|
|
|
| R2012a Documentation → Bioinformatics Toolbox | |
Learn more about Bioinformatics Toolbox |
|
| Contents | Index |
cleavelookup
cleavelookup('Code', CodeValue)
cleavelookup('Name', NameValue)
| CodeValue | String specifying a code representing an abbreviation code for an enzyme or compound. For valid codes, see the table Cleave Lookup. |
| NameValue | String specifying an enzyme or compound name. For valid names, see the table Cleave Lookup. |
cleavelookup displays a table of abbreviation codes, cleavage positions, cleavage patterns, and full names of enzymes and compounds for which cleavage rules are specified by the cleavage rule library. For more information, see the ExPASy PeptideCutter tool.
Cleave Lookup
| Code | Position | Pattern | Full Name |
|---|---|---|---|
| ARG-C | 1 | R | ARG-C proteinase |
| ASP-N | 2 | D | ASP-N endopeptidase |
| BNPS | 1 | W | BNPS-Skatole |
| CASP1 | 1 | (?<=[FWYL]\w[HAT])D(?=[^PEDQKR]) | Caspase 1 |
| CASP2 | 1 | (?<=DVA)D(?=[^PEDQKR]) | Caspase 2 |
| CASP3 | 1 | (?<=DMQ)D(?=[^PEDQKR]) | Caspase 3 |
| CASP4 | 1 | (?<=LEV)D(?=[^PEDQKR]) | Caspase 4 |
| CASP5 | 1 | (?<=[LW]EH)D | Caspase 5 |
| CASP6 | 1 | (?<=VE[HI])D(?=[^PEDQKR]) | Caspase 6 |
| CASP7 | 1 | (?<=DEV)D(?=[^PEDQKR]) | Caspase 7 |
| CASP8 | 1 | (?<=[IL]ET)D(?=[^PEDQKR]) | Caspase 8 |
| CASP9 | 1 | (?<=LEH)D | Caspase 9 |
| CASP10 | 1 | (?<=IEA)D | Caspase 10 |
| CH-HI | 1 | ([FY](?=[^P]))|(W(?=[^MP])) | Chymotrypsin- high specificity |
| CH-LO | 1 | ([FLY](?=[^P]))|(W(?=[^MP]))| (M(?=[^PY]))|(H(?=[^DMPW])) | Chymotrypsin- low specificity |
| CLOST | 1 | R | Clostripain |
| CNBR | 1 | M | CNBR |
| ENTKIN | 1 | (?<=[DN][DN][DN])K | Enterokinase |
| FACTXA | 1 | (?<=[AFGILTVM][DE]G)R | Factor XA |
| FORMIC | 1 | D | Formic acid |
| GLUEND | 1 | E | Glutamyl endopeptidase |
| GRANB | 1 | (?<=IEP)D | Granzyme B |
| HYDROX | 1 | N(?=G) | Hydroxylamine |
| IODOB | 1 | W | Iodosobenzoic acid |
| LYSC | 1 | K | Lysc |
| NTCB | 1 | C | NTCB |
| PEPS | 1 | ((?<=[^HKR][^P])[^R](?=[FLWY][^P]))| ((?<=[^HKR][^P])[FLWY](?=\w[^P])) | Pepsin PH = 1.3 |
| PEPS2 | 1 | ((?<=[^HKR][^P])[^R](?=[FL][^P]))| ((?<=[^HKR][^P])[FL](?=\w[^P])) | Pepsin PH > 2 |
| PROEND | 1 | (?<=[HKR])P(?=[^P]) | Proline endopeptidase |
| PROTK | 1 | [AEFILTVWY] | Proteinase K |
| STAPHP | 1 | (?<=[^E])E | Staphylococcal peptidase I |
| THERMO | 1 | [^DE](?=[AFILMV]) | Thermolysin |
| THROMB | 1 | ((?<=\w\wG)R(?=G))| ((?<=[AFGILTVM][AFGILTVWA]P)R(?=[^DE][^DE])) | Thrombin |
| TRYPS | 1 | ((?<=\w)[KR](?=[^P]))| ((?<=W)K(?=P))|((?<=M)R(?=P)) | Trypsin |
cleavelookup('Code', CodeValue) displays the cleavage position, cleavage pattern, and full name of the enzyme or compound specified by CodeValue, a string specifying an abbreviation code.
cleavelookup('Name', NameValue) displays the cleavage position, cleavage pattern, and abbreviation code of the enzyme or compound specified by NameValue, a string specifying an enzyme or compound name.
Using cleavelookup with an Enzyme Name
Display the cleavage position, cleavage pattern, and abbreviation code of the enzyme Caspase 1.
cleavelookup('name', 'CASPASE 1')
ans =
1 (?<=[FWYL]\w[HAT])D(?=[^PEDQKR]) CASP1Using cleavelookup with an Abbreviation Code
Display the cleavage position, cleavage pattern, and full name of the enzyme with a abbreviation code of CASP1.
cleavelookup('code', 'CASP1')
ans =
1 (?<=[FWYL]\w[HAT])D(?=[^PEDQKR]) CASPASE 1cleave | rebasecuts | restrict
See how to analyze, visualize, and model biological data and systems using MathWorks products.
Get free kit| © 1984-2012- The MathWorks, Inc. - Site Help - Patents - Trademarks - Privacy Policy - Preventing Piracy - RSS |