5XOY
 
 | | Crystal structure of LysK from Thermus thermophilus in complex with Lysine | | Descriptor: | LYSINE, SULFATE ION, [LysW]-lysine hydrolase | | Authors: | Tomita, T, Fujita, S, Hasebe, F, Cho, S.-H, Yoshida, A, Kuzuyama, T, Nishiyama, M. | | Deposit date: | 2017-05-31 | | Release date: | 2017-09-13 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.39 Å) | | Cite: | Crystal structure of LysK, an enzyme catalyzing the last step of lysine biosynthesis in Thermus thermophilus, in complex with lysine: Insight into the mechanism for recognition of the amino-group carrier protein, LysW
Biochem. Biophys. Res. Commun., 491, 2017
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6IR4
 | | Crystal structure of BioU from Synechocystis sp.PCC6803 (apo form) | | Descriptor: | Slr0355 protein | | Authors: | Sakaki, K, Oishi, K, Shimizu, T, Tomita, T, Kuzuyama, T, Nishiyama, M. | | Deposit date: | 2018-11-10 | | Release date: | 2020-01-15 | | Last modified: | 2024-03-27 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | A suicide enzyme catalyzes multiple reactions for biotin biosynthesis in cyanobacteria.
Nat.Chem.Biol., 16, 2020
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6ITD
 | | Crystal structure of BioU (K124A) from Synechocystis sp.PCC6803 in complex with the analog of reaction intermediate, 3-(1-aminoethyl)-nonanedioic acid | | Descriptor: | 3-(1-AMINOETHYL)NONANEDIOIC ACID, Slr0355 protein | | Authors: | Sakaki, K, Tomita, T, Kuzuyama, T, Nishiyama, M. | | Deposit date: | 2018-11-21 | | Release date: | 2020-01-15 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | A suicide enzyme catalyzes multiple reactions for biotin biosynthesis in cyanobacteria.
Nat.Chem.Biol., 16, 2020
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5EIO
 | | Crystal structure of LysY from Thermus thermophilus complexed with NADP+ and LysW-gamma-aminoadipic semialdehyde | | Descriptor: | ACETIC ACID, N-acetyl-gamma-glutamyl-phosphate/N-acetyl-gamma-aminoadipyl-phosphate reductase, NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE, ... | | Authors: | Shimizu, T, Tomita, T, Nishiyama, M. | | Deposit date: | 2015-10-30 | | Release date: | 2016-03-23 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Crystal Structure of the LysYLysW Complex from Thermus thermophilus.
J.Biol.Chem., 291, 2016
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5EIN
 | | Crystal structure of C148A mutant of LysY from Thermus thermophilus in complex with NADP+ and LysW-gamma-aminoadipic acid | | Descriptor: | Alpha-aminoadipate carrier protein LysW, FORMIC ACID, N-acetyl-gamma-glutamyl-phosphate/N-acetyl-gamma-aminoadipyl-phosphate reductase, ... | | Authors: | Shimizu, T, Tomita, T, Nishiyama, M. | | Deposit date: | 2015-10-30 | | Release date: | 2016-03-23 | | Last modified: | 2023-11-29 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Crystal Structure of the LysYLysW Complex from Thermus thermophilus.
J.Biol.Chem., 291, 2016
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7YLZ
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7Y5Y
 | | X-ray Structure of Stay-Green (SGR) from Anaerolineae bacterium. | | Descriptor: | (4S)-2-METHYL-2,4-PENTANEDIOL, 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL, PHOSPHATE ION, ... | | Authors: | Dey, D, Nishijima, M, Kurisu, G, Tanaka, H, Ito, H. | | Deposit date: | 2022-06-18 | | Release date: | 2022-10-19 | | Last modified: | 2024-04-03 | | Method: | X-RAY DIFFRACTION (1.85 Å) | | Cite: | Crystal structure and reaction mechanism of a bacterial Mg-dechelatase homolog from the Chloroflexi Anaerolineae.
Protein Sci., 31, 2022
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7WUX
 | | Crystal structure of AziU3/U2 complexed with (5S,6S)-O7-sulfo DADH from Streptomyces sahachiroi | | Descriptor: | (2S,5S,6S)-2,6-bis(azanyl)-5-oxidanyl-7-sulfooxy-heptanoic acid, 1-ETHOXY-2-(2-ETHOXYETHOXY)ETHANE, AziU2, ... | | Authors: | Kurosawa, S, Yoshida, A, Tomita, T, Nishiyama, M. | | Deposit date: | 2022-02-09 | | Release date: | 2022-09-07 | | Last modified: | 2024-05-29 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Molecular Basis for Enzymatic Aziridine Formation via Sulfate Elimination.
J.Am.Chem.Soc., 144, 2022
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7WUW
 | | Crystal structure of AziU3/U2 from Streptomyces sahachiroi | | Descriptor: | AziU2, AziU3, MAGNESIUM ION, ... | | Authors: | Kurosawa, S, Yoshida, A, Tomita, T, Nishiyama, M. | | Deposit date: | 2022-02-09 | | Release date: | 2022-09-07 | | Last modified: | 2024-05-29 | | Method: | X-RAY DIFFRACTION (1.75 Å) | | Cite: | Molecular Basis for Enzymatic Aziridine Formation via Sulfate Elimination.
J.Am.Chem.Soc., 144, 2022
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3WFZ
 | | Crystal structure of Galacto-N-Biose/Lacto-N-Biose I Phosphorylase C236Y Mutant | | Descriptor: | 2-acetamido-2-deoxy-alpha-D-glucopyranose, Lacto-N-biose phosphorylase | | Authors: | Koyama, Y, Hidaka, M, Kawakami, M, Nishimoto, M, Kitaoka, M. | | Deposit date: | 2013-07-25 | | Release date: | 2013-10-09 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (2.6 Å) | | Cite: | Directed evolution to enhance thermostability of galacto-N-biose/lacto-N-biose I phosphorylase.
Protein Eng.Des.Sel., 26, 2013
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6K36
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6K37
 | | Crystal structure of BioU (K124A) from Synechocystis sp.PCC6803 in complex with NAD+ and the analog of reaction intermediate, 3-(1-aminoethyl)-nonanedioic acid | | Descriptor: | (3R)-3-[(1R)-1-azanylethyl]nonanedioic acid, NICOTINAMIDE-ADENINE-DINUCLEOTIDE, Slr0355 protein | | Authors: | Sakaki, K, Tomita, T, Nishiyama, M. | | Deposit date: | 2019-05-16 | | Release date: | 2020-02-26 | | Last modified: | 2023-11-22 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | A suicide enzyme catalyzes multiple reactions for biotin biosynthesis in cyanobacteria.
Nat.Chem.Biol., 16, 2020
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6K38
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2ZP7
 | | Crystal structure of LysN, alpha-aminoadipate aminotransferase (Leucine complex), from Thermus thermophilus HB27 | | Descriptor: | Alpha-aminodipate aminotransferase, LEUCINE, PYRIDOXAL-5'-PHOSPHATE | | Authors: | Tomita, T, Miyazaki, T, Miyagawa, T, Fushinobu, S, Kuzuyama, T, Nishiyama, M. | | Deposit date: | 2008-06-30 | | Release date: | 2009-01-13 | | Last modified: | 2011-07-13 | | Method: | X-RAY DIFFRACTION (2.26 Å) | | Cite: | Mechanism for multiple-substrates recognition of alpha-aminoadipate aminotransferase from Thermus thermophilus
Proteins, 2008
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2Z1Y
 | | Crystal structure of LysN, alpha-aminoadipate aminotransferase (complexed with N-(5'-phosphopyridoxyl)-L-leucine), from Thermus thermophilus HB27 | | Descriptor: | Alpha-aminodipate aminotransferase, LEUCINE, PYRIDOXAL-5'-PHOSPHATE | | Authors: | Tomita, T, Miyazaki, T, Miyagawa, T, Fushinobu, S, Kuzuyama, T, Nishiyama, M. | | Deposit date: | 2007-05-16 | | Release date: | 2008-06-03 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.75 Å) | | Cite: | Mechanism of broad substrate specificity of alpha-aminoadipate aminotransferase from Thermus thermophilus
To be Published
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3AAW
 | | Crystal structure of aspartate kinase from Corynebacterium glutamicum in complex with lysine and threonine | | Descriptor: | Aspartokinase, Aspartokinase LysC beta subunit, LYSINE, ... | | Authors: | Yoshida, A, Tomita, T, Kuzuyama, T, Nishiyama, M. | | Deposit date: | 2009-11-27 | | Release date: | 2010-06-23 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Mechanism of concerted inhibition of {alpha}2{beta}2-type heterooligomeric aspartate kinase from Corynebacterium glutamicum
J.Biol.Chem., 285, 2010
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3AB2
 | | Crystal structure of aspartate kinase from Corynebacterium glutamicum in complex with threonine | | Descriptor: | Aspartokinase, THREONINE | | Authors: | Yoshida, A, Tomita, T, Kuzuyama, T, Nishiyama, M. | | Deposit date: | 2009-11-30 | | Release date: | 2010-06-23 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.59 Å) | | Cite: | Mechanism of concerted inhibition of {alpha}2{beta}2-type heterooligomeric aspartate kinase from Corynebacterium glutamicum
J.Biol.Chem., 285, 2010
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1ZRN
 | | INTERMEDIATE STRUCTURE OF L-2-HALOACID DEHALOGENASE WITH MONOCHLOROACETATE | | Descriptor: | ACETIC ACID, L-2-HALOACID DEHALOGENASE | | Authors: | Li, Y.-F, Hata, Y, Fujii, T, Hisano, T, Nishihara, M, Kurihara, T, Esaki, N. | | Deposit date: | 1998-03-03 | | Release date: | 1999-03-23 | | Last modified: | 2023-08-09 | | Method: | X-RAY DIFFRACTION (1.83 Å) | | Cite: | Crystal structures of reaction intermediates of L-2-haloacid dehalogenase and implications for the reaction mechanism.
J.Biol.Chem., 273, 1998
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1ZRM
 | | CRYSTAL STRUCTURE OF THE REACTION INTERMEDIATE OF L-2-HALOACID DEHALOGENASE WITH 2-CHLORO-N-BUTYRATE | | Descriptor: | L-2-HALOACID DEHALOGENASE, butanoic acid | | Authors: | Li, Y.-F, Hata, Y, Fujii, T, Hisano, T, Nishihara, M, Kurihara, T, Esaki, N. | | Deposit date: | 1998-03-03 | | Release date: | 1999-03-23 | | Last modified: | 2023-08-09 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Crystal structures of reaction intermediates of L-2-haloacid dehalogenase and implications for the reaction mechanism.
J.Biol.Chem., 273, 1998
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3VPB
 | | ArgX from Sulfolobus tokodaii complexed with LysW/Glu/ADP/Mg/Zn/Sulfate | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, Alpha-aminoadipate carrier protein lysW, GLUTAMIC ACID, ... | | Authors: | Tomita, T, Ouchi, T, Kuzuyama, T, Nishiyama, M. | | Deposit date: | 2012-02-29 | | Release date: | 2013-02-27 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Lysine and arginine biosyntheses mediated by a common carrier protein in Sulfolobus
Nat.Chem.Biol., 9, 2013
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3VPC
 | | ArgX from Sulfolobus tokodaii complexed with ADP | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, Putative acetylornithine deacetylase | | Authors: | Tomita, T, Horie, A, Kuzuyama, T, Nishiyama, M. | | Deposit date: | 2012-02-29 | | Release date: | 2013-02-27 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.87 Å) | | Cite: | Lysine and arginine biosyntheses mediated by a common carrier protein in Sulfolobus.
Nat.Chem.Biol., 9, 2013
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3VPD
 | | LysX from Thermus thermophilus complexed with AMP-PNP | | Descriptor: | CITRIC ACID, PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER, Ribosomal protein S6 modification protein, ... | | Authors: | Tomita, T, Ouchi, T, Kuzuyama, T, Nishiyama, M. | | Deposit date: | 2012-02-29 | | Release date: | 2013-02-27 | | Last modified: | 2023-11-08 | | Method: | X-RAY DIFFRACTION (1.95 Å) | | Cite: | Lysine and arginine biosyntheses mediated by a common carrier protein in Sulfolobus.
Nat.Chem.Biol., 9, 2013
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2D0P
 | | Structure of diol dehydratase-reactivating factor in nucleotide free form | | Descriptor: | CALCIUM ION, SULFATE ION, diol dehydratase-reactivating factor large subunit, ... | | Authors: | Shibata, N, Mori, K, Hieda, N, Higuchi, Y, Yamanishi, M, Toraya, T. | | Deposit date: | 2005-08-05 | | Release date: | 2006-02-28 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (3 Å) | | Cite: | Release of a damaged cofactor from a coenzyme B12-dependent enzyme: X-ray structures of diol dehydratase-reactivating factor
Structure, 13, 2005
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2D0O
 | | Structure of diol dehydratase-reactivating factor complexed with ADP and Mg2+ | | Descriptor: | ADENOSINE-5'-DIPHOSPHATE, MAGNESIUM ION, SULFATE ION, ... | | Authors: | Shibata, N, Mori, K, Hieda, N, Higuchi, Y, Yamanishi, M, Toraya, T. | | Deposit date: | 2005-08-05 | | Release date: | 2006-02-28 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (2 Å) | | Cite: | Release of a damaged cofactor from a coenzyme B12-dependent enzyme: X-ray structures of diol dehydratase-reactivating factor
Structure, 13, 2005
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3AOG
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