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) | 495, 992 |
| AciI | CCGC | 2 cut(s) | 21, 1051 |
| AcoI | YGGCCR | 1 cut(s) | 1021 |
| AcsI | RAATTY | 3 cut(s) | 239, 767, 828 |
| AcuI | CTGAAG | 1 cut(s) | 249 |
| AcyI | GRCGYC | 1 cut(s) | 67 |
| AfaI | GTAC | 3 cut(s) | 728, 949, 1064 |
| AfiI | CCNNNNNNNGG | 2 cut(s) | 327, 644 |
| AflIII | ACRYGT | 1 cut(s) | 716 |
| AgsI | TTSAA | 5 cut(s) | 666, 706, 744, 782, 863 |
| AjiI | CACGTC | 1 cut(s) | 582 |
| AjnI | CCWGG | 3 cut(s) | 53, 479, 997 |
| AluBI | AGCT | 5 cut(s) | 89, 296, 431, 738, 1027 |
| AluI | AGCT | 5 cut(s) | 89, 296, 431, 738, 1027 |
| Alw26I | GTCTC | 3 cut(s) | 58, 296, 664 |
| AoxI | GGCC | 2 cut(s) | 482, 1021 |
| ApeKI | GCWGC | 6 cut(s) | 48, 89, 293, 444, 648, 735 |
| ApoI | RAATTY | 3 cut(s) | 239, 767, 828 |
| AspS9I | GGNCC | 3 cut(s) | 41, 264, 483 |
| AsuHPI | GGTGA | 5 cut(s) | 245, 334, 615, 856, 1013 |
| AvaII | GGWCC | 2 cut(s) | 41, 264 |
| BalI | TGGCCA | 1 cut(s) | 1023 |
| BarI | GAAGNNNNNNTAC | 2 cut(s) | 662, 694 |
| BbsI | GAAGAC | 1 cut(s) | 397 |
| BbvI | GCAGC | 6 cut(s) | 60, 76, 305, 456, 635, 747 |
| BccI | CCATC | 4 cut(s) | 26, 347, 788, 1027 |
| BceAI | ACGGC | 2 cut(s) | 54, 321 |
| BciT130I | CCWGG | 3 cut(s) | 55, 481, 999 |
| BcoDI | GTCTC | 3 cut(s) | 58, 296, 664 |
| BfaI | CTAG | 3 cut(s) | 524, 833, 867 |
| BfmI | CTRYAG | 2 cut(s) | 131, 442 |
| BisI | GCNGC | 6 cut(s) | 49, 90, 294, 445, 649, 736 |
| BlsI | GCNGC | 6 cut(s) | 50, 91, 295, 446, 650, 737 |
| BmcAI | AGTACT | 1 cut(s) | 949 |
| Bme1390I | CCNGG | 3 cut(s) | 55, 481, 999 |
| Bme18I | GGWCC | 2 cut(s) | 41, 264 |
| BmgBI | CACGTC | 1 cut(s) | 582 |
| BmgT120I | GGNCC | 3 cut(s) | 41, 264, 483 |
| BmrFI | CCNGG | 3 cut(s) | 55, 481, 999 |
| BmsI | GCATC | 1 cut(s) | 279 |
| BpiI | GAAGAC | 1 cut(s) | 397 |
| BpuEI | CTTGAG | 3 cut(s) | 272, 282, 1013 |
| BsaBI | GATNNNNATC | 1 cut(s) | 1037 |
| BsaHI | GRCGYC | 1 cut(s) | 67 |
| BsaJI | CCNNGG | 6 cut(s) | 53, 260, 288, 321, 909, 997 |
| Bsc4I | CCNNNNNNNGG | 2 cut(s) | 327, 644 |
| Bse1I | ACTGG | 1 cut(s) | 409 |
| Bse8I | GATNNNNATC | 1 cut(s) | 1037 |
| BseBI | CCWGG | 3 cut(s) | 55, 481, 999 |
| BseDI | CCNNGG | 6 cut(s) | 53, 260, 288, 321, 909, 997 |
| BseGI | GGATG | 1 cut(s) | 920 |
| BseJI | GATNNNNATC | 1 cut(s) | 1037 |
| BseLI | CCNNNNNNNGG | 2 cut(s) | 327, 644 |
| BseNI | ACTGG | 1 cut(s) | 409 |
| BseRI | GAGGAG | 5 cut(s) | 129, 132, 135, 138, 427 |
| BseXI | GCAGC | 6 cut(s) | 60, 76, 305, 456, 635, 747 |
| BshFI | GGCC | 2 cut(s) | 484, 1023 |
| BslFI | GGGAC | 2 cut(s) | 357, 383 |
| BslI | CCNNNNNNNGG | 2 cut(s) | 327, 644 |
| BsmAI | GTCTC | 3 cut(s) | 58, 296, 664 |
| BsmBI | CGTCTC | 2 cut(s) | 58, 296 |
| BsmFI | GGGAC | 2 cut(s) | 357, 383 |
| BsmI | GAATGC | 1 cut(s) | 619 |
| BsnI | GGCC | 2 cut(s) | 484, 1023 |
| Bsp1407I | TGTACA | 1 cut(s) | 726 |
| Bsp143I | GATC | 1 cut(s) | 892 |
| BspACI | CCGC | 2 cut(s) | 21, 1051 |
| BspANI | GGCC | 2 cut(s) | 484, 1023 |
| BspMAI | CTGCAG | 1 cut(s) | 446 |
| BsrGI | TGTACA | 1 cut(s) | 726 |
| BsrI | ACTGG | 1 cut(s) | 409 |
| BssECI | CCNNGG | 6 cut(s) | 53, 260, 288, 321, 909, 997 |
| BssMI | GATC | 1 cut(s) | 892 |
| BssNI | GRCGYC | 1 cut(s) | 67 |
| BssT1I | CCWWGG | 1 cut(s) | 909 |
| Bst2UI | CCWGG | 3 cut(s) | 55, 481, 999 |
| Bst4CI | ACNGT | 4 cut(s) | 97, 397, 933, 947 |
| Bst6I | CTCTTC | 3 cut(s) | 56, 171, 667 |
| BstACI | GRCGYC | 1 cut(s) | 67 |
| BstAPI | GCANNNNNTGC | 1 cut(s) | 582 |
| BstAUI | TGTACA | 1 cut(s) | 726 |
| BstC8I | GCNNGC | 2 cut(s) | 433, 1025 |
| BstDEI | CTNAG | 1 cut(s) | 851 |
| BstDSI | CCRYGG | 1 cut(s) | 321 |
| BstENI | CCTNNNNNAGG | 1 cut(s) | 642 |
| BstF5I | GGATG | 1 cut(s) | 920 |
| BstKTI | GATC | 1 cut(s) | 895 |
| BstMAI | GTCTC | 3 cut(s) | 58, 296, 664 |
| BstMBI | GATC | 1 cut(s) | 892 |
| BstMWI | GCNNNNNNNGC | 5 cut(s) | 98, 293, 441, 573, 582 |
| BstNI | CCWGG | 3 cut(s) | 55, 481, 999 |
| BstNSI | RCATGY | 1 cut(s) | 615 |
| BstSCI | CCNGG | 3 cut(s) | 53, 479, 997 |
| BstSFI | CTRYAG | 2 cut(s) | 131, 442 |
| BstV1I | GCAGC | 6 cut(s) | 60, 76, 305, 456, 635, 747 |
| BstV2I | GAAGAC | 1 cut(s) | 397 |
| BsuRI | GGCC | 2 cut(s) | 484, 1023 |
| BtgI | CCRYGG | 1 cut(s) | 321 |
| BtrI | CACGTC | 1 cut(s) | 582 |
| BtsCI | GGATG | 1 cut(s) | 920 |
| BtsIMutI | CAGTG | 1 cut(s) | 416 |
| Cac8I | GCNNGC | 2 cut(s) | 433, 1025 |
| Cfr13I | GGNCC | 3 cut(s) | 41, 264, 483 |
| CseI | GACGC | 1 cut(s) | 75 |
| Csp6I | GTAC | 3 cut(s) | 727, 948, 1063 |
| CviAII | CATG | 6 cut(s) | 474, 543, 577, 602, 612, 633 |
| CviQI | GTAC | 3 cut(s) | 727, 948, 1063 |
| DdeI | CTNAG | 1 cut(s) | 851 |
| DpnI | GATC | 1 cut(s) | 894 |
| DpnII | GATC | 1 cut(s) | 892 |
| EaeI | YGGCCR | 1 cut(s) | 1021 |
| Eam1104I | CTCTTC | 3 cut(s) | 56, 171, 667 |
| EarI | CTCTTC | 3 cut(s) | 56, 171, 667 |
| EciI | GGCGGA | 2 cut(s) | 36, 1066 |
| Eco130I | CCWWGG | 1 cut(s) | 909 |
| Eco32I | GATATC | 1 cut(s) | 1039 |
| Eco47I | GGWCC | 2 cut(s) | 41, 264 |
| Eco57I | CTGAAG | 1 cut(s) | 249 |
| EcoNI | CCTNNNNNAGG | 1 cut(s) | 642 |
| EcoRI | GAATTC | 1 cut(s) | 239 |
| EcoRII | CCWGG | 3 cut(s) | 53, 479, 997 |
| EcoRV | GATATC | 1 cut(s) | 1039 |
| EcoT14I | CCWWGG | 1 cut(s) | 909 |
| EcoT22I | ATGCAT | 1 cut(s) | 621 |
| ErhI | CCWWGG | 1 cut(s) | 909 |
| Esp3I | CGTCTC | 2 cut(s) | 58, 296 |
| FaeI | CATG | 6 cut(s) | 477, 546, 580, 605, 615, 636 |
| FaqI | GGGAC | 2 cut(s) | 357, 383 |
| FatI | CATG | 6 cut(s) | 473, 542, 576, 601, 611, 632 |
| FauNDI | CATATG | 1 cut(s) | 1046 |
| Fnu4HI | GCNGC | 6 cut(s) | 49, 90, 294, 445, 649, 736 |
| FokI | GGATG | 1 cut(s) | 927 |
| Fsp4HI | GCNGC | 6 cut(s) | 49, 90, 294, 445, 649, 736 |
| FspBI | CTAG | 3 cut(s) | 524, 833, 867 |
| GluI | GCNGC | 6 cut(s) | 49, 90, 294, 445, 649, 736 |
| HaeIII | GGCC | 2 cut(s) | 484, 1023 |
| HgaI | GACGC | 1 cut(s) | 75 |
| Hin1I | GRCGYC | 1 cut(s) | 67 |
| Hin1II | CATG | 6 cut(s) | 477, 546, 580, 605, 615, 636 |
| HinfI | GANTC | 6 cut(s) | 9, 149, 209, 254, 386, 527 |
| HphI | GGTGA | 5 cut(s) | 245, 334, 615, 856, 1013 |
| Hpy166II | GTNNAC | 1 cut(s) | 920 |
| Hpy188I | TCNGA | 3 cut(s) | 84, 160, 214 |
| Hpy188III | TCNNGA | 5 cut(s) | 143, 299, 524, 782, 1030 |
| Hpy8I | GTNNAC | 1 cut(s) | 920 |
| HpyAV | CCTTC | 5 cut(s) | 32, 224, 480, 946, 1084 |
| HpyCH4III | ACNGT | 4 cut(s) | 97, 397, 933, 947 |
| HpyCH4IV | ACGT | 2 cut(s) | 581, 718 |
| HpyCH4V | TGCA | 7 cut(s) | 444, 567, 585, 619, 651, 713, 1044 |
| HpyF10VI | GCNNNNNNNGC | 5 cut(s) | 98, 293, 441, 573, 582 |
| HpyF3I | CTNAG | 1 cut(s) | 851 |
| HpySE526I | ACGT | 2 cut(s) | 581, 718 |
| Hsp92I | GRCGYC | 1 cut(s) | 67 |
| Hsp92II | CATG | 6 cut(s) | 477, 546, 580, 605, 615, 636 |
| Kzo9I | GATC | 1 cut(s) | 892 |
| LmnI | GCTCC | 2 cut(s) | 440, 989 |
| Lsp1109I | GCAGC | 6 cut(s) | 60, 76, 305, 456, 635, 747 |
| LweI | GCATC | 1 cut(s) | 279 |
| MaeI | CTAG | 3 cut(s) | 524, 833, 867 |
| MaeII | ACGT | 2 cut(s) | 581, 718 |
| MaeIII | GTNAC | 1 cut(s) | 244 |
| MalI | GATC | 1 cut(s) | 894 |
| MboI | GATC | 1 cut(s) | 892 |
| MlsI | TGGCCA | 1 cut(s) | 1023 |
| MluCI | AATT | 7 cut(s) | 239, 275, 531, 744, 767, 828, 926 |
| MluNI | TGGCCA | 1 cut(s) | 1023 |
| MlyI | GAGTC | 1 cut(s) | 263 |
| Mox20I | TGGCCA | 1 cut(s) | 1023 |
| Mph1103I | ATGCAT | 1 cut(s) | 621 |
| MscI | TGGCCA | 1 cut(s) | 1023 |
| MseI | TTAA | 3 cut(s) | 456, 759, 1096 |
| Msp20I | TGGCCA | 1 cut(s) | 1023 |
| MspA1I | CMGCKG | 1 cut(s) | 89 |
| MspR9I | CCNGG | 3 cut(s) | 55, 481, 999 |
| Mva1269I | GAATGC | 1 cut(s) | 619 |
| MvaI | CCWGG | 3 cut(s) | 55, 481, 999 |
| MwoI | GCNNNNNNNGC | 5 cut(s) | 98, 293, 441, 573, 582 |
| NdeI | CATATG | 1 cut(s) | 1046 |
| NdeII | GATC | 1 cut(s) | 892 |
| NlaIII | CATG | 6 cut(s) | 477, 546, 580, 605, 615, 636 |
| NmeAIII | GCCGAG | 2 cut(s) | 269, 285 |
| NsiI | ATGCAT | 1 cut(s) | 621 |
| NspI | RCATGY | 1 cut(s) | 615 |
| PcsI | WCGNNNNNNNCGW | 1 cut(s) | 11 |
| PctI | GAATGC | 1 cut(s) | 619 |
| PfeI | GAWTC | 5 cut(s) | 9, 149, 209, 386, 527 |
| PflFI | GACNNNGTC | 1 cut(s) | 69 |
| PkrI | GCNGC | 6 cut(s) | 50, 91, 295, 446, 650, 737 |
| PleI | GAGTC | 1 cut(s) | 262 |
| PpsI | GAGTC | 1 cut(s) | 262 |
| PsiI | TTATAA | 2 cut(s) | 495, 992 |
| Psp6I | CCWGG | 3 cut(s) | 53, 479, 997 |
| PspGI | CCWGG | 3 cut(s) | 53, 479, 997 |
| PspPI | GGNCC | 3 cut(s) | 41, 264, 483 |
| PstI | CTGCAG | 1 cut(s) | 446 |
| PsyI | GACNNNGTC | 1 cut(s) | 69 |
| PvuII | CAGCTG | 1 cut(s) | 89 |
| RsaI | GTAC | 3 cut(s) | 728, 949, 1064 |
| RsaNI | GTAC | 3 cut(s) | 727, 948, 1063 |
| SaqAI | TTAA | 3 cut(s) | 456, 759, 1096 |
| SatI | GCNGC | 6 cut(s) | 49, 90, 294, 445, 649, 736 |
| Sau3AI | GATC | 1 cut(s) | 892 |
| Sau96I | GGNCC | 3 cut(s) | 41, 264, 483 |
| ScaI | AGTACT | 1 cut(s) | 949 |
| SchI | GAGTC | 1 cut(s) | 263 |
| ScrFI | CCNGG | 3 cut(s) | 55, 481, 999 |
| SfaNI | GCATC | 1 cut(s) | 279 |
| SfcI | CTRYAG | 2 cut(s) | 131, 442 |
| SinI | GGWCC | 2 cut(s) | 41, 264 |
| SmlI | CTYRAG | 3 cut(s) | 251, 297, 1028 |
| SmoI | CTYRAG | 3 cut(s) | 251, 297, 1028 |
| Sse9I | AATT | 7 cut(s) | 239, 275, 531, 744, 767, 828, 926 |
| SsiI | CCGC | 2 cut(s) | 21, 1051 |
| SspMI | CTAG | 3 cut(s) | 524, 833, 867 |
| StyD4I | CCNGG | 3 cut(s) | 53, 479, 997 |
| StyI | CCWWGG | 1 cut(s) | 909 |
| TaaI | ACNGT | 4 cut(s) | 97, 397, 933, 947 |
| TaiI | ACGT | 2 cut(s) | 584, 721 |
| TaqI | TCGA | 1 cut(s) | 273 |
| TaqII | GACCGA | 1 cut(s) | 365 |
| TasI | AATT | 7 cut(s) | 239, 275, 531, 744, 767, 828, 926 |
| TatI | WGTACW | 2 cut(s) | 726, 947 |
| TfiI | GAWTC | 5 cut(s) | 9, 149, 209, 386, 527 |
| Tru1I | TTAA | 3 cut(s) | 456, 759, 1096 |
| Tru9I | TTAA | 3 cut(s) | 456, 759, 1096 |
| TscAI | CASTG | 1 cut(s) | 416 |
| TseI | GCWGC | 6 cut(s) | 48, 89, 293, 444, 648, 735 |
| TspDTI | ATGAA | 7 cut(s) | 42, 252, 462, 612, 618, 621, 966 |
| TspGWI | ACGGA | 2 cut(s) | 338, 1059 |
| TspRI | CASTG | 1 cut(s) | 416 |
| Tth111I | GACNNNGTC | 1 cut(s) | 69 |
| VpaK11BI | GGWCC | 2 cut(s) | 41, 264 |
| XagI | CCTNNNNNAGG | 1 cut(s) | 642 |
| XapI | RAATTY | 3 cut(s) | 239, 767, 828 |
| XbaI | TCTAGA | 1 cut(s) | 523 |
| XceI | RCATGY | 1 cut(s) | 615 |
| XcmI | CCANNNNNNNNNTGG | 2 cut(s) | 274, 416 |
| XspI | CTAG | 3 cut(s) | 524, 833, 867 |
| ZrmI | AGTACT | 1 cut(s) | 949 |
| Zsp2I | ATGCAT | 1 cut(s) | 621 |