The proteasome is a multicatalytic proteinase complex which is characterized by its ability to cleave peptides with Arg, Phe, Tyr, Leu, and Glu adjacent to the leaving group at neutral or slightly basic pH
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AccBSI | CCGCTC | 1 cut(s) | 208 |
| AciI | CCGC | 2 cut(s) | 185, 208 |
| AclWI | GGATC | 1 cut(s) | 14 |
| AcsI | RAATTY | 2 cut(s) | 59, 214 |
| AjnI | CCWGG | 1 cut(s) | 188 |
| AluBI | AGCT | 1 cut(s) | 85 |
| AluI | AGCT | 1 cut(s) | 85 |
| AlwI | GGATC | 1 cut(s) | 14 |
| ApeKI | GCWGC | 1 cut(s) | 220 |
| ApoI | RAATTY | 2 cut(s) | 59, 214 |
| AsuHPI | GGTGA | 1 cut(s) | 145 |
| AsuNHI | GCTAGC | 1 cut(s) | 170 |
| BbvCI | CCTCAGC | 1 cut(s) | 123 |
| BbvI | GCAGC | 1 cut(s) | 207 |
| BccI | CCATC | 1 cut(s) | 62 |
| BciT130I | CCWGG | 1 cut(s) | 190 |
| BfaI | CTAG | 4 cut(s) | 114, 171, 224, 256 |
| BisI | GCNGC | 2 cut(s) | 209, 221 |
| BlsI | GCNGC | 2 cut(s) | 210, 222 |
| Bme1390I | CCNGG | 1 cut(s) | 190 |
| BmrFI | CCNGG | 1 cut(s) | 190 |
| BmsI | GCATC | 1 cut(s) | 85 |
| BmtI | GCTAGC | 1 cut(s) | 174 |
| Bpu10I | CCTNAGC | 1 cut(s) | 123 |
| BsaJI | CCNNGG | 1 cut(s) | 188 |
| BsaWI | WCCGGW | 1 cut(s) | 155 |
| BsaXI | ACNNNNNCTCC | 2 cut(s) | 83, 113 |
| BseBI | CCWGG | 1 cut(s) | 190 |
| BseDI | CCNNGG | 1 cut(s) | 188 |
| BseMII | CTCAG | 2 cut(s) | 114, 146 |
| BseRI | GAGGAG | 1 cut(s) | 212 |
| BseXI | GCAGC | 1 cut(s) | 207 |
| BsgI | GTGCAG | 1 cut(s) | 16 |
| BsiSI | CCGG | 1 cut(s) | 156 |
| BsmI | GAATGC | 1 cut(s) | 78 |
| Bsp143I | GATC | 2 cut(s) | 19, 116 |
| BspACI | CCGC | 2 cut(s) | 185, 208 |
| BspCNI | CTCAG | 2 cut(s) | 115, 145 |
| BspOI | GCTAGC | 1 cut(s) | 174 |
| BspPI | GGATC | 1 cut(s) | 14 |
| BsrBI | CCGCTC | 1 cut(s) | 208 |
| BssECI | CCNNGG | 1 cut(s) | 188 |
| BssMI | GATC | 2 cut(s) | 19, 116 |
| Bst2UI | CCWGG | 1 cut(s) | 190 |
| Bst4CI | ACNGT | 1 cut(s) | 251 |
| BstC8I | GCNNGC | 1 cut(s) | 172 |
| BstDEI | CTNAG | 2 cut(s) | 123, 132 |
| BstKTI | GATC | 2 cut(s) | 22, 119 |
| BstMBI | GATC | 2 cut(s) | 19, 116 |
| BstMWI | GCNNNNNNNGC | 2 cut(s) | 82, 217 |
| BstNI | CCWGG | 1 cut(s) | 190 |
| BstSCI | CCNGG | 1 cut(s) | 188 |
| BstV1I | GCAGC | 1 cut(s) | 207 |
| Cac8I | GCNNGC | 1 cut(s) | 172 |
| CviAII | CATG | 2 cut(s) | 65, 194 |
| CviJI | RGCY | 3 cut(s) | 85, 122, 137 |
| CviKI_1 | RGCY | 3 cut(s) | 85, 122, 137 |
| DdeI | CTNAG | 2 cut(s) | 123, 132 |
| DpnI | GATC | 2 cut(s) | 21, 118 |
| DpnII | GATC | 2 cut(s) | 19, 116 |
| EciI | GGCGGA | 1 cut(s) | 174 |
| EcoRI | GAATTC | 1 cut(s) | 59 |
| EcoRII | CCWGG | 1 cut(s) | 188 |
| FaeI | CATG | 2 cut(s) | 68, 197 |
| FaiI | YATR | 5 cut(s) | 66, 168, 179, 195, 231 |
| FatI | CATG | 2 cut(s) | 64, 193 |
| Fnu4HI | GCNGC | 2 cut(s) | 209, 221 |
| Fsp4HI | GCNGC | 2 cut(s) | 209, 221 |
| FspBI | CTAG | 4 cut(s) | 114, 171, 224, 256 |
| GluI | GCNGC | 2 cut(s) | 209, 221 |
| HapII | CCGG | 1 cut(s) | 156 |
| Hin1II | CATG | 2 cut(s) | 68, 197 |
| HinfI | GANTC | 1 cut(s) | 150 |
| HpaII | CCGG | 1 cut(s) | 156 |
| HphI | GGTGA | 1 cut(s) | 145 |
| Hpy188I | TCNGA | 2 cut(s) | 19, 80 |
| Hpy188III | TCNNGA | 1 cut(s) | 114 |
| Hpy99I | CGWCG | 1 cut(s) | 95 |
| HpyCH4III | ACNGT | 1 cut(s) | 251 |
| HpyCH4V | TGCA | 1 cut(s) | 33 |
| HpyF10VI | GCNNNNNNNGC | 2 cut(s) | 82, 217 |
| HpyF3I | CTNAG | 2 cut(s) | 123, 132 |
| Hsp92II | CATG | 2 cut(s) | 68, 197 |
| Kzo9I | GATC | 2 cut(s) | 19, 116 |
| LmnI | GCTCC | 1 cut(s) | 205 |
| LpnPI | CCDG | 6 cut(s) | 43, 119, 129, 169, 175, 202 |
| Lsp1109I | GCAGC | 1 cut(s) | 207 |
| LweI | GCATC | 1 cut(s) | 85 |
| MaeI | CTAG | 4 cut(s) | 114, 171, 224, 256 |
| MaeIII | GTNAC | 1 cut(s) | 151 |
| MalI | GATC | 2 cut(s) | 21, 118 |
| MbiI | CCGCTC | 1 cut(s) | 208 |
| MboI | GATC | 2 cut(s) | 19, 116 |
| MluCI | AATT | 2 cut(s) | 59, 214 |
| MlyI | GAGTC | 1 cut(s) | 159 |
| MmeI | TCCRAC | 1 cut(s) | 183 |
| MnlI | CCTC | 4 cut(s) | 34, 109, 118, 190 |
| MspI | CCGG | 1 cut(s) | 156 |
| MspR9I | CCNGG | 1 cut(s) | 190 |
| Mva1269I | GAATGC | 1 cut(s) | 78 |
| MvaI | CCWGG | 1 cut(s) | 190 |
| MwoI | GCNNNNNNNGC | 2 cut(s) | 82, 217 |
| NdeII | GATC | 2 cut(s) | 19, 116 |
| NheI | GCTAGC | 1 cut(s) | 170 |
| NlaIII | CATG | 2 cut(s) | 68, 197 |
| NmuCI | GTSAC | 1 cut(s) | 151 |
| PcsI | WCGNNNNNNNCGW | 2 cut(s) | 11, 99 |
| PctI | GAATGC | 1 cut(s) | 78 |
| PkrI | GCNGC | 2 cut(s) | 210, 222 |
| PleI | GAGTC | 1 cut(s) | 158 |
| PpsI | GAGTC | 1 cut(s) | 158 |
| Psp6I | CCWGG | 1 cut(s) | 188 |
| PspGI | CCWGG | 1 cut(s) | 188 |
| SatI | GCNGC | 2 cut(s) | 209, 221 |
| Sau3AI | GATC | 2 cut(s) | 19, 116 |
| SchI | GAGTC | 1 cut(s) | 159 |
| ScrFI | CCNGG | 1 cut(s) | 190 |
| SetI | ASST | 1 cut(s) | 87 |
| SfaNI | GCATC | 1 cut(s) | 85 |
| Sse9I | AATT | 2 cut(s) | 59, 214 |
| SsiI | CCGC | 2 cut(s) | 185, 208 |
| SspMI | CTAG | 4 cut(s) | 114, 171, 224, 256 |
| StyD4I | CCNGG | 1 cut(s) | 188 |
| TaaI | ACNGT | 1 cut(s) | 251 |
| TaqI | TCGA | 1 cut(s) | 5 |
| TasI | AATT | 2 cut(s) | 59, 214 |
| TauI | GCSGC | 1 cut(s) | 211 |
| TseFI | GTSAC | 1 cut(s) | 151 |
| TseI | GCWGC | 1 cut(s) | 220 |
| Tsp45I | GTSAC | 1 cut(s) | 151 |
| TspGWI | ACGGA | 1 cut(s) | 91 |
| XapI | RAATTY | 2 cut(s) | 59, 214 |
| XbaI | TCTAGA | 1 cut(s) | 113 |
| XspI | CTAG | 4 cut(s) | 114, 171, 224, 256 |