5Z76
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![BU of 5z76 by Molmil](/molmil-images/mine/5z76) | Artificial L-threonine 3-dehydrogenase designed by full consensus design | Descriptor: | Artificial L-threonine 3-dehydrogenase | Authors: | Nakano, S, Motoyama, T, Miyashita, Y, Ishizuka, Y, Matsuo, N, Tokiwa, H, Shinoda, S, Asano, Y, Ito, S. | Deposit date: | 2018-01-27 | Release date: | 2018-08-22 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.8 Å) | Cite: | Benchmark Analysis of Native and Artificial NAD+-Dependent Enzymes Generated by a Sequence-Based Design Method with or without Phylogenetic Data. Biochemistry, 57, 2018
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5Z75
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![BU of 5z75 by Molmil](/molmil-images/mine/5z75) | Artificial L-threonine 3-dehydrogenase designed by ancestral sequence reconstruction. | Descriptor: | Artificial L-threonine 3-dehydrogenase, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, NONAETHYLENE GLYCOL, ... | Authors: | Nakano, S, Motoyama, T, Miyashita, Y, Ishizuka, Y, Matsuo, N, Tokiwa, H, Shinoda, S, Asano, Y, Ito, S. | Deposit date: | 2018-01-27 | Release date: | 2018-08-22 | Last modified: | 2023-11-22 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Benchmark Analysis of Native and Artificial NAD+-Dependent Enzymes Generated by a Sequence-Based Design Method with or without Phylogenetic Data. Biochemistry, 57, 2018
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4Y7P
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![BU of 4y7p by Molmil](/molmil-images/mine/4y7p) | Structure of alkaline D-peptidase from Bacillus cereus | Descriptor: | Alkaline D-peptidase, THIOCYANATE ION | Authors: | Nakano, S, Okazaki, S, Ishitsubo, E, Kawahara, N, Komeda, H, Tokiwa, H, Asano, Y. | Deposit date: | 2015-02-15 | Release date: | 2015-10-14 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.1 Å) | Cite: | Structural and computational analysis of peptide recognition mechanism of class-C type penicillin binding protein, alkaline D-peptidase from Bacillus cereus DF4-B Sci Rep, 5, 2015
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3B0M
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![BU of 3b0m by Molmil](/molmil-images/mine/3b0m) | M175K mutant of assimilatory nitrite reductase (Nii3) from tobbaco leaf | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, Nitrite reductase, ... | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | Deposit date: | 2011-06-10 | Release date: | 2012-02-22 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.9 Å) | Cite: | Structure-function relationship of assimilatory nitrite reductases from the leaf and root of tobacco based on high resolution structures Protein Sci., 21, 2012
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3B0L
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![BU of 3b0l by Molmil](/molmil-images/mine/3b0l) | M175G mutant of assimilatory nitrite reductase (Nii3) from tobbaco leaf | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, Nitrite reductase, ... | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | Deposit date: | 2011-06-10 | Release date: | 2012-02-22 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | Structure-function relationship of assimilatory nitrite reductases from the leaf and root of tobacco based on high resolution structures Protein Sci., 21, 2012
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3B0N
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![BU of 3b0n by Molmil](/molmil-images/mine/3b0n) | Q448K mutant of assimilatory nitrite reductase (Nii3) from tobbaco leaf | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, Nitrite reductase, ... | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | Deposit date: | 2011-06-10 | Release date: | 2012-02-22 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2 Å) | Cite: | Structure-function relationship of assimilatory nitrite reductases from the leaf and root of tobacco based on high resolution structures Protein Sci., 21, 2012
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3B0G
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![BU of 3b0g by Molmil](/molmil-images/mine/3b0g) | Assimilatory nitrite reductase (Nii3) from tobbaco leaf | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, Nitrite reductase, ... | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | Deposit date: | 2011-06-09 | Release date: | 2012-02-22 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.25 Å) | Cite: | Structure-function relationship of assimilatory nitrite reductases from the leaf and root of tobacco based on high resolution structures Protein Sci., 21, 2012
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3B0H
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![BU of 3b0h by Molmil](/molmil-images/mine/3b0h) | Assimilatory nitrite reductase (Nii4) from tobbaco root | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, Nitrite reductase, ... | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | Deposit date: | 2011-06-09 | Release date: | 2012-02-22 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2.306 Å) | Cite: | Structure-function relationship of assimilatory nitrite reductases from the leaf and root of tobacco based on high resolution structures Protein Sci., 21, 2012
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3B0J
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![BU of 3b0j by Molmil](/molmil-images/mine/3b0j) | M175E mutant of assimilatory nitrite reductase (Nii3) from tobbaco leaf | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, Nitrite reductase, ... | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | Deposit date: | 2011-06-10 | Release date: | 2012-02-22 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.7 Å) | Cite: | Structure-function relationship of assimilatory nitrite reductases from the leaf and root of tobacco based on high resolution structures Protein Sci., 21, 2012
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7C4N
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![BU of 7c4n by Molmil](/molmil-images/mine/7c4n) | Ancestral L-amino acid oxidase (AncLAAO-N5) L-Phe binding form | Descriptor: | Ancestral L-amino acid oxidase, FLAVIN-ADENINE DINUCLEOTIDE, PHENYLALANINE | Authors: | Nakano, S, Minamino, Y, Karasuda, H, Ito, S. | Deposit date: | 2020-05-18 | Release date: | 2020-12-02 | Last modified: | 2024-03-27 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Ancestral L-amino acid oxidases for deracemization and stereoinversion of amino acids Commun Chem, 3, 2020
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7C4L
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![BU of 7c4l by Molmil](/molmil-images/mine/7c4l) | Anncestral L-amino acid oxidase (AncLAAO-N5) L-Gln binding form | Descriptor: | FLAVIN-ADENINE DINUCLEOTIDE, GLUTAMINE, L-amino acid oxidase | Authors: | Nakano, S, Minamino, Y, Karasuda, H, Ito, S. | Deposit date: | 2020-05-18 | Release date: | 2020-12-02 | Last modified: | 2024-03-27 | Method: | X-RAY DIFFRACTION (2.6 Å) | Cite: | Ancestral L-amino acid oxidases for deracemization and stereoinversion of amino acids Commun Chem, 3, 2020
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7C4M
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![BU of 7c4m by Molmil](/molmil-images/mine/7c4m) | Ancestral L-amino acid oxidase (AncLAAO-N5) L-Trp binding form | Descriptor: | Ancestral L-amino acid oxidase, FLAVIN-ADENINE DINUCLEOTIDE, TRYPTOPHAN | Authors: | Nakano, S, Minamino, Y, Karasuda, H, Ito, S. | Deposit date: | 2020-05-18 | Release date: | 2020-12-02 | Last modified: | 2024-03-27 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Ancestral L-amino acid oxidases for deracemization and stereoinversion of amino acids Commun Chem, 3, 2020
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7C4K
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![BU of 7c4k by Molmil](/molmil-images/mine/7c4k) | Ancestral L-amino acid oxidase (AncLAAO-N5) ligand free form | Descriptor: | Ancestral L-amino acid oxidase, FLAVIN-ADENINE DINUCLEOTIDE | Authors: | Nakano, S, Minamino, Y, Karasuda, H, Ito, S. | Deposit date: | 2020-05-18 | Release date: | 2020-12-02 | Last modified: | 2024-03-27 | Method: | X-RAY DIFFRACTION (2.4 Å) | Cite: | Ancestral L-amino acid oxidases for deracemization and stereoinversion of amino acids Commun Chem, 3, 2020
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4YJF
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![BU of 4yjf by Molmil](/molmil-images/mine/4yjf) | Crystal structure of DAAO(Y228L/R283G) variant (S-methylbenzylamine binding form) | Descriptor: | (1S)-1-phenylethanamine, D-amino-acid oxidase, FLAVIN-ADENINE DINUCLEOTIDE, ... | Authors: | Nakano, S, Yasukawa, K, Kawahara, N, Ishitsubo, E, Tokiwa, H, Asano, Y. | Deposit date: | 2015-03-03 | Release date: | 2016-04-06 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.2 Å) | Cite: | Crystal structure of DAAO variant To Be Published
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4YJD
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![BU of 4yjd by Molmil](/molmil-images/mine/4yjd) | Crystal structure of DAAO(Y228L/R283G) variant (apo form) | Descriptor: | D-amino-acid oxidase, FLAVIN-ADENINE DINUCLEOTIDE, SULFATE ION | Authors: | Nakano, S, Yasukawa, K, Kawahara, N, Ishitsubo, E, Tokiwa, H, Asano, Y. | Deposit date: | 2015-03-03 | Release date: | 2016-04-06 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Crystal structure of DAAO variant To Be Published
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4YJG
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![BU of 4yjg by Molmil](/molmil-images/mine/4yjg) | Crystal structure of DAAO(Y228L/R283G) variant (R-3-amino 1-phenylbutane binding form) | Descriptor: | (2R)-4-phenylbutan-2-amine, D-amino-acid oxidase, FLAVIN-ADENINE DINUCLEOTIDE, ... | Authors: | Nakano, S, Yasukawa, K, Kawahara, N, Ishitsubo, E, Tokiwa, H, Asano, Y. | Deposit date: | 2015-03-03 | Release date: | 2016-04-06 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Crystal structure of DAAO variant To Be Published
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4YJH
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![BU of 4yjh by Molmil](/molmil-images/mine/4yjh) | Crystal structure of DAAO(Y228L/R283G) variant (R-2-phenylpyrrolidine binding form) | Descriptor: | (2R)-2-phenylpyrrolidine, D-amino-acid oxidase, FLAVIN-ADENINE DINUCLEOTIDE, ... | Authors: | Nakano, S, Yasukawa, K, Kawahara, N, Ishitsubo, E, Tokiwa, H, Asano, Y. | Deposit date: | 2015-03-03 | Release date: | 2016-04-06 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.7 Å) | Cite: | Crystal structure of DAAO variant To Be Published
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3WMW
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![BU of 3wmw by Molmil](/molmil-images/mine/3wmw) | GalE-like L-Threonine dehydrogenase from Cupriavidus necator (apo form) | Descriptor: | CALCIUM ION, NAD dependent epimerase/dehydratase | Authors: | Nakano, S, Okazaki, S, Tokiwa, H, Asano, Y. | Deposit date: | 2013-11-29 | Release date: | 2014-02-26 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.25 Å) | Cite: | Binding of NAD+ and L-Threonine Induces Stepwise Structural and Flexibility Changes in Cupriavidus necator L-Threonine Dehydrogenase J.Biol.Chem., 289, 2014
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3VLG
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![BU of 3vlg by Molmil](/molmil-images/mine/3vlg) | Crystal structure of the W150A mutant LOX-1 CTLD showing impaired OxLDL binding | Descriptor: | Oxidized low-density lipoprotein receptor 1 | Authors: | Nakano, S, Sugihara, M, Yamada, R, Katayanagi, K, Tate, S. | Deposit date: | 2011-12-01 | Release date: | 2012-04-18 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.3 Å) | Cite: | Structural implication for the impaired binding of W150A mutant LOX-1 to oxidized low density lipoprotein, OxLDL Biochim.Biophys.Acta, 1824, 2012
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3WMX
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![BU of 3wmx by Molmil](/molmil-images/mine/3wmx) | GalE-like L-Threonine dehydrogenase from Cupriavidus necator (holo form) | Descriptor: | NAD dependent epimerase/dehydratase, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, THREONINE | Authors: | Nakano, S, Okazaki, S, Tokiwa, H, Asano, Y. | Deposit date: | 2013-11-29 | Release date: | 2014-02-26 | Last modified: | 2023-11-08 | Method: | X-RAY DIFFRACTION (2.5 Å) | Cite: | Binding of NAD+ and L-Threonine Induces Stepwise Structural and Flexibility Changes in Cupriavidus necator L-Threonine Dehydrogenase J.Biol.Chem., 289, 2014
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3VKR
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![BU of 3vkr by Molmil](/molmil-images/mine/3vkr) | Assimilatory nitrite reductase (Nii3) - NO2 complex from tobbaco leaf analysed with high X-ray dose | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, NITRITE ION, ... | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | Deposit date: | 2011-11-20 | Release date: | 2012-04-25 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | 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
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![BU of 3vlz by Molmil](/molmil-images/mine/3vlz) | Assimilatory nitrite reductase (Nii3) - N226K mutant - SO3 full complex from tobacco leaf | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, Nitrite reductase, ... | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | Deposit date: | 2011-12-05 | Release date: | 2012-09-26 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (2.07 Å) | Cite: | X-ray crystal structure of a mutant assimilatory nitrite reductase that shows sulfite reductase-like activity Chem.Biodivers., 9, 2012
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3VKQ
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![BU of 3vkq by Molmil](/molmil-images/mine/3vkq) | Assimilatory nitrite reductase (Nii3) - NO2 complex from tobbaco leaf analysed with middle X-ray dose | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, NITRITE ION, ... | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | Deposit date: | 2011-11-20 | Release date: | 2012-04-25 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.6 Å) | Cite: | 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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3VKS
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![BU of 3vks by Molmil](/molmil-images/mine/3vks) | Assimilatory nitrite reductase (Nii3) - NO complex from tobbaco leaf | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, NITRIC OXIDE, ... | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | Deposit date: | 2011-11-20 | Release date: | 2012-04-25 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.4 Å) | Cite: | 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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3VLY
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![BU of 3vly by Molmil](/molmil-images/mine/3vly) | Assimilatory nitrite reductase (Nii3) - N226K mutant - SO3 partial complex from tobacco leaf | Descriptor: | CHLORIDE ION, IRON/SULFUR CLUSTER, Nitrite reductase, ... | Authors: | Nakano, S, Takahashi, M, Sakamoto, A, Morikawa, H, Katayanagi, K. | Deposit date: | 2011-12-05 | Release date: | 2012-09-26 | Last modified: | 2023-12-27 | Method: | X-RAY DIFFRACTION (1.55 Å) | Cite: | X-ray crystal structure of a mutant assimilatory nitrite reductase that shows sulfite reductase-like activity Chem.Biodivers., 9, 2012
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