3VM1
 
 | | assimilatory nitrite reductase (Nii3) - N226K mutant - HCO3 complex from tobacco leaf | | 分子名称: | BICARBONATE ION, CHLORIDE ION, IRON/SULFUR CLUSTER, ... | | 著者 | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | 登録日 | 2011-12-05 | | 公開日 | 2012-09-26 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (1.5 Å) | | 主引用文献 | X-ray crystal structure of a mutant assimilatory nitrite reductase that shows sulfite reductase-like activity
Chem.Biodivers., 9, 2012
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3VKP
 | | Assimilatory nitrite reductase (Nii3) - NO2 complex from tobbaco leaf analysed with low X-ray dose | | 分子名称: | CHLORIDE ION, IRON/SULFUR CLUSTER, NITRITE ION, ... | | 著者 | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | 登録日 | 2011-11-20 | | 公開日 | 2012-04-25 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (1.4 Å) | | 主引用文献 | The reductive reaction mechanism of tobacco nitrite reductase derived from a combination of crystal structures and ultraviolet-visible microspectroscopy
Proteins, 80, 2012
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3VLX
 | | Assimilatory nitrite reductase (Nii3) - N226K mutant - ligand free form from tobacco leaf | | 分子名称: | CHLORIDE ION, IRON/SULFUR CLUSTER, Nitrite reductase, ... | | 著者 | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | 登録日 | 2011-12-05 | | 公開日 | 2012-09-26 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (1.35 Å) | | 主引用文献 | X-ray crystal structure of a mutant assimilatory nitrite reductase that shows sulfite reductase-like activity
Chem.Biodivers., 9, 2012
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3VKR
 | | Assimilatory nitrite reductase (Nii3) - NO2 complex from tobbaco leaf analysed with high X-ray dose | | 分子名称: | CHLORIDE ION, IRON/SULFUR CLUSTER, NITRITE ION, ... | | 著者 | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | 登録日 | 2011-11-20 | | 公開日 | 2012-04-25 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (1.6 Å) | | 主引用文献 | The reductive reaction mechanism of tobacco nitrite reductase derived from a combination of crystal structures and ultraviolet-visible microspectroscopy
Proteins, 80, 2012
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3VLZ
 | | Assimilatory nitrite reductase (Nii3) - N226K mutant - SO3 full complex from tobacco leaf | | 分子名称: | CHLORIDE ION, IRON/SULFUR CLUSTER, Nitrite reductase, ... | | 著者 | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | 登録日 | 2011-12-05 | | 公開日 | 2012-09-26 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (2.07 Å) | | 主引用文献 | X-ray crystal structure of a mutant assimilatory nitrite reductase that shows sulfite reductase-like activity
Chem.Biodivers., 9, 2012
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3VKT
 | | Assimilatory nitrite reductase (Nii3) - NH2OH complex from tobbaco leaf | | 分子名称: | CHLORIDE ION, HYDROXYAMINE, IRON/SULFUR CLUSTER, ... | | 著者 | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | | 登録日 | 2011-11-20 | | 公開日 | 2012-04-25 | | 最終更新日 | 2023-12-27 | | 実験手法 | X-RAY DIFFRACTION (1.3 Å) | | 主引用文献 | The reductive reaction mechanism of tobacco nitrite reductase derived from a combination of crystal structures and ultraviolet-visible microspectroscopy
Proteins, 80, 2012
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3WWO
 | | S-selective hydroxynitrile lyase from Baliospermum montanum (apo1) | | 分子名称: | (4S)-2-METHYL-2,4-PENTANEDIOL, (S)-hydroxynitrile lyase, CALCIUM ION | | 著者 | Nakano, S, Dadashipour, M, Asano, Y. | | 登録日 | 2014-06-23 | | 公開日 | 2014-10-22 | | 最終更新日 | 2024-03-20 | | 実験手法 | X-RAY DIFFRACTION (2.55 Å) | | 主引用文献 | Structural and functional analysis of hydroxynitrile lyase from Baliospermum montanum with crystal structure, molecular dynamics and enzyme kinetics
Biochim.Biophys.Acta, 1844, 2014
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6JNO
 | | RXRa structure complexed with CU-6PMN | | 分子名称: | 7-oxidanyl-2-oxidanylidene-6-(3,5,5,8,8-pentamethyl-6,7-dihydronaphthalen-2-yl)chromene-3-carboxylic acid, Retinoic acid receptor RXR-alpha | | 著者 | Kawasaki, M, Nakano, S, Motoyama, T, Yamada, S, Watanabe, M, Takamura, Y, Fujihara, M, Tokiwa, H, Kakuta, H, Ito, S. | | 登録日 | 2019-03-17 | | 公開日 | 2019-11-20 | | 最終更新日 | 2024-10-23 | | 実験手法 | X-RAY DIFFRACTION (2.65 Å) | | 主引用文献 | Competitive Binding Assay with an Umbelliferone-Based Fluorescent Rexinoid for Retinoid X Receptor Ligand Screening.
J.Med.Chem., 62, 2019
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6JNR
 | | RXRa structure complexed with CU-6PMN and SRC1 peptide. | | 分子名称: | 7-oxidanyl-2-oxidanylidene-6-(3,5,5,8,8-pentamethyl-6,7-dihydronaphthalen-2-yl)chromene-3-carboxylic acid, HIS-LYS-ILE-LEU-HIS-ARG-LEU-LEU-GLN, Retinoic acid receptor RXR-alpha | | 著者 | Kawasaki, M, Nakano, S, Motoyama, T, Yamada, S, Watanabe, M, Takamura, Y, Fujihara, M, Tokiwa, H, Kakuta, H, Ito, S. | | 登録日 | 2019-03-18 | | 公開日 | 2020-03-25 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (2.3 Å) | | 主引用文献 | RXRa structure complexed with CU-6PMN and SRC1 peptide.
To Be Published
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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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7BXS
 | | 2-amino-3-ketobutyrate CoA ligase from Cupriavidus necator glycine binding form | | 分子名称: | 2-amino-3-ketobutyrate coenzyme A ligase, N-GLYCINE-[3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YL-METHANE] | | 著者 | Motoyama, T, Nakano, S, Hasebe, F, Miyoshi, N, Ito, S. | | 登録日 | 2020-04-20 | | 公開日 | 2021-04-21 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (2.5 Å) | | 主引用文献 | Chemoenzymatic synthesis of 3-ethyl-2,5-dimethylpyrazine by L-threonine 3-dehydrogenase and 2-amino-3-ketobutyrate CoA ligase/L-threonine aldolase
Commun Chem, 4, 2021
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7BXQ
 | | 2-amino-3-ketobutyrate CoA ligase from Cupriavidus necator L-Threonine binding form | | 分子名称: | 2-amino-3-ketobutyrate coenzyme A ligase, N-({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)-L-allothreonine | | 著者 | Motoyama, T, Nakano, S, Hasebe, F, Miyoshi, N, Ito, S. | | 登録日 | 2020-04-20 | | 公開日 | 2021-04-21 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (2.49 Å) | | 主引用文献 | Chemoenzymatic synthesis of 3-ethyl-2,5-dimethylpyrazine by L-threonine 3-dehydrogenase and 2-amino-3-ketobutyrate CoA ligase/L-threonine aldolase
Commun Chem, 4, 2021
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7BXP
 | | 2-amino-3-ketobutyrate CoA ligase from Cupriavidus necator | | 分子名称: | 2-amino-3-ketobutyrate coenzyme A ligase | | 著者 | Motoyama, T, Nakano, S, Hasebe, F, Miyoshi, N, Ito, S. | | 登録日 | 2020-04-20 | | 公開日 | 2021-04-21 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (1.8 Å) | | 主引用文献 | Chemoenzymatic synthesis of 3-ethyl-2,5-dimethylpyrazine by L-threonine 3-dehydrogenase and 2-amino-3-ketobutyrate CoA ligase/L-threonine aldolase
Commun Chem, 4, 2021
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7BXR
 | | 2-amino-3-ketobutyrate CoA ligase from Cupriavidus necator 3-Hydroxynorvaline binding form | | 分子名称: | (2S,3R)-2-[[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]methylamino]-3-oxidanyl-pentanoic acid, 2-amino-3-ketobutyrate coenzyme A ligase | | 著者 | Motoyama, T, Nakano, S, Hasebe, F, Miyoshi, N, Ito, S. | | 登録日 | 2020-04-20 | | 公開日 | 2021-04-21 | | 最終更新日 | 2023-11-29 | | 実験手法 | X-RAY DIFFRACTION (2.55 Å) | | 主引用文献 | Chemoenzymatic synthesis of 3-ethyl-2,5-dimethylpyrazine by L-threonine 3-dehydrogenase and 2-amino-3-ketobutyrate CoA ligase/L-threonine aldolase
Commun Chem, 4, 2021
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8JHE
 | | Hyper-thermostable ancestral L-amino acid oxidase 2 (HTAncLAAO2) | | 分子名称: | FLAVIN-ADENINE DINUCLEOTIDE, Hyper thermostable ancestral L-amino acid oxidase | | 著者 | Kawamura, Y, Ishida, C, Miyata, R, Miyata, A, Hayashi, S, Fujinami, D, Ito, S, Nakano, S. | | 登録日 | 2023-05-23 | | 公開日 | 2023-10-04 | | 実験手法 | X-RAY DIFFRACTION (2.201 Å) | | 主引用文献 | Structural and functional analysis of hyper-thermostable ancestral L-amino acid oxidase that can convert Trp derivatives to D-forms by chemoenzymatic reaction.
Commun Chem, 6, 2023
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6L6K
 | | Crystal structure of dimeric RXRalpha-LBD complexed with partial agonist CBt-PMN and SRC1 | | 分子名称: | 1-(3,5,5,8,8-pentamethyl-6,7-dihydronaphthalen-2-yl)benzotriazole-5-carboxylic acid, CALCIUM ION, Nuclear receptor coactivator 1, ... | | 著者 | Shimizu, K, Numoto, N, Nakano, S, Makishima, M, Kakuta, H, Ito, N. | | 登録日 | 2019-10-29 | | 公開日 | 2020-11-04 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (1.8 Å) | | 主引用文献 | Crystal structure of dimeric RXRalpha-LBD complexed with partial agonist CBt-PMN and SRC1
To Be Published
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6LB4
 | | Crystal structure of dimeric RXR-LBD complexed with NEt-3ME and TIF2 co-activator | | 分子名称: | 1,2-ETHANEDIOL, 6-[ethyl-[3-(2-methoxyethoxy)-4-propan-2-yl-phenyl]amino]pyridine-3-carboxylic acid, Nuclear receptor coactivator 2, ... | | 著者 | Imai, D, Numoto, N, Nakano, S, Kakuta, H, Ito, N. | | 登録日 | 2019-11-13 | | 公開日 | 2020-11-18 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (1.5 Å) | | 主引用文献 | Crystal structure of dimeric RXR-LBD complexed with NEt-3ME and TIF2 co-activator
To Be Published
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8J82
 | | GaHNL-12gen (artificial S-hydroxynitrile lyase generated by GAOptimizer) | | 分子名称: | S-hydroxynitrile lyase | | 著者 | Ozawa, H, Unno, I, Sekine, R, Ito, S, Nakano, S. | | 登録日 | 2023-04-29 | | 公開日 | 2024-04-03 | | 実験手法 | X-RAY DIFFRACTION (1.69 Å) | | 主引用文献 | Development of evolutionary algorithm-based protein redesign method
Cell Rep Phys Sci, 5, 2024
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5ZQU
 | | Crystal structure of tetrameric RXRalpha-LBD complexed with partial agonist CBt-PMN | | 分子名称: | 1-(3,5,5,8,8-pentamethyl-6,7-dihydronaphthalen-2-yl)benzotriazole-5-carboxylic acid, BROMIDE ION, Retinoic acid receptor RXR-alpha | | 著者 | Miyashita, Y, Numoto, N, Arulmozhiraja, S, Nakano, S, Matsuo, N, Shimizu, K, Kakuta, H, Ito, S, Ikura, T, Ito, N, Tokiwa, H. | | 登録日 | 2018-04-20 | | 公開日 | 2019-02-27 | | 最終更新日 | 2024-10-16 | | 実験手法 | X-RAY DIFFRACTION (2.60038781 Å) | | 主引用文献 | Dual conformation of the ligand induces the partial agonistic activity of retinoid X receptor alpha (RXR alpha ).
FEBS Lett., 593, 2019
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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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5Z09
 | | ST0452(Y97N)-UTP binding form | | 分子名称: | Dual sugar-1-phosphate nucleotidylyltransferase, URIDINE 5'-TRIPHOSPHATE | | 著者 | Honda, Y, Nakano, S, Ito, S, Dadashipour, M, Zhang, Z, Kawarabayasi, Y. | | 登録日 | 2017-12-19 | | 公開日 | 2018-10-31 | | 最終更新日 | 2023-11-22 | | 実験手法 | X-RAY DIFFRACTION (2.91 Å) | | 主引用文献 | Improvement of ST0452N-Acetylglucosamine-1-Phosphate Uridyltransferase Activity by the Cooperative Effect of Two Single Mutations Identified through Structure-Based Protein Engineering
Appl. Environ. Microbiol., 84, 2018
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5Z0A
 | | ST0452(Y97N)-GlcNAc binding form | | 分子名称: | 2-acetamido-2-deoxy-beta-D-glucopyranose, Dual sugar-1-phosphate nucleotidylyltransferase | | 著者 | Honda, Y, Nakano, S, Ito, S, Dadashipour, M, Zhang, Z, Kawarabayasi, Y. | | 登録日 | 2017-12-19 | | 公開日 | 2018-10-31 | | 最終更新日 | 2024-10-30 | | 実験手法 | X-RAY DIFFRACTION (2.09 Å) | | 主引用文献 | Improvement of ST0452N-Acetylglucosamine-1-Phosphate Uridyltransferase Activity by the Cooperative Effect of Two Single Mutations Identified through Structure-Based Protein Engineering
Appl. Environ. Microbiol., 84, 2018
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