5Y1D
| Monomeric L-threonine 3-dehydrogenase from metagenome database (apo form) | Descriptor: | NAD dependent epimerase/dehydratase family | Authors: | Motoyama, T, Nakano, S, Yamamoto, Y, Tokiwa, H, Asano, Y, Ito, S. | Deposit date: | 2017-07-20 | Release date: | 2017-11-15 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | 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 | Descriptor: | Dual sugar-1-phosphate nucleotidylyltransferase, URIDINE 5'-TRIPHOSPHATE | Authors: | Honda, Y, Nakano, S, Ito, S, Dadashipour, M, Zhang, Z, Kawarabayasi, Y. | Deposit date: | 2017-12-19 | Release date: | 2018-10-31 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.91 Å) | Cite: | 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 | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, Dual sugar-1-phosphate nucleotidylyltransferase | Authors: | Honda, Y, Nakano, S, Ito, S, Dadashipour, M, Zhang, Z, Kawarabayasi, Y. | Deposit date: | 2017-12-19 | Release date: | 2018-10-31 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.09 Å) | Cite: | 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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1Z3E
| Crystal Structure of Spx in Complex with the C-terminal Domain of the RNA Polymerase Alpha Subunit | Descriptor: | DNA-directed RNA polymerase alpha chain, Regulatory protein spx, SULFATE ION | Authors: | Newberry, K.J, Nakano, S, Zuber, P, Brennan, R.G. | Deposit date: | 2005-03-11 | Release date: | 2005-10-11 | Last modified: | 2017-10-11 | Method: | X-RAY DIFFRACTION (1.5 Å) | Cite: | Crystal structure of the Bacillus subtilis anti-alpha, global transcriptional regulator, Spx, in complex with the {alpha} C-terminal domain of RNA polymerase Proc.Natl.Acad.Sci.Usa, 102, 2005
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6LB5
| Crystal structure of dimeric RXR-LBD complexed with full agonist NEt-3IB and TIF2 co-activator | Descriptor: | 6-[ethyl-[3-(2-methylpropoxy)-4-propan-2-yl-phenyl]amino]pyridine-3-carboxylic acid, Nuclear receptor coactivator 2, Retinoic acid receptor RXR-alpha | Authors: | Imai, D, Numoto, N, Nakano, S, Kakuta, H, Ito, N. | Deposit date: | 2019-11-13 | Release date: | 2020-11-18 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Crystal structure of dimeric RXR-LBD complexed with full agonist NEt-3IB and TIF2 co-activator To Be Published
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6L6K
| Crystal structure of dimeric RXRalpha-LBD complexed with partial agonist CBt-PMN and SRC1 | Descriptor: | 1-(3,5,5,8,8-pentamethyl-6,7-dihydronaphthalen-2-yl)benzotriazole-5-carboxylic acid, CALCIUM ION, Nuclear receptor coactivator 1, ... | Authors: | Shimizu, K, Numoto, N, Nakano, S, Makishima, M, Kakuta, H, Ito, N. | Deposit date: | 2019-10-29 | Release date: | 2020-11-04 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.8 Å) | Cite: | 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 | Descriptor: | 1,2-ETHANEDIOL, 6-[ethyl-[3-(2-methoxyethoxy)-4-propan-2-yl-phenyl]amino]pyridine-3-carboxylic acid, Nuclear receptor coactivator 2, ... | Authors: | Imai, D, Numoto, N, Nakano, S, Kakuta, H, Ito, N. | Deposit date: | 2019-11-13 | Release date: | 2020-11-18 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.5 Å) | Cite: | Crystal structure of dimeric RXR-LBD complexed with NEt-3ME and TIF2 co-activator To Be Published
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6LB6
| Crystal structure of dimeric RXR-LBD complexed with partial agonist NEt-4IB and TIF2 co-activator | Descriptor: | 6-[ethyl-[4-(2-methylpropoxy)-3-propan-2-yl-phenyl]amino]pyridine-3-carboxylic acid, Nuclear receptor coactivator 2, Retinoic acid receptor RXR-alpha | Authors: | Imai, D, Numoto, N, Nakano, S, Kakuta, H, Ito, N. | Deposit date: | 2019-11-13 | Release date: | 2020-11-18 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Crystal structure of dimeric RXR-LBD complexed with partial agonist NEt-4IB and TIF2 co-activator To Be Published
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7CGV
| Full consensus L-threonine 3-dehydrogenase, FcTDH-IIYM (NAD+ bound form) | Descriptor: | Artificial L-threonine 3-dehydrogenase, NICOTINAMIDE-ADENINE-DINUCLEOTIDE | Authors: | Motoyama, T, Hiramatsu, N, Asano, Y, Nakano, S, Ito, S. | Deposit date: | 2020-07-02 | Release date: | 2020-10-28 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.38 Å) | Cite: | Protein Sequence Selection Method That Enables Full Consensus Design of Artificial l-Threonine 3-Dehydrogenases with Unique Enzymatic Properties. Biochemistry, 59, 2020
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7EPS
| Partial Consensus L-threonine 3-dehydrogenase (E-change) | Descriptor: | 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL, L-threonine 3-dehydrogenase, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, ... | Authors: | Kozuka, K, Nakano, S, Asano, Y, Ito, S. | Deposit date: | 2021-04-27 | Release date: | 2021-08-11 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.102 Å) | Cite: | Partial Consensus Design and Enhancement of Protein Function by Secondary-Structure-Guided Consensus Mutations. Biochemistry, 60, 2021
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7EPR
| Partial Consensus L-threonine 3-dehydrogenase (C-Change) | Descriptor: | L-threonine 3-dehydrogenase, NICOTINAMIDE-ADENINE-DINUCLEOTIDE | Authors: | Kozuka, K, Nakano, S, Asano, Y, Ito, S. | Deposit date: | 2021-04-27 | Release date: | 2021-08-11 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Partial Consensus Design and Enhancement of Protein Function by Secondary-Structure-Guided Consensus Mutations. Biochemistry, 60, 2021
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7X7I
| Ancestral L-Lys oxidase (AncLLysO-2) ligand free form | Descriptor: | FAD dependent enzyme, FLAVIN-ADENINE DINUCLEOTIDE | Authors: | Motoyama, T, Ishida, C, Hasebe, F, Ito, S, Nakano, S. | Deposit date: | 2022-03-09 | Release date: | 2023-01-18 | Method: | X-RAY DIFFRACTION (1.55 Å) | Cite: | Reaction Mechanism of Ancestral l-Lys alpha-Oxidase from Caulobacter Species Studied by Biochemical, Structural, and Computational Analysis Acs Omega, 7, 2022
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7X7K
| Ancestral L-Lys oxidase (AncLLysO-2) L-Arg binding form | Descriptor: | ARGININE, FAD dependent enzyme, FLAVIN-ADENINE DINUCLEOTIDE | Authors: | Motoyama, T, Ishida, C, Hasebe, F, Ito, S, Nakano, S. | Deposit date: | 2022-03-09 | Release date: | 2023-01-18 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | Reaction Mechanism of Ancestral l-Lys alpha-Oxidase from Caulobacter Species Studied by Biochemical, Structural, and Computational Analysis Acs Omega, 7, 2022
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7X7J
| Ancestral L-Lys oxidase (AncLLysO-2) L-Lys binding form | Descriptor: | FAD dependent enzyme, FLAVIN-ADENINE DINUCLEOTIDE, LYSINE | Authors: | Motoyama, T, Ishida, C, Hasebe, F, Ito, S, Nakano, S. | Deposit date: | 2022-03-09 | Release date: | 2023-01-18 | Last modified: | 2023-11-29 | Method: | X-RAY DIFFRACTION (1.4 Å) | Cite: | Reaction Mechanism of Ancestral l-Lys alpha-Oxidase from Caulobacter Species Studied by Biochemical, Structural, and Computational Analysis Acs Omega, 7, 2022
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3WEV
| Crystal structure of the Schiff base intermediate of L-Lys epsilon-oxidase from Marinomonas mediterranea with L-Lys | Descriptor: | 1,2-ETHANEDIOL, 1,4-DIETHYLENE DIOXIDE, L-lysine 6-oxidase, ... | Authors: | Okazaki, S, Nakano, S, Matsui, D, Akaji, S, Inagaki, K, Asano, Y. | Deposit date: | 2013-07-12 | Release date: | 2013-09-04 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.98 Å) | Cite: | X-Ray crystallographic evidence for the presence of the cysteine tryptophylquinone cofactor in L-lysine {varepsilon}-oxidase from Marinomonas mediterranea J.Biochem., 154, 2013
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3WEU
| Crystal structure of the L-Lys epsilon-oxidase from Marinomonas mediterranea | Descriptor: | 1,2-ETHANEDIOL, 1,4-DIETHYLENE DIOXIDE, L-lysine 6-oxidase, ... | Authors: | Okazaki, S, Nakano, S, Matsui, D, Akaji, S, Inagaki, K, Asano, Y. | Deposit date: | 2013-07-12 | Release date: | 2013-09-04 | Method: | X-RAY DIFFRACTION (1.93 Å) | Cite: | X-Ray crystallographic evidence for the presence of the cysteine tryptophylquinone cofactor in L-lysine {varepsilon}-oxidase from Marinomonas mediterranea J.Biochem., 154, 2013
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3WGT
| Crystal structure of D-amino acid oxidase mutant | Descriptor: | (1R)-1-phenylethanamine, D-amino-acid oxidase, FLAVIN-ADENINE DINUCLEOTIDE, ... | Authors: | Yasukawa, K, Nakano, S, Asano, Y. | Deposit date: | 2013-08-09 | Release date: | 2014-04-02 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (1.88 Å) | Cite: | Tailoring D-amino acid oxidase from the pig kidney to R-stereoselective amine oxidase and its use in the deracemization of alpha-methylbenzylamine. Angew.Chem.Int.Ed.Engl., 53, 2014
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3IHQ
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6JHC
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6KFD
| Hydroxynitrile lyase from the millipede, Chamberlinius hualienensis, complexed with iodoacetate | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, Hydroxynitrile lyase, iodoacetic acid | Authors: | Motojima, F, Izumi, A, Asano, Y. | Deposit date: | 2019-07-07 | Release date: | 2020-07-08 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.55 Å) | Cite: | R-hydroxynitrile lyase from the cyanogenic millipede, Chamberlinius hualienensis-A new entry to the carrier protein family Lipocalines. Febs J., 288, 2021
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6KFC
| Hydroxynitrile lyase from the millipede, Chamberlinius hualienensis, complexed with cyanide ion | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, CYANIDE ION, Hydroxynitrile lyase, ... | Authors: | Motojima, F, Izumi, A, Asano, Y. | Deposit date: | 2019-07-07 | Release date: | 2020-07-08 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | R-hydroxynitrile lyase from the cyanogenic millipede, Chamberlinius hualienensis-A new entry to the carrier protein family Lipocalines. Febs J., 288, 2021
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6KFE
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6KFA
| Hydroxynitrile lyase from the millipede, Chamberlinius hualienensis bound with acetate | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, ACETATE ION, Hydroxynitrile lyase | Authors: | Motojima, F, Izumi, A, Asano, Y. | Deposit date: | 2019-07-07 | Release date: | 2020-07-08 | Last modified: | 2021-06-23 | Method: | X-RAY DIFFRACTION (1.5 Å) | Cite: | R-hydroxynitrile lyase from the cyanogenic millipede, Chamberlinius hualienensis-A new entry to the carrier protein family Lipocalines. Febs J., 288, 2021
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6KFB
| Hydroxynitrile lyase from the millipede, Chamberlinius hualienensis bound with thiocyanate | Descriptor: | Hydroxynitrile lyase, THIOCYANATE ION, alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose | Authors: | Motojima, F, Izumi, A, Asano, Y. | Deposit date: | 2019-07-07 | Release date: | 2020-07-08 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (1.55 Å) | Cite: | R-hydroxynitrile lyase from the cyanogenic millipede, Chamberlinius hualienensis-A new entry to the carrier protein family Lipocalines. Febs J., 288, 2021
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