4F1N
| Crystal structure of Kluyveromyces polysporus Argonaute with a guide RNA | 分子名称: | KpAGO, RNA 5'-R(P*UP*AP*AP*AP*AP*AP*AP*AP*A)-3' | 著者 | Nakanishi, K, Weinberg, D.E, Bartel, D.P, Patel, D.J. | 登録日 | 2012-05-07 | 公開日 | 2012-06-13 | 最終更新日 | 2024-02-28 | 実験手法 | X-RAY DIFFRACTION (3.187 Å) | 主引用文献 | Structure of yeast Argonaute with guide RNA. Nature, 486, 2012
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3HJ7
| Crystal structure of TILS C-terminal domain | 分子名称: | CHLORIDE ION, tRNA(Ile)-lysidine synthase | 著者 | Nakanishi, K, Bonnefond, L, Kimura, S, Suzuki, T, Ishitani, R, Nureki, O. | 登録日 | 2009-05-21 | 公開日 | 2009-10-20 | 最終更新日 | 2023-11-01 | 実験手法 | X-RAY DIFFRACTION (2.2 Å) | 主引用文献 | Structural basis for translational fidelity ensured by transfer RNA lysidine synthetase. Nature, 461, 2009
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4KXT
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3A2K
| Crystal structure of TilS complexed with tRNA | 分子名称: | bacterial tRNA, tRNA(Ile)-lysidine synthase | 著者 | Nakanishi, K, Bonnefond, L, Ishitani, R, Nureki, O. | 登録日 | 2009-05-23 | 公開日 | 2009-10-20 | 最終更新日 | 2018-01-24 | 実験手法 | X-RAY DIFFRACTION (3.65 Å) | 主引用文献 | Structural basis for translational fidelity ensured by transfer RNA lysidine synthetase. Nature, 461, 2009
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2CSX
| Crystal structure of Aquifex aeolicus methionyl-tRNA synthetase complexed with tRNA(Met) | 分子名称: | Methionyl-tRNA synthetase, RNA (75-MER) | 著者 | Nakanishi, K, Ogiso, Y, Nakama, T, Fukai, S, Nureki, O, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | 登録日 | 2005-05-23 | 公開日 | 2005-09-20 | 最終更新日 | 2024-03-13 | 実験手法 | X-RAY DIFFRACTION (2.7 Å) | 主引用文献 | Structural basis for anticodon recognition by methionyl-tRNA synthetase. Nat.Struct.Mol.Biol., 12, 2005
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2CT8
| Crystal structure of Aquifex aeolicus methionyl-tRNA synthetase complexed with tRNA(Met) and methionyl-adenylate anologue | 分子名称: | 5'-O-[(L-METHIONYL)-SULPHAMOYL]ADENOSINE, Methionyl-tRNA synthetase, RNA (74-MER) | 著者 | Nakanishi, K, Ogiso, Y, Nakama, T, Fukai, S, Nureki, O, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | 登録日 | 2005-05-23 | 公開日 | 2005-09-20 | 最終更新日 | 2024-03-13 | 実験手法 | X-RAY DIFFRACTION (2.7 Å) | 主引用文献 | Structural basis for anticodon recognition by methionyl-tRNA synthetase. Nat.Struct.Mol.Biol., 12, 2005
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1WY5
| Crystal structure of isoluecyl-tRNA lysidine synthetase | 分子名称: | Hypothetical UPF0072 protein AQ_1887 | 著者 | Nakanishi, K, Fukai, S, Ikeuchi, Y, Soma, A, Sekine, Y, Suzuki, T, Nureki, O, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | 登録日 | 2005-02-06 | 公開日 | 2005-05-03 | 最終更新日 | 2024-03-13 | 実験手法 | X-RAY DIFFRACTION (2.42 Å) | 主引用文献 | Structural basis for lysidine formation by ATP pyrophosphatase accompanied by a lysine-specific loop and a tRNA-recognition domain. Proc.Natl.Acad.Sci.Usa, 102, 2005
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3RV1
| Crystal structure of the N-terminal and RNase III domains of K. polysporus Dcr1 E224Q mutant | 分子名称: | K. polysporus Dcr1 | 著者 | Nakanishi, K, Weinberg, D.E, Bartel, D.P, Patel, D.J. | 登録日 | 2011-05-05 | 公開日 | 2011-08-03 | 最終更新日 | 2024-02-28 | 実験手法 | X-RAY DIFFRACTION (1.975 Å) | 主引用文献 | The inside-out mechanism of dicers from budding yeasts. Cell(Cambridge,Mass.), 146, 2011
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3RV0
| Crystal structure of K. polysporus Dcr1 without the C-terminal dsRBD | 分子名称: | K. polysporus Dcr1, MAGNESIUM ION | 著者 | Nakanishi, K, Weinberg, D.E, Bartel, D.P, Patel, D.J. | 登録日 | 2011-05-05 | 公開日 | 2011-08-03 | 最終更新日 | 2024-02-28 | 実験手法 | X-RAY DIFFRACTION (2.29 Å) | 主引用文献 | The inside-out mechanism of dicers from budding yeasts. Cell(Cambridge,Mass.), 146, 2011
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6OON
| Human Argonaute4 bound to guide RNA | 分子名称: | Protein argonaute-4, RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*AP*UP*U)-3') | 著者 | Park, M.S, Brackbill, J.A, Nakanishi, K. | 登録日 | 2019-04-23 | 公開日 | 2019-07-31 | 最終更新日 | 2023-10-11 | 実験手法 | X-RAY DIFFRACTION (1.9 Å) | 主引用文献 | Multidomain Convergence of Argonaute during RISC Assembly Correlates with the Formation of Internal Water Clusters. Mol.Cell, 75, 2019
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7KPW
| Structure of the H-lobe of yeast CKM | 分子名称: | Mediator of RNA polymerase II transcription subunit 12 | 著者 | Li, Y.C, Chao, T.C, Kim, H.J, Cholko, T, Chen, S.F, Nakanishi, K, Chang, C.E, Murakami, K, Garcia, B.A, Boyer, T.G, Tsai, K.L. | 登録日 | 2020-11-12 | 公開日 | 2021-01-27 | 最終更新日 | 2024-03-06 | 実験手法 | ELECTRON MICROSCOPY (4.9 Å) | 主引用文献 | Structure and noncanonical Cdk8 activation mechanism within an Argonaute-containing Mediator kinase module. Sci Adv, 7, 2021
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7KPX
| Structure of the yeast CKM | 分子名称: | Mediator of RNA polymerase II transcription subunit 12, Mediator of RNA polymerase II transcription subunit 13, Meiotic mRNA stability protein kinase SSN3, ... | 著者 | Li, Y.C, Chao, T.C, Kim, H.J, Cholko, T, Chen, S.F, Nakanishi, K, Chang, C.E, Murakami, K, Garcia, B.A, Boyer, T.G, Tsai, K.L. | 登録日 | 2020-11-12 | 公開日 | 2021-01-27 | 最終更新日 | 2024-03-06 | 実験手法 | ELECTRON MICROSCOPY (4.4 Å) | 主引用文献 | Structure and noncanonical Cdk8 activation mechanism within an Argonaute-containing Mediator kinase module. Sci Adv, 7, 2021
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7KPV
| Structure of kinase and Central lobes of yeast CKM | 分子名称: | Mediator of RNA polymerase II transcription subunit 12, Mediator of RNA polymerase II transcription subunit 13, Meiotic mRNA stability protein kinase SSN3, ... | 著者 | Li, Y.C, Chao, T.C, Kim, H.J, Cholko, T, Chen, S.F, Nakanishi, K, Chang, C.E, Murakami, K, Garcia, B.A, Boyer, T.G, Tsai, K.L. | 登録日 | 2020-11-12 | 公開日 | 2021-01-27 | 最終更新日 | 2024-03-06 | 実験手法 | ELECTRON MICROSCOPY (3.8 Å) | 主引用文献 | Structure and noncanonical Cdk8 activation mechanism within an Argonaute-containing Mediator kinase module. Sci Adv, 7, 2021
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5VXB
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5THE
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5VM9
| Human Argonaute3 bound to guide RNA | 分子名称: | Protein argonaute-3, RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*AP*AP*AP*AP*UP*U)-3'), RNA (5'-R(P*AP*AP*AP*AP*AP*AP*AP*AP*AP*AP*AP*UP*U)-3') | 著者 | Park, M.S, Nakanishi, K. | 登録日 | 2017-04-26 | 公開日 | 2017-10-18 | 最終更新日 | 2023-10-04 | 実験手法 | X-RAY DIFFRACTION (3.28 Å) | 主引用文献 | Human Argonaute3 has slicer activity. Nucleic Acids Res., 45, 2017
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1TFO
| Ribonuclease from Escherichia coli complexed with its inhibitor protein | 分子名称: | Colicin D, Colicin D immunity protein | 著者 | Yajima, S, Nakanishi, K, Takahashi, K, Ogawa, T, Kezuka, Y, Hidaka, M, Nonaka, T, Ohsawa, K, Masaki, H. | 登録日 | 2004-05-27 | 公開日 | 2005-03-01 | 最終更新日 | 2024-02-14 | 実験手法 | X-RAY DIFFRACTION (2.3 Å) | 主引用文献 | Relation between tRNase activity and the structure of colicin D according to X-ray crystallography Biochem.Biophys.Res.Commun., 322, 2004
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1TFK
| Ribonuclease from Escherichia coli complexed with its inhibtor protein | 分子名称: | 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, Colicin D, Colicin D immunity protein | 著者 | Yajima, S, Nakanishi, K, Takahashi, K, Ogawa, T, Kezuka, Y, Hidaka, M, Nonaka, T, Ohsawa, K, Masaki, H. | 登録日 | 2004-05-27 | 公開日 | 2005-03-01 | 最終更新日 | 2024-02-14 | 実験手法 | X-RAY DIFFRACTION (2.1 Å) | 主引用文献 | Relation between tRNase activity and the structure of colicin D according to X-ray crystallography Biochem.Biophys.Res.Commun., 322, 2004
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3W4K
| Crystal Structure of human DAAO in complex with coumpound 13 | 分子名称: | 3-hydroxy-6-(2-phenylethyl)pyridazin-4(1H)-one, D-amino-acid oxidase, FLAVIN-ADENINE DINUCLEOTIDE | 著者 | Hondo, T, Warizaya, M, Niimi, T, Namatame, I, Yamaguchi, T, Nakanishi, K, Hamajima, T, Harada, K, Sakashita, H, Matsumoto, Y, Orita, M, Watanabe, T, Takeuchi, M. | 登録日 | 2013-01-09 | 公開日 | 2013-05-29 | 最終更新日 | 2024-03-20 | 実験手法 | X-RAY DIFFRACTION (2.86 Å) | 主引用文献 | 4-Hydroxypyridazin-3(2H)-one Derivatives as Novel d-Amino Acid Oxidase Inhibitors. J.Med.Chem., 56, 2013
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3W4J
| Crystal Structure of human DAAO in complex with coumpound 12 | 分子名称: | 3-hydroxy-5-(2-phenylethyl)pyridin-2(1H)-one, D-amino-acid oxidase, FLAVIN-ADENINE DINUCLEOTIDE | 著者 | Hondo, T, Warizaya, M, Niimi, T, Namatame, I, Yamaguchi, T, Nakanishi, K, Hamajima, T, Harada, K, Sakashita, H, Matsumoto, Y, Orita, M, Watanabe, T, Takeuchi, M. | 登録日 | 2013-01-09 | 公開日 | 2013-05-29 | 最終更新日 | 2024-03-20 | 実験手法 | X-RAY DIFFRACTION (2.74 Å) | 主引用文献 | 4-Hydroxypyridazin-3(2H)-one Derivatives as Novel d-Amino Acid Oxidase Inhibitors. J.Med.Chem., 56, 2013
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3W4I
| Crystal Structure of human DAAO in complex with coumpound 8 | 分子名称: | D-amino-acid oxidase, FLAVIN-ADENINE DINUCLEOTIDE, pyridine-2,3-diol | 著者 | Hondo, T, Warizaya, M, Niimi, T, Namatame, I, Yamaguchi, T, Nakanishi, K, Hamajima, T, Harada, K, Sakashita, H, Matsumoto, Y, Orita, M, Watanabe, T, Takeuchi, M. | 登録日 | 2013-01-09 | 公開日 | 2013-05-29 | 最終更新日 | 2024-03-20 | 実験手法 | X-RAY DIFFRACTION (2.5 Å) | 主引用文献 | 4-Hydroxypyridazin-3(2H)-one Derivatives as Novel d-Amino Acid Oxidase Inhibitors. J.Med.Chem., 56, 2013
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8SQU
| Monomeric MapSPARTA bound with guide RNA and target DNA hybrid | 分子名称: | MAGNESIUM ION, TIR-APAZ, guide RNA, ... | 著者 | Shen, Z.F, Yang, X.Y, Fu, T.M. | 登録日 | 2023-05-04 | 公開日 | 2023-08-23 | 最終更新日 | 2023-09-20 | 実験手法 | ELECTRON MICROSCOPY (3.28 Å) | 主引用文献 | Oligomerization-mediated activation of a short prokaryotic Argonaute. Nature, 621, 2023
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8SP3
| Asymmetric dimer of MapSPARTA bound with gRNA/tDNA hybrid | 分子名称: | MAGNESIUM ION, TIR-APAZ, guide RNA, ... | 著者 | Shen, Z.F, Yang, X.Y, Fu, T.M. | 登録日 | 2023-05-01 | 公開日 | 2023-08-23 | 最終更新日 | 2023-09-20 | 実験手法 | ELECTRON MICROSCOPY (3.52 Å) | 主引用文献 | Oligomerization-mediated activation of a short prokaryotic Argonaute. Nature, 621, 2023
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8SP0
| Symmetric dimer of MapSPARTA bound with gRNA/tDNA hybrid | 分子名称: | MAGNESIUM ION, TIR-APAZ, guide RNA, ... | 著者 | Shen, Z.F, Yang, X.Y, Fu, T.M. | 登録日 | 2023-05-01 | 公開日 | 2023-08-23 | 最終更新日 | 2023-09-20 | 実験手法 | ELECTRON MICROSCOPY (3.33 Å) | 主引用文献 | Oligomerization-mediated activation of a short prokaryotic Argonaute. Nature, 621, 2023
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8SPO
| Tetramerized activation of MapSPARTA bound with NAD+ | 分子名称: | MAGNESIUM ION, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, Piwi domain-containing protein, ... | 著者 | Shen, Z.F, Yang, X.Y, Fu, T.M. | 登録日 | 2023-05-03 | 公開日 | 2023-08-23 | 最終更新日 | 2023-09-20 | 実験手法 | ELECTRON MICROSCOPY (2.98 Å) | 主引用文献 | Oligomerization-mediated activation of a short prokaryotic Argonaute. Nature, 621, 2023
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