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List of restriction enzyme cutting sites: C–D
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    List of restriction enzyme cutting sites: C–D

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    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 C to D inclusive. It contains approximately 80 enzymes.

    The following information is given:

    • Enzyme: Accepted name of the molecule, according to the internationally adopted nomenclature, 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.
    • 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.
    • 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

    Restriction enzymes

    C

    Enzyme PDB code Source Recognition sequence Cut Isoschizomers
    CacI Clostridium acetobutylicum N1-4081 5' GATC
    3' CTAG
    5' ---   GATC--- 3'
    3' ---CTAG   --- 5'
    Cac8I Clostridium acetobutylicum ABKn8 5' GCNNGC
    3' CGNNCG
    5' ---GCN   NGC--- 3'
    3' ---CGN   NCG--- 5'
    CaiI Comamonas acidovarans Iti19-021 5' CAGNNNCTG
    3' GTCNNNGAC
    5' ---CAGNNN   CTG--- 3'
    3' ---GTC   NNNGAC--- 5'
    AlwNI
    CauI Chloroflexus aurantiacus 5' GGWCC
    3' CCWGG
    5' ---G   GWCC--- 3'
    3' ---CCWG   G--- 5'
    BamNxI, BcuAI, BsrAI, Eco47I, FspMSI, HgiCII, HgiJI, SmuEI
    CauII Chloroflexus aurantiacus 5' CCSGG
    3' GGSCC
    5' ---CC   SGG--- 3'
    3' ---GGS   CC--- 5'
    AhaI, AseII, AsuC2I, BcnI, Eco1831I, EcoHI, Kpn49kII, NciI
    CauB3I Chloroflexus aurantiacus B3 5' TCCGGA
    3' AGGCCT
    5' ---T   CCGGA--- 3'
    3' ---AGGCC   T--- 5'
    Aor13HI, BbvAIII, BseAI, BspEI, BspMII, Kpn2I, MroI, PtaI
    CbiI Clostridium bifermentans B-4 5' TTCGAA
    3' AAGCTT
    5' ---TT   CGAA--- 3'
    3' ---AAGC   TT--- 5'
    Asp10HI, Bim19I, BsiCI, BspT104I, Csp45I, LspI, NspV, SspRFI
    CboI Clostridium botulinum 5' CCGG
    3' GGCC
    5' ---C   CGG--- 3'
    3' ---GGC   C--- 5'
    CbrI Citrobacter braakii 1146 5' CCWGG
    3' GGWCC
    5' ---CC   WGG--- 3'
    3' ---GGW   CC--- 5'
    AorI, BseBI, Bse24I, BstNI, BstOI, Bst2UI, BthDI, EcoRII, MvaI
    CciNI Curtobacterium citreus 5' GCGGCCGC
    3' CGCCGGCG
    5' ---GC   GGCCGC--- 3'
    3' ---CGCCGG   CG--- 5'
    CcoI Clostridium coccoides B-2 5' GCCGGC
    3' CGGCCG
    5' ---GCC   GGC--- 3'
    3' ---CGG   CCG--- 5'
    CcrI Caulobacter crescentus CB-13 5' CTCGAG
    3' GAGCTC
    5' ---C   TCGAG--- 3'
    3' ---GAGCT   C--- 5'
    CcuI Chroococcidiopsis cubana 5' GGNCC
    3' CCNGG
    5' ---G   GNCC--- 3'
    3' ---CCNG   G--- 5'
    AsuI, Bal228I, BavBII, BsiZI, BspF4I, Cfr13I, Nsp7121I, PspPI
    CcyI Clostridium cylindrosporum 5' GATC
    3' CTAG
    5' ---   GATC--- 3'
    3' ---CTAG   --- 5'
    BfuCI, Bsp67I, Bst19II, CviAI, FnuCI, MboI, NmeCI, SauMI
    CdiI Citrobacter freundii RFL2 5' CATCG
    3' GTAGC
    5' ---CATC   G--- 3'
    3' ---GTAG   C--- 5'
    CelI Citrobacter freundii RFL6 5' GGATCC
    3' CCTAGG
    5' ---G   GATCC--- 3'
    3' ---CCTAG   G--- 5'
    AliI, ApaCI, AsiI, BamHI, CelI, NspSAIV, RspLKII, SolI, Uba4009I
    CelII Coccochloris elabens 17a 5' GCTNAGC
    3' CGANTCG
    5' ---GC   TNAGC--- 3'
    3' ---CGANT   CG--- 5'
    CeqI Corynebacterium equi 5' GATATC
    3' CTATAG
    5' ---GAT   ATC--- 3'
    3' ---CTA   TAG--- 5'
    CflI Cellulomonas flavigena 5' CTGCAG
    3' GACGTC
    5' ---CTGCA   G--- 3'
    3' ---G   ACGTC--- 5'
    AjoI, BloHII, CflI, CstI, Ecl37kI, PaePI, PstI, SalPI, Srl5DI, Sst12I
    CfoI Clostridium formicoaceticum 5' GCGC
    3' CGCG
    5' ---GCG   C--- 3'
    3' ---C   GCG--- 5'
    AspLEI, BspLAI, BstHHI, FnuDIII, HhaI, HinP1I, HsoI, HspAI, SciNI
    CfrI Citrobacter freundii RFL2 5' YGGCCR
    3' RCCGGY
    5' ---Y   GGCCR--- 3'
    3' ---RCCGG   Y--- 5'
    Cfr6I Citrobacter freundii RFL6 5' CAGCTG
    3' GTCGAC
    5' ---CAG   CTG--- 3'
    3' ---GTC   GAC--- 5'
    Cfr9I Citrobacter freundii 5' CCCGGG
    3' GGGCCC
    5' ---C   CCGGG--- 3'
    3' ---GGGCC   C--- 5'
    AhyI, EaeAI, EclRI, Pac25I, PspAI, TspMI, XcyI, XmaI, XmaCI
    Cfr10I 1CFR Citrobacter freundii RFL10 5' RCCGGY
    3' YGGCCR
    5' ---R   CCGGY--- 3'
    3' ---YGGCC   R--- 5'
    Cfr13I Citrobacter freundii RFL13 5' GGNCC
    3' CCNGG
    5' ---G   GNCC--- 3'
    3' ---CCNG   G--- 5'
    AsuI, Bal228I, BavBII, BsiZI, BspF4I, FmuI, Nsp7121I, PspPI
    Cfr42I Citrobacter freundii RFL42 5' CCGCGG
    3' GGCGCC
    5' ---CCGC   GG--- 3'
    3' ---GG   CGCC--- 5'
    SacII, CscI, HgaI
    CfrA4I Citrobacter freundii A4 5' CTGCAG
    3' GACGTC
    5' ---CTGCA   G--- 3'
    3' ---G   ACGTC--- 5'
    AjoI, BloHII, CflI, CstI, Ecl2zI, PaePI, PstI, SalPI, Srl5DI, Sst12I
    CfrBI Citrobacter freundii 4111 5' CCWWGG
    3' GGWWCC
    5' ---C   CWWGG--- 3'
    3' ---GGWWC   C--- 5'
    CfrJ4I Citrobacter freundii J4 5' CCCGGG
    3' GGGCCC
    5' ---CCC   GGG--- 3'
    3' ---GGG   CCC--- 5'
    AhyI, CfrJ4I, EaeAI, EclRI, Pac25I, SmaI, TspMI, XcyI, XmaI
    CfuI Caulobacter fusiformis BC-25 5' GATC
    3' CTAG
    5' ---GA   TC--- 3'
    3' ---CT   AG--- 5'
    CfuII Caulobacter fusiformis BC-25 5' CTGCAG
    3' GACGTC
    5' ---CTGCA   G--- 3'
    3' ---G   ACGTC--- 5'
    AjoI, AliAJI, CfuII, HalII, PaePI, Psp23I, PstI, SalPI, Srl5DI, YenI
    ChaI Corynebacterium halofytica 5' GATC
    3' CTAG
    5' ---GATC   --- 3'
    3' ---   CTAG--- 5'
    BfuCI, Bsp2095I, BspKT6I BtkII, FnuCI, MboI, NmeCI, SsiAI
    CjeI Campylobacter jejuni P37 5' CCAN6GT
    3' GGTN6CA
    5' ---CCAN6GTN8NNNNNNN   --- 3'
    3' ---GGTN6CAN8N   NNNNNN--- 5'
     — None on May 2010 —
    CjePI Campylobacter jejuni P116 5' CCAN7TC
    3' GGTN7AG
    5' ---CCAN7TCN7NNNNNNN   --- 3'
    3' ---GGTN7AGN7N   NNNNNN--- 5'
     — None on May 2010 —
    ClaI Caryophanon latum L 5' ATCGAT
    3' TAGCTA
    5' ---AT   CGAT--- 3'
    3' ---TAGC   TA--- 5'
    AagI, BanIII, BavCI, Bsa29I, BseCI, BspDI, Bsu15I, BsuTUI
    CltI Caryophanon latum 5' GGCC
    3' CCGG
    5' ---GG   CC--- 3'
    3' ---CC   GG--- 5'
    CpfI Clostridium perfringens 5' GATC
    3' CTAG
    5' ---   GATC--- 3'
    3' ---CTAG   --- 5'
    AspMDI, Bsp67I, Bst19II, CcyI, FnuCI, MboI, NphI, SauMI
    CpoI Caseobacter polymorphus 5' CGGWCCG
    3' GCCWGGC
    5' ---CG   GWCCG--- 3'
    3' ---GCCWG   GC--- 5'
    CscI Calothrix scopulorum 5' CCGCGG
    3' GGCGCC
    5' ---CCGC   GG--- 3'
    3' ---GG   CGCC--- 5'
    Cfr42I, SacII, HgaI
    CsiAI Corynebacterium sp. A 5' ACCGGT
    3' TGGCCA
    5' ---A   CCGGT--- 3'
    3' ---TGGCC   A--- 5'
    AgeI, AsiAI,  AsiGI,  BshTI
    CspAI, PinAI
    CsiBI Corynebacterium sp. B 5' GCGGCCGC
    3' CGCCGGCG
    5' ---GC   GGCCGC--- 3'
    3' ---CGCCGG   CG--- 5'
    CspI Corynebacterium sp. 5' CGGWCCG
    3' GCCWGGC
    5' ---CG   GWCCG--- 3'
    3' ---GCCWG   GC--- 5'
    Csp6I Corynebacterium sp. RFL6 5' GTAC
    3' CATG
    5' ---G   TAC--- 3'
    3' ---CAT   G--- 5'
    AfaI, CviQI, CviRII, HpyBI, PabI, PlaAII, RsaI, RsaNI,
    Csp45I Clostridium sporogenes 5' TTCGAA
    3' AAGCTT
    5' ---TT   CGAA--- 3'
    3' ---AAGC   TT--- 5'
    Asp10HI, Bim19I, BsiCI, BspT104I, FspII, LspI, NspV, SspRFI
    CspAI Corynebacterium sp. 301 5' ACCGGT
    3' TGGCCA
    5' ---A   CCGGT--- 3'
    3' ---TGGCC   A--- 5'
    AgeI, AsiAI,  AsiGI,  BshTI
    CsiAI, PinAI
    CspBI Corynebacterium sp. B 5' GCGGCCGC
    3' CGCCGGCG
    5' ---GC   GGCCGC--- 3'
    3' ---CGCCGG   CG--- 5'
    CspCI Citrobacter sp. 2144 5' CAAN4NGTGG
    3' GTTN4NCACC
    5' ---CAAN5GTGGN8NNNN   --- 3'
    3' ---GTTN5CACCN8NN   NN--- 5'
     — None on May 2010 —
    Csp68KI Cyanothece sp. BH68K 5' GGWCC
    3' CCWGG
    5' ---G   GWCC--- 3'
    3' ---CCWG   G--- 5'
    BamNxI, BcuAI, BsrAI, Eco47I, FspMSI, HgiCII, Kzo49I, SmuEI
    Csp68KII Cyanothece sp. BH68K 5' TTCGAA
    3' AAGCTT
    5' ---TT   CGAA--- 3'
    3' ---AAGC   TT--- 5'
    Asp10HI, Bim19I, BsiCI, BstBI, Csp45I, LspI, PlaII, SviI
    Csp68KIII Cyanothece sp. BH68K 5' ATGCAT
    3' TACGTA
    5' ---ATGCA   T--- 3'
    3' ---T   ACGTA--- 5'
    BfrBI, EcoT22I, Mph1103I, NsiI, PinBI, Ppu10I, SspD5II, Zsp2I
    Csp68KVI Cyanothece sp. BH68K 5' CGCG
    3' GCGC
    5' ---CG   CG--- 3'
    3' ---GC   GC--- 5'
    BepI, Bpu95I, Bsp123I, BstFNI, BstUI, BtkI, FalII, SelI, ThaI
    CspKVI Cyanothece sp. BH68K 5' CGCG
    3' GCGC
    5' ---CG   CG--- 3'
    3' ---GC   GC--- 5'
    CstI Clostridium sticklandii 5' CTGCAG
    3' GACGTC
    5' ---CTGCA   G--- 3'
    3' ---G   ACGTC--- 5'
    AjoI, AliAJI, CfrA4I, HalII, MhaAI, Pfl21I, PstI, SflI, Srl5DI, YenI
    CstMI Corynebacterium striatum M82B 5' AAGGAG
    3' TTCCTC
    5' ---AAGGAGN17NNN   --- 3'
    3' ---TTCCTCN17N   NN--- 5'
     — None on May 2010 —
    CthII Clostridium thermocellum 5' CCWGG
    3' GGWCC
    5' ---CC   WGG--- 3'
    3' ---GGW   CC--- 5'
    ApaORI, BseBI, Bse24I, Bst2UI, BstNI, BstM6I, EcoRII, MvaI
    CviAI Chlorella NC64A (PBCV-1) 5' GATC
    3' CTAG
    5' ---   GATC--- 3'
    3' ---CTAG   --- 5'
    Bme12I, Bsp67I, Bst19II, CcyI, FnuCI, MgoI, NphI, SauMI
    CviAII Chlorella NC64A (PBCV-1) 5' CATG
    3' GTAC
    5' ---C   ATG--- 3'
    3' ---GTA   C--- 5'
    CviBI Chlorella NC64A (NC-1A) 5' GANTC
    3' CTNAG
    5' ---G   ANTC--- 3'
    3' ---CTNA   G--- 5'
    CviJI Chlorella NC64A (IL-3A) 5' RGCY
    3' YCGR
    5' ---RG   CY--- 3'
    3' ---YC   GR--- 5'
    CviQI Chlorella NC64A (NY-2A) 5' GTAC
    3' CATG
    5' ---G   TAC--- 3'
    3' ---CAT   G--- 5'
    AfaI, Csp6I, CviRII, HpyBI, PabI, PlaAII, RsaI, RsaNI,
    CviRI Chlorella NC64A (XZ-6E) 5' TGCA
    3' ACGT
    5' ---TG   CA--- 3'
    3' ---AC   GT--- 5'
    CviRII Chlorella NC64A (XZ-6E) 5' GTAC
    3' CATG
    5' ---G   TAC--- 3'
    3' ---CAT   G--- 5'
    AfaI, Csp6I, CviQI, HpyBI, PabI, PlaAII, RsaI, RsaNI,
    CviTI Chlorella NC64A (CA-1A) 5' RGCY
    3' YCGR
    5' ---RG   CY--- 3'
    3' ---YC   GR--- 5'
    CvnI Chromatium vinosum 5' CCTNAGG
    3' GGANTCC
    5' ---CC   TNAGG--- 3'
    3' ---GGANT   CC--- 5'
    AocI, AxyI, Bse21I, Bsu36I, Eco81I, MstII, SauI, SshAI

    D

    Enzyme PDB code Source Recognition sequence Cut Isoschizomers
    DdeI Desulfovibrio desulfuricans 5' CTNAG
    3' GANTC
    5' ---C   TNAG--- 3'
    3' ---GANT   C--- 5'
    BstDEI,  HpyF3I 
    DmaI Deleya marina 5' CAGCTG
    3' GTCGAC
    5' ---CAG   CTG--- 3'
    3' ---GTC   GAC--- 5'
    DpaI Deleya pacifica 5' AGTACT
    3' TCATGA
    5' ---AGT   ACT--- 3'
    3' ---TCA   TGA--- 5'
    Acc113I, AssI,  BmcAI, Bpa34I, 
    Eco255I, RflFII, ScaI, ZrmI
    DpnI Diplococcus pneumoniae G41 5' GATC
    3' CTAG
    5' ---GA   TC--- 3'
    3' ---CT   AG--- 5'
    DpnII Diplococcus pneumoniae G41 5' GATC
    3' CTAG
    5' ---   GATC--- 3'
    3' ---CTAG   --- 5'
    AspMDI, Bsp105I, BspFI, BstMBI, CpfI, Kzo9I, NdeII, Sth368I
    DraI Deinococcus radiophilus 5' TTTAAA
    3' AAATTT
    5' ---TTT   AAA--- 3'
    3' ---AAA   TTT--- 5'
    AhaIII, PauAII, SruI
    DraII Deinococcus radiophilus 5' RGGNCCY
    3' YCCNGGR
    5' ---RG   GNCCY--- 3'
    3' ---YCCNG   GR--- 5'
    DraIII Deinococcus radiophilus 5' CACNNNGTG
    3' GTGNNNCAC
    5' ---CACNNN   GTG--- 3'
    3' ---GTG   NNNCAC--- 5'
    AdeI, BstIZ316I
    DrdI Deinococcus radiodurans 5' GACN6GTC
    3' CTGN6CAG
    5' ---GACNNNN   NNGTC--- 3'
    3' ---CTGNN   NNNNCAG--- 5'
    AasI, DseDI
    DriI Dactylococcopsis salina 5' GACN5GTC
    3' CTGN5CAG
    5' ---GACNNN   NNGTC--- 3'
    3' ---CTGNN   NNNCAG--- 5'
    AhdI, AspEI,  BmeRI,  BspOVI,
    Eam1105I, EclHKI, NruGI
    DsaI Dactylococcopsis salina 5' CCRYGG
    3' GGYRCC
    5' ---C   CRYGG--- 3'
    3' ---GGYRC   C--- 5'
    DsaII Dactylococcopsis salina 5' GGCC
    3' CCGG
    5' ---GG   CC--- 3'
    3' ---CC   GG--- 5'
    DsaIII Dactylococcopsis salina 5' RGATCY
    3' YCTAGR
    5' ---R   GATCY--- 3'
    3' ---YCTAG   R--- 5'
    DsaIV Dactylococcopsis salina 5' GGWCC
    3' CCWGG
    5' ---G   GWCC--- 3'
    3' ---CCWG   G--- 5'
    BamNxI, BcuAI, BsrAI, Eco47I, FspMSI, HgiEI, Kzo49I, SmuEI
    DsaV Dactylococcopsis salina 5' CCNGG
    3' GGNCC
    5' ---   CCNGG--- 3'
    3' ---GGNCC   --- 5'
    DseDI Deinococcus sp. Dx 5' GACN6GTC
    3' CTGN6CAG
    5' ---GACNNNN   NNGTC--- 3'
    3' ---CTGNN   NNNNCAG--- 5'
    AasI, DrdI

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