppliers from the presented list;
- the Keep only - show most interesting enzymes only:
- Palindromic - forward and reverse-complementary strands are equal.
- Uninterrupted - no internal N bases.
- Nondegenerate - No extended DNA alphabet symbols (only A, C, G, T and N).
Search region
The region to search enzymes in.
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You may also Exclude some region and not to search in it.
The information about enzymes was obtained from the REBASE database. For each enzyme in the list a brief description is available (the accession ID in the database, the recognition sequence, etc.). If you’re online you can get more detailed information about an enzyme selected by clicking the REBASE Info button.
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