List of restriction enzyme cutting sites: T–Z
(Redirected from List of restriction enzyme cutting sites: T-Z)
| Legend of nucleobases | |
|---|---|
| Code | Nucleotide represented |
| A | Adenine (A) |
| C | Cytosine (C) |
| G | Guanine (G) |
| T | Thymine (T) |
| N | A, C, G or T |
| M | A or C |
| R | A or G |
| W | A or T |
| Y | C or T |
| S | C or G |
| K | G or T |
| H | A, C or T |
| B | C, G or T |
| V | A, C or G |
| D | A, G or T |
This article contains a list of the most studied restriction enzymes whose names start with T to Z inclusive. It contains approximately 70 enzymes.
The following information is given:
- Enzyme: Accepted name of the molecule, according to the internationally adopted nomenclature[1][2], and bibliographical references. (Further reading: see the section "Nomenclature" in the article "Restriction enzyme".)
- PDB code: Code used to identify the structure of a protein in the PDB database of protein structures. The 3D atomic structure of a protein provides highly valuable information to understand the intimate details of its mechanism of action[3][4].
- Source: Organism that naturally produces the enzyme.
- Recognition sequence: Sequence of DNA recognized by the enzyme and to which it specifically binds.
- Cut: Cutting site and DNA products of the cut. The recognition sequence and the cutting site usually match, but sometimes the cutting site can be dozens of nucleotides away from the recognition site[5][6].
- Isoschizomers and neoschizomers: An isoschizomer is an enzyme that recognizes the same sequence as another. A neoschizomer is a special type of isoschizomer that recognizes the same sequence as another, but cuts in a different manner. A maximum number of 8-10 most common isoschizomers are indicated for every enzyme but there may be many more. Neoschizomers are shown in bold and green color font (e.g.: BamHI). When "None on date" is indicated, that means that there were no registered isoschizomers in the databases on that date with a clearly defined cutting site. Isoschizomers indicated in white font and grey background correspond to enzymes not listed in the current lists:
as in this not listed enzyme: EcoR70I
Whole list navigation
[edit]Restriction enzymes
[edit]T
[edit]| Enzyme | PDB code | Source | Recognition sequence | Cut | Isoschizomers |
| TaaI | Thermus aquaticus Vn 4-311 | 5' ACNGT 3' TGNCA
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5' ---ACN GT--- 3' 3' ---TG NCA--- 5'
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| TaiI | Thermus aquaticus cs1-331 | 5' ACGT 3' TGCA
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5' ---ACGT --- 3' 3' --- TGCA--- 5'
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| TaqI | Thermus aquaticus | 5' TCGA 3' AGCT
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5' ---T CGA--- 3' 3' ---AGC T--- 5'
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| TaqII | Thermus aquaticus YTI | 5' GACCGA 3' CTGGCT
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5' ---GACCGAN8NNN --- 3' 3' ---CTGGCTN8N NN--- 5'
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| Taq52I | Thermus aquaticus YS52 | 5' GCWGC 3' CGWCG
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5' ---G CWGC--- 3' 3' ---CGWC G--- 5'
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AceI, ApeKI, SuiI, TseI | |
| TaqXI | Thermus aquaticus | 5' CCWGG 3' GGWCC
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5' ---CC WGG--- 3' 3' ---GGW CC--- 5'
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ApaORI, BseBI, BsiLI, BstNI, BstOI, Bst2UI, MvaI, SleI, SspAI | |
| TasI | Thermus aquaticus Vn 4-211 | 5' AATT 3' TTAA
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5' --- AATT--- 3' 3' ---TTAA --- 5'
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| TatI | Thermus aquaticus CBA1-331 | 5' WGTACW 3' WCATGW
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5' ---W GTACW--- 3' 3' ---WCATG W--- 5'
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| TauI | Thermus aquaticus | 5' GCSGC 3' CGSCG
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5' ---GCSG C--- 3' 3' ---C GSCG--- 5'
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| TelI | Tolypothrix elabens | 5' GACNNNGTC 3' CTGNNNCAG
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5' ---GACN NNGTC--- 3' 3' ---CTGNN NCAG--- 5'
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AspI, AtsI, PflFI, PsyI, Tth111I | |
| TfiI | Thermus filiformis | 5' GAWTC 3' CTWAG
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5' ---G AWTC--- 3' 3' ---CTWA G--- 5'
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| ThaI | Thermoplasma acidophilum | 5' CGCG 3' GCGC
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5' ---CG CG--- 3' 3' ---GC GC--- 5'
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Bpu95I, Bsh1236I, Bsp50I, BstFNI, BstUI, Csp68KVI, FalII, FnuDII | |
| TliI | Thermococcus litoralis | 5' CTCGAG 3' GAGCTC
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5' ---C TCGAG--- 3' 3' ---GAGCT C--- 5'
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AbrI, BluI, BssHI, MavI, Sau3239I, Sfr274I, StrI, XhoI | |
| Tru1I | Thermus ruber RFL1 | 5' TTAA 3' AATT
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5' ---T TAA--- 3' 3' ---AAT T--- 5'
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| Tru9I | Thermus ruber 9 | 5' TTAA 3' AATT
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5' ---T TAA--- 3' 3' ---AAT T--- 5'
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| Tru201I | Thermus ruber 201 | 5' RGATCY 3' YCTAGR
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5' ---R GATCY--- 3' 3' ---YCTAG R--- 5'
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| TscI | Thermus sp. 491A | 5' ACGT 3' TGCA
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5' ---ACGT --- 3' 3' --- TGCA--- 5'
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| TseI | Thermus sp. 93170 | 5' GCWGC 3' CGWCG
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5' ---G CWGC--- 3' 3' ---CGWC G--- 5'
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AceI, ApeKI, SuiI, Taq52I | |
| Tsp1I | Thermus sp. 1 | 5' ACTGG 3' TGACC
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5' ---ACTGGN --- 3' 3' ---TGAC CN--- 5'
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| Tsp32I | Thermus sp. 32 | 5' TCGA 3' AGCT
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5' ---T CGA--- 3' 3' ---AGC T--- 5'
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| Tsp32II | Thermus sp. 32 | 5' TCGA 3' AGCT
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5' ---T CGA--- 3' 3' ---AGC T--- 5'
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| Tsp45I | Thermus sp. YS45 | 5' GTSAC 3' CASTG
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5' --- GTSAC--- 3' 3' ---CASTG --- 5'
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| Tsp49I | Thermus sp. | 5' ACGT 3' TGCA
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5' ---ACGT --- 3' 3' --- TGCA--- 5'
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| Tsp509I | Thermus sp. | 5' AATT 3' TTAA
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5' --- AATT--- 3' 3' ---TTAA --- 5'
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| TspBI | Thermophilic sp. | 5' CCRYGG 3' GGYRCC
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5' ---C CRYGG--- 3' 3' ---GGYRC C--- 5'
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| Tsp4CI | Thermus sp. 4C | 5' ACNGT 3' TGNCA
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5' ---ACN GT--- 3' 3' ---TG NCA--- 5'
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| TspDTI | Thermus sp. DT | 5' ATGAA 3' TACTT
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5' ---ATGAAN8NNN --- 3' 3' ---TACTTN8N NN--- 5'
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— None on May 2010 — | |
| TspEI | Thermus sp. 1E | 5' AATT 3' TTAA
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5' --- AATT--- 3' 3' ---TTAA --- 5'
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| Tsp8EI | Thermus sp. 8E | 5' GCCN5GGC 3' CGGN5CCG
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5' ---GCCNNNN NGGC--- 3' 3' ---CGGN NNNNCCG--- 5'
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| TspGWI | Thermus sp. GW | 5' ACGGA 3' TGCCT
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5' ---ACGGAN8NNN --- 3' 3' ---TGCCTN8N NN--- 5'
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| TspMI = UthSI | Unidentified thermophile | 5' CCCGGG 3' GGGCCC
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5' ---C CCGGG--- 3' 3' ---GGGCC C--- 5'
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AhyI, Cfr9I, EaeAI, EclRI, PaeBI, PspAI, SmaI, XcyI, XmaI, XmaCI | |
| TspRI | Thermus sp. R | 5' CASTGNN 3' GTSAC
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5' ---CASTGNN --- 3' 3' --- GTSACNN--- 5'
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| Tth111I | Thermus thermophilus 111 | 5' GACNNNGTC 3' CTGNNNCAG
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5' ---GACN NNGTC--- 3' 3' ---CTGNN NCAG--- 5'
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AspI, AtsI, PflFI, PsyI, TelI | |
| Tth111II | Thermus thermophilus 111 | 5' CAARCA 3' GTTYGT
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5' ---CAARCAN8NNN --- 3' 3' ---GTTYGTN8N NN--- 5'
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| TthHB8I | Thermus thermophilus HB8 | 5' TCGA 3' AGCT
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5' ---T CGA--- 3' 3' ---AGC T--- 5'
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U
[edit]| Enzyme | PDB code | Source | Recognition sequence | Cut | Isoschizomers |
| Uba4009I | Unidentified bacterium A | 5' GGATCC 3' CCTAGG
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5' ---G GATCC--- 3' 3' ---CCTAG G--- 5'
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AccEBI, AliI, ApaCI, AsiI, BamHI, BnaI, BspAAIII, RspLKII, SolI | |
| Uba153AI | Unidentified bacterium 153A | 5' CAGCTG 3' GTCGAC
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5' ---CAG CTG--- 3' 3' ---GTC GAC--- 5'
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| UbaM39I | Unidentified bacterium M39 | 5' CAGCTG 3' GTCGAC
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5' ---CAG CTG--- 3' 3' ---GTC GAC--- 5'
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| UnbI | Unidentified bacterium #8 | 5' GGNCC 3' CCNGG
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5' --- GGNCC--- 3' 3' ---CCNGG --- 5'
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AvcI, BavAII, Bce22I, Bsp1894I, Bsu54I, FmuI, NspIV, UnbI | |
| Uur960I | Ureaplasma urealyticum 960 | 5' GCNGC 3' CGNCG
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5' ---GC NGC--- 3' 3' ---CGN CG--- 5'
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V
[edit]| Enzyme | PDB code | Source | Recognition sequence | Cut | Isoschizomers |
| Van91I | Vibrio anguillarum RFL91 | 5' CCAN5TGG 3' GGTN5ACC
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5' ---CCANNNN NTGG--- 3' 3' ---GGTN NNNNACC--- 5'
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AccB7I, AcpII, Asp10HII, BasI, Esp1396I, PflBI, PflMI | |
| Vha464I | Vibrio harveyi 464 | 5' CTTAAG 3' GAATTC
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5' ---C TTAAG--- 3' 3' ---GAATT C--- 5'
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| VneI | Vibrio nereis 18 | 5' GTGCAC 3' CACGTG
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5' ---G TGCAC--- 3' 3' ---CACGT G--- 5'
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Alw44I, ApaLI, SnoI | |
| VpaK32I | Vibrio parahaemolyticus 4387-61 | 5' GCTCTTC 3' CGAGAAG
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5' ---GCTCTTCN NNN--- 3' 3' ---CGAGAAGNNNN --- 5'
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| VpaK11AI | Vibrio parahaemolyticus 1743 | 5' GGWCC 3' CCWGG
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5' --- GGWCC--- 3' 3' ---CCWGG --- 5'
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Bme216I, CauI, EagMI, FdiI, HgiBI, HgiHIII, SinI, VpaK11BI | |
| VpaK11BI | Vibrio parahaemolyticus 1743-1 | 5' GGWCC 3' CCWGG
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5' ---G GWCC--- 3' 3' ---CCWG G--- 5'
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BsrAI, CauI, EagMI, FdiI, HgiBI, HgiJI, SinI, VpaK11AI | |
| VspI | Vibrio sp. 343 | 5' ATTAAT 3' TAATTA
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5' ---AT TAAT--- 3' 3' ---TAAT TA--- 5'
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AseI, AsnI, BpoAI, PshBI, Sru4DI |
X
[edit]| Enzyme | PDB code | Source | Recognition sequence | Cut | Isoschizomers | |||
| XagI | Xanthobacter agilis Vs 18-132 | 5' CCTN5AGG 3' GGAN5TCC
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5' ---CCTNN NNNAGG--- 3' 3' ---GGANNN NNTCC--- 5'
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| XapI | Xanthomonas ampelina Slo 51-021 | 5' RAATTY 3' YTTAAR
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5' ---R AATTY--- 3' 3' ---YTTAA R--- 5'
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| XbaI[7] | Xanthomonas badrii | 5' TCTAGA 3' AGATCT
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5' ---T CTAGA--- 3' 3' ---AGATC T--- 5'
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| XcaI | Xanthomonas campestris | 5' GTATAC 3' CATATG
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5' ---GTA TAC--- 3' 3' ---CAT ATG--- 5'
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| XceI | Xanthomonas campestris Ast 40-024 | 5' RCATGY 3' YGTACR
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5' ---RCATG Y--- 3' 3' ---Y GTACR--- 5'
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| XciI | Xanthomonas citri | 5' GTCGAC 3' CAGCTG
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5' ---G TCGAC--- 3' 3' ---CAGCT G--- 5'
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| XcmI | Xanthomonas campestris | 5' CCAN9TGG 3' GGTN9ACC
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5' ---CCANNNNN NNNNTGG--- 3' 3' ---GGTNNNN NNNNNACC--- 5'
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| XcyI | Xanthomonas cyanopsidis 13D5 | 5' CCCGGG 3' GGGCCC
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5' ---C CCGGG--- 3' 3' ---GGGCC C--- 5'
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CfrJ4I, EaeAI, EclRI, Pac25I, PspAI, TspMI, XmaI, XmaCI | ||||
| XhoI | Xanthomonas holcicola | 5' CTCGAG 3' GAGCTC
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5' ---C TCGAG--- 3' 3' ---GAGCT C--- 5'
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AbrI, BluI, BssHI, PanI, Sau3239I, Sfr274I, TliI, XpaI | ||||
| XhoII | Xanthomonas holcicola | 5' RGATCY 3' YCTAGR
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5' ---R GATCY--- 3' 3' ---YCTAG R--- 5'
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| XmaI | Xanthomonas malvacearum | 5' CCCGGG 3' GGGCCC
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5' ---C CCGGG--- 3' 3' ---GGGCC C--- 5'
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AhyI, Cfr9I, EaeAI, EclRI, PaeBI, PspAI, TspMI, XcyI, XmaCI | ||||
| XmaIII | Xanthomonas malvacearum | 5' CGGCCG 3' GCCGGC
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5' ---C GGCCG--- 3' 3' ---GCCGG C--- 5'
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AaaI, BseX3I, BstZI, EagI, EclXI, Eco52I, SenPT16I | ||||
| XmaCI | Xanthomonas malvacearum C | 5' CCCGGG 3' GGGCCC
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5' ---C CCGGG--- 3' 3' ---GGGCC C--- 5'
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AhyI, Cfr9I, EaeAI, EclRI, PaeBI, Pac25I, PspAI, TspMI, XcyI, XmaI | ||||
| XmaJI | Xanthomonas maltophilia Jo 85-025 | 5' CCTAGG 3' GGATCC
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5' ---C CTAGG--- 3' 3' ---GGATC C--- 5'
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AspA2I, AvrII, AvrBII, BlnI, BspA2I | ||||
| XmiI | Xanthomonas maltophilia Jo 21-021 | 5' GTMKAC 3' CAKMTG
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5' ---GT MKAC--- 3' 3' ---CAKM TG--- 5'
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AccI, FblI | ||||
| XmnI | Xanthomonas manihotis 7AS1 | 5' GAAN4TTC 3' CTTN4AAG
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5' ---GAANN NNTTC--- 3' 3' ---CTTNN NNAAG--- 5'
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Asp700I, BbvAI, MroXI, PdmI | ||||
| XorII | Xanthomonas oryzae | 5' CGATCG 3' GCTAGC
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5' ---CGAT CG--- 3' 3' ---GC TAGC--- 5'
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Afa16RI, BspCI, EagBI, ErhB9I, MvrI, Ple19I, PvuI, RshI | ||||
| XpaI | Xanthomonas papavericola | 5' CTCGAG 3' GAGCTC
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5' ---C TCGAG--- 3' 3' ---GAGCT C--- 5'
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BssHI, MavI, PanI, SauLPII, Sbi68I, Sol10179I, StrI, XhoI | ||||
| XspI | Xanthomonas sp. YK1 | 5' CTAG 3' GATC
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5' ---C TAG--- 3' 3' ---GAT C--- 5'
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Y
[edit]| Enzyme | PDB code | Source | Recognition sequence | Cut | Isoschizomers |
| YenI | Yersinia enterocolitica 08 A2635 | 5' CTGCAG 3' GACGTC
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5' ---CTGCA G--- 3' 3' ---G ACGTC--- 5'
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Asp713I, BsuBI, CfrA4I, Ecl37kI, Psp23I, PstI, SalPI, SflI, Sst12I |
Z
[edit]| Enzyme | PDB code | Source | Recognition sequence | Cut | Isoschizomers | ||||
| ZanI | Zymomonas anaerobia | 5' CCWGG 3' GGWCC
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5' ---CC WGG--- 3' 3' ---GGW CC--- 5'
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ApaORI, BseBI, BspNI, BstNI, Bst2UI, CthII, EcoRII, MvaI, SspAI | |||||
| ZhoI | Zymomonas holcicola | 5' ATCGAT 3' TAGCTA
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5' ---AT CGAT--- 3' 3' ---TAGC TA--- 5'
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BanIII, BbvAII, BscI, BspJI, ClaI, LcaI, PgaI, SpmI, Ssp27144I | |||||
| ZraI | Zoogloea ramigera 11 | 5' GACGTC 3' CTGCAG
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5' ---GAC GTC--- 3' 3' ---CTG CAG--- 5'
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AatII, Ssp5230I | |||||
| ZrmI | Zoogloea ramigera SCA | 5' AGTACT 3' TCATGA
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5' ---AGT ACT--- 3' 3' ---TCA TGA--- 5'
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| Zsp2I | Zoogloea sp. 2 | 5' ATGCAT 3' TACGTA
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5' ---ATGCA T--- 3' 3' ---T ACGTA--- 5'
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BfrBI, Csp68KIII, EcoT22I, NsiI, PinBI, Ppu10I, SepI, SspD5II | |||||
Notes
[edit]- ^ Smith HO, Nathans D (December 1973). "Letter: A suggested nomenclature for bacterial host modification and restriction systems and their enzymes". J. Mol. Biol. 81 (3): 419–23. doi:10.1016/0022-2836(73)90152-6. PMID 4588280.
- ^ Roberts RJ, Belfort M, Bestor T, Bhagwat AS, Bickle TA, Bitinaite J, Blumenthal RM, Degtyarev SK, Dryden DT, Dybvig K, Firman K, Gromova ES, Gumport RI, Halford SE, Hattman S, Heitman J, Hornby DP, Janulaitis A, Jeltsch A, Josephsen J, Kiss A, Klaenhammer TR, Kobayashi I, Kong H, Krüger DH, Lacks S, Marinus MG, Miyahara M, Morgan RD, Murray NE, Nagaraja V, Piekarowicz A, Pingoud A, Raleigh E, Rao DN, Reich N, Repin VE, Selker EU, Shaw PC, Stein DC, Stoddard BL, Szybalski W, Trautner TA, Van Etten JL, Vitor JM, Wilson GG, Xu SY (April 2003). "A nomenclature for restriction enzymes, DNA methyltransferases, homing endonucleases and their genes". Nucleic Acids Res. 31 (7): 1805–12. doi:10.1093/nar/gkg274. PMC 152790. PMID 12654995.
- ^ Jeremy MB, John LT, Lubert S (2002). "3. Protein Structure and Function". Biochemistry. San Francisco: W. H. Freeman. ISBN 0-7167-4684-0.
- ^ Anfinsen C.B. (1973). "Principles that Govern the Folding of Protein Chains". Science. 181 (4096): 223–30. doi:10.1126/science.181.4096.223. PMID 4124164.
- ^ Kessler C, Manta V (August 1990). "Specificity of restriction endonucleases and DNA modification methyltransferases a review (Edition 3)". Gene. 92 (1–2): 1–248. doi:10.1016/0378-1119(90)90486-B. PMID 2172084.
- ^ Pingoud A, Jeltsch A (September 2001). "Structure and function of type II restriction endonucleases". Nucleic Acids Res. 29 (18): 3705–27. doi:10.1093/nar/29.18.3705. PMC 55916. PMID 11557805.
- ^ Monty Krieger; Matthew P Scott; Matsudaira, Paul T.; Lodish, Harvey F.; Darnell, James E.; Lawrence Zipursky; Kaiser, Chris; Arnold Berk (2004). Molecular Cell Biology (5th ed.). New York: W.H. Freeman and Company. ISBN 0-7167-4366-3.