7EXZ
| DgpB-DgpC complex apo 2.5 angstrom | Descriptor: | 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, AP_endonuc_2 domain-containing protein, DgpB, ... | Authors: | Mori, T, Senda, M, Senda, T, Abe, I. | Deposit date: | 2021-05-29 | Release date: | 2021-11-03 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | C-Glycoside metabolism in the gut and in nature: Identification, characterization, structural analyses and distribution of C-C bond-cleaving enzymes. Nat Commun, 12, 2021
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7EXB
| DfgA-DfgB complex apo 2.4 angstrom | Descriptor: | DfgB, MANGANESE (II) ION, SULFATE ION, ... | Authors: | Mori, T, Senda, M, Senda, T, Abe, I. | Deposit date: | 2021-05-26 | Release date: | 2021-11-03 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | C-Glycoside metabolism in the gut and in nature: Identification, characterization, structural analyses and distribution of C-C bond-cleaving enzymes. Nat Commun, 12, 2021
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4DVY
| Crystal structure of the Helicobacter pylori CagA oncoprotein | Descriptor: | Cytotoxicity-associated immunodominant antigen | Authors: | Hayashi, T, Senda, M, Morohashi, H, Higashi, H, Horio, M, Kashiba, Y, Nagase, L, Sasaya, D, Shimizu, T, Venugopalan, N, Kumeta, H, Noda, N, Inagaki, F, Senda, T, Hatakeyama, M. | Deposit date: | 2012-02-23 | Release date: | 2012-07-25 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (3.3 Å) | Cite: | Tertiary Structure-Function Analysis Reveals the Pathogenic Signaling Potentiation Mechanism of Helicobacter pylori Oncogenic Effector CagA Cell Host Microbe, 12, 2012
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4DVZ
| Crystal structure of the Helicobacter pylori CagA oncoprotein | Descriptor: | Cytotoxicity-associated immunodominant antigen | Authors: | Hayashi, T, Senda, M, Morohashi, H, Higashi, H, Horio, M, Kashiba, Y, Nagase, L, Sasaya, D, Shimizu, T, Venugopalan, N, Kumeta, H, Noda, N, Inagaki, F, Senda, T, Hatakeyama, M. | Deposit date: | 2012-02-23 | Release date: | 2012-07-25 | Last modified: | 2024-03-20 | Method: | X-RAY DIFFRACTION (3.19 Å) | Cite: | Tertiary structure-function analysis reveals the pathogenic signaling potentiation mechanism of Helicobacter pylori oncogenic effector CagA Cell Host Microbe, 12, 2012
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7XLF
| Crystal structure of CH3-THF complex of methylenetetrahydrofolate reductase from Sphingobium sp. SYK-6 | Descriptor: | 5,10-methylenetetrahydrofolate reductase, 5-METHYL-5,6,7,8-TETRAHYDROFOLIC ACID, DI(HYDROXYETHYL)ETHER, ... | Authors: | Yu, H.Y, Senda, M, Senda, T. | Deposit date: | 2022-04-21 | Release date: | 2023-04-26 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.85 Å) | Cite: | Crystal structural of methylenetetrahydrofolate reductase from Sphingobium sp. SYK-6 To Be Published
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7XG9
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6K4H
| Crystal structure of the PI5P4Kbeta-AMPPNP complex | Descriptor: | PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER, Phosphatidylinositol 5-phosphate 4-kinase type-2 beta | Authors: | Takeuchi, K, Senda, M, Senda, T. | Deposit date: | 2019-05-23 | Release date: | 2020-05-27 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.55 Å) | Cite: | The GTP responsiveness of PI5P4K beta evolved from a compromised trade-off between activity and specificity. Structure, 2022
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6K4G
| Crystal structure of the PI5P4Kbeta-GMPPNP complex | Descriptor: | PHOSPHOAMINOPHOSPHONIC ACID-GUANYLATE ESTER, Phosphatidylinositol 5-phosphate 4-kinase type-2 beta | Authors: | Takeuchi, K, Senda, M, Senda, T. | Deposit date: | 2019-05-23 | Release date: | 2020-05-27 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.7 Å) | Cite: | The GTP responsiveness of PI5P4K beta evolved from a compromised trade-off between activity and specificity. Structure, 2022
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5XNY
| Crystal structure of CreD | Descriptor: | CreD | Authors: | Katsuyama, Y, Sato, Y, Sugai, Y, Higashiyama, Y, Senda, M, Senda, T, Ohnishi, Y. | Deposit date: | 2017-05-25 | Release date: | 2018-03-14 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.18 Å) | Cite: | Crystal structure of the nitrosuccinate lyase CreD in complex with fumarate provides insights into the catalytic mechanism for nitrous acid elimination FEBS J., 285, 2018
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5XNZ
| Crystal structure of CreD complex with fumarate | Descriptor: | CreD, FUMARIC ACID | Authors: | Katsuyama, Y, Sato, Y, Sugai, Y, Higashiyama, Y, Senda, M, Senda, T, Ohnishi, Y. | Deposit date: | 2017-05-25 | Release date: | 2018-03-14 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Crystal structure of the nitrosuccinate lyase CreD in complex with fumarate provides insights into the catalytic mechanism for nitrous acid elimination FEBS J., 285, 2018
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5XXP
| Crystal structure of CbnR_DBD-DNA complex | Descriptor: | DNA (25-MER), LysR-type regulatory protein | Authors: | Senda, T, Senda, M. | Deposit date: | 2017-07-04 | Release date: | 2018-01-17 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.55 Å) | Cite: | Crystal structure of the DNA-binding domain of the LysR-type transcriptional regulator CbnR in complex with a DNA fragment of the recognition-binding site in the promoter region FEBS J., 285, 2018
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5YBL
| Fe(II)/(alpha)ketoglutarate-dependent dioxygenase AusE | Descriptor: | 2-OXOGLUTARIC ACID, MANGANESE (II) ION, Multifunctional dioxygenase ausE | Authors: | Nakashima, Y, Senda, M. | Deposit date: | 2017-09-05 | Release date: | 2018-01-24 | Last modified: | 2024-03-27 | Method: | X-RAY DIFFRACTION (2.108 Å) | Cite: | Structure function and engineering of multifunctional non-heme iron dependent oxygenases in fungal meroterpenoid biosynthesis. Nat Commun, 9, 2018
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5YBT
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5YBS
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5YBN
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5YBP
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7EBT
| Crystal structure of Aedes aegypti Noppera-bo, glutathione S-transferase epsilon 8, in glutathione-bound form | Descriptor: | CALCIUM ION, GLUTATHIONE, Glutathione transferase | Authors: | Inaba, K, Koiwai, K, Senda, M, Senda, T, Niwa, R. | Deposit date: | 2021-03-11 | Release date: | 2022-01-26 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.51 Å) | Cite: | Molecular action of larvicidal flavonoids on ecdysteroidogenic glutathione S-transferase Noppera-bo in Aedes aegypti. Bmc Biol., 20, 2022
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7EBW
| Crystal structure of Aedes aegypti Noppera-bo, glutathione S-transferase epsilon 8, in desmethylglycitein and glutathione-bound form | Descriptor: | 6,7-dihydroxy-3-(4-hydroxyphenyl)-4H-chromen-4-one, CALCIUM ION, GLUTATHIONE, ... | Authors: | Inaba, K, Koiwai, K, Senda, M, Senda, T, Niwa, R. | Deposit date: | 2021-03-11 | Release date: | 2022-01-26 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.94 Å) | Cite: | Molecular action of larvicidal flavonoids on ecdysteroidogenic glutathione S-transferase Noppera-bo in Aedes aegypti. Bmc Biol., 20, 2022
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7EBV
| Crystal structure of Aedes aegypti Noppera-bo, glutathione S-transferase epsilon 8, in luteolin- and glutathione-bound form | Descriptor: | 2-(3,4-dihydroxyphenyl)-5,7-dihydroxy-4H-chromen-4-one, CALCIUM ION, GLUTATHIONE, ... | Authors: | Inaba, K, Koiwai, K, Senda, M, Senda, T, Niwa, R. | Deposit date: | 2021-03-11 | Release date: | 2022-01-26 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.5 Å) | Cite: | Molecular action of larvicidal flavonoids on ecdysteroidogenic glutathione S-transferase Noppera-bo in Aedes aegypti. Bmc Biol., 20, 2022
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7EBU
| Crystal structure of Aedes aegypti Noppera-bo, glutathione S-transferase epsilon 8, in Daidzein- and glutathione-bound form | Descriptor: | 7-hydroxy-3-(4-hydroxyphenyl)-4H-chromen-4-one, CALCIUM ION, GLUTATHIONE, ... | Authors: | Inaba, K, Koiwai, K, Senda, M, Senda, T, Niwa, R. | Deposit date: | 2021-03-11 | Release date: | 2022-01-26 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.95 Å) | Cite: | Molecular action of larvicidal flavonoids on ecdysteroidogenic glutathione S-transferase Noppera-bo in Aedes aegypti. Bmc Biol., 20, 2022
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7E4D
| Crystal structure of PlDBR | Descriptor: | Double Bond Reductase | Authors: | Sugimoto, K, Senda, M, Senda, T. | Deposit date: | 2021-02-11 | Release date: | 2022-02-02 | Last modified: | 2024-05-29 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | Exploration and structure-based engineering of alkenal double bond reductases catalyzing the C alpha C beta double bond reduction of coniferaldehyde. N Biotechnol, 68, 2022
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4GNB
| human SMP30/GNL | Descriptor: | CALCIUM ION, Regucalcin | Authors: | Aizawa, S, Senda, M, Harada, A, Maruyama, N, Ishida, T, Aigaki, T, Ishigami, A, Senda, T. | Deposit date: | 2012-08-17 | Release date: | 2013-04-10 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.5 Å) | Cite: | Structural basis of the gamma-lactone-ring formation in ascorbic acid biosynthesis by the senescence marker protein-30/gluconolactonase Plos One, 8, 2013
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4GN9
| mouse SMP30/GNL-glucose complex | Descriptor: | CALCIUM ION, Regucalcin, SULFATE ION, ... | Authors: | Aizawa, S, Senda, M, Harada, A, Maruyama, N, Ishida, T, Aigaki, T, Ishigami, A, Senda, T. | Deposit date: | 2012-08-17 | Release date: | 2013-04-10 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Structural basis of the gamma-lactone-ring formation in ascorbic acid biosynthesis by the senescence marker protein-30/gluconolactonase Plos One, 8, 2013
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4GN7
| mouse SMP30/GNL | Descriptor: | CALCIUM ION, Regucalcin, SULFATE ION | Authors: | Aizawa, S, Senda, M, Harada, A, Maruyama, N, Ishida, T, Aigaki, T, Ishigami, A, Senda, T. | Deposit date: | 2012-08-17 | Release date: | 2013-04-10 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.95 Å) | Cite: | Structural basis of the gamma-lactone-ring formation in ascorbic acid biosynthesis by the senescence marker protein-30/gluconolactonase Plos One, 8, 2013
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4GN8
| mouse SMP30/GNL-1,5-AG complex | Descriptor: | 1,5-anhydro-D-glucitol, CALCIUM ION, Regucalcin, ... | Authors: | Aizawa, S, Senda, M, Harada, A, Maruyama, N, Ishida, T, Aigaki, T, Ishigami, A, Senda, T. | Deposit date: | 2012-08-17 | Release date: | 2013-04-10 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | Structural basis of the gamma-lactone-ring formation in ascorbic acid biosynthesis by the senescence marker protein-30/gluconolactonase Plos One, 8, 2013
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