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Endonuclease
From Proteopedia
(Difference between revisions)
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**[[1bix]] - hENN – human<br /> | **[[1bix]] - hENN – human<br /> | ||
| + | **[[5um9]], [[5kse]], [[5k97]] – hENN (mutant) + DNA <br /> | ||
**[[1cfr]] – ENN – ''Citrobacter freundii''<br /> | **[[1cfr]] – ENN – ''Citrobacter freundii''<br /> | ||
**[[1af5]] - CrENN – ''Chlamydomonas reinhardtii''<br /> | **[[1af5]] - CrENN – ''Chlamydomonas reinhardtii''<br /> | ||
| Line 126: | Line 127: | ||
**[[4q2c]] - TteCas3 – ''Thermobaclum terrenum''<br /> | **[[4q2c]] - TteCas3 – ''Thermobaclum terrenum''<br /> | ||
**[[4q2d]] - TteCas3 + ATP<br /> | **[[4q2d]] - TteCas3 + ATP<br /> | ||
| - | **[[3i4h]] – Cas4 - ''Pyrobaculum calidifontis''<br / | + | **[[3i4h]] – Cas4 - ''Pyrobaculum calidifontis''<br / |
**[[4qr0]], [[4qr1]] - SpCas9 (Csn1) – ''Streptococcus pyogenes''<br /> | **[[4qr0]], [[4qr1]] - SpCas9 (Csn1) – ''Streptococcus pyogenes''<br /> | ||
**[[4ilr]], [[3zfv]] – SsCas6 <br /> | **[[4ilr]], [[3zfv]] – SsCas6 <br /> | ||
**[[3i4h]] – PfCas6 - ''Pyrococcus furiosus''<br /> | **[[3i4h]] – PfCas6 - ''Pyrococcus furiosus''<br /> | ||
**[[4dzd]] – EcCas6e<br /> | **[[4dzd]] – EcCas6e<br /> | ||
| + | **[[4qr0]], [[4qr1]] - SpCas9 (Csn1) – ''Streptococcus pyogenes''<br /> | ||
**[[4qr0]], [[4qr1]], [[4cmp]], [[4cmq]] - SpCas9 <br /> | **[[4qr0]], [[4qr1]], [[4cmp]], [[4cmq]] - SpCas9 <br /> | ||
**[[4ogc]], [[4oge]] – Cas9 II-C – ''Actinomyces naeslundii''<br /> | **[[4ogc]], [[4oge]] – Cas9 II-C – ''Actinomyces naeslundii''<br /> | ||
| Line 150: | Line 152: | ||
*Cas ENN complex with RNA and DNA | *Cas ENN complex with RNA and DNA | ||
| - | **[[5dlj]], [[5dqt]], [[5dqu]], [[5dqz]], [[5ds4]], [[5ds5]], [[5ds6]] – EcCas1 + EcCas2 + DNA<br /> | + | **[[5dlj]], [[5dqt]], [[5dqu]], [[5dqz]], [[5ds4]], [[5ds5]], [[5ds6]], [[5vvl]], [[5vvk]], [[5vvj]] – EcCas1 + EcCas2 + DNA<br /> |
| + | **[[5wfe]] – EcCas1 + EcCas2 + IHF-a + IHF-b + DNA<br /> | ||
| + | **[[5xvp]], [[5xvo]], [[5xvn]] – Cas1 + Cas2 + DNA – ''Enterococcus faecalis''<br /> | ||
**[[4ill]], [[4ilm]] – SsCas6 + RNA - ''Sulfolobus solfataricus''<br /> | **[[4ill]], [[4ilm]] – SsCas6 + RNA - ''Sulfolobus solfataricus''<br /> | ||
**[[5uz9]] – PaCsa5f + Cas7f + Cas8f + anti-crispr protein + RNA<br /> | **[[5uz9]] – PaCsa5f + Cas7f + Cas8f + anti-crispr protein + RNA<br /> | ||
| + | **[[6b48]], [[6b47]], [[6b46]], [[6b45]] – PaCsa6 + Csy1 + Csy2 + Csy3 + anti-crispr protein + RNA<br /> | ||
| + | **[[6b44]] – PaCsa6 + Csy1 + Csy2 + Csy3 + anti-crispr protein + DNA<br /> | ||
**[[3pkm]] – PfCas6 + RNA<br /> | **[[3pkm]] – PfCas6 + RNA<br /> | ||
**[[2y8w]], [[2y8y]], [[3qrp]], [[3qrq]], [[2qrr]] – TtCas6e (Cse3) + RNA<br /> | **[[2y8w]], [[2y8y]], [[3qrp]], [[3qrq]], [[2qrr]] – TtCas6e (Cse3) + RNA<br /> | ||
| Line 160: | Line 166: | ||
**[[4zt9]] - SpCas9 (mutant) + RNA <br /> | **[[4zt9]] - SpCas9 (mutant) + RNA <br /> | ||
**[[5f9r]] - SpCas9 + RNA + DNA<br /> | **[[5f9r]] - SpCas9 + RNA + DNA<br /> | ||
| - | **[[4oo8]], [[4un3]], [[4un4]], [[4un5]], [[5fw1]], [[5fw2]], [[5fw3]], [[5fq5]], [[5b2r]], [[5b2s]], [[5b2t]] - SpCas9 (Csn1) (mutant) + RNA + DNA<br /> | + | **[[4oo8]], [[4un3]], [[4un4]], [[4un5]], [[5fw1]], [[5fw2]], [[5fw3]], [[5fq5]], [[5b2r]], [[5b2s]], [[5b2t]], [[5y36]] - SpCas9 (Csn1) (mutant) + RNA + DNA<br /> |
**[[5x2h]], [[5x2g]] – Cas9 + RNA + DNA – ''Campylobacter jejuni''<br /> | **[[5x2h]], [[5x2g]] – Cas9 + RNA + DNA – ''Campylobacter jejuni''<br /> | ||
**[[5czz]] - SaCas9 (Csn1) + RNA + DNA - ''Staphylococcus aureus''<br /> | **[[5czz]] - SaCas9 (Csn1) + RNA + DNA - ''Staphylococcus aureus''<br /> | ||
| Line 166: | Line 172: | ||
**[[5b2o]], [[5b2p]], [[5b2q]] - FtCas9 (mutant) + RNA + DNA – ''Francisella tularensis''<br /> | **[[5b2o]], [[5b2p]], [[5b2q]] - FtCas9 (mutant) + RNA + DNA – ''Francisella tularensis''<br /> | ||
**[[4u7u]] – EcCasA (Cse1) + CasB + CasC + CasD + CasE + RNA<br /> | **[[4u7u]] – EcCasA (Cse1) + CasB + CasC + CasD + CasE + RNA<br /> | ||
| - | **[[4qyz]] – EcCasA (Cse1) + CasB + CasC + CasD + CasE + RNA + DNA<br /> | + | **[[4qyz]], [[5h9f]], [[5h9e]] – EcCasA (Cse1) + CasB + CasC + CasD + CasE + RNA + DNA<br /> |
**[[5wqe]] – AaCas C2C1 + RNA – ''Alicyclobacillus acidoterrestris''<br /> | **[[5wqe]] – AaCas C2C1 + RNA – ''Alicyclobacillus acidoterrestris''<br /> | ||
**[[5u34]] – AaCas C2C1 (mutant) + RNA <br /> | **[[5u34]] – AaCas C2C1 (mutant) + RNA <br /> | ||
**[[5u30]], [[5u31]], [[5u33]] – AaCas C2C1 + RNA + DNA<br /> | **[[5u30]], [[5u31]], [[5u33]] – AaCas C2C1 + RNA + DNA<br /> | ||
| - | **[[5kk5]], [[5b43]] – | + | **[[5kk5]], [[5b43]] – AcCas Cpf1 + RNA + DNA – ''Acidaminococcus''<br /> |
| + | **[[5xh7]], [[5xh6]] – AcCas Cpf1 (mutant) + RNA + DNA <br /> | ||
| + | **[[5ng6]] – FtCas Cpf1 + RNA <br /> | ||
| + | **[[5nfv]], [[5mga]] – FtCas Cpf1 + RNA + DNA <br /> | ||
*EcoKI ENN | *EcoKI ENN | ||
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**[[1fok]] – PoENN + DNA – ''Planomicrobium okeanokoites''<br /> | **[[1fok]] – PoENN + DNA – ''Planomicrobium okeanokoites''<br /> | ||
**[[2fok]] – PoENN | **[[2fok]] – PoENN | ||
| + | |||
| + | *LAGLIDAD ENN | ||
| + | |||
| + | **[[4z1x]] – fyENN + DNA – fission yeast<br /> | ||
| + | **[[5e5o]] – ENN + DNA – ''Sordaria macropora''<br /> | ||
*PvuII ENN | *PvuII ENN | ||
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**[[1odg]] - EcENN + DNA<br /> | **[[1odg]] - EcENN + DNA<br /> | ||
**[[1h7u]] – hENN<br /> | **[[1h7u]] – hENN<br /> | ||
| + | **[[5u5r]] – hENN + importin<br /> | ||
*Vvn ENN | *Vvn ENN | ||
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**[[1ouo]] – VvENN – ''Vibrio vulnificus''<br /> | **[[1ouo]] – VvENN – ''Vibrio vulnificus''<br /> | ||
**[[1oup]], [[2ivk]] - VvENN + DNA | **[[1oup]], [[2ivk]] - VvENN + DNA | ||
| + | |||
| + | *Structure-specific ENN | ||
| + | |||
| + | **[[4xm5]] – CgENN SLX1 subunit – ''Candida glabrata''<br /> | ||
| + | **[[4xlg]] – CgENN SLX1 (mutant)+SLX4 subunits<br /> | ||
| + | **[[4zdt]] – fyENN SLX1+SLX4 subunits<br /> | ||
| + | **[[4zou]] – hENN SLX4 subunit BTB domain<br /> | ||
| + | **[[4uyi]] – hENN SLX4 subunit BTB domain (mutant)<br /> | ||
*BfiI ENN | *BfiI ENN | ||
| Line 343: | Line 366: | ||
**[[4h6d]] – ENN – ''Geobacter metallireducens''<br /> | **[[4h6d]] – ENN – ''Geobacter metallireducens''<br /> | ||
**[[5h0o]], [[5h0m]] – ENN – Geobacillus virus E2<br /> | **[[5h0o]], [[5h0m]] – ENN – Geobacillus virus E2<br /> | ||
| + | **[[5cxr]] – ENN + pyrazole derivative – Influenza virus <br /> | ||
*UV damage ENN | *UV damage ENN | ||
| Line 405: | Line 429: | ||
**[[5uct]], [[5cca]] - MtENN – ''Mycobacterium tuberculosis''<br /> | **[[5uct]], [[5cca]] - MtENN – ''Mycobacterium tuberculosis''<br /> | ||
| + | |||
| + | *Vapc ENN | ||
| + | |||
| + | **[[5wzf]], [[5wz4]] – MtENN-20 <br /> | ||
| + | **[[5ed0]], [[5ecy]] – SfENN – ''Shigella flexneri''<br /> | ||
| + | **[[5ecy]], [[5ecw]], [[5ecd]] – SfENN (mutant)<br /> | ||
*Muts2 ENN | *Muts2 ENN | ||
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**[[5gkc]], [[4qn0]] – CeENN (mutant) – ''Caenorhabdfitis elegans''<br /> | **[[5gkc]], [[4qn0]] – CeENN (mutant) – ''Caenorhabdfitis elegans''<br /> | ||
**[[5gkp]] – CeENN (mutant) + DNA <br /> | **[[5gkp]] – CeENN (mutant) + DNA <br /> | ||
| + | |||
| + | *ENN S | ||
| + | |||
| + | **[[5ybb]] – ENN + R-M system + DNA – ''Caldanaerobacter subterraneus'' <br /> | ||
*ENN V | *ENN V | ||
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**[[5aoy]] – mENN (mutant) <br /> | **[[5aoy]] – mENN (mutant) <br /> | ||
**[[4xpu]] – EcENN <br /> | **[[4xpu]] – EcENN <br /> | ||
| + | |||
| + | *Apurinic-apyrimidinic ENN | ||
| + | |||
| + | **[[5cfg]] – hENN <br /> | ||
| + | **[[5dff]], [[5dfh]], [[5dfi]], [[5dfj]], [[5dg0]], [[5wn5]], [[5wn4]], [[5wn3]], [[5wn2]], [[5wn1]], [[5wn0]] – hENN + DNA<br /> | ||
*'''Intron-encoded endonuclease''' | *'''Intron-encoded endonuclease''' | ||
| Line 445: | Line 484: | ||
*I-DmoI ENN | *I-DmoI ENN | ||
| - | **[[1b24]], [[2vs7]], [[2vs8]], [[4un7]], [[4un8]], [[4un9]], [[4una]], [[4unb]], [[4unc]], [[4ut0]], [[4d6n]], [[4d6o]], [[5ak9]], [[5a0w]] | + | **[[1b24]], [[2vs7]], [[2vs8]], [[4un7]], [[4un8]], [[4un9]], [[4una]], [[4unb]], [[4unc]], [[4ut0]], [[4d6n]], [[4d6o]], [[5ak9]], [[5a0w]], [[5o6g]], [[5o6i]] - DmENN + DNA – ''Desulfurococcus mobilis''<br /> |
**[[5akf]], [[5akm]], [[5akn]] - DmENN (mutant) + DNA <br /> | **[[5akf]], [[5akm]], [[5akn]] - DmENN (mutant) + DNA <br /> | ||
**[[1mow]] – DmENN/CrENN + DNA | **[[1mow]] – DmENN/CrENN + DNA | ||
Revision as of 08:09, 16 May 2018
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3D structures of endonuclease
Updated on 16-May-2018
References
- ↑ Nishino T, Morikawa K. Structure and function of nucleases in DNA repair: shape, grip and blade of the DNA scissors. Oncogene. 2002 Dec 16;21(58):9022-32. PMID:12483517 doi:http://dx.doi.org/10.1038/sj.onc.1206135
- ↑ Horvath P, Barrangou R. CRISPR/Cas, the immune system of bacteria and archaea. Science. 2010 Jan 8;327(5962):167-70. doi: 10.1126/science.1179555. PMID:20056882 doi:http://dx.doi.org/10.1126/science.1179555
- ↑ Flick KE, Jurica MS, Monnat RJ Jr, Stoddard BL. DNA binding and cleavage by the nuclear intron-encoded homing endonuclease I-PpoI. Nature. 1998 Jul 2;394(6688):96-101. PMID:9665136 doi:10.1038/27952
