Endonuclease 3D structures

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Current revision (10:15, 26 May 2025) (edit) (undo)
 
(12 intermediate revisions not shown.)
Line 14: Line 14:
**[[2vnd]] - VcENN (mutant) <br />
**[[2vnd]] - VcENN (mutant) <br />
**[[2pu3]] - VsENN – ''Vibrio salmonicida''
**[[2pu3]] - VsENN – ''Vibrio salmonicida''
 +
 +
*ENN-I pre-crRNA processing
 +
 +
**[[8dex]] – NvENN in C cascade complex + RNA – ''Nitratidesulfovibrio vulgaris'' – Cryo EM<br />
 +
**[[8dej]], [[8dfa]] – NvENN in C cascade complex + DNA – Cryo EM<br />
 +
**[[8dfo]] – NvENN in C cascade complex + AcrlC4 – Cryo EM<br />
 +
**[[8dfs]] – NvENN in C cascade complex + AcrlF2 – Cryo EM<br />
*ENN-II
*ENN-II
Line 19: Line 26:
**[[1pvi]], [[1pvu]] - ENN – ''Proteus vulgaris''<br />
**[[1pvi]], [[1pvu]] - ENN – ''Proteus vulgaris''<br />
**[[2wsh]] - T4ENN (mutant) - Enterobacteria phage T4<br />
**[[2wsh]] - T4ENN (mutant) - Enterobacteria phage T4<br />
-
**[[3w52]], [[4cwm]], [[4cxo]], [[4cxp]], [[4cxv]] – ENN – ''Arabidopsis thaliana''<br />
+
**[[3w52]], [[4cwm]], [[4cxo]], [[4cxp]], [[4cxv]] – AtENN – ''Arabidopsis thaliana''<br />
*ENN-III
*ENN-III
Line 25: Line 32:
**[[2abk]], [[1ako]] - EcENN – ''Escherichia coli''<br />
**[[2abk]], [[1ako]] - EcENN – ''Escherichia coli''<br />
**[[1orn]], [[1orp]], [[1p59]] - GsENN + DNA – ''Geobacillus stearothermophilus''<br />
**[[1orn]], [[1orp]], [[1p59]] - GsENN + DNA – ''Geobacillus stearothermophilus''<br />
-
**[[4unf]] – DrENN-1 – ''Deinococcus radiodurans'' <br />
+
**[[4l0k]], [[4unf]] – DrENN-1 – ''Deinococcus radiodurans'' <br />
 +
**[[8a5c]], [[8a5f]] – DrENN-1 (mutant)<br />
**[[4uob]] – DrENN-3 <br />
**[[4uob]] – DrENN-3 <br />
 +
**[[8a5g]] – DrENN-3 (mutant)<br />
*ENN-IV
*ENN-IV
-
**[[1qtw]] - EcENN <br />
+
**[[1qtw]], [[8rly]] - EcENN <br />
**[[2nqh]] - EcENN (mutant) <br />
**[[2nqh]] - EcENN (mutant) <br />
**[[1qum]] – EcENN + DNA<br />
**[[1qum]] – EcENN + DNA<br />
Line 36: Line 45:
**[[1xp3]] - ENN – ''Bacillus anthracis''<br />
**[[1xp3]] - ENN – ''Bacillus anthracis''<br />
**[[3aal]] - GkENN – ''Geobacillus kaustophilus''<br />
**[[3aal]] - GkENN – ''Geobacillus kaustophilus''<br />
-
**[[3aam]] - TtENN – ''Thermus thermophilus''
+
**[[3aam]] - TtENN – ''Thermus thermophilus''<br />
 +
**[[2x7v]], [[2x7w]] - TmENN - ''Thermotoga maritima'' <br />
 +
**[[8axy]] – SaENN - ''Staphylococcus aureus''
 +
**[[8edd]] – SaENN (mutant)
*ENN-V
*ENN-V
Line 71: Line 83:
**[[1k3x]], [[2ea0]], [[1k3w]], [[1k3x]], [[2ea0]], [[2opf]], [[2oq4]] - EcENN + DNA <br />
**[[1k3x]], [[2ea0]], [[1k3w]], [[1k3x]], [[2ea0]], [[2opf]], [[2oq4]] - EcENN + DNA <br />
**[[2opf]], [[2oq4]], [[6fbu]] - EcENN (mutant) + DNA
**[[2opf]], [[2oq4]], [[6fbu]] - EcENN (mutant) + DNA
 +
 +
*ENN-VIII-like 1 or NEIL1
 +
 +
**[[1tdh]], [[4nrv]], [[5itq]] – hENN<br />
 +
**[[5itr]], [[5itt]], [[5itu]], [[5itx]], [[5ity]], [[6lwa]], [[6lwb]], [[6lwc]], [[6lwd]], [[6lwf]], [[6lwf]], [[6lwg]], [[6lwh]], [[6lwi]], [[6lwj]], [[6lwl]], [[6lwk]], [[6lwm]], [[6lwn]], [[6lwo]], [[6lwp]], [[6lwq]], [[6lwr]], [[8ftj]] – hENN + DNA<br />
 +
 +
*ENN-VIII-like 3 or NEIL3
 +
 +
**[[7z5a]] – mENN + DNA<br />
 +
**[[8b9n]] – mENN + ssDNA<br />
*AP ENN
*AP ENN
Line 79: Line 101:
*Cas ENN
*Cas ENN
-
**[[1wj9]], [[4ej3]] – TtCas<br />
+
**[[1wj9]], [[4ej3]], [[6ke1]] – TtCas<br />
**[[4n06]] – AfCas1 - ''Archaeoglobus fulgidus'' <br />
**[[4n06]] – AfCas1 - ''Archaeoglobus fulgidus'' <br />
**[[3god]] – PaCas1 – ''Pseudomonas aeruginosa''<br />
**[[3god]] – PaCas1 – ''Pseudomonas aeruginosa''<br />
Line 89: Line 111:
**[[3oq2]] – Cas2 – ''Desulfovibrio vulgaris''<br />
**[[3oq2]] – Cas2 – ''Desulfovibrio vulgaris''<br />
**[[4mak]] – EcCas2<br />
**[[4mak]] – EcCas2<br />
 +
**[[6jhz]] – EcCas2 + peptide<br />
**[[4p6i]], [[4qdl]] – EcCas1 + EcCas2<br />
**[[4p6i]], [[4qdl]] – EcCas1 + EcCas2<br />
**[[6qy3]] – GsCas1 + EcCas2 + Csn2 – Cryo EM<br />
**[[6qy3]] – GsCas1 + EcCas2 + Csn2 – Cryo EM<br />
 +
**[[7cr6]], [[7cr8]] – Cas1 + Cas2 + DNA – ''Synechocystis''<br />
 +
**[[7ei1]] – PfCas1 + Cas2 - ''Pyrococcus furiosus''<br />
**[[3s4l]] – MjCas3 – ''Methanocaldococcus jannaschii''<br />
**[[3s4l]] – MjCas3 – ''Methanocaldococcus jannaschii''<br />
**[[4qqw]] – TfCas3 – ''Thermobifida fusca''<br />
**[[4qqw]] – TfCas3 – ''Thermobifida fusca''<br />
Line 98: Line 123:
**[[4q2c]] - TteCas3 – ''Thermobaclum terrenum''<br />
**[[4q2c]] - TteCas3 – ''Thermobaclum terrenum''<br />
**[[4q2d]] - TteCas3 + ATP<br />
**[[4q2d]] - TteCas3 + ATP<br />
 +
**[[8zns]] - NlCas3 – ''Neisseria lactamica''<br />
**[[3i4h]] – Cas4 - ''Pyrobaculum calidifontis''<br />
**[[3i4h]] – Cas4 - ''Pyrobaculum calidifontis''<br />
**[[6njy]] – Cas6 - ''Mahella australiensis''<br />
**[[6njy]] – Cas6 - ''Mahella australiensis''<br />
**[[4qr0]], [[4qr1]], [[6o56]] - SpCas9 (Csn1) – ''Streptococcus pyogenes''<br />
**[[4qr0]], [[4qr1]], [[6o56]] - SpCas9 (Csn1) – ''Streptococcus pyogenes''<br />
 +
**[[7vk9]] - SpCas9 (mutant)<br />
 +
**[[8sca]] - SpCas9 Rec3 domain 497-713<br />
 +
**[[8h4u]] - TcCas9 – ''Thermoclostridium caenicola'' – Cryo EM<br />
 +
**[[7mpz]] - GsCas9 HNH nuclease domain<br />
 +
**[[8f43]] - GsCas9 HNH nuclease domain (mutant)<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 />
+
**[[7jzx]] – PaCas6f in crispr-Cas surveillance complex – Cryo EM<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 112: Line 143:
**[[3w2w]] – PfCas10 CMR2+CMR3 subunits + ATP<br />
**[[3w2w]] – PfCas10 CMR2+CMR3 subunits + ATP<br />
**[[4gkf]] – PfCas10 CMR5 subunit<br />
**[[4gkf]] – PfCas10 CMR5 subunit<br />
 +
**[[6w62]] – Cas12i + RNA – ''Lachnospiraceae bacterium'' – Cryo EM<br />
**[[4an8]], [[4f3e]] – TtCasA (Cse1)<br />
**[[4an8]], [[4f3e]] – TtCasA (Cse1)<br />
**[[4h3t]] - CasA (Cse1) – ''Acidimicrobium ferrooxidans''<br />
**[[4h3t]] - CasA (Cse1) – ''Acidimicrobium ferrooxidans''<br />
Line 126: Line 158:
**[[5dlj]], [[5dqt]], [[5dqu]], [[5dqz]], [[5ds4]], [[5ds5]], [[5ds6]], [[5vvl]], [[5vvk]], [[5vvj]] – 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 />
**[[5wfe]] – EcCas1 + EcCas2 + IHF-a + IHF-b + DNA<br />
-
**[[5xvp]], [[5xvo]], [[5xvn]] – Cas1 + Cas2 + DNA – ''Enterococcus faecalis''<br />
+
**[[5xvp]], [[5xvo]], [[5xvn]] – Cas1 + Cas2 + DNA – Enterococcus faecalis<br />
 +
**[[7cr6]], [[7cr8]] – Cas1 + Cas2 + DNA – Synechocystis<br />
 +
**[[8pk1]] – StCas1 + Cas2 + DNA – Streptococcus thermophilus<br />
 +
**[[8hi1]], [[8q2n]] – StCas1 + Cas2 + DNA – Cryo EM<br />
 +
**[[8flj]] – PaCas1 + Cas2 + DNA – Cryo EM<br />
**[[6qxt]], [[6qxf]] – GsCas1 (mutant) + EcCas2 + Csn2 + DNA – Cryo EM<br />
**[[6qxt]], [[6qxf]] – GsCas1 (mutant) + EcCas2 + Csn2 + DNA – Cryo EM<br />
**[[6kdv]] – TtCas1 + DNA <br />
**[[6kdv]] – TtCas1 + DNA <br />
-
**[[6opm]] – Cas1 + DNA – ''Methanosarcina mazei''<br />
+
**[[6opm]] – Cas1 + DNA – Methanosarcina mazei<br />
 +
**[[7mi9]] – GsuCas1 + Cas2 + DNA – Geobacter sulfurreducens<br />
 +
**[[7mi5]], [[7mid]] – GsuCas1 + Cas2 + Cas4 + DNA <br />
 +
**[[7mi4]], [[7mib]] – GsuCas1 + Cas2 + Cas4 + DNA – Cryo EM<br />
 +
**[[8d3l]], [[8d3m]], [[8d3p]], [[8d3q]] – Cas1 + Cas2 + Cas4 + DNA – Alkalihalobacillus halodurans – Cryo EM<br />
 +
**[[8g9u]] – NlCas3 + Csd1 + Csd2 + Csy3 + pre-crrna processing ENN + RNA + DNA – Cryo EM<br />
**[[4ill]], [[4ilm]] – SsCas6 + RNA - ''Sulfolobus solfataricus''<br />
**[[4ill]], [[4ilm]] – SsCas6 + RNA - ''Sulfolobus solfataricus''<br />
-
**[[5uz9]] – PaCsa5f + Cas7f + Cas8f + anti-crispr protein + RNA - Cryo EM<br />
+
**[[5uz9]] – PaCsa5f + Cas7f + Cas8f + anti-crispr protein + RNA – Cryo EM<br />
-
**[[6b48]], [[6b47]], [[6b46]], [[6b45]] – PaCsa6 + Csy1 + Csy2 + Csy3 + anti-crispr protein + RNA - Cryo EM<br />
+
**[[6b48]], [[6b47]], [[6b46]], [[6b45]] – PaCsa6 + Csy1 + Csy2 + Csy3 + anti-crispr protein + RNA – Cryo EM<br />
-
**[[6b44]] – PaCsa6 + Csy1 + Csy2 + Csy3 + anti-crispr protein + DNA - Cryo EM<br />
+
**[[6b44]] – PaCsa6 + Csy1 + Csy2 + Csy3 + anti-crispr protein + DNA – Cryo EM<br />
-
**[[6ne0]] – PaCsa6/Csy4 + Csy1 + Csy2 + Csy3 + DNA + RNA – Cryo EM<br />
+
**[[6ne0]] – PaCas6/Csy4 + Csy1 + Csy2 + Csy3 + DNA + RNA – Cryo EM<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 143: Line 184:
**[[6vqx]] – PaCas6f (Csy4) + ACRF6 + Cys1 + Csy2 + Csy3 + RNA – Cryo EM<br />
**[[6vqx]] – PaCas6f (Csy4) + ACRF6 + Cys1 + Csy2 + Csy3 + RNA – Cryo EM<br />
**[[4al5]], [[4al6]] - PaCas6f (Csy4) (mutant) + RNA <br />
**[[4al5]], [[4al6]] - PaCas6f (Csy4) (mutant) + RNA <br />
-
**[[4zt0]] - SpCas9 + RNA <br />
+
**[[4zt0]], [[7ox8]], [[7ox9]] - SpCas9 + RNA <br />
**[[4zt9]] - SpCas9 (mutant) + RNA <br />
**[[4zt9]] - SpCas9 (mutant) + RNA <br />
-
**[[5f9r]], [[6k4p]], [[6k4q]], [[6o0x]], [[6o0y]], [[6o0z]] - SpCas9 + RNA + DNA<br />
+
**[[7qqo]], [[7qqp]], [[7qqq]], [[7qqr]], [[7qqs]], [[7qqt]], [[7qqu]], [[7qqv]], [[7qqw]], [[7qqx]], [[7qqz]], [[7qr0]], [[7qr1]], [[7qr5]], [[7qr7]], [[7qr8]], [[7s4u]], [[7s4v]],[[7z4c]], [[7z4d]], [[7z4e]], [[7z4g]], [[7z4h]], [[7z4i]], [[7z4j]], [[7z4k]], [[7z4l]], [[8t79]] - SpCas9 + DNA <br />
-
**[[4oo8]], [[4un3]], [[4un4]], [[4un5]], [[5fw1]], [[5fw2]], [[5fw3]], [[5fq5]], [[5b2r]], [[5b2s]], [[5b2t]], [[5y36]], [[6ia6]], [[6k3z]], [[6k4s]], [[6k4u]], [[6k57]] - SpCas9 (Csn1) (mutant) + RNA + DNA<br />
+
**[[8t7s]], [[8u3y]] - SpCas9 + DNA – Cryo EM<br />
 +
**[[5f9r]], [[6k4p]], [[6k4q]], [[6o0x]], [[6o0y]], [[6o0z]], [[7ox7]], [[7oxa]], [[7s36]], [[7s37]], [[7s38]], [[7s3h]], [[7s4x]], [[7zo1]], [[8kah]], [[8kai]], [[8kaj]], [[8kak]], [[8kal]], [[8kam]] - SpCas9 + RNA + DNA<br />
 +
**[[8kag]], [[9b2k]], [[9cgu]] - SpCas9 + RNA – Cryo EM<br />
 +
**[[7v59]], [[8fzt]], [[8g1i]], [[8spq]], [[8sq9]], [[8srs]], [[8t6o]], [[8t6p]], [[8t6s]], [[8t6t]], [[8t6x]], [[8t6y]], [[8t76]], [[8t77]], [[8t78]], [[8t81]], [[8tzz]], [[8wus]], [[8wut]], [[8wuu]], [[8wuv]], [[8ygj]], [[9c9p]] - SpCas9 + RNA + DNA – Cryo EM<br />
 +
**[[8yny]] - SpCas9 + RNA + DNA + nucleosome – Cryo EM<br />
 +
**[[4oo8]], [[4un3]], [[4un4]], [[4un5]], [[5fw1]], [[5fw2]], [[5fw3]], [[5fq5]], [[5b2r]], [[5b2s]], [[5b2t]], [[5y36]], [[6ai6]], [[6k3z]], [[6k4s]], [[6k4u]], [[6k57]] - SpCas9 (Csn1) (mutant) + RNA + DNA<br />
**[[5xbl]] - SpCas9 + associated protein + RNA <br />
**[[5xbl]] - SpCas9 + associated protein + RNA <br />
**[[6ifo]] - SpCas9 + AcriiA2 + RNA <br />
**[[6ifo]] - SpCas9 + AcriiA2 + RNA <br />
**[[5vw1]] - SpCas9 + AcriiA4 + RNA <br />
**[[5vw1]] - SpCas9 + AcriiA4 + RNA <br />
**[[6mcc]], [[5vzl]], [[6mcb]] - SpCas9 + AcriiA4 + RNA – Cryo EM<br />
**[[6mcc]], [[5vzl]], [[6mcb]] - SpCas9 + AcriiA4 + RNA – Cryo EM<br />
-
**[[5vgb]] - NmCas9 + AcriiC1 – ''Neisseria meningitidis'' <br />
+
**[[8ye6]] - SpCas9 + A32 + RNA – Cryo EM<br />
 +
**[[6vpc]] - SpCas9 + TADA-8E + RNA + DNA<br />
 +
**[[5vgb]], [[8if0]] - NmCas9 + AcriiC1 – Neisseria meningitidis <br />
**[[6jdx]], [[6jdj]], [[6j9m]] - NmCas9 + AcriiC2 <br />
**[[6jdx]], [[6jdj]], [[6j9m]] - NmCas9 + AcriiC2 <br />
-
**[[6j9n]] - NmCas9 + AcriiC3 <br />
+
**[[6j9n]], [[6jhw]] - NmCas9 + AcriiC3 <br />
**[[6jdq]] - NmCas9 + RNA <br />
**[[6jdq]] - NmCas9 + RNA <br />
**[[6jdv]], [[6je3]], [[6jfu]], [[6kc8]] - NmCas9 + RNA + DNA<br />
**[[6jdv]], [[6je3]], [[6jfu]], [[6kc8]] - NmCas9 + RNA + DNA<br />
**[[6kc7]] - NmCas9 (mutant) + RNA + DNA<br />
**[[6kc7]] - NmCas9 (mutant) + RNA + DNA<br />
**[[6je9]] - NmCas9 + RNA + AcriiC3<br />
**[[6je9]] - NmCas9 + RNA + AcriiC3<br />
 +
**[[8ja0]] - NmCas9 + RNA + AcriiC4 – Cryo EM<br />
 +
**[[8hj4]] - NmCas9 + RNA + AcriiC5 – Cryo EM<br />
**[[6je4]] - NmCas9 + RNA + DNA + AcriiC3<br />
**[[6je4]] - NmCas9 + RNA + DNA + AcriiC3<br />
-
**[[6rj9]], [[6rja]], [[6rjg]] - StCas9 + RNA + DNA + AcriiA6 – ''Streptococcus thermophilus''<br />
+
**[[8hnt]] - HiCas9 + RNA + AcriiC4 - Haemophilus influenza <br />
-
**[[6rjd]] - StCas9 + RNA + DNA<br />
+
**[[8hnw]] - HiCas9 + RNA + DNA <br />
 +
**[[8hnv]] - HiCas9 + RNA + DNA + AcriiC4 – Cryo EM<br />
 +
**[[6rj9]], [[6rja]], [[6rjg]] - StCas9 + RNA + DNA + AcriiA6 – Streptococcus thermophilus<br />
 +
**[[6rjd]], [[6m0v]], [[6m0w]], [[6m0x]] - StCas9 + RNA + DNA<br />
 +
**[[8pj9]] - StCas9 + RNA + DNA – Cryo EM<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]], [[8y0d]] - SaCas9 (Csn1) + RNA + DNA <br />
**[[5axw]] - SaCas9 (Csn1) (mutant) + RNA + DNA <br />
**[[5axw]] - SaCas9 (Csn1) (mutant) + RNA + DNA <br />
 +
**[[7enh]], [[7eni]], [[7enr]] - SaCas9 + RNA + ACRIIA <br />
 +
**[[8jft]] - SaCas9 + RNA + ACRIIA – Cryo Em<br />
 +
**[[8jg9]] - SaCas9 + RNA + DNA + ACRIIA – Cryo Em<br />
**[[6joo]] - Cas9 + RNA + DNA – Corynebacterium diphtheriae<br />
**[[6joo]] - Cas9 + RNA + DNA – Corynebacterium diphtheriae<br />
-
**[[5b2o]], [[5b2p]], [[5b2q]] - FtCas9 (mutant) + RNA + DNA – ''Francisella tularensis''<br />
+
**[[8y0b]] - FtCas9 + RNA + DNA – ''Francisella tularensis''<br />
 +
**[[5b2o]], [[5b2p]], [[5b2q]] - FtCas9 (mutant) + RNA + DNA <br />
 +
**[[6wbr]], [[6wc0]], [[8d2q]], [[8sfh]], [[8sfo]] - AccCas9 + RNA + DNA – Acidothermus cellulolyticus<br />
 +
**[[8d2k]], [[8d2l]], [[8d2n]], [[8d2o]], [[8d2p]], [[8sfi]] - AccCas9 + RNA + DNA – Cryo EM<br />
 +
**[[8ewg]] - TcCas9 + RNA <br />
 +
**[[9ar4]], [[9ar5]], [[9ar6]], [[9ar7]] - Cas9 + RNA + DNA – Geobacillus thermodenitrificans – Cryo EM<br />
 +
**[[8jtr]] - GsCas9 + RNA – Cryo EM<br />
 +
**[[8jtj]], [[8uza]], [[8uzb]] - GsCas9 + RNA + DNA – Cryo EM<br />
 +
**[[8hud]] - Cas9 + RNA + DNA – Eubacterium ventriosum - Cryo EM<br />
**[[6i1l]], [[6i1k]], [[6gtg]], [[6gtf]], [[6gte]], [[6gtd]], [[6gtc]] – FtCas12a (mutant) + RNA + DNA <br />
**[[6i1l]], [[6i1k]], [[6gtg]], [[6gtf]], [[6gte]], [[6gtd]], [[6gtc]] – FtCas12a (mutant) + RNA + DNA <br />
-
**[[4u7u]] – EcCasA (Cse1) + CasB + CasC + CasD + CasE + RNA<br />
+
**[[8sfj]], [[8sfl]], [[8sfn]], [[8sfp]], [[8sfq]], [[8sfr]], [[9cjh]], [[9cjj]] – AcCas12a + RNA + DNA – ''Acidaminococcus''- Cryo EM<br />
 +
**[[8kgf]] – Cas12a + RNA – Anaeroglobus – Cryo EM<br />
 +
**[[8y0c]] – FtCas12a + RNA – Cryo EM<br />
 +
**[[6w62]] – Cas12i + RNA – Lachnospiraceae bacterium – Cryo EM<br />
 +
**[[4u7u]], [[5cd4]] – EcCasA (Cse1) + CasB + CasC + CasD + CasE + RNA<br />
**[[4qyz]], [[5h9f]], [[5h9e]] – 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]] – AcCas Cpf1 + RNA + DNA – ''Acidaminococcus''<br />
+
**[[5kk5]], [[5b43]], [[9cji]] – AcCas Cpf1 + RNA + DNA <br />
**[[5xh7]], [[5xh6]] – AcCas Cpf1 (mutant) + RNA + DNA <br />
**[[5xh7]], [[5xh6]] – AcCas Cpf1 (mutant) + RNA + DNA <br />
**[[5ng6]] – FtCas Cpf1 + RNA <br />
**[[5ng6]] – FtCas Cpf1 + RNA <br />
Line 213: Line 282:
**[[6p4o]], [[6p4w]] – StENN + DNA-dependent ATPase XPBII – ''Sulfurisphera tokidaii''<br />
**[[6p4o]], [[6p4w]] – StENN + DNA-dependent ATPase XPBII – ''Sulfurisphera tokidaii''<br />
-
**[[6p4o]] – StENN + DNA-dependent ATPase XPBII + DNA<br />
+
**[[6p4f]] – StENN + DNA-dependent ATPase XPBII + DNA<br />
**[[6p66]] – AfENN + Rad25<br />
**[[6p66]] – AfENN + Rad25<br />
Line 241: Line 310:
**[[2gw6]] – hENN subunit sen15 – NMR<br />
**[[2gw6]] – hENN subunit sen15 – NMR<br />
 +
**[[6z9u]] – hENN subunits sen15+sen34<br />
 +
**[[7uxa]], [[8iss]] – hENN + tRNA-Arg – Cryo EM<br />
 +
**[[8hmy]], [[8hmz]] – hENN + tRNA + Clp1 – Cryo EM<br />
**[[1a79]], [[1a76]], [[1a77]] - MjENN – ''Methanocaldococcus jannaschii''<br />
**[[1a79]], [[1a76]], [[1a77]] - MjENN – ''Methanocaldococcus jannaschii''<br />
**[[2cv8]] - ENN – ''Sulfolobus tokodaii''<br />
**[[2cv8]] - ENN – ''Sulfolobus tokodaii''<br />
-
**[[2gjw]] - AfENN + RNA –'' Archaeoglobus fulgidus''<br />
+
**[[2gjw]] - AfENN + RNA – ''Archaeoglobus fulgidus''<br />
**[[1r0v]], [[1r11]] – AfENN
**[[1r0v]], [[1r11]] – AfENN
**[[2ohc]], [[2ohe]] - TaENN – ''Thermoplasma acidophilum''<br />
**[[2ohc]], [[2ohe]] - TaENN – ''Thermoplasma acidophilum''<br />
**[[2zyz]] – ENN – ''Pyrobaculum aerophilum''<br />
**[[2zyz]] – ENN – ''Pyrobaculum aerophilum''<br />
-
**[[3iey]] - ENN + NEQ261 – ''Nanoarchaeum equitans''<br />
+
**[[3if0]] - ENN + NEQ261 – ''Nanoarchaeum equitans''<br />
**[[3ajv]] - ApENN (mutant) – ''Aeropyrum pernix''<br />
**[[3ajv]] - ApENN (mutant) – ''Aeropyrum pernix''<br />
**[[3p1y]] - ApENN /AfENN<br />
**[[3p1y]] - ApENN /AfENN<br />
Line 272: Line 344:
*Sm ENN
*Sm ENN
-
**[[1smn]], [[1qae]], [[1ql0]], [[1g8t]] – ENN – ''Serratia marcescens''
+
**[[1smn]], [[1qae]], [[1ql0]], [[1g8t]], [[4e3y]] – ENN – ''Serratia marcescens''
*NaeI ENN
*NaeI ENN
Line 305: Line 377:
*HinDIII ENN
*HinDIII ENN
-
**[[2e52]], [[3a4k]] - HiENN + DNA
+
**[[2e52]], [[3a4k]], [[3wvg]], [[3wvh]], [[3wvi]], [[3wvk]], [[3wvp]] - HiENN + DNA
*HinP1I ENN
*HinP1I ENN
Line 320: Line 392:
**[[1ul1]] - hENN + PCNA <br />
**[[1ul1]] - hENN + PCNA <br />
**[[6tnz]] - hENN in processive polymerase – Cryo EM <br />
**[[6tnz]] - hENN in processive polymerase – Cryo EM <br />
 +
**[[8yjh]], [[8yjl]], [[8yjq]], [[8yjr]], [[8yjs]], [[8yju]], [[8yjv]], [[8yjw]], [[8yjz]] - hENN + PCNA + DNA – Cryo EM <br />
 +
**[[7qo1]] - hENN + DNA ligase + PCNA + DNA – Cryo EM <br />
**[[1mc8]] - PhENN (mutant) <br />
**[[1mc8]] - PhENN (mutant) <br />
**[[3ory]]– ENN – ''Desulfurococcus amylolyticus''<br />
**[[3ory]]– ENN – ''Desulfurococcus amylolyticus''<br />
Line 328: Line 402:
**[[1rxz]] - AfENN + PCNA <br />
**[[1rxz]] - AfENN + PCNA <br />
**[[4wa8]] – ENN – ''Methanopyrus kandleri''<br />
**[[4wa8]] – ENN – ''Methanopyrus kandleri''<br />
 +
**[[6c33]] - MsENN – ''Mycobacterium smegmatis''<br />
 +
**[[6c34]], [[6c35]], [[6c36]] - MsENN (mutant) <br />
-
*DNA mismatch ENN
+
*DNA mismatch ENN or Pms2
-
**[[1h7u]] – hENN<br />
+
**[[1h7u]], [[7rck]] – hENN + ATP<br />
-
**[[6mfq]] – hENN Pms2<br />
+
**[[7rci]] - hENN (mutant) + ATP<br />
 +
**[[6mfq]], [[7rcb]] – hENN Pms2<br />
**[[5u5r]] – hENN + importin<br />
**[[5u5r]] – hENN + importin<br />
**[[1odg]] - EcENN + DNA<br />
**[[1odg]] - EcENN + DNA<br />
 +
**[[5x9y]] – ENN MutL – ''Aquifex aeolicus''<br />
*Vvn ENN
*Vvn ENN
Line 340: Line 418:
**[[1ouo]] – VvENN – ''Vibrio vulnificus''<br />
**[[1ouo]] – VvENN – ''Vibrio vulnificus''<br />
**[[1oup]], [[2ivk]] - VvENN + DNA
**[[1oup]], [[2ivk]] - VvENN + DNA
 +
 +
*Splicing ENN
 +
 +
**[[1r0v]], [[1r11]], [[1rlv]] – AfENN
*Structure-specific ENN
*Structure-specific ENN
Line 345: Line 427:
**[[4zou]] – hENN SLX4 subunit BTB domain<br />
**[[4zou]] – hENN SLX4 subunit BTB domain<br />
**[[4uyi]] – hENN SLX4 subunit BTB domain (mutant)<br />
**[[4uyi]] – hENN SLX4 subunit BTB domain (mutant)<br />
 +
**[[7cq4]] – yENN SLX1 (mutant)+SLX4 subunits + DNA<br />
**[[4xm5]] – CgENN SLX1 subunit – ''Candida glabrata''<br />
**[[4xm5]] – CgENN SLX1 subunit – ''Candida glabrata''<br />
**[[4xlg]] – CgENN SLX1 (mutant)+SLX4 subunits<br />
**[[4xlg]] – CgENN SLX1 (mutant)+SLX4 subunits<br />
Line 353: Line 436:
*BfiI ENN
*BfiI ENN
-
**[[2c1l]] – ENN – ''Bacillus firmus''
+
**[[2c1l]] – BfENN – ''Bacillus firmus''<br />
 +
**[[3zi5]] – BfENN + DNA<br />
*SfiI ENN
*SfiI ENN
Line 381: Line 465:
**[[5cxr]] – ENN + pyrazole derivative – Influenza virus <br />
**[[5cxr]] – ENN + pyrazole derivative – Influenza virus <br />
**[[6j9l]]] - NmENN + AcriiC2 <br />
**[[6j9l]]] - NmENN + AcriiC2 <br />
 +
**[[6yex]] – VcENN – ''Vibrio campbellii''<br />
 +
**[[6yjb]], [[6ykf]], [[6ymg]] – VcENN + DNA<br />
 +
**[[8saj]] - ENN + major capsid protein – Mycobacterium phage – Cryo EM<br />
 +
**[[8z0l]] - ENN + cas8 + DNA – ''Selenomonas'' – Cryo EM<br />
*UV damage ENN
*UV damage ENN
Line 417: Line 505:
**[[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 />
 +
**[[6vwb]] – hENN Mus81 N-terminal - NMR<br />
 +
**[[2mc3]] – hENN Mus81 winged-helix domain - NMR<br />
 +
**[[9f98]] – hENN EME1 + Mus81 <br />
**[[4p0p]], [[4p0q]], [[4p0r]], [[4p0s]] – hENN EME1 + Mus81 + DNA<br />
**[[4p0p]], [[4p0q]], [[4p0r]], [[4p0s]] – hENN EME1 + Mus81 + DNA<br />
 +
**[[9f9m]] – hENN EME1 + Mus81 + inhibitor<br />
**[[2kpf]] - mENN – mouse<br />
**[[2kpf]] - mENN – mouse<br />
Line 453: Line 545:
**[[6ifc]] – StENN + Vapb – ''Salmonella typhimurium''<br />
**[[6ifc]] – StENN + Vapb – ''Salmonella typhimurium''<br />
**[[6ifm]] – StENN + Vapb + DNA<br />
**[[6ifm]] – StENN + Vapb + DNA<br />
 +
**[[9h6b]], [[9h6c]] – EcENN + Vapb <br />
 +
**[[9h6a]], [[9h6d]] – EcENN + antitoxin <br />
*Muts2 ENN
*Muts2 ENN
**[[4och]], [[4od6]] - DrENN SMR domain<br />
**[[4och]], [[4od6]] - DrENN SMR domain<br />
 +
**[[7vuf]] - TtENN core<br />
 +
**[[7vuk]] - TtENN core + ADP<br />
*Endoms ENN
*Endoms ENN
Line 462: Line 558:
**[[5gkj]] – TkENN (mutant) – ''Thermococcus kodakarensis''<br />
**[[5gkj]] – TkENN (mutant) – ''Thermococcus kodakarensis''<br />
**[[5gke]], [[5gkf]], [[5gkg]], [[5gkh]], [[5gki]] – TkENN (mutant) + DNA<br />
**[[5gke]], [[5gkf]], [[5gkg]], [[5gkh]], [[5gki]] – TkENN (mutant) + DNA<br />
 +
 +
*ENN GajA or GabijA protein
 +
 +
**[[8jq9]], [[8tk0]], [[6m3t]], [[6njt]] – BcENN – Cryo EM<br />
 +
**[[8wy5]], [[8x51]] – BcENN + DNA – Cryo EM<br />
 +
**[[8wy4]], [[8x5i]] – BcENN + ATP – Cryo EM<br />
 +
**[[8j4t]], [[8jqb]], [[8jqc]], [[8tjy]], [[8tk1]] – BcENN + GajB – Cryo EM<br />
 +
**[[8sm3]] – BcENN + GajB <br />
 +
**[[8x5n]] – BcENN + GajB + ATP – Cryo EM<br />
 +
**[[8u7i]], [[9a3w]] – BcENN + GajB + Gabija anti-defense 1 – Cryo EM<br />
*ENN G
*ENN G
-
**[[6njt]] – mENN (mutant)<br />
+
**[[6lyf]], [[6m3f]], [[6m3t]], [[6njt]] – mENN (mutant)<br />
**[[6nju]] – mENN (mutant) + DNA<br />
**[[6nju]] – mENN (mutant) + DNA<br />
**[[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 Q
 +
 +
**[[7k30]], [[7k31]], [[7k32]], [[7k33]] – PfENN + DNA<br />
*ENN S
*ENN S
Line 474: Line 584:
**[[5ybb]] – ENN + R-M system + DNA – ''Caldanaerobacter subterraneus'' <br />
**[[5ybb]] – ENN + R-M system + DNA – ''Caldanaerobacter subterraneus'' <br />
-
*Apurinic-apyrimidinic ENN
+
*Apurinic-apyrimidinic ENN or APE
-
**[[5cfg]], [[6mk3]], [[6mkk]], [[6mkm]], [[6mko]] – hENN <br />
+
**[[5cfg]], [[6mk3]], [[6mkk]], [[6mkm]], [[6mko]] – hAPE1 <br />
-
**[[5dff]], [[5dfh]], [[5dfi]], [[5dfj]], [[5dg0]], [[5wn5]], [[5wn4]], [[5wn3]], [[5wn2]], [[5wn1]], [[5wn0]], [[6bos]], [[6w3l]], [[6w3n]], [[6w3q]], [[6w3u]] – hENN + DNA<br />
+
**[[5dff]], [[5dfh]], [[5dfi]], [[5dfj]], [[5dg0]], [[5wn5]], [[5wn4]], [[5wn3]], [[5wn2]], [[5wn1]], [[5wn0]], [[6bos]], [[6w3l]], [[6w3n]], [[6w3q]], [[6w3u]] – hAPE1 + DNA<br />
-
**[[6bot]], [[6boq]], [[6bor]], [[6bou]], [[6bov]], [[6bow]], [[6p93]], [[6p94]], [[6w0q]], [[6w43]], [[6w4i]], [[6w4t]] – hENN (mutant) + DNA<br />
+
**[[6bot]], [[6boq]], [[6bor]], [[6bou]], [[6bov]], [[6bow]], [[6p93]], [[6p94]], [[6w0q]], [[6w43]], [[6w4i]], [[6w4t]] – hAPE1 (mutant) + DNA<br />
 +
**[[7n3z]] – hAPE2 <br />
 +
**[[7cd5]], [[7cd6]] – mAPE1 + DNA<br />
 +
**[[6wcd]] – fAPE2 catalytic domain - frog<br />
 +
**[[8ka3]], [[8kaj]] – AtAPE + DNA<br />
*Restriction ENN Pfoi
*Restriction ENN Pfoi
Line 488: Line 602:
**[[6uke]], [[6ukf]], [[6ukg]], [[6ukh]], [[6uki]] – ENN + DNA – ''Haemophilus parahaemolyticus'' <br />
**[[6uke]], [[6ukf]], [[6ukg]], [[6ukh]], [[6uki]] – ENN + DNA – ''Haemophilus parahaemolyticus'' <br />
 +
 +
*Cap-snatching ENN see [[RNA polymerase]]
 +
 +
*PA ENN see polymerase acidic protein in [[RNA polymerase]]
*'''Intron-encoded endonuclease'''
*'''Intron-encoded endonuclease'''
Line 493: Line 611:
*I-PpoI ENN
*I-PpoI ENN
-
**[[1a74]], [[1ipp]], [[1a73]], [[1cz0]] - PpENN + DNA – ''Physarum polycephalum''<br />
+
**[[1a74]], [[1ipp]], [[1a73]], [[1cz0]], [[8vmo]], [[8vmp]], [[8vmq]], [[8vmr]], [[8vms]], [[8vmt]], [[8vmu]], [[8vmv]], [[8vmw]], [[8vmx]], [[8vmy]], [[8vmz]], [[8vn0]], [[8vn1]], [[8vn2]], [[8vn3]], [[8vn4]], [[8vn5]], [[8vn6]], [[8vn7]], [[8vn8]], [[8vn9]], [[8vna]], [[8vnb]], [[8vnc]], [[8vnd]], [[8vne]], [[8vnf]], [[8vng]], [[8vnh]], [[8vnj]], [[8vnk]], [[8vnl]], [[8vnm]], [[8vnn]], [[8vno]], [[8vnp]], [[8vnq]], [[8vnr]], [[8vns]], [[8vnt]], [[8vnu]] - PpENN + DNA – ''Physarum polycephalum''<br />
**[[1cyq]], [[1evw]], [[2o6m]] - PpENN (mutant) + DNA<br />
**[[1cyq]], [[1evw]], [[2o6m]] - PpENN (mutant) + DNA<br />
**[[1evx]] - PpENN
**[[1evx]] - PpENN

Current revision

3D structures of endonuclease

Updated on 26-May-2025

Proteopedia Page Contributors and Editors (what is this?)

Michal Harel

Retrieved from "http://52.214.119.220/wiki/index.php/Endonuclease_3D_structures"
Personal tools