E3 ubiquitin-protein ligase that mediates ubiquitination and subsequent proteasomal degradation of target proteins. E3 ubiquitin ligases accept ubiquitin from an E2 ubiquitin- conjugating enzyme in the form of a thioester and then directly transfers the ubiquitin to targeted substrates
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| Enzyme | Recognition Site | Cut Count | Positions (bp) |
|---|---|---|---|
| AanI | TTATAA | 2 cut(s) | 489, 986 |
| AatII | GACGTC | 1 cut(s) | 70 |
| AciI | CCGC | 1 cut(s) | 21 |
| AcoI | YGGCCR | 2 cut(s) | 99, 1015 |
| AcsI | RAATTY | 3 cut(s) | 233, 761, 822 |
| AcuI | CTGAAG | 1 cut(s) | 243 |
| AcyI | GRCGYC | 1 cut(s) | 67 |
| AfaI | GTAC | 2 cut(s) | 722, 943 |
| AfiI | CCNNNNNNNGG | 2 cut(s) | 321, 638 |
| AgsI | TTSAA | 5 cut(s) | 660, 700, 738, 776, 857 |
| AjiI | CACGTC | 1 cut(s) | 576 |
| AjnI | CCWGG | 3 cut(s) | 53, 473, 991 |
| AluBI | AGCT | 5 cut(s) | 89, 290, 425, 732, 1021 |
| AluI | AGCT | 5 cut(s) | 89, 290, 425, 732, 1021 |
| Alw26I | GTCTC | 3 cut(s) | 58, 290, 658 |
| Ama87I | CYCGRG | 1 cut(s) | 245 |
| AoxI | GGCC | 3 cut(s) | 99, 476, 1015 |
| ApeKI | GCWGC | 6 cut(s) | 48, 89, 287, 438, 642, 729 |
| ApoI | RAATTY | 3 cut(s) | 233, 761, 822 |
| AspS9I | GGNCC | 3 cut(s) | 41, 258, 477 |
| AsuHPI | GGTGA | 5 cut(s) | 239, 328, 609, 850, 1007 |
| AvaI | CYCGRG | 1 cut(s) | 245 |
| AvaII | GGWCC | 2 cut(s) | 41, 258 |
| BalI | TGGCCA | 2 cut(s) | 101, 1017 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 656, 688 |
| BbsI | GAAGAC | 1 cut(s) | 391 |
| BbvI | GCAGC | 6 cut(s) | 60, 76, 299, 450, 629, 741 |
| BccI | CCATC | 5 cut(s) | 26, 341, 782, 938, 1021 |
| BciT130I | CCWGG | 3 cut(s) | 55, 475, 993 |
| BcoDI | GTCTC | 3 cut(s) | 58, 290, 658 |
| BfaI | CTAG | 3 cut(s) | 518, 827, 861 |
| BfmI | CTRYAG | 2 cut(s) | 128, 436 |
| BisI | GCNGC | 6 cut(s) | 49, 90, 288, 439, 643, 730 |
| BlsI | GCNGC | 6 cut(s) | 50, 91, 289, 440, 644, 731 |
| BmcAI | AGTACT | 1 cut(s) | 943 |
| Bme1390I | CCNGG | 3 cut(s) | 55, 475, 993 |
| Bme18I | GGWCC | 2 cut(s) | 41, 258 |
| BmeT110I | CYCGRG | 1 cut(s) | 245 |
| BmgBI | CACGTC | 1 cut(s) | 576 |
| BmgT120I | GGNCC | 3 cut(s) | 41, 258, 477 |
| BmrFI | CCNGG | 3 cut(s) | 55, 475, 993 |
| BmsI | GCATC | 1 cut(s) | 273 |
| BpiI | GAAGAC | 1 cut(s) | 391 |
| BpuEI | CTTGAG | 2 cut(s) | 276, 1007 |
| BsaBI | GATNNNNATC | 1 cut(s) | 1031 |
| BsaHI | GRCGYC | 1 cut(s) | 67 |
| BsaJI | CCNNGG | 6 cut(s) | 53, 254, 282, 315, 903, 991 |
| Bsc4I | CCNNNNNNNGG | 2 cut(s) | 321, 638 |
| Bse1I | ACTGG | 1 cut(s) | 403 |
| Bse8I | GATNNNNATC | 1 cut(s) | 1031 |
| BseBI | CCWGG | 3 cut(s) | 55, 475, 993 |
| BseDI | CCNNGG | 6 cut(s) | 53, 254, 282, 315, 903, 991 |
| BseGI | GGATG | 2 cut(s) | 576, 914 |
| BseJI | GATNNNNATC | 1 cut(s) | 1031 |
| BseLI | CCNNNNNNNGG | 2 cut(s) | 321, 638 |
| BseMII | CTCAG | 1 cut(s) | 931 |
| BseNI | ACTGG | 1 cut(s) | 403 |
| BseRI | GAGGAG | 5 cut(s) | 129, 132, 135, 179, 421 |
| BseXI | GCAGC | 6 cut(s) | 60, 76, 299, 450, 629, 741 |
| BshFI | GGCC | 3 cut(s) | 101, 478, 1017 |
| BsiHKCI | CYCGRG | 1 cut(s) | 245 |
| BslFI | GGGAC | 2 cut(s) | 351, 377 |
| BslI | CCNNNNNNNGG | 2 cut(s) | 321, 638 |
| BsmAI | GTCTC | 3 cut(s) | 58, 290, 658 |
| BsmBI | CGTCTC | 1 cut(s) | 58 |
| BsmFI | GGGAC | 2 cut(s) | 351, 377 |
| BsmI | GAATGC | 1 cut(s) | 613 |
| BsnI | GGCC | 3 cut(s) | 101, 478, 1017 |
| BsoBI | CYCGRG | 1 cut(s) | 245 |
| Bsp1407I | TGTACA | 1 cut(s) | 720 |
| Bsp143I | GATC | 1 cut(s) | 886 |
| BspACI | CCGC | 1 cut(s) | 21 |
| BspANI | GGCC | 3 cut(s) | 101, 478, 1017 |
| BspCNI | CTCAG | 1 cut(s) | 930 |
| BspMAI | CTGCAG | 1 cut(s) | 440 |
| BsrGI | TGTACA | 1 cut(s) | 720 |
| BsrI | ACTGG | 1 cut(s) | 403 |
| BssECI | CCNNGG | 6 cut(s) | 53, 254, 282, 315, 903, 991 |
| BssMI | GATC | 1 cut(s) | 886 |
| BssNI | GRCGYC | 1 cut(s) | 67 |
| BssT1I | CCWWGG | 1 cut(s) | 903 |
| Bst2UI | CCWGG | 3 cut(s) | 55, 475, 993 |
| Bst4CI | ACNGT | 4 cut(s) | 97, 391, 927, 941 |
| Bst6I | CTCTTC | 3 cut(s) | 56, 156, 661 |
| BstACI | GRCGYC | 1 cut(s) | 67 |
| BstAUI | TGTACA | 1 cut(s) | 720 |
| BstC8I | GCNNGC | 2 cut(s) | 427, 1019 |
| BstDEI | CTNAG | 2 cut(s) | 845, 917 |
| BstDSI | CCRYGG | 1 cut(s) | 315 |
| BstENI | CCTNNNNNAGG | 1 cut(s) | 636 |
| BstF5I | GGATG | 2 cut(s) | 576, 914 |
| BstKTI | GATC | 1 cut(s) | 889 |
| BstMAI | GTCTC | 3 cut(s) | 58, 290, 658 |
| BstMBI | GATC | 1 cut(s) | 886 |
| BstMWI | GCNNNNNNNGC | 3 cut(s) | 98, 287, 435 |
| BstNI | CCWGG | 3 cut(s) | 55, 475, 993 |
| BstNSI | RCATGY | 1 cut(s) | 609 |
| BstSCI | CCNGG | 3 cut(s) | 53, 473, 991 |
| BstSFI | CTRYAG | 2 cut(s) | 128, 436 |
| BstV1I | GCAGC | 6 cut(s) | 60, 76, 299, 450, 629, 741 |
| BstV2I | GAAGAC | 1 cut(s) | 391 |
| BsuRI | GGCC | 3 cut(s) | 101, 478, 1017 |
| BtgI | CCRYGG | 1 cut(s) | 315 |
| BtrI | CACGTC | 1 cut(s) | 576 |
| BtsCI | GGATG | 2 cut(s) | 576, 914 |
| BtsIMutI | CAGTG | 1 cut(s) | 410 |
| Cac8I | GCNNGC | 2 cut(s) | 427, 1019 |
| Cfr13I | GGNCC | 3 cut(s) | 41, 258, 477 |
| Csp6I | GTAC | 2 cut(s) | 721, 942 |
| CviAII | CATG | 5 cut(s) | 468, 537, 596, 606, 627 |
| CviQI | GTAC | 2 cut(s) | 721, 942 |
| DdeI | CTNAG | 2 cut(s) | 845, 917 |
| DpnI | GATC | 1 cut(s) | 888 |
| DpnII | GATC | 1 cut(s) | 886 |
| EaeI | YGGCCR | 2 cut(s) | 99, 1015 |
| Eam1104I | CTCTTC | 3 cut(s) | 56, 156, 661 |
| EarI | CTCTTC | 3 cut(s) | 56, 156, 661 |
| EciI | GGCGGA | 1 cut(s) | 36 |
| Eco130I | CCWWGG | 1 cut(s) | 903 |
| Eco32I | GATATC | 1 cut(s) | 1033 |
| Eco47I | GGWCC | 2 cut(s) | 41, 258 |
| Eco57I | CTGAAG | 1 cut(s) | 243 |
| Eco88I | CYCGRG | 1 cut(s) | 245 |
| EcoNI | CCTNNNNNAGG | 1 cut(s) | 636 |
| EcoRI | GAATTC | 1 cut(s) | 233 |
| EcoRII | CCWGG | 3 cut(s) | 53, 473, 991 |
| EcoRV | GATATC | 1 cut(s) | 1033 |
| EcoT14I | CCWWGG | 1 cut(s) | 903 |
| EcoT22I | ATGCAT | 1 cut(s) | 615 |
| ErhI | CCWWGG | 1 cut(s) | 903 |
| Esp3I | CGTCTC | 1 cut(s) | 58 |
| FaeI | CATG | 5 cut(s) | 471, 540, 599, 609, 630 |
| FaqI | GGGAC | 2 cut(s) | 351, 377 |
| FatI | CATG | 5 cut(s) | 467, 536, 595, 605, 626 |
| FauNDI | CATATG | 1 cut(s) | 1040 |
| Fnu4HI | GCNGC | 6 cut(s) | 49, 90, 288, 439, 643, 730 |
| FokI | GGATG | 2 cut(s) | 583, 921 |
| Fsp4HI | GCNGC | 6 cut(s) | 49, 90, 288, 439, 643, 730 |
| FspBI | CTAG | 3 cut(s) | 518, 827, 861 |
| GluI | GCNGC | 6 cut(s) | 49, 90, 288, 439, 643, 730 |
| HaeIII | GGCC | 3 cut(s) | 101, 478, 1017 |
| Hin1I | GRCGYC | 1 cut(s) | 67 |
| Hin1II | CATG | 5 cut(s) | 471, 540, 599, 609, 630 |
| HinfI | GANTC | 6 cut(s) | 9, 146, 200, 248, 380, 521 |
| HphI | GGTGA | 5 cut(s) | 239, 328, 609, 850, 1007 |
| Hpy166II | GTNNAC | 1 cut(s) | 914 |
| Hpy188I | TCNGA | 4 cut(s) | 84, 157, 205, 920 |
| Hpy188III | TCNNGA | 4 cut(s) | 293, 518, 776, 1024 |
| Hpy8I | GTNNAC | 1 cut(s) | 914 |
| Hpy99I | CGWCG | 1 cut(s) | 72 |
| HpyAV | CCTTC | 4 cut(s) | 32, 218, 474, 1078 |
| HpyCH4III | ACNGT | 4 cut(s) | 97, 391, 927, 941 |
| HpyCH4IV | ACGT | 2 cut(s) | 67, 575 |
| HpyCH4V | TGCA | 7 cut(s) | 438, 561, 579, 613, 645, 707, 1038 |
| HpyF10VI | GCNNNNNNNGC | 3 cut(s) | 98, 287, 435 |
| HpyF3I | CTNAG | 2 cut(s) | 845, 917 |
| HpySE526I | ACGT | 2 cut(s) | 67, 575 |
| Hsp92I | GRCGYC | 1 cut(s) | 67 |
| Hsp92II | CATG | 5 cut(s) | 471, 540, 599, 609, 630 |
| Kzo9I | GATC | 1 cut(s) | 886 |
| LmnI | GCTCC | 2 cut(s) | 434, 983 |
| Lsp1109I | GCAGC | 6 cut(s) | 60, 76, 299, 450, 629, 741 |
| LweI | GCATC | 1 cut(s) | 273 |
| MaeI | CTAG | 3 cut(s) | 518, 827, 861 |
| MaeII | ACGT | 2 cut(s) | 67, 575 |
| MaeIII | GTNAC | 2 cut(s) | 238, 1084 |
| MalI | GATC | 1 cut(s) | 888 |
| MboI | GATC | 1 cut(s) | 886 |
| MlsI | TGGCCA | 2 cut(s) | 101, 1017 |
| MluCI | AATT | 6 cut(s) | 233, 269, 525, 738, 761, 822 |
| MluNI | TGGCCA | 2 cut(s) | 101, 1017 |
| MlyI | GAGTC | 1 cut(s) | 257 |
| Mox20I | TGGCCA | 2 cut(s) | 101, 1017 |
| Mph1103I | ATGCAT | 1 cut(s) | 615 |
| MscI | TGGCCA | 2 cut(s) | 101, 1017 |
| MseI | TTAA | 3 cut(s) | 450, 753, 1090 |
| Msp20I | TGGCCA | 2 cut(s) | 101, 1017 |
| MspA1I | CMGCKG | 1 cut(s) | 89 |
| MspR9I | CCNGG | 3 cut(s) | 55, 475, 993 |
| Mva1269I | GAATGC | 1 cut(s) | 613 |
| MvaI | CCWGG | 3 cut(s) | 55, 475, 993 |
| MwoI | GCNNNNNNNGC | 3 cut(s) | 98, 287, 435 |
| NdeI | CATATG | 1 cut(s) | 1040 |
| NdeII | GATC | 1 cut(s) | 886 |
| NlaIII | CATG | 5 cut(s) | 471, 540, 599, 609, 630 |
| NmeAIII | GCCGAG | 2 cut(s) | 263, 279 |
| NsiI | ATGCAT | 1 cut(s) | 615 |
| NspI | RCATGY | 1 cut(s) | 609 |
| PaeR7I | CTCGAG | 1 cut(s) | 245 |
| PcsI | WCGNNNNNNNCGW | 2 cut(s) | 11, 243 |
| PctI | GAATGC | 1 cut(s) | 613 |
| PfeI | GAWTC | 5 cut(s) | 9, 146, 200, 380, 521 |
| PflFI | GACNNNGTC | 1 cut(s) | 69 |
| PkrI | GCNGC | 6 cut(s) | 50, 91, 289, 440, 644, 731 |
| PleI | GAGTC | 1 cut(s) | 256 |
| PpsI | GAGTC | 1 cut(s) | 256 |
| PsiI | TTATAA | 2 cut(s) | 489, 986 |
| Psp6I | CCWGG | 3 cut(s) | 53, 473, 991 |
| PspGI | CCWGG | 3 cut(s) | 53, 473, 991 |
| PspPI | GGNCC | 3 cut(s) | 41, 258, 477 |
| PspXI | VCTCGAGB | 1 cut(s) | 245 |
| PstI | CTGCAG | 1 cut(s) | 440 |
| PsyI | GACNNNGTC | 1 cut(s) | 69 |
| PvuII | CAGCTG | 1 cut(s) | 89 |
| RsaI | GTAC | 2 cut(s) | 722, 943 |
| RsaNI | GTAC | 2 cut(s) | 721, 942 |
| SaqAI | TTAA | 3 cut(s) | 450, 753, 1090 |
| SatI | GCNGC | 6 cut(s) | 49, 90, 288, 439, 643, 730 |
| Sau3AI | GATC | 1 cut(s) | 886 |
| Sau96I | GGNCC | 3 cut(s) | 41, 258, 477 |
| ScaI | AGTACT | 1 cut(s) | 943 |
| SchI | GAGTC | 1 cut(s) | 257 |
| ScrFI | CCNGG | 3 cut(s) | 55, 475, 993 |
| SfaNI | GCATC | 1 cut(s) | 273 |
| SfcI | CTRYAG | 2 cut(s) | 128, 436 |
| Sfr274I | CTCGAG | 1 cut(s) | 245 |
| SinI | GGWCC | 2 cut(s) | 41, 258 |
| SlaI | CTCGAG | 1 cut(s) | 245 |
| SmlI | CTYRAG | 3 cut(s) | 245, 291, 1022 |
| SmoI | CTYRAG | 3 cut(s) | 245, 291, 1022 |
| Sse9I | AATT | 6 cut(s) | 233, 269, 525, 738, 761, 822 |
| SsiI | CCGC | 1 cut(s) | 21 |
| SspMI | CTAG | 3 cut(s) | 518, 827, 861 |
| StyD4I | CCNGG | 3 cut(s) | 53, 473, 991 |
| StyI | CCWWGG | 1 cut(s) | 903 |
| TaaI | ACNGT | 4 cut(s) | 97, 391, 927, 941 |
| TaiI | ACGT | 2 cut(s) | 70, 578 |
| TaqI | TCGA | 2 cut(s) | 246, 267 |
| TaqII | GACCGA | 2 cut(s) | 58, 359 |
| TasI | AATT | 6 cut(s) | 233, 269, 525, 738, 761, 822 |
| TatI | WGTACW | 2 cut(s) | 720, 941 |
| TfiI | GAWTC | 5 cut(s) | 9, 146, 200, 380, 521 |
| Tru1I | TTAA | 3 cut(s) | 450, 753, 1090 |
| Tru9I | TTAA | 3 cut(s) | 450, 753, 1090 |
| TscAI | CASTG | 1 cut(s) | 410 |
| TseI | GCWGC | 6 cut(s) | 48, 89, 287, 438, 642, 729 |
| TspDTI | ATGAA | 7 cut(s) | 42, 246, 456, 606, 612, 615, 960 |
| TspGWI | ACGGA | 3 cut(s) | 332, 583, 1053 |
| TspRI | CASTG | 1 cut(s) | 410 |
| Tth111I | GACNNNGTC | 1 cut(s) | 69 |
| VpaK11BI | GGWCC | 2 cut(s) | 41, 258 |
| XagI | CCTNNNNNAGG | 1 cut(s) | 636 |
| XapI | RAATTY | 3 cut(s) | 233, 761, 822 |
| XbaI | TCTAGA | 1 cut(s) | 517 |
| XceI | RCATGY | 1 cut(s) | 609 |
| XcmI | CCANNNNNNNNNTGG | 2 cut(s) | 268, 410 |
| XhoI | CTCGAG | 1 cut(s) | 245 |
| XspI | CTAG | 3 cut(s) | 518, 827, 861 |
| ZraI | GACGTC | 1 cut(s) | 68 |
| ZrmI | AGTACT | 1 cut(s) | 943 |
| Zsp2I | ATGCAT | 1 cut(s) | 615 |