7DTH
 
 | | Solution structure of RPB6, common subunit of RNA polymerases I, II, and III | | 分子名称: | DNA-directed RNA polymerases I, II, and III subunit RPABC2 | | 著者 | Okuda, M, Nishimura, Y. | | 登録日 | 2021-01-05 | | 公開日 | 2022-01-19 | | 最終更新日 | 2024-05-15 | | 実験手法 | SOLUTION NMR | | 主引用文献 | Three human RNA polymerases interact with TFIIH via a common RPB6 subunit.
Nucleic Acids Res., 50, 2022
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1UA6
 | | Crystal structure of HYHEL-10 FV MUTANT SFSF complexed with HEN EGG WHITE LYSOZYME complex | | 分子名称: | Ig VH,anti-lysozyme, Lysozyme C, lysozyme binding Ig kappa chain V23-J2 region | | 著者 | Kumagai, I, Nishimiya, Y, Kondo, H, Tsumoto, K. | | 登録日 | 2003-02-28 | | 公開日 | 2004-03-09 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (1.9 Å) | | 主引用文献 | Structural consequences of target epitope-directed functional alteration of an antibody. The case of anti-hen lysozyme antibody, HyHEL-10
J.Biol.Chem., 278, 2003
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5WSD
 | | Crystal structure of a cupin protein (tm1459) in apo form | | 分子名称: | Uncharacterized protein tm1459 | | 著者 | Fujieda, N, Nakano, T, Taniguchi, Y, Ichihashi, H, Nishikawa, Y, Kurisu, G, Itoh, S. | | 登録日 | 2016-12-06 | | 公開日 | 2017-05-31 | | 最終更新日 | 2023-11-08 | | 実験手法 | X-RAY DIFFRACTION (1.2 Å) | | 主引用文献 | A Well-Defined Osmium-Cupin Complex: Hyperstable Artificial Osmium Peroxygenase
J. Am. Chem. Soc., 2017
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5WSE
 | | Crystal structure of a cupin protein (tm1459) in osmium (Os) substituted form I | | 分子名称: | OSMIUM ION, Uncharacterized protein tm1459 | | 著者 | Fujieda, N, Nakano, T, Taniguchi, Y, Ichihashi, H, Nishikawa, Y, Kurisu, G, Itoh, S. | | 登録日 | 2016-12-06 | | 公開日 | 2017-05-31 | | 最終更新日 | 2023-11-08 | | 実験手法 | X-RAY DIFFRACTION (1.12 Å) | | 主引用文献 | A Well-Defined Osmium-Cupin Complex: Hyperstable Artificial Osmium Peroxygenase
J. Am. Chem. Soc., 2017
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1UAC
 | | Crystal Structure of HYHEL-10 FV MUTANT SFSF Complexed with TURKEY WHITE LYSOZYME | | 分子名称: | Ig VH,anti-lysozyme, Lysozyme C, lysozyme binding Ig kappa chain V23-J2 region | | 著者 | Kumagai, I, Nishimiya, Y, Kondo, H, Tsumoto, K. | | 登録日 | 2003-03-08 | | 公開日 | 2004-03-23 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (1.7 Å) | | 主引用文献 | Structural consequences of target epitope-directed functional alteration of an antibody. The case of anti-hen lysozyme antibody, HyHEL-10
J.BIOL.CHEM., 278, 2003
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1VE9
 | | Porcine kidney D-amino acid oxidase | | 分子名称: | BENZOIC ACID, D-amino acid oxidase, FLAVIN-ADENINE DINUCLEOTIDE | | 著者 | Mizutani, H, Miyahara, I, Hirotsu, K, Nishina, Y, Shiga, K, Setoyama, C, Miura, R. | | 登録日 | 2004-03-29 | | 公開日 | 2004-04-13 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (2.5 Å) | | 主引用文献 | Three-dimensional structure of porcine kidney D-amino acid oxidase at 3.0 A resolution.
J.Biochem., 120, 1996
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3VXE
 | | Human alpha-thrombin-Bivalirudin complex at PD5.0 | | 分子名称: | 2-acetamido-2-deoxy-beta-D-glucopyranose, BIVALIRUDIN, Thrombin heavy chain, ... | | 著者 | Yamada, T, Kurihara, K, Masumi, K, Tamada, T, Tomoyori, K, Ohnishi, Y, Tanaka, I, Kuroki, R, Niimura, N. | | 登録日 | 2012-09-12 | | 公開日 | 2013-09-04 | | 最終更新日 | 2023-11-08 | | 実験手法 | X-RAY DIFFRACTION (1.25 Å) | | 主引用文献 | Neutron and X-ray crystallographic analysis of the human alpha-thrombin-bivalirudin complex at pD 5.0: protonation states and hydration structure of the enzyme-product complex
Biochim.Biophys.Acta, 1834, 2013
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3VGL
 | | Crystal structure of a ROK family glucokinase from Streptomyces griseus in complex with glucose and AMPPNP | | 分子名称: | Glucokinase, PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER, SODIUM ION, ... | | 著者 | Miyazono, K, Tabei, N, Morita, S, Ohnishi, Y, Horinouchi, S, Tanokura, M. | | 登録日 | 2011-08-15 | | 公開日 | 2011-12-07 | | 最終更新日 | 2023-11-08 | | 実験手法 | X-RAY DIFFRACTION (1.55 Å) | | 主引用文献 | Substrate recognition mechanism and substrate-dependent conformational changes of an ROK family glucokinase from Streptomyces griseus
J.Bacteriol., 194, 2012
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7AKT
 | | CrPetF variant - A39G_A41V | | 分子名称: | BENZAMIDINE, CHLORIDE ION, FE2/S2 (INORGANIC) CLUSTER, ... | | 著者 | Kurisu, G, Ohnishi, Y, Engelbrecht, V, Happe, T. | | 登録日 | 2020-10-02 | | 公開日 | 2021-10-13 | | 最終更新日 | 2024-01-31 | | 実験手法 | X-RAY DIFFRACTION (1.11 Å) | | 主引用文献 | Ferredoxin 2.0: an electron transfer protein designed into a photosystem I-driven hydrogenase
To Be Published
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7VPY
 | | Crystal structure of the neutralizing nanobody P86 against SARS-CoV-2 | | 分子名称: | 1,2-ETHANEDIOL, Nanobody, SULFATE ION | | 著者 | Maeda, R, Fujita, J, Konishi, Y, Kazuma, Y, Yamazaki, H, Anzai, I, Yamaguchi, K, Kasai, K, Nagata, K, Yamaoka, Y, Miyakawa, K, Ryo, A, Shirakawa, K, Makino, F, Matsuura, Y, Inoue, T, Imura, A, Namba, K, Takaori-Kondo, A. | | 登録日 | 2021-10-18 | | 公開日 | 2022-07-20 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (1.6 Å) | | 主引用文献 | A panel of nanobodies recognizing conserved hidden clefts of all SARS-CoV-2 spike variants including Omicron.
Commun Biol, 5, 2022
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3WQP
 | | Crystal structure of Rubisco T289D mutant from Thermococcus kodakarensis | | 分子名称: | 1,2-ETHANEDIOL, 2-CARBOXYARABINITOL-1,5-DIPHOSPHATE, MAGNESIUM ION, ... | | 著者 | Fujihashi, M, Nishitani, Y, Kiriyama, T, Miki, K. | | 登録日 | 2014-01-29 | | 公開日 | 2015-02-04 | | 最終更新日 | 2023-12-06 | | 実験手法 | X-RAY DIFFRACTION (2.25 Å) | | 主引用文献 | Mutation design of thermophilic Rubisco based on the three-dimensional structure enhances its activity at ambient temperature
to be published
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7BUL
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7VQ0
 | | Cryo-EM structure of the SARS-CoV-2 spike protein (2-up RBD) bound to neutralizing nanobodies P86 | | 分子名称: | 2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, ... | | 著者 | Maeda, R, Fujita, J, Konishi, Y, Kazuma, Y, Yamazaki, H, Anzai, I, Yamaguchi, K, Kasai, K, Nagata, K, Yamaoka, Y, Miyakawa, K, Ryo, A, Shirakawa, K, Makino, F, Matsuura, Y, Inoue, T, Imura, A, Namba, K, Takaori-Kondo, A. | | 登録日 | 2021-10-18 | | 公開日 | 2022-07-20 | | 実験手法 | ELECTRON MICROSCOPY (3.03 Å) | | 主引用文献 | A panel of nanobodies recognizing conserved hidden clefts of all SARS-CoV-2 spike variants including Omicron.
Commun Biol, 5, 2022
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7X73
 | | Structure of G9a in complex with RK-701 | | 分子名称: | 1,2-ETHANEDIOL, 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, Histone-lysine N-methyltransferase EHMT2, ... | | 著者 | Niwa, H, Shirai, F, Sato, S, Nishigaya, Y, Shirouzu, M, Umehara, T. | | 登録日 | 2022-03-09 | | 公開日 | 2022-12-21 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (1.49 Å) | | 主引用文献 | A specific G9a inhibitor unveils BGLT3 lncRNA as a universal mediator of chemically induced fetal globin gene expression.
Nat Commun, 14, 2023
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5Y95
 | | Haddock model of mSIN3B PAH1 domain | | 分子名称: | Paired amphipathic helix protein Sin3b, propan-2-yl (3R,6S,9aS)-3-ethyl-8-(3-methylbutyl)-6-(2-methylsulfanylethyl)-4,7-bis(oxidanylidene)-9,9a-dihydro-6H-pyrazino[2,1-c][1,2,4]oxadiazine-1-carboxylate | | 著者 | Kurita, J, Hirao, Y, Nishimura, Y. | | 登録日 | 2017-08-22 | | 公開日 | 2017-10-04 | | 最終更新日 | 2024-05-29 | | 実験手法 | SOLUTION NMR | | 主引用文献 | A mimetic of the mSin3-binding helix of NRSF/REST ameliorates abnormal pain behavior in chronic pain models.
Bioorg. Med. Chem. Lett., 27, 2017
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6KXE
 | | The ishigamide ketosynthase/chain length factor | | 分子名称: | 1,2-ETHANEDIOL, ACETATE ION, Ketosynthase, ... | | 著者 | Du, D, Katsuyama, Y, Horiuchi, M, Fushinobu, S, Chen, A, Davis, T, Burkart, M, Ohnishi, Y. | | 登録日 | 2019-09-10 | | 公開日 | 2020-05-06 | | 最終更新日 | 2020-07-08 | | 実験手法 | X-RAY DIFFRACTION (1.81 Å) | | 主引用文献 | Structural basis for selectivity in a highly reducing type II polyketide synthase.
Nat.Chem.Biol., 16, 2020
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6KXF
 | | The ishigamide ketosynthase/chain length factor | | 分子名称: | ACP, Ketosynthase, [(3~{R})-2,2-dimethyl-4-[[3-[2-[[(~{E})-oct-2-enoyl]amino]ethylamino]-3-oxidanylidene-propyl]amino]-3-oxidanyl-4-oxidanylidene-butyl] dihydrogen phosphate | | 著者 | Du, D, Katsuyama, Y, Horiuchi, M, Fushinobu, S, Chen, A, Davis, T, Burkart, M, Ohnishi, Y. | | 登録日 | 2019-09-10 | | 公開日 | 2020-05-06 | | 最終更新日 | 2020-07-08 | | 実験手法 | X-RAY DIFFRACTION (1.98 Å) | | 主引用文献 | Structural basis for selectivity in a highly reducing type II polyketide synthase.
Nat.Chem.Biol., 16, 2020
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6KXD
 | | The ishigamide ketosynthase/chain length factor | | 分子名称: | 1,2-ETHANEDIOL, ACETATE ION, Ketosynthase, ... | | 著者 | Du, D, Katsuyama, Y, Horiuchi, M, Fushinobu, S, Chen, A, Davis, T, Burkart, M, Ohnishi, Y. | | 登録日 | 2019-09-10 | | 公開日 | 2020-05-06 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (1.75 Å) | | 主引用文献 | Structural basis for selectivity in a highly reducing type II polyketide synthase.
Nat.Chem.Biol., 16, 2020
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5XV8
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6JK5
 | | Ca2+-dependent type II antifreeze protein (Ca2+-free form) | | 分子名称: | SULFATE ION, Type II antifreeze protein | | 著者 | Arai, T, Tsuda, S, Kondo, H, Nishimiya, Y. | | 登録日 | 2019-02-27 | | 公開日 | 2019-06-26 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (1.25 Å) | | 主引用文献 | Calcium-Binding Generates the Semi-Clathrate Waters on a Type II Antifreeze Protein to Adsorb onto an Ice Crystal Surface.
Biomolecules, 9, 2019
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6JK4
 | | Ca2+-dependent type II antifreeze protein | | 分子名称: | CALCIUM ION, Type II antifreeze protein | | 著者 | Arai, T, Tsuda, S, Kondo, H, Nishimiya, Y. | | 登録日 | 2019-02-27 | | 公開日 | 2019-06-26 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (1.06 Å) | | 主引用文献 | Calcium-Binding Generates the Semi-Clathrate Waters on a Type II Antifreeze Protein to Adsorb onto an Ice Crystal Surface.
Biomolecules, 9, 2019
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6JUD
 | | Radiation damage in Aspergillus oryzae pro-tyrosinase oxygen-bound C92A/H103F mutant | | 分子名称: | COPPER (II) ION, PEROXIDE ION, Tyrosinase | | 著者 | Fujieda, N, Umakoshi, K, Nishikawa, Y, Kurisu, G, Itoh, S. | | 登録日 | 2019-04-13 | | 公開日 | 2020-05-13 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (1.56 Å) | | 主引用文献 | Copper-Oxygen Dynamics in the Tyrosinase Mechanism.
Angew.Chem.Int.Ed.Engl., 59, 2020
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6JU6
 | | Aspergillus oryzae active-tyrosinase copper-depleted C92A mutant | | 分子名称: | NITRATE ION, Tyrosinase | | 著者 | Fujieda, N, Umakoshi, K, Nishikawa, Y, Kurisu, G, Itoh, S. | | 登録日 | 2019-04-13 | | 公開日 | 2020-05-13 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (1.5 Å) | | 主引用文献 | Copper-Oxygen Dynamics in the Tyrosinase Mechanism.
Angew.Chem.Int.Ed.Engl., 59, 2020
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6JUC
 | | Aspergillus oryzae pro-tyrosinase oxygen-bound C92A/H103F mutant | | 分子名称: | COPPER (II) ION, PEROXIDE ION, Tyrosinase | | 著者 | Fujieda, N, Umakoshi, K, Nishikawa, Y, Kurisu, G, Itoh, S. | | 登録日 | 2019-04-13 | | 公開日 | 2020-05-13 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (1.44 Å) | | 主引用文献 | Copper-Oxygen Dynamics in the Tyrosinase Mechanism.
Angew.Chem.Int.Ed.Engl., 59, 2020
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6JU5
 | | Aspergillus oryzae pro-tyrosinase C92A/F513Y mutant | | 分子名称: | COPPER (II) ION, Tyrosinase | | 著者 | Fujieda, N, Umakoshi, K, Nishikawa, Y, Kurisu, G, Itoh, S. | | 登録日 | 2019-04-13 | | 公開日 | 2020-05-13 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (1.34 Å) | | 主引用文献 | Copper-Oxygen Dynamics in the Tyrosinase Mechanism.
Angew.Chem.Int.Ed.Engl., 59, 2020
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