Endonuclease

Template:STRUCTURE 1rva Endonuclease (ENN) cleaves phosphodiester bond within polynucleotide chain. ENN cleaves DNA at a restriction site which is usually a 6-nucleotide palindrome. ENN is restriction site–specific. Various types of ENN differ by their mechanism of action. ENN is used in genetic engineering to make recombinant DNA. ENN requires a restriction site and a cleavage pattern. ENN-I operates on DNA with separate restriction site and cleavage pattern, while ENN-II operates on overlapping restriction site and cleavage pattern. Some ENNs are encoded within introns thus facilitating their mobility. These ENNs or inteins are designated I-ENN.
The Cas ENN proteins are part of CRISPR/Cas prokaryotic immune system which confers protection from foreign genetic elements like viruses. The CRISPR (Custered Regularly Interspersed Short Palindromic Repeats) are DNA loci which are found in ca. 40% of the bacteria. The CRISPR/Cas system is being used lately as gene editing tool. For more details see Cas9.
See also

• Apurinic-Apyrimidinic Endonuclease-1
  
• DNA repair protein human endonuclease VIII-like 1 (NEIL1) .

3D structures of endonuclease3D structures of endonuclease

Updated on 19-January-2016

{"openlevels":0}

• ENN-I
  • 1bix - hENN – human
    
  • 1cfr – ENN – Citrobacter freundii
    
  • 1af5 - CrENN – Chlamydomonas reinhardtii
    
  • 1fzr, 1m0d, 1m0i, 3cae – T7ENN - Enterobacteria phage T7
    
  • 2g7e, 2g7f – VcENN – Vibrio cholera
    
  • 2vnd - VcENN (mutant)
    
  • 2pu3 - VsENN – Vibrio salmonicida
• ENN-II
  • 1pvi, 1pvu - ENN – Proteus vulgaris
    
  • 2wsh - T4ENN (mutant) - Enterobacteria phage T4
    
  • 3w52, 4cwm, 4cxo, 4cxp, 4cxv – ENN – Arabidopsis thaliana
    
• ENN-III
  • 2abk, 1ako - EcENN – Escherichia coli
    
  • 1orn, 1orp, 1p59 - GsENN + DNA – Geobacillus stearothermophilus
• ENN-IV
  • 1qtw - EcENN
    
  • 2nqh - EcENN (mutant)
    
  • 1qum – EcENN + DNA
    
  • 2nqj, 2nq9, 4k1g - EcENN (mutant) + DNA
    
  • 1xp3 - ENN – Bacillus anthracis
    
  • 3aal - GkENN – Geobacillus kaustophilus
    
  • 3aam - TtENN – Thermus thermophilus
• ENN-V
  • 1eni, 1enj, 1enk, 2end - T4ENN
    
  • 1vas - T4ENN + DNA
    
  • 2w35, 2w36, 4b20 - TmENN + DNA – Thermotoga maritima
    
  • 3hd0 - TmENN
    
  • 3ga2 - BsENN (mutant) – Bacillus subtilis
    
  • 3goc - ENN – Streptomyces avermitilis
    
  • 2fcc – T4ENN + DNA
    
  • 4nsp – hENN catalytic domain
    
• ENN-VII
  • 1en7, 1e7d - T4ENN
    
  • 1e7l - T4ENN (mutant)
    
  • 2qnc, 2qnf - T4ENN (mutant) + DNA
• ENN-VIII
  • 1q39, 1q39 - EcENN
    
  • 1q3b, 1q3c - EcENN (mutant)
    
  • 1tdh – hENN
    
  • 1bix – hENN + DNA
    
  • 1k3x, 2ea0, 1k3w, 1k3x, 2ea0, 2opf, 2oq4 - EcENN + DNA
    
  • 2opf, 2oq4 - EcENN (mutant) + DNA
• AP ENN
  • 3ngf - ENN - Brucella melitensis
    
  • 2j63 – ENN – Leishmania major
    
• Cas ENN
  • 1wj9, 4ej3 – TtCas
    
  • 4n06 – AfCas1 - Archaeoglobus fulgidus
    
  • 3god – PaCas1 – Pseudomonas aeruginosa
    
  • 3nkd – EcCas1
    
  • 4wj0 – PhCas1 - Pyrococcus horikoshii
    
  • 4xtk – TmCas1
    
  • 3oq2 – Cas2 – Desulfovibrio vulgaris
    
  • 4mak – EcCas2
    
  • 4p6i, 4qdl – EcCas1 + EcCas2
    
  • 3s4l – MjCas3 – Methanocaldococcus jannaschii
    
  • 4qqw – TfCas3 – Thermobifida fusca
    
  • 4qqx – TfCas3 + ATP
    
  • 4qqy – TfCas3 + ADP
    
  • 4qqz – TfCas3 + AMPPNP
    
  • 4q2c - TteCas3 – Thermobaclum terrenum
    
  • 4q2d - TteCas3 + ATP
    
  • 3i4h – Cas4 - Pyrobaculum calidifontis
    
  • 4qr0, 4qr1 - SpCas9 (Csn1) – Streptococcus pyogenes
    
  • 4ill, 4ilm – SsCas6 + RNA - Sulfolobus solfataricus
    
  • 4ilr, 3zfv – SsCas6
    
  • 3i4h – PfCas6 - Pyrococcus furiosus
    
  • 3pkm – PfCas6 + RNA
    
  • 4dzd – EcCas6e
    
  • 2y8w, 2y8y, 3qrp, 3qrq, 2qrr – TtCas6e (Cse3) + RNA
    
  • 2xli, 2xlj, 2xlk, 4al7 – PaCas6f (Csy4) + RNA
    
  • 4al5, 4al6 - PaCas6f (Csy4) (mutant) + RNA
    
  • 4cmp, 4cmq – SpCas9 (Csn1)
    
  • 4oo8, 4un3, 4un4, 4un5 - SpCas9 (Csn1) (mutant) + RNA + DNA
    
  • 4ogc, 4oge – Cas9 II-C – Actinomyces naeslundii
    
  • 3ung, 3ur3, 4doz, 4w8y – PfCas10 CMR2 subunit
    
  • 4h4k – PfCas10 CMR2+CMR3 subunits
    
  • 3w2v – PfCas10 CMR2+CMR3 subunits + AMP
    
  • 3w2w – PfCas10 CMR2+CMR3 subunits + ATP
    
  • 4gkf – PfCas10 CMR5 subunit
    
  • 4an8, 4f3e – TtCasA (Cse1)
    
  • 4h3t - CasA (Cse1) – Acidimicrobium ferrooxidans
    
  • 4h79 - TfCasB (Cse2)
    
  • 3wa8 - CasB (Cse2) – Meiothermus ruber
    
  • 4h7a - TtCasB (Cse2)
    
  • 4tvx – EcCasA (Cse1) + CasE
    
  • 4u7u – EcCasA (Cse1) + CasB + CasC + CasD + CasE + RNA
    
  • 4qyz – EcCasA (Cse1) + CasB + CasC + CasD + CasE + RNA + DNA
    
  • 3qhq - Csn2 – Streptococcus agalactiae
    
  • 3toc, 3v7f – SpCsn2
    
  • 3ps0 – SsCsa2
    
• EcoKI ENN
  • 2ar0 – EcENN (mutant)
    
• Ecoo109I ENN
  • 1wtd - EcENN
    
  • 1wte – EcENN + DNA
    
• EcoRI ENN
  • 1qc9 - EcENN
    
  • 1eri, 1ckq, 1cl8, 1qps – EcENN + DNA
    
  • 1qrh, 1qri, 2oxv - EcENN (mutant) + DNA
• EcoRII ENN
  • 1na6 – EcENN
    
  • 3hqf, 3hqg - EnENN + DNA
• EcoRV ENN
  • 1rve, 1az3 – EcENN
    
  • 1az4 - EcENN (mutant)
    
  • 2rve, 4rve, 1rva, 1rvb, 1rvc, 1az0, 1bsu, 1bua, 1bgb, 1rv5, 1b94, 1b95, 1eo3, 1eo4, 1eon, 1eoo, 1eop, 2b0d, 2b0e - EcENN + DNA
    
  • 1bss, 1b96, 1b97, 1stx, 1suz, 1sx5, 1sx8, 2ge5 - EcENN (mutant) + DNA
• BamHI ENN
  • 1bam – BaENN – Bacillus amyloliquefaciens
    
  • 1bhm, 3bam, 2bam, 1esg - BaENN + DNA
• FokI ENN
  • 1fok – PoENN + DNA – Planomicrobium okeanokoites
    
  • 2fok – PoENN
• PvuII ENN
  • 3pvi - PvENN (mutant) + DNA – Proteus vulgaris
    
  • 1k0z, 1h56, 3ksk - PvENN
    
  • 1ni0 - PvENN (mutant)
    
  • 2pvi, 1eyu, 1f0o - PvENN + DNA
• tRNA-splicing ENN
  • 1a79, 1a76, 1a77 - MjENN – Methanocaldococcus jannaschii
    
  • 2cv8 - ENN – Sulfolobus tokodaii
    
  • 2gw6 – hENN subunit sen15 – NMR
    
  • 2gjw - AfENN + RNA – Archaeoglobus fulgidus
    
  • 1r0v, 1r11 – AfENN
  • 2ohc, 2ohe - TaENN – Thermoplasma acidophilum
    
  • 2zyz – ENN – Pyrobaculum aerophilum
    
  • 3iey - ENN + NEQ261 – Nanoarchaeum equitans
    
  • 3ajv - ApENN (mutant) – Aeropyrum pernix
    
  • 3p1y - ApENN /AfENN
    
  • 3p1z - ApENN + protein
• VSR ENN
  • 1vsr – EcENN
    
  • 1cw0 - EcENN + DNA
• BglI ENN
  • 1dmu, 1d2i – BsENN + DNA
    
  • 1dfm - BsENN (mutant) + DNA
• BglII ENN
  • 1es8 - BsENN
• MunI ENN
  • 1d02 - ENN (mutant) + DNA - Mycoplasma
• Sm ENN
  • 1smn, 1qae, 1ql0, 1g8t – ENN – Serratia marcescens
• NaeI ENN
  • 1ev7 - LaENN – Lechevalieria aerocolonigenes
    
  • 1iaw - LaENN + DNA
• NgoMIV ENN
  • 1fiu, 4abt - ENN + DNA – Neisseria gonorrheae
• NEI ENN
  • 1tdh - hENN
• BsoBI ENN
  • 1dc1 - GsENN + DNA
• Bse634I ENN
  • 1knv – GsENN
    
  • 3v1z – GsENN + DNA
    
  • 3v20, 3v21 - GsENN (mutant) + DNA
• HincII ENN
  • 1kc6, 1tw8, 1xhu, 1xhv, 1tx3, 2gie - HiENN + DNA – Haemophilus influenza
    
  • 2gig, 2gih, 2gii, 2gij, 3e3y, 3e40, 3e41, 3e42, 3e43, 3e44, 3e45, 3ebc - HiENN (mutant) + DNA
    
  • 2aud – HiENN
• HinDIII ENN
  • 2e52, 3a4k - HiENN + DNA
• HinP1I ENN
  • 1ynm – HiENN
    
  • 2fkc, 2fkh, 2fl3, 2flc - HiENN + DNA
• Flap ENN
  • 1mc8 - PhENN (mutant)
    
  • 3ory– ENN – Desulfurococcus amylolyticus
    
  • 3q8k, 3q8l, 3q8m - hENN + DNA
    
  • 1rxv, 1rxw - AfENN + DNA
    
  • 1ul1 - hENN + PCNA
    
  • 2izo - SsENN + PCNA – Sulfolobus solfataricus
    
  • 1a76, 1a77 - MjENN
    
  • 1b43 – PfENN – Pyrococcus furiosus
    
  • 1rxz - AfENN + PCNA
    
  • 4wa8 – ENN – Methanopyrus kandleri
    
• DNA mismatch ENN
  • 1odg - EcENN + DNA
    
  • 1h7u – hENN
    
• Vvn ENN
  • 1ouo – VvENN – Vibrio vulnificus
    
  • 1oup, 2ivk - VvENN + DNA
• BfiI ENN
  • 2c1l – ENN – Bacillus firmus
• SfiI ENN
  • 2ezv, 2f03 – ENN + DNA – synthetic
• Ecl18kI ENN
  • 2fqz, 2gb7 – ENN + DNA – Enterobacter cloacae
• SdaI ENN
  • 2ixs – ENN – Streptomyces diastaticus
• PabI ENN
  • 2dvy – ENN – Pyrococcus abyssi
• PspGI ENN
  • 3bm3 – ENN – Pyrococcus
• NHN ENN
  • 2qgp, 4h6d – ENN – Geobacter metallireducens
• UV damage ENN
  • 2j6v, 3bzg, 3c0s – TtENN
    
  • 3bzj, 3c0l, 3c0q - TtENN (mutant)
    
  • 3tc3 - SaENN
    
  • 4gle - SaENN + DNA
    
• NotI ENN
  • 3bvq - NoENN – Nocardia otitidiscaviarum
    
  • 3c25 - NoENN + DNA
• BpujI ENN
  • 2vla, 3s1s – ENN – Bacillus pumilus
• Sau3AI ENN
  • 2reu – ENN C terminal – Staphylococcus aureus
• HpyI ENN
  • 3fc3, 3gox – HpENN99 + DNA – Helicobacter pylori
    
  • 3or3 – HpENN88 + DNA
• PacI ENN
  • 3ldy, 3m7k - PaENN + DNA – Psdeudomonas alcaligenes
• Crossover junction ENN
  • 2kpf - ENN – mouse
    
  • 2ziw, 2zix, 2ziu – hENN EME1 + Mus81
    
  • 2ziv – hENN EME1 (mutant) + Mus81
    
  • 4p0p, 4p0q, 4p0r, 4p0s – hENN EME1 + Mus81 + DNA
    
• OkrAI ENN
  • 3odh - ENN + DNA – Oceanobacter kriegii
• BspD6I ENN
  • 2ewf - ENN – Bacillus
• ThaI ENN
  • 3ndh - TaENN + DNA
• Xpf ENN
  • 1z00, 2a1j - hENN C terminal + DNA excision repair protein
    
  • 2aq0 – hENN residues 823-905 – NMR
    
  • 2kn7 – hENN residues 823-905 + DNA – NMR
    
  • 2bgw - ApENN + DNA
    
  • 2bhn - ApENN
    
• Intron-encoded endonuclease
• I-PpoI ENN
  • 1a74, 1ipp, 1a73, 1cz0 - PpENN + DNA – Physarum polycephalum
    
  • 1cyq, 1evw, 2o6m - PpENN (mutant) + DNA
    
  • 1evx - PpENN
• I-CreI ENN
  • 1bp7, 1g9y, 1g9z, 1n3e, 1n3f, 2vbj, 2vbl, 2vbn, 2vbo, 4aqu, 4aqx - CrENN + DNA
    
  • 1u0c, 1u0d, 1t9i, 1t9j, 2i3p, 2i3q, 4aab, 4aad, 4aae, 4aaf, 4aag - CrENN (mutant) + DNA
    
  • 2o7m - CrENN
• I-CeuI ENN
  • 2ex5 - ENN (mutant) + DNA – Chlamydomonas eugametos
• I-DmoI ENN
  • 1b24, 2vs7, 2vs8, 4un7, 4un8, 4un9, 4una, 4unb, 4unc, 4ut0, 4d6n, 4d6o - DmENN + DNA – Desulfurococcus mobilis
    
  • 1mow – DmENN/CrENN + DNA
• I-AniI ENN
  • 1p8k, 2qoj, 3uvf - EnENN + DNA – Emericella nidulans
    
  • 3eh8 - EnENN (mutant) + DNA
• I-HmuI ENN
  • 1u3e - ENN + DNA – Bacillus phage spo1
• I-TevI ENN
  • 1i3j, 1t2t - T4ENN + DNA
    
  • 1ln0, 1mk0 – T4ENN (mutant)
• I-SceI ENN
  • 1dfa, 1ef0 – yENN – yeast
    
  • 1gpp – yENN (mutant)
    
  • 1lws, 1lwt, 1r7m, 3c0w, 3c0x, 3ool - yENN + DNA
    
  • 3oor - yENN (mutant) + DNA
• I-PkoII ENN
  • 2cw7, 2cw8 – ENN – Thermococcus kodakarensis
• I-MspI ENN
  • 1sa3, 1yfi, 2fld – ENN + DNA – Moraxella
• I-PfuI ENN
  • 1dq3 – PfENN
• I-Tsp061I ENN
  • 2dch – ENN – Thermoproteus
• I-Vdi141I ENN
  • 3e54 – ENN – Vulcanisaeta distribute
• I-MtuI ENN
  • 3ifj, 3igd - MtENN (mutant) – Mycobacterium tuberculosis
    
  • 2l8l - MtENN
• I-MsoI ENN
  • 1m5x, 3fd2 – MoENN + DNA – Monomastix
    
  • 3ko2 – MoENN (mutant) + DNA
• I-GzeMII ENN
  • 4efj – ENN + DNA – Gibberella zeae
• I-tRNA ENN
  • 4fz2 – MoENN – Candidatus micrarchaeum