7YE3
 
 | | Crystal structure of Lactobacillus rhamnosus 4-deoxy-L-threo-5-hexosulose-uronate ketol-isomerase KduI complexed with MES | | 分子名称: | 2-(N-MORPHOLINO)-ETHANESULFONIC ACID, 4-deoxy-L-threo-5-hexosulose-uronate ketol-isomerase, ZINC ION | | 著者 | Yamamoto, Y, Oiki, S, Takase, R, Mikami, B, Hashimoto, W. | | 登録日 | 2022-07-05 | | 公開日 | 2023-07-05 | | 最終更新日 | 2024-01-31 | | 実験手法 | X-RAY DIFFRACTION (2.553 Å) | | 主引用文献 | Crystal Structures of Lacticaseibacillus 4-Deoxy-L- threo- 5-hexosulose-uronate Ketol-isomerase KduI in Complex with Substrate Analogs.
J Appl Glycosci (1999), 70, 2023
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7YRS
 | | Crystal structure of Lactobacillus rhamnosus 4-deoxy-L-threo-5-hexosulose-uronate ketol-isomerase KduI complexed with MOPS | | 分子名称: | 3[N-MORPHOLINO]PROPANE SULFONIC ACID, 4-deoxy-L-threo-5-hexosulose-uronate ketol-isomerase, ZINC ION | | 著者 | Yamamoto, Y, Oiki, S, Takase, R, Mikami, B, Hashimoto, W. | | 登録日 | 2022-08-10 | | 公開日 | 2023-08-16 | | 最終更新日 | 2024-01-31 | | 実験手法 | X-RAY DIFFRACTION (2.802 Å) | | 主引用文献 | Crystal Structures of Lacticaseibacillus 4-Deoxy-L- threo- 5-hexosulose-uronate Ketol-isomerase KduI in Complex with Substrate Analogs.
J Appl Glycosci (1999), 70, 2023
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6IWG
 | | Crystal structure of rhesus macaque MHC class I molecule Mamu-B*05104 complexed with N-myristoylated 4-mer lipopeptide derived from SIV nef protein | | 分子名称: | 1,2-ETHANEDIOL, BORIC ACID, Beta-2-microglobulin, ... | | 著者 | Yamamoto, Y, Morita, D, Sugita, M. | | 登録日 | 2018-12-05 | | 公開日 | 2019-08-14 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (1.8 Å) | | 主引用文献 | Identification and Structure of an MHC Class I-Encoded Protein with the Potential to PresentN-Myristoylated 4-mer Peptides to T Cells.
J Immunol., 202, 2019
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6IWH
 | | Crystal structure of rhesus macaque MHC class I molecule Mamu-B*05104 complexed with C14-GGGI lipopeptide | | 分子名称: | 1,2-ETHANEDIOL, Beta-2-microglobulin, C14-GGGI lipopeptide, ... | | 著者 | Yamamoto, Y, Morita, D, Sugita, M. | | 登録日 | 2018-12-05 | | 公開日 | 2019-08-14 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (1.95 Å) | | 主引用文献 | Identification and Structure of an MHC Class I-Encoded Protein with the Potential to PresentN-Myristoylated 4-mer Peptides to T Cells.
J Immunol., 202, 2019
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7E4S
 | | Crystal structure of Lactobacillus rhamnosus 4-deoxy-L-threo-5-hexosulose-uronate ketol-isomerase KduI complexed with HEPES | | 分子名称: | 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, 5-dehydro-4-deoxy-D-glucuronate isomerase, ZINC ION | | 著者 | Yamamoto, Y, Takase, R, Mikami, B, Hashimoto, W. | | 登録日 | 2021-02-15 | | 公開日 | 2022-02-23 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (2.79 Å) | | 主引用文献 | Crystal structures of Lacticaseibacillus 4-deoxy-L-threo-5-hexosulose-uronate ketol-isomerase KduI in complex with substrate analogs
J.Appl.Glyosci., 2023
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2RG3
 | | Covalent complex structure of elastase | | 分子名称: | 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose, 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, Leukocyte elastase | | 著者 | Huang, W, Yamamoto, Y. | | 登録日 | 2007-10-02 | | 公開日 | 2008-07-01 | | 最終更新日 | 2020-07-29 | | 実験手法 | X-RAY DIFFRACTION (1.8 Å) | | 主引用文献 | X-ray snapshot of the mechanism of inactivation of human neutrophil elastase by 1,2,5-thiadiazolidin-3-one 1,1-dioxide derivatives.
J.Med.Chem., 51, 2008
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1C7G
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3VW6
 | | Crystal structure of human apoptosis signal-regulating kinase 1 (ASK1) with imidazopyridine inhibitor | | 分子名称: | 4-tert-butyl-N-[6-(1H-imidazol-1-yl)imidazo[1,2-a]pyridin-2-yl]benzamide, Mitogen-activated protein kinase kinase kinase 5 | | 著者 | Terao, Y, Suzuki, H, Yoshikawa, M, Yashiro, H, Takekawa, S, Fujitani, Y, Okada, K, Inoue, Y, Yamamoto, Y, Nakagawa, H, Yao, S, Kawamoto, T, Uchikawa, O. | | 登録日 | 2012-08-06 | | 公開日 | 2012-10-31 | | 最終更新日 | 2024-03-20 | | 実験手法 | X-RAY DIFFRACTION (2.4 Å) | | 主引用文献 | Design and biological evaluation of imidazo[1,2-a]pyridines as novel and potent ASK1 inhibitors.
Bioorg. Med. Chem. Lett., 22, 2012
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5ZV2
 | | FGFR-1 in complex with ligand lenvatinib | | 分子名称: | 4-{3-chloro-4-[(cyclopropylcarbamoyl)amino]phenoxy}-7-methoxyquinoline-6-carboxamide, Fibroblast growth factor receptor 1 | | 著者 | Matsuki, M, Hoshi, T, Yamamoto, Y, Ikemori-Kawada, M, Minoshima, Y, Funahashi, Y, Matsui, J. | | 登録日 | 2018-05-09 | | 公開日 | 2018-07-11 | | 最終更新日 | 2024-10-16 | | 実験手法 | X-RAY DIFFRACTION (2.86 Å) | | 主引用文献 | Lenvatinib inhibits angiogenesis and tumor fibroblast growth factor signaling pathways in human hepatocellular carcinoma models.
Cancer Med, 7, 2018
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5Y1F
 | | Monomeric L-threonine 3-dehydrogenase from metagenome database (NAD+ bound form) | | 分子名称: | NAD dependent epimerase/dehydratase family, NICOTINAMIDE-ADENINE-DINUCLEOTIDE | | 著者 | Motoyama, T, Nakano, S, Yamamoto, Y, Tokiwa, H, Asano, Y, Ito, S. | | 登録日 | 2017-07-20 | | 公開日 | 2017-11-15 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (1.25 Å) | | 主引用文献 | Product Release Mechanism Associated with Structural Changes in Monomeric l-Threonine 3-Dehydrogenase.
Biochemistry, 56, 2017
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5Y1G
 | | Monomeric L-threonine 3-dehydrogenase from metagenome database (AKB and NADH bound form) | | 分子名称: | 2-AMINO-3-KETOBUTYRIC ACID, NAD dependent epimerase/dehydratase family, NICOTINAMIDE-ADENINE-DINUCLEOTIDE | | 著者 | Motoyama, T, Nakano, S, Yamamoto, Y, Tokiwa, H, Asano, Y, Ito, S. | | 登録日 | 2017-07-20 | | 公開日 | 2017-11-15 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (1.35 Å) | | 主引用文献 | Product Release Mechanism Associated with Structural Changes in Monomeric l-Threonine 3-Dehydrogenase.
Biochemistry, 56, 2017
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5Y1E
 | | monomeric L-threonine 3-dehydrogenase from metagenome database (L-Ser and NAD+ bound form) | | 分子名称: | NAD dependent epimerase/dehydratase family, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, SERINE | | 著者 | Motoyama, T, Nakano, S, Yamamoto, Y, Tokiwa, H, Asano, Y, Ito, S. | | 登録日 | 2017-07-20 | | 公開日 | 2017-11-15 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (1.9 Å) | | 主引用文献 | Product Release Mechanism Associated with Structural Changes in Monomeric l-Threonine 3-Dehydrogenase.
Biochemistry, 56, 2017
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5Y1D
 | | Monomeric L-threonine 3-dehydrogenase from metagenome database (apo form) | | 分子名称: | NAD dependent epimerase/dehydratase family | | 著者 | Motoyama, T, Nakano, S, Yamamoto, Y, Tokiwa, H, Asano, Y, Ito, S. | | 登録日 | 2017-07-20 | | 公開日 | 2017-11-15 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (1.9 Å) | | 主引用文献 | Product Release Mechanism Associated with Structural Changes in Monomeric l-Threonine 3-Dehydrogenase.
Biochemistry, 56, 2017
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5XL0
 | | met-aquo form of sperm whale myoglobin reconstituted with 7-PF, a heme possesseing CF3 group as side chain | | 分子名称: | Myoglobin, SULFATE ION, fluorinated heme | | 著者 | Kanai, Y, Harada, A, Shibata, T, Nishimura, R, Namiki, K, Watanabe, M, Nakamura, S, Yumoto, F, Senda, T, Suzuki, A, Neya, S, Yamamoto, Y. | | 登録日 | 2017-05-10 | | 公開日 | 2017-08-16 | | 最終更新日 | 2024-03-27 | | 実験手法 | X-RAY DIFFRACTION (1.25 Å) | | 主引用文献 | Characterization of Heme Orientational Disorder in a Myoglobin Reconstituted with a Trifluoromethyl-Group-Substituted Heme Cofactor
Biochemistry, 56, 2017
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2JMW
 | | Structure of DNA-Binding Domain of Arabidopsis GT-1 | | 分子名称: | DNA binding protein GT-1 | | 著者 | Nagata, T, Niyada, E, Noto, K, Ikeda, Y, Yamamoto, Y, Uesugi, S, Murata, J, Hiratsuka, K, Katahira, M. | | 登録日 | 2006-12-11 | | 公開日 | 2007-12-11 | | 最終更新日 | 2023-12-20 | | 実験手法 | SOLUTION NMR | | 主引用文献 | Solution structures of the trihelix DNA-binding domains of the wild-type and a phosphomimetic mutant of Arabidopsis GT-1: mechanism for an increase in DNA-binding affinity through phosphorylation.
Proteins, 78, 2010
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2CWV
 | | Product schiff-base intermediate of copper amine oxidase from arthrobacter globiformis | | 分子名称: | COPPER (II) ION, Phenylethylamine oxidase | | 著者 | Chiu, Y.C, Okajima, T, Murakawa, T, Uchida, M, Taki, M, Hirota, S, Kim, M, Yamaguchi, H, Kawano, Y, Kamiya, N, Kuroda, S, Hayashi, H, Yamamoto, Y, Tanizawa, K. | | 登録日 | 2005-06-26 | | 公開日 | 2006-05-02 | | 最終更新日 | 2024-10-16 | | 実験手法 | X-RAY DIFFRACTION (1.85 Å) | | 主引用文献 | Kinetic and Structural Studies on the Catalytic Role of the Aspartic Acid Residue Conserved in Copper Amine Oxidase(,)
Biochemistry, 45, 2006
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2CWU
 | | Substrate schiff-base intermediate of copper amine oxidase from arthrobacter globiformis | | 分子名称: | COPPER (II) ION, Phenylethylamine oxidase | | 著者 | Chiu, Y.C, Okajima, T, Murakawa, T, Uchida, M, Taki, M, Hirota, S, Kim, M, Yamaguchi, H, Kawano, Y, Kamiya, N, Kuroda, S, Hayashi, H, Yamamoto, Y, Tanizawa, K. | | 登録日 | 2005-06-26 | | 公開日 | 2006-05-02 | | 最終更新日 | 2024-10-23 | | 実験手法 | X-RAY DIFFRACTION (1.85 Å) | | 主引用文献 | Kinetic and Structural Studies on the Catalytic Role of the Aspartic Acid Residue Conserved in Copper Amine Oxidase(,)
Biochemistry, 45, 2006
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2OGH
 | | Solution structure of yeast eIF1 | | 分子名称: | Eukaryotic translation initiation factor eIF-1 | | 著者 | Reibarkh, M, del Rio, F, Yamamoto, Y, Asano, K, Wagner, G. | | 登録日 | 2007-01-05 | | 公開日 | 2007-11-20 | | 最終更新日 | 2023-12-27 | | 実験手法 | SOLUTION NMR | | 主引用文献 | Eukaryotic Initiation Factor (eIF) 1 Carries Two Distinct eIF5-binding Faces Important for Multifactor Assembly and AUG Selection.
J.Biol.Chem., 283, 2008
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2OAZ
 | | Human Methionine Aminopeptidase-2 Complexed with SB-587094 | | 分子名称: | COBALT (II) ION, N-(2-ISOPROPYLPHENYL)-3-[(2-THIENYLMETHYL)THIO]-1H-1,2,4-TRIAZOL-5-AMINE, human Methionine Amino Peptidase 2 | | 著者 | Marino Jr, J.P, Fisher, P.W, Hofmann, G.A, Kirkpatrick, R, Janson, C.A, Johnson, R.K, Ma, C, Mattern, M, Meek, T.D, Ryan, D, Schulz, C, Smith, W.W, Tew, D.G, Tomazek Jr, T.A, Veber, D.F, Xiong, W.C, Yamamoto, Y, Yamashita, K, Yang, G, Thompson, S.K. | | 登録日 | 2006-12-18 | | 公開日 | 2007-06-19 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (1.9 Å) | | 主引用文献 | Highly potent inhibitors of methionine aminopeptidase-2 based on a 1,2,4-triazole pharmacophore.
J.Med.Chem., 50, 2007
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2CWT
 | | Catalytic base deletion in copper amine oxidase from arthrobacter globiformis | | 分子名称: | COPPER (II) ION, Phenylethylamine oxidase | | 著者 | Chiu, Y.C, Okajima, T, Murakawa, T, Uchida, M, Taki, M, Hirota, S, Kim, M, Yamaguchi, H, Kawano, Y, Kamiya, N, Kuroda, S, Hayashi, H, Yamamoto, Y, Tanizawa, K. | | 登録日 | 2005-06-26 | | 公開日 | 2006-05-02 | | 最終更新日 | 2021-11-10 | | 実験手法 | X-RAY DIFFRACTION (1.82 Å) | | 主引用文献 | Kinetic and Structural Studies on the Catalytic Role of the Aspartic Acid Residue Conserved in Copper Amine Oxidase(,)
Biochemistry, 45, 2006
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7X7O
 | | SARS-CoV-2 spike RBD in complex with neutralizing antibody UT28K | | 分子名称: | Spike protein S1, UT28K Fab, heavy chain, ... | | 著者 | Ozawa, T, Tani, H, Anraku, Y, Kita, S, Igarashi, E, Saga, Y, Inasaki, N, Kawasuji, H, Yamada, H, Sasaki, S, Somekawa, M, Sasaki, J, Hayakawa, Y, Yamamoto, Y, Morinaga, Y, Kurosawa, N, Isobe, M, Fukuhara, H, Maenaka, K, Hashiguchi, T, Kishi, H, Kitajima, I, Saito, S, Niimi, H. | | 登録日 | 2022-03-10 | | 公開日 | 2022-05-25 | | 最終更新日 | 2024-10-23 | | 実験手法 | X-RAY DIFFRACTION (3.75 Å) | | 主引用文献 | Novel super-neutralizing antibody UT28K is capable of protecting against infection from a wide variety of SARS-CoV-2 variants.
Mabs, 14, 2022
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6L96
 | | Structure of PPARalpha-LBD/pemafibrate/SRC1 peptide | | 分子名称: | (2~{R})-2-[3-[[1,3-benzoxazol-2-yl-[3-(4-methoxyphenoxy)propyl]amino]methyl]phenoxy]butanoic acid, Peroxisome proliferator-activated receptor alpha, SRC1 coactivator peptide | | 著者 | Kawasaki, M, Kambe, A, Yamamoto, Y, Arulmozhira, S, Ito, S, Nakagawa, Y, Tokiwa, H, Nakano, S, Shimano, H. | | 登録日 | 2019-11-08 | | 公開日 | 2020-01-15 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (3.2 Å) | | 主引用文献 | Elucidation of Molecular Mechanism of a Selective PPAR alpha Modulator, Pemafibrate, through Combinational Approaches of X-ray Crystallography, Thermodynamic Analysis, and First-Principle Calculations.
Int J Mol Sci, 21, 2020
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2D1W
 | | Substrate Schiff-Base intermediate with tyramine in copper amine oxidase from Arthrobacter globiformis | | 分子名称: | COPPER (II) ION, Phenylethylamine oxidase | | 著者 | Murakawa, T, Okajima, T, Kuroda, S, Nakamoto, T, Taki, M, Yamamoto, Y, Hayashi, H, Tanizawa, K. | | 登録日 | 2005-09-01 | | 公開日 | 2006-05-02 | | 最終更新日 | 2024-10-09 | | 実験手法 | X-RAY DIFFRACTION (1.74 Å) | | 主引用文献 | Quantum mechanical hydrogen tunneling in bacterial copper amine oxidase reaction
Biochem.Biophys.Res.Commun., 342, 2006
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2E2V
 | | Substrate Schiff-base analogue of copper amine oxidase from Arthrobacter globiformis formed with benzylhydrazine | | 分子名称: | COPPER (II) ION, Phenylethylamine oxidase | | 著者 | Murakawa, T, Okajima, T, Taki, M, Yamamoto, Y, Kuroda, S, Hayashi, H, Tanizawa, K. | | 登録日 | 2006-11-17 | | 公開日 | 2007-11-20 | | 最終更新日 | 2013-04-24 | | 実験手法 | X-RAY DIFFRACTION (1.8 Å) | | 主引用文献 | Catalytic Regulation Conducted by the Substrate Schiff Base and Conserved Aspartic Acid Residue in Bacterial Copper Amine Oxidase Reaction
To be Published
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2E2T
 | | Substrate Schiff-base analogue of copper amine oxidase from Arthrobacter globiformis formed with phenylhydrazine | | 分子名称: | COPPER (II) ION, Phenylethylamine oxidase | | 著者 | Murakawa, T, Okajima, T, Taki, M, Yamamoto, Y, Kuroda, S, Hayashi, H, Tanizawa, K. | | 登録日 | 2006-11-17 | | 公開日 | 2007-11-20 | | 最終更新日 | 2013-04-24 | | 実験手法 | X-RAY DIFFRACTION (2.05 Å) | | 主引用文献 | Catalytic Regulation Conducted by the Substrate Schiff Base and Conserved Aspartic Acid Residue in Bacterial Copper Amine Oxidase Reaction
To be Published
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