2RUF
 
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2RUE
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3WT1
 | | Crystal structure of the b'-a' domain of thermophilic fungal protein disulfide isomerase (reduced form) | | Descriptor: | GLYCEROL, Protein disulfide-isomerase | | Authors: | Inagaki, K, Satoh, T, Itoh, S.G, Okumura, H, Kato, K. | | Deposit date: | 2014-04-02 | | Release date: | 2014-11-26 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.85 Å) | | Cite: | Redox-dependent conformational transition of catalytic domain of protein disulfide isomerase indicated by crystal structure-based molecular dynamics simulation
Chem.Phys.Lett., 618, 2015
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3WT2
 | | Crystal structure of the b'-a' domain of thermophilic fungal protein disulfide isomerase (oxidized form) | | Descriptor: | Protein disulfide-isomerase | | Authors: | Inagaki, K, Satoh, T, Itoh, S.G, Okumura, H, Kato, K. | | Deposit date: | 2014-04-02 | | Release date: | 2014-11-26 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (3.3 Å) | | Cite: | Redox-dependent conformational transition of catalytic domain of protein disulfide isomerase indicated by crystal structure-based molecular dynamics simulation
Chem.Phys.Lett., 618, 2015
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1A05
 | | CRYSTAL STRUCTURE OF THE COMPLEX OF 3-ISOPROPYLMALATE DEHYDROGENASE FROM THIOBACILLUS FERROOXIDANS WITH 3-ISOPROPYLMALATE | | Descriptor: | 3-ISOPROPYLMALATE DEHYDROGENASE, 3-ISOPROPYLMALIC ACID, MAGNESIUM ION | | Authors: | Imada, K, Inagaki, K, Matsunami, H, Kawaguchi, H, Tanaka, H, Tanaka, N, Namba, K. | | Deposit date: | 1997-12-09 | | Release date: | 1998-06-17 | | Last modified: | 2024-05-22 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Structure of 3-isopropylmalate dehydrogenase in complex with 3-isopropylmalate at 2.0 A resolution: the role of Glu88 in the unique substrate-recognition mechanism.
Structure, 6, 1998
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7CII
 | | Crystal structure of L-methionine decarboxylase from Streptomyces sp.590 in complexed with L- methionine methyl ester (external aldimine form). | | Descriptor: | L-methionine decarboxylase, methyl (2S)-2-[(E)-[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]methylideneamino]-4-methylsulfanyl-butanoate | | Authors: | Okawa, A, Shiba, T, Hayashi, M, Onoue, Y, Murota, M, Sato, D, Inagaki, J, Tamura, T, Harada, S, Inagaki, K. | | Deposit date: | 2020-07-07 | | Release date: | 2021-01-27 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (1.51 Å) | | Cite: | Structural basis for substrate specificity of l-methionine decarboxylase.
Protein Sci., 30, 2021
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7CIM
 | | Crystal structure of L-methionine decarboxylase from Streptomyces sp.590 in complexed with 3-methlythiopropylamine (geminal diamine form). | | Descriptor: | L-methionine decarboxylase, [6-methyl-4-[(3-methylsulfanylpropylamino)methyl]-5-oxidanyl-pyridin-3-yl]methyl dihydrogen phosphate | | Authors: | Okawa, A, Shiba, T, Hayashi, M, Onoue, Y, Murota, M, Sato, D, Inagaki, J, Tamura, T, Harada, S, Inagaki, K. | | Deposit date: | 2020-07-07 | | Release date: | 2021-01-27 | | Last modified: | 2024-10-30 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Structural basis for substrate specificity of l-methionine decarboxylase.
Protein Sci., 30, 2021
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7CIG
 | | Crystal structure of L-methionine decarboxylase Q64A mutant from Streptomyces sp.590 in complexed with L- methionine methyl ester (geminal diamine form). | | Descriptor: | L-methionine decarboxylase, methyl (2S)-2-[[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]methylamino]-4-methylsulfanyl-butanoate | | Authors: | Okawa, A, Shiba, T, Hayashi, M, Onoue, Y, Murota, M, Sato, D, Inagaki, J, Tamura, T, Harada, S, Inagaki, K. | | Deposit date: | 2020-07-07 | | Release date: | 2021-01-27 | | Last modified: | 2024-10-30 | | Method: | X-RAY DIFFRACTION (1.45 Å) | | Cite: | Structural basis for substrate specificity of l-methionine decarboxylase.
Protein Sci., 30, 2021
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7CIJ
 | | Crystal structure of L-methionine decarboxylase from Streptomyces sp.590 in complexed with 3-methlythiopropylamine (external aldimine form). | | Descriptor: | L-methionine decarboxylase, [6-methyl-4-[(E)-3-methylsulfanylpropyliminomethyl]-5-oxidanyl-pyridin-3-yl]methyl dihydrogen phosphate | | Authors: | Okawa, A, Shiba, T, Hayashi, M, Onoue, Y, Murota, M, Sato, D, Inagaki, J, Tamura, T, Harada, S, Inagaki, K. | | Deposit date: | 2020-07-07 | | Release date: | 2021-01-27 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (1.61 Å) | | Cite: | Structural basis for substrate specificity of l-methionine decarboxylase.
Protein Sci., 30, 2021
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7CIF
 | | Crystal structure of L-methionine decarboxylase from Streptomyces sp.590 (internal aldimine form). | | Descriptor: | L-methionine decarboxylase | | Authors: | Okawa, A, Shiba, T, Hayashi, M, Onoue, Y, Murota, M, Sato, D, Inagaki, J, Tamura, T, Harada, S, Inagaki, K. | | Deposit date: | 2020-07-07 | | Release date: | 2021-01-27 | | Last modified: | 2021-03-03 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Structural basis for substrate specificity of l-methionine decarboxylase.
Protein Sci., 30, 2021
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1GC2
 | | CRYSTAL STRUCTURE OF THE PYRIDOXAL-5'-PHOSPHATE DEPENDENT L-METHIONINE GAMMA-LYASE FROM PSEUDOMONAS PUTIDA | | Descriptor: | METHIONINE GAMMA-LYASE | | Authors: | Motoshima, H, Inagaki, K, Kumasaka, T, Furuichi, M, Inoue, H, Tamura, T, Esaki, N, Soda, K, Tanaka, N, Yamamoto, M, Tanaka, H. | | Deposit date: | 2000-07-06 | | Release date: | 2002-05-08 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Crystal structure of the pyridoxal 5'-phosphate dependent L-methionine gamma-lyase from Pseudomonas putida.
J.Biochem., 128, 2000
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1GC0
 | | CRYSTAL STRUCTURE OF THE PYRIDOXAL-5'-PHOSPHATE DEPENDENT L-METHIONINE GAMMA-LYASE FROM PSEUDOMONAS PUTIDA | | Descriptor: | METHIONINE GAMMA-LYASE | | Authors: | Motoshima, H, Inagaki, K, Kumasaka, T, Furuichi, M, Inoue, H, Tamura, T, Esaki, N, Soda, K, Tanaka, N, Yamamoto, M, Tanaka, H. | | Deposit date: | 2000-07-06 | | Release date: | 2002-05-08 | | Last modified: | 2023-12-27 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Crystal structure of the pyridoxal 5'-phosphate dependent L-methionine gamma-lyase from Pseudomonas putida.
J.Biochem., 128, 2000
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3X0V
 | | Structure of L-lysine oxidase | | Descriptor: | 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, FLAVIN-ADENINE DINUCLEOTIDE, L-lysine oxidase | | Authors: | Sano, T, Uchida, Y, Amano, M, Kawaguchi, T, Kondo, H, Inagaki, K, Imada, K. | | Deposit date: | 2014-10-22 | | Release date: | 2015-04-08 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Recombinant expression, molecular characterization and crystal structure of antitumor enzyme, l-lysine alpha-oxidase from Trichoderma viride.
J.Biochem., 157, 2015
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7C3I
 | | Structure of L-lysine oxidase D212A/D315A | | Descriptor: | 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, FLAVIN-ADENINE DINUCLEOTIDE, GLYCEROL, ... | | Authors: | Kitagawa, M, Matsumoto, Y, Inagaki, K, Imada, K. | | Deposit date: | 2020-05-12 | | Release date: | 2020-09-23 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.3 Å) | | Cite: | Structural basis of strict substrate recognition of l-lysine alpha-oxidase from Trichoderma viride.
Protein Sci., 29, 2020
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7C3L
 | | Structure of L-lysine oxidase D212A/D315A in complex with L-tyrosine | | Descriptor: | FLAVIN-ADENINE DINUCLEOTIDE, GLYCEROL, L-lysine oxidase, ... | | Authors: | Kitagawa, M, Matsumoto, Y, Inagaki, K, Imada, K. | | Deposit date: | 2020-05-12 | | Release date: | 2020-09-23 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Structural basis of strict substrate recognition of l-lysine alpha-oxidase from Trichoderma viride.
Protein Sci., 29, 2020
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7E0D
 | | Structure of L-glutamate oxidase R305E mutant in complex with L-arginine | | Descriptor: | ARGININE, FLAVIN-ADENINE DINUCLEOTIDE, L-glutamate oxidase | | Authors: | Ito, N, Matsuo, S, Inagaki, K, Imada, K. | | Deposit date: | 2021-01-27 | | Release date: | 2021-04-07 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.7 Å) | | Cite: | A new l-arginine oxidase engineered from l-glutamate oxidase.
Protein Sci., 30, 2021
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7E0C
 | | Structure of L-glutamate oxidase R305E mutant | | Descriptor: | FLAVIN-ADENINE DINUCLEOTIDE, L-glutamate oxidase | | Authors: | Ito, N, Matsuo, S, Inagaki, K, Imada, K. | | Deposit date: | 2021-01-27 | | Release date: | 2021-04-07 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.65 Å) | | Cite: | A new l-arginine oxidase engineered from l-glutamate oxidase.
Protein Sci., 30, 2021
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7D4D
 | | Structure of L-lysine oxidase precursor in complex with L-lysine (1.24M) | | Descriptor: | FLAVIN-ADENINE DINUCLEOTIDE, L-Lysine alpha-oxidase, LYSINE | | Authors: | Kitagawa, M, Ito, N, Matsumoto, Y, Inagaki, K, Imada, K. | | Deposit date: | 2020-09-23 | | Release date: | 2021-02-10 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.29 Å) | | Cite: | Structural basis of enzyme activity regulation by the propeptide of l-lysine alpha-oxidase precursor from Trichoderma viride .
J Struct Biol X, 5, 2021
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7D4E
 | | Structure of L-lysine oxidase precursor in complex with L-lysine (1.0 M) | | Descriptor: | FLAVIN-ADENINE DINUCLEOTIDE, L-Lysine alpha-oxidase, LYSINE | | Authors: | Kitagawa, M, Ito, N, Matsumoto, Y, Inagaki, K, Imada, K. | | Deposit date: | 2020-09-23 | | Release date: | 2021-02-10 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (1.85 Å) | | Cite: | Structural basis of enzyme activity regulation by the propeptide of l-lysine alpha-oxidase precursor from Trichoderma viride .
J Struct Biol X, 5, 2021
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7D4C
 | | Structure of L-lysine oxidase precursor | | Descriptor: | FLAVIN-ADENINE DINUCLEOTIDE, L-Lysine alpha-oxidase, PHOSPHATE ION | | Authors: | Ito, N, Kitagawa, M, Matsumoto, Y, Inagaki, K, Imada, K. | | Deposit date: | 2020-09-23 | | Release date: | 2021-02-10 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (1.97 Å) | | Cite: | Structural basis of enzyme activity regulation by the propeptide of l-lysine alpha-oxidase precursor from Trichoderma viride .
J Struct Biol X, 5, 2021
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7C3J
 | | Structure of L-lysine oxidase D212A/D315A in complex with L-phenylalanine | | Descriptor: | FLAVIN-ADENINE DINUCLEOTIDE, GLYCEROL, L-lysine oxidase, ... | | Authors: | Kitagawa, M, Matsumoto, Y, Inagaki, K, Imada, K. | | Deposit date: | 2020-05-12 | | Release date: | 2020-09-23 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.2 Å) | | Cite: | Structural basis of strict substrate recognition of l-lysine alpha-oxidase from Trichoderma viride.
Protein Sci., 29, 2020
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1WS6
 | | The Structure of Thermus thermphillus HB8 hypothetical protein TTHA0928 | | Descriptor: | methyltransferase | | Authors: | Sasaki, C, Sugiura, I, Sugio, S, Tamura, T, Inagaki, K, RIKEN Structural Genomics/Proteomics Initiative (RSGI) | | Deposit date: | 2004-11-01 | | Release date: | 2006-02-07 | | Last modified: | 2024-10-30 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | The structure of thermus thermphillus HB8 hypothetical protein TTHA0928
TO BE PUBLISHED
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7F1P
 | | Crystal structure of Pseudomonas putida methionine gamma-lyase Q349S mutant ligand-free form. | | Descriptor: | L-methionine gamma-lyase | | Authors: | Okawa, A, Handa, H, Yasuda, E, Murota, M, Kudo, D, Tamura, T, Shiba, T, Inagaki, K. | | Deposit date: | 2021-06-09 | | Release date: | 2022-04-20 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Characterization and application of l-methionine gamma-lyase Q349S mutant enzyme with an enhanced activity toward l-homocysteine.
J.Biosci.Bioeng., 133, 2022
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7F1U
 | | Crystal structure of Pseudomonas putida methionine gamma-lyase Q349S mutant with L-methionine intermediates | | Descriptor: | (2E)-2-[({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)amino]-4-(methylsulfanyl)but-2-enoic acid, L-methionine gamma-lyase, METHIONINE | | Authors: | Okawa, A, Handa, H, Yasuda, E, Murota, M, Kudo, D, Tamura, T, Shiba, T, Inagaki, K. | | Deposit date: | 2021-06-09 | | Release date: | 2022-04-20 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (2.4 Å) | | Cite: | Characterization and application of l-methionine gamma-lyase Q349S mutant enzyme with an enhanced activity toward l-homocysteine.
J.Biosci.Bioeng., 133, 2022
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7F1V
 | | Crystal structure of Pseudomonas putida methionine gamma-lyase Q349S mutant with L-homocysteine intermediates | | Descriptor: | (2~{S})-2-[[2-methyl-3-oxidanyl-5-(phosphonooxymethyl)pyridin-4-yl]methylamino]-4-sulfanyl-butanoic acid, 2-AMINO-4-MERCAPTO-BUTYRIC ACID, L-methionine gamma-lyase | | Authors: | Okawa, A, Handa, H, Yasuda, E, Murota, M, Kudo, D, Tamura, T, Shiba, T, Inagaki, K. | | Deposit date: | 2021-06-09 | | Release date: | 2022-04-20 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2.25 Å) | | Cite: | Characterization and application of l-methionine gamma-lyase Q349S mutant enzyme with an enhanced activity toward l-homocysteine.
J.Biosci.Bioeng., 133, 2022
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