Endonuclease: Difference between revisions
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**[[2abk]], [[1ako]] - EcENN – ''Escherichia coli''<br /> | **[[2abk]], [[1ako]] - EcENN – ''Escherichia coli''<br /> | ||
**[[1orn]], [[1orp]], [[1p59]] - GsENN + DNA – ''Geobacillus stearothermophilus'' | **[[1orn]], [[1orp]], [[1p59]] - GsENN + DNA – ''Geobacillus stearothermophilus''<br /> | ||
**[[4unf]] – DrENN-1 – ''Deinococcus radiodurans'' <br /> | |||
**[[4uob]] – DrENN-3 <br /> | |||
*ENN-IV | *ENN-IV | ||
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**[[4wj0]] – PhCas1 - ''Pyrococcus horikoshii''<br /> | **[[4wj0]] – PhCas1 - ''Pyrococcus horikoshii''<br /> | ||
**[[4xtk]] – TmCas1<br /> | **[[4xtk]] – TmCas1<br /> | ||
**[[5fcl]] – Cas1 - ''Pectobacterium atrosepticum''<br /> | |||
**[[4zkj]] - SpCas1 – ''Streptococcus pyogenes''<br /> | |||
**[[3oq2]] – Cas2 – ''Desulfovibrio vulgaris''<br /> | **[[3oq2]] – Cas2 – ''Desulfovibrio vulgaris''<br /> | ||
**[[4mak]] – EcCas2<br /> | **[[4mak]] – EcCas2<br /> | ||
**[[4p6i]], [[4qdl]] – EcCas1 + EcCas2<br /> | **[[4p6i]], [[4qdl]] – EcCas1 + EcCas2<br /> | ||
**[[5dlj]], [[5dqt]], [[5dqu]], [[5dqz]], [[5ds4]], [[5ds5]], [[5ds6]] – EcCas1 + EcCas2 + DNA<br /> | |||
**[[3s4l]] – MjCas3 – ''Methanocaldococcus jannaschii''<br /> | **[[3s4l]] – MjCas3 – ''Methanocaldococcus jannaschii''<br /> | ||
**[[4qqw]] – TfCas3 – ''Thermobifida fusca''<br /> | **[[4qqw]] – TfCas3 – ''Thermobifida fusca''<br /> | ||
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**[[4ilr]], [[3zfv]] – SsCas6 <br /> | **[[4ilr]], [[3zfv]] – SsCas6 <br /> | ||
**[[3i4h]] – PfCas6 - ''Pyrococcus furiosus''<br /> | **[[3i4h]] – PfCas6 - ''Pyrococcus furiosus''<br /> | ||
**[[5uz9]] – PaCsa5f + Cas7f + Cas8f + anti-crispr protein + RNA<br /> | |||
**[[3pkm]] – PfCas6 + RNA<br /> | **[[3pkm]] – PfCas6 + RNA<br /> | ||
**[[4dzd]] – EcCas6e<br /> | **[[4dzd]] – EcCas6e<br /> | ||
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**[[2xli]], [[2xlj]], [[2xlk]], [[4al7]] – PaCas6f (Csy4) + RNA <br /> | **[[2xli]], [[2xlj]], [[2xlk]], [[4al7]] – PaCas6f (Csy4) + RNA <br /> | ||
**[[4al5]], [[4al6]] - PaCas6f (Csy4) (mutant) + RNA <br /> | **[[4al5]], [[4al6]] - PaCas6f (Csy4) (mutant) + RNA <br /> | ||
**[[4cmp]], [[4cmq]] | **[[4qr0]], [[4qr1]], [[4cmp]], [[4cmq]] - SpCas9 <br /> | ||
**[[4oo8]], [[4un3]], [[4un4]], [[4un5]] - SpCas9 (Csn1) (mutant) + RNA + DNA<br /> | **[[4zt0]] - SpCas9 + RNA <br /> | ||
**[[4ogc]], [[4oge]] – Cas9 II-C – Actinomyces naeslundii<br /> | **[[4zt9]] - SpCas9 (mutant) + RNA <br /> | ||
**[[5f9r]] - SpCas9 + RNA + DNA<br /> | |||
**[[4oo8]], [[4un3]], [[4un4]], [[4un5]], [[5fw1]], [[5fw2]], [[5fw3]], [[5fq5]], [[5b2r]], [[5b2s]], [[5b2t]] - SpCas9 (Csn1) (mutant) + RNA + DNA<br /> | |||
**[[4ogc]], [[4oge]] – Cas9 II-C – ''Actinomyces naeslundii''<br /> | |||
**[[5x2h]], [[5x2g]] – Cas9 + RNA + DNA – ''Campylobacter jejuni''<br /> | |||
**[[5czz]] - SaCas9 (Csn1) + RNA + DNA - ''Staphylococcus aureus''<br /> | |||
**[[5axw]] - SaCas9 (Csn1) (mutant) + RNA + DNA <br /> | |||
**[[5b2o]], [[5b2p]], [[5b2q]] - FtCas9 (mutant) + RNA + DNA – ''Francisella tularensis''<br /> | |||
**[[3ung]], [[3ur3]], [[4doz]], [[4w8y]] – PfCas10 CMR2 subunit <br /> | **[[3ung]], [[3ur3]], [[4doz]], [[4w8y]] – PfCas10 CMR2 subunit <br /> | ||
**[[4h4k]] – PfCas10 CMR2+CMR3 subunits <br /> | **[[4h4k]] – PfCas10 CMR2+CMR3 subunits <br /> | ||
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**[[3toc]], [[3v7f]] – SpCsn2<br /> | **[[3toc]], [[3v7f]] – SpCsn2<br /> | ||
**[[3ps0]] – SsCsa2<br /> | **[[3ps0]] – SsCsa2<br /> | ||
**[[5wqe]] – AaCas C2C1 + RNA – ''Alicyclobacillus acidoterrestris''<br /> | |||
**[[5u34]] – AaCas C2C1 (mutant) + RNA <br /> | |||
**[[5u30]], [[5u31]], [[5u33]] – AaCas C2C1 + RNA + DNA<br /> | |||
**[[5kk5]], [[5b43]] – Cas Cpf1 + RNA + DNA – ''Acidaminococcus''<br /> | |||
*EcoKI ENN | *EcoKI ENN | ||
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**[[1rve]], [[1az3]] – EcENN<br /> | **[[1rve]], [[1az3]] – EcENN<br /> | ||
**[[1az4]] - EcENN (mutant) <br /> | **[[1az4]] - EcENN (mutant) <br /> | ||
**[[2rve]], [[4rve]], [[1rva]], [[1rvb]], [[1rvc]], [[1az0]], [[1bsu]], [[1bua]], [[1bgb]], [[1rv5]], [[1b94]], [[1b95]], [[1eo3]], [[1eo4]], [[1eon]], [[1eoo]], [[1eop]], [[2b0d]], [[2b0e]] - EcENN + DNA<br /> | **[[2rve]], [[4rve]], [[1rva]], [[1rvb]], [[1rvc]], [[1az0]], [[1bsu]], [[1bua]], [[1bgb]], [[1rv5]], [[1b94]], [[1b95]], [[1eo3]], [[1eo4]], [[1eon]], [[1eoo]], [[1eop]], [[2b0d]], [[2b0e]], [[4orj]], [[5hlk]] - EcENN + DNA<br /> | ||
**[[1bss]], [[1b96]], [[1b97]], [[1stx]], [[1suz]], [[1sx5]], [[1sx8]], [[2ge5]] - EcENN (mutant) + DNA | **[[1bss]], [[1b96]], [[1b97]], [[1stx]], [[1suz]], [[1sx5]], [[1sx8]], [[2ge5]] - EcENN (mutant) + DNA<br /> | ||
**[[5f8a]] - EcENN + DNA + Lu<br /> | |||
*BamHI ENN | *BamHI ENN | ||
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**[[3ory]]– ENN – ''Desulfurococcus amylolyticus''<br /> | **[[3ory]]– ENN – ''Desulfurococcus amylolyticus''<br /> | ||
**[[3q8k]], [[3q8l]], [[3q8m]] - hENN + DNA<br /> | **[[3q8k]], [[3q8l]], [[3q8m]] - hENN + DNA<br /> | ||
**[[5fv7]] - hENN + inhibitor<br /> | |||
**[[1rxv]], [[1rxw]] - AfENN + DNA<br /> | **[[1rxv]], [[1rxw]] - AfENN + DNA<br /> | ||
**[[1ul1]] - hENN + PCNA <br /> | **[[1ul1]] - hENN + PCNA <br /> | ||
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**[[3bm3]] – ENN – ''Pyrococcus'' | **[[3bm3]] – ENN – ''Pyrococcus'' | ||
* | *HNH ENN | ||
**[[4h6d]] – ENN – ''Geobacter metallireducens'' | **[[4h6d]] – ENN – ''Geobacter metallireducens''<br /> | ||
**[[5h0o]], [[5h0m]] – ENN – Geobacillus virus E2<br /> | |||
*UV damage ENN | *UV damage ENN | ||
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*BpujI ENN | *BpujI ENN | ||
**[[2vla]], [[3s1s]] – | **[[2vla]], [[3s1s]] – BpENN – ''Bacillus pumilus''<br /> | ||
**[[5hnf]], [[5hnh]], [[5hlt]] – BpENN + DNA <br /> | |||
*Sau3AI ENN | *Sau3AI ENN | ||
**[[2reu]] – | **[[2reu]] – SaENN C terminal – ''Staphylococcus aureus''<br /> | ||
**[[4pxg]] – SaENN (mutant) <br /> | |||
*HpyI ENN | *HpyI ENN | ||
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*Crossover junction ENN | *Crossover junction ENN | ||
**[[2kpf]] - | **[[2kpf]] - mENN – mouse<br /> | ||
**[[2ziw]], [[2zix]], [[2ziu]] – hENN EME1 + Mus81<br /> | **[[2ziw]], [[2zix]], [[2ziu]] – hENN EME1 + Mus81<br /> | ||
**[[2ziv]] – hENN EME1 (mutant) + Mus81<br /> | **[[2ziv]] – hENN EME1 (mutant) + Mus81<br /> | ||
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**[[2bgw]] - ApENN + DNA <br /> | **[[2bgw]] - ApENN + DNA <br /> | ||
**[[2bhn]] - ApENN <br /> | **[[2bhn]] - ApENN <br /> | ||
*Mazf3 ENN | |||
**[[5uct]], [[5cca]] - MtENN – ''Mycobacterium tuberculosis''<br /> | |||
*Muts2 ENN | |||
**[[4och]], [[4od6]] - DrENN SMR domain<br /> | |||
*Endoms ENN | |||
**[[5gkj]] – TkENN (mutant) – ''Thermococcus kodakarensis''<br /> | |||
**[[5gke]], [[5gkf]], [[5gkg]], [[5gkh]], [[5gki]] – TkENN (mutant) + DNA<br /> | |||
*ENN G | |||
**[[5gkc]], [[4qn0]] – CeENN (mutant) – ''Caenorhabdfitis elegans''<br /> | |||
**[[5gkp]] – CeENN (mutant) + DNA <br /> | |||
*ENN V | |||
**[[5aoy]] – mENN (mutant) <br /> | |||
**[[4xpu]] – EcENN <br /> | |||
*'''Intron-encoded endonuclease''' | *'''Intron-encoded endonuclease''' | ||
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*I-DmoI ENN | *I-DmoI ENN | ||
**[[1b24]], [[2vs7]], [[2vs8]], [[4un7]], [[4un8]], [[4un9]], [[4una]], [[4unb]], [[4unc]], [[4ut0]], [[4d6n]], [[4d6o]] - DmENN + DNA – ''Desulfurococcus mobilis''<br /> | **[[1b24]], [[2vs7]], [[2vs8]], [[4un7]], [[4un8]], [[4un9]], [[4una]], [[4unb]], [[4unc]], [[4ut0]], [[4d6n]], [[4d6o]], [[5ak9]], [[5a0w]] - DmENN + DNA – ''Desulfurococcus mobilis''<br /> | ||
**[[5akf]], [[5akm]], [[5akn]] - DmENN (mutant) + DNA <br /> | |||
**[[1mow]] – DmENN/CrENN + DNA | **[[1mow]] – DmENN/CrENN + DNA | ||
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**[[1dfa]], [[1ef0]] – yENN – yeast<br /> | **[[1dfa]], [[1ef0]] – yENN – yeast<br /> | ||
**[[1gpp]] – yENN (mutant) <br /> | **[[1gpp]] – yENN (mutant) <br /> | ||
**[[1lws]], [[1lwt]], [[1r7m]], [[3c0w]], [[3c0x]], [[3ool]] - yENN + DNA<br /> | **[[1lws]], [[1lwt]], [[1r7m]], [[3c0w]], [[3c0x]], [[3ool]], [[5a0m]] - yENN + DNA<br /> | ||
**[[3oor]] - yENN (mutant) + DNA | **[[3oor]] - yENN (mutant) + DNA | ||
*I-PkoII ENN | *I-PkoII ENN | ||
**[[2cw7]], [[2cw8]] – | **[[2cw7]], [[2cw8]] – TkENN | ||
*I-MspI ENN | *I-MspI ENN | ||
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*I-MtuI ENN | *I-MtuI ENN | ||
**[[3ifj]], [[3igd]] - MtENN (mutant) | **[[3ifj]], [[3igd]] - MtENN (mutant) <br /> | ||
**[[2l8l]] - MtENN | **[[2l8l]] - MtENN | ||
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**[[4fz2]] – MoENN – ''Candidatus micrarchaeum''<br /> | **[[4fz2]] – MoENN – ''Candidatus micrarchaeum''<br /> | ||
*I-Cvui ENN | |||
**[[5a78]], [[5a72]], [[5a74]], [[5a77]], [[5a78]] – ENN + DNA – ''Chlorella vulgaris''<br /> | |||
}} | }} | ||
== References == | == References == | ||
Revision as of 13:16, 30 April 2017
FunctionEndonuclease (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[1]. The Cas ENN proteins are part of CRISPR/Cas prokaryotic immune system which confers protection from foreign genetic elements like viruses. The CRISPR (Clustered 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[2]. For more details see
Intron-encoded ENN or homing ENN are encoded by genes with mobile, self-splicing introns. They promote the movement of DNA sequences from one chromosome location to another[3]. See also
RelevanceSickle cell anemia is caused by mutation in the recognition site of MstII ENN. DiseaseMutation in UV-specific ENN causes Xeroderma pigmentosa. Mutations in tRNA-splicing ENN cause pontocerebellar hypoplasia. Structural highlights
(PDB code 1rva). |
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3D structures of endonuclease3D structures of endonuclease
Updated on 30-April-2017
ReferencesReferences
- ↑ 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