1NST
 
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3AY8
 | | Glutathione S-transferase unclassified 2 from Bombyx mori | | Descriptor: | GLYCEROL, Glutathione S-transferase | | Authors: | Kakuta, Y, Usuda, K, Nakashima, T, Kimura, M, Aso, Y, Yamamoto, K. | | Deposit date: | 2011-05-02 | | Release date: | 2011-09-07 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (2.1 Å) | | Cite: | Crystallographic survey of active sites of an unclassified glutathione transferase from Bombyx mori
Biochim.Biophys.Acta, 1810, 2011
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2E9M
 | | Crystal Structure of human Cytosolic Neutral beta-Glycosylceramidase (Klotho-related Prote:KLrP) complex with Galactose and fatty acids | | Descriptor: | Cytosolic beta-glucosidase, OLEIC ACID, PALMITIC ACID, ... | | Authors: | Kakuta, Y, Hayashi, Y, Okino, N, Ito, M. | | Deposit date: | 2007-01-25 | | Release date: | 2007-09-11 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Klotho-related protein is a novel cytosolic neutral beta-glycosylceramidase.
J.Biol.Chem., 282, 2007
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1BO6
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1UAI
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2E9L
 | | Crystal Structure of human Cytosolic Neutral beta-Glycosylceramidase (Klotho-related Prote:KLrP) complex with Glucose and fatty acids | | Descriptor: | Cytosolic beta-glucosidase, GLYCEROL, OLEIC ACID, ... | | Authors: | Kakuta, Y, Hayashi, Y, Okino, N, Ito, M. | | Deposit date: | 2007-01-25 | | Release date: | 2007-09-11 | | Last modified: | 2023-10-25 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | Klotho-related protein is a novel cytosolic neutral beta-glycosylceramidase.
J.Biol.Chem., 282, 2007
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3VK9
 | | Crystal structure of delta-class glutathione transferase from silkmoth | | Descriptor: | GLYCEROL, Glutathione S-transferase delta | | Authors: | Kakuta, Y, Usuda, K, Higashiura, A, Suzuki, M, Nakagawa, A, Kimura, M, Yamamoto, K. | | Deposit date: | 2011-11-10 | | Release date: | 2012-10-03 | | Last modified: | 2024-03-20 | | Method: | X-RAY DIFFRACTION (2.001 Å) | | Cite: | Structural basis for catalytic activity of a silkworm Delta-class glutathione transferase
Biochim.Biophys.Acta, 1820, 2012
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1I7H
 | | CRYSTAL STURCUTURE OF FDX | | Descriptor: | FE2/S2 (INORGANIC) CLUSTER, FERREDOXIN | | Authors: | Kakuta, Y, Horio, T, Takahashi, Y, Fukuyama, K. | | Deposit date: | 2001-03-09 | | Release date: | 2002-03-09 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Crystal structure of Escherichia coli Fdx, an adrenodoxin-type ferredoxin involved in the assembly of iron-sulfur clusters.
Biochemistry, 40, 2001
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1AQY
 | | ESTROGEN SULFOTRANSFERASE WITH PAP | | Descriptor: | ADENOSINE-3'-5'-DIPHOSPHATE, ESTROGEN SULFOTRANSFERASE | | Authors: | Kakuta, Y, Pedersen, L.G, Carter, C.W, Negishi, M, Pedersen, L.C. | | Deposit date: | 1997-08-04 | | Release date: | 1998-10-28 | | Last modified: | 2024-05-22 | | Method: | X-RAY DIFFRACTION (1.75 Å) | | Cite: | Crystal structure of estrogen sulphotransferase.
Nat.Struct.Biol., 4, 1997
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1AQU
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1X0U
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1X0T
 | | Crystal structure of ribonuclease P protein Ph1601p from Pyrococcus horikoshii OT3 | | Descriptor: | Ribonuclease P protein component 4, ZINC ION | | Authors: | Kakuta, Y, Ishimatsu, I, Numata, T, Kimura, K, Yao, M, Tanaka, I, Kimura, M. | | Deposit date: | 2005-03-29 | | Release date: | 2005-11-15 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (1.6 Å) | | Cite: | Crystal Structure of a Ribonuclease P Protein Ph1601p from Pyrococcus horikoshii OT3: An Archaeal Homologue of Human Nuclear Ribonuclease P Protein Rpp21(,)
Biochemistry, 44, 2005
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1VB5
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2Z4T
 | | Crystal Structure of Vibrionaceae Photobacterium sp. JT-ISH-224 2,6-sialyltransferase in a Ternary Complex with Donor Product CMP and Accepter Substrate Lactose | | Descriptor: | Beta-galactoside alpha-2,6-sialyltransferase, CYTIDINE-5'-MONOPHOSPHATE, GLYCEROL, ... | | Authors: | Kakuta, Y, Okino, N, Kajiwara, H, Ichikawa, M, Takakura, Y, Ito, M, Yamamoto, T. | | Deposit date: | 2007-06-25 | | Release date: | 2008-04-08 | | Last modified: | 2024-10-16 | | Method: | X-RAY DIFFRACTION (2.5 Å) | | Cite: | Crystal structure of Vibrionaceae Photobacterium sp. JT-ISH-224 alpha2,6-sialyltransferase in a ternary complex with donor product CMP and acceptor substrate lactose: catalytic mechanism and substrate recognition
Glycobiology, 18, 2008
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2ZSC
 | | Tamavidin2, Novel Avidin-like Biotin-Binding Proteins from an Edible Mushroom | | Descriptor: | BIOTIN, GLYCEROL, MAGNESIUM ION, ... | | Authors: | Kakuta, Y, Okino, N, Ito, M, Yamamoto, T, Takakura, Y. | | Deposit date: | 2008-09-05 | | Release date: | 2009-02-17 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.3 Å) | | Cite: | Tamavidins--novel avidin-like biotin-binding proteins from the Tamogitake mushroom
Febs J., 276, 2009
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2ZWS
 | | Crystal Structure Analysis of neutral ceramidase from Pseudomonas aeruginosa | | Descriptor: | FORMIC ACID, GLYCEROL, MAGNESIUM ION, ... | | Authors: | Kakuta, Y, Okino, N, Inoue, T, Okano, H, Ito, M. | | Deposit date: | 2008-12-17 | | Release date: | 2009-03-03 | | Last modified: | 2024-10-23 | | Method: | X-RAY DIFFRACTION (1.4 Å) | | Cite: | Mechanistic insights into the hydrolysis and synthesis of ceramide by neutral ceramidase.
J.Biol.Chem., 284, 2009
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3AML
 | | Structure of the Starch Branching Enzyme I (BEI) from Oryza sativa L | | Descriptor: | 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, ACETATE ION, BETA-MERCAPTOETHANOL, ... | | Authors: | Kakuta, Y, Chaen, K, Noguchi, J, Vu, N, Kimura, M. | | Deposit date: | 2010-08-20 | | Release date: | 2011-09-28 | | Last modified: | 2023-11-01 | | Method: | X-RAY DIFFRACTION (1.7 Å) | | Cite: | Crystal structure of the branching enzyme I (BEI) from Oryza sativa L with implications for catalysis and substrate binding.
Glycobiology, 21, 2011
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3AMK
 | | Structure of the Starch Branching Enzyme I (BEI) from Oryza sativa L | | Descriptor: | GLYCEROL, Os06g0726400 protein, PHOSPHATE ION | | Authors: | Kakuta, Y, Chaen, K, Noguchi, J, Vu, N, Kimura, M. | | Deposit date: | 2010-08-20 | | Release date: | 2011-09-28 | | Last modified: | 2024-03-13 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Crystal structure of the branching enzyme I (BEI) from Oryza sativa L with implications for catalysis and substrate binding.
Glycobiology, 21, 2011
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9L6Z
 | | Crystal structure of the L7Ae derivative protein LS12 in RNA-free state | | Descriptor: | Large ribosomal subunit protein eL8, SODIUM ION | | Authors: | Teramoto, T, Nakashima, M, Fukunaga, K, Yokobayashi, Y, Kakuta, Y. | | Deposit date: | 2024-12-25 | | Release date: | 2025-04-02 | | Method: | X-RAY DIFFRACTION (1.8 Å) | | Cite: | Structural insights into lab-coevolved RNA-RBP pairs and applications of synthetic riboswitches in cell-free system.
Nucleic Acids Res., 53, 2025
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8YRL
 | | Crystal structure of Aspergillus fumigatus Galactofuranosylransferase (AfGfsA) in complex with UDP and galactofuranose | | Descriptor: | GLYCEROL, Glycosyltransferase family 31 protein, MANGANESE (II) ION, ... | | Authors: | Okuno, A, Oka, T, Chihara, Y, Hirata, R, Kadooka, C, Teramoto, T, Hira, D, Kakuta, Y. | | Deposit date: | 2024-03-21 | | Release date: | 2024-10-30 | | Last modified: | 2024-11-20 | | Method: | X-RAY DIFFRACTION (2.37 Å) | | Cite: | Substrate binding and catalytic mechanism of UDP-alpha-D-galactofuranose: beta-galactofuranoside beta-(1→5)-galactofuranosyltransferase GfsA.
Pnas Nexus, 3, 2024
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9L6Y
 | | Crystal structure of the L7Ae derivative protein LS12 in complex with its co-evolved target CS2 RNA | | Descriptor: | CALCIUM ION, CS2 RNA, Large ribosomal subunit protein eL8 | | Authors: | Teramoto, T, Nakashima, M, Fukunaga, K, Yokobayashi, Y, Kakuta, Y. | | Deposit date: | 2024-12-25 | | Release date: | 2025-04-02 | | Method: | X-RAY DIFFRACTION (3.12 Å) | | Cite: | Structural insights into lab-coevolved RNA-RBP pairs and applications of synthetic riboswitches in cell-free system.
Nucleic Acids Res., 53, 2025
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9L6X
 | | Crystal structure of the L7Ae derivative protein LS4 in complex with its co-evolved target CS1 RNA | | Descriptor: | CS1 RNA, Large ribosomal subunit protein eL8, MAGNESIUM ION | | Authors: | Teramoto, T, Nakashima, M, Fukunaga, K, Yokobayashi, Y, Kakuta, Y. | | Deposit date: | 2024-12-25 | | Release date: | 2025-04-02 | | Method: | X-RAY DIFFRACTION (1.89 Å) | | Cite: | Structural insights into lab-coevolved RNA-RBP pairs and applications of synthetic riboswitches in cell-free system.
Nucleic Acids Res., 53, 2025
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3AP1
 | | Crystal structure of human tyrosylprotein sulfotransferase-2 complexed with PAP and C4 peptide | | Descriptor: | ADENOSINE-3'-5'-DIPHOSPHATE, C4 peptide, GLYCEROL, ... | | Authors: | Teramoto, T, Fujikawa, Y, Kawaguchi, Y, Kurogi, K, Soejima, M, Adachi, R, Nakanishi, Y, Mishiro-Sato, E, Liu, M.-C, Sakakibara, Y, Suiko, M, Kimura, M, Kakuta, Y. | | Deposit date: | 2010-10-09 | | Release date: | 2011-10-26 | | Last modified: | 2024-10-16 | | Method: | X-RAY DIFFRACTION (1.9 Å) | | Cite: | Crystal structure of human tyrosylprotein sulfotransferase-2 reveals the mechanism of protein tyrosine sulfation reaction.
Nat Commun, 4, 2013
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5AX7
 | | yeast pyruvyltransferase Pvg1p | | Descriptor: | Pyruvyl transferase 1, ZINC ION | | Authors: | Kanekiyo, M, Yoritsune, K, Yoshinaga, S, Higuchi, Y, Takegawa, K, Kakuta, Y. | | Deposit date: | 2015-07-16 | | Release date: | 2016-06-08 | | Last modified: | 2024-11-13 | | Method: | X-RAY DIFFRACTION (2.46 Å) | | Cite: | A rationally engineered yeast pyruvyltransferase Pvg1p introduces sialylation-like properties in neo-human-type complex oligosaccharide
Sci Rep, 6, 2016
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7YRO
 | | Crystal structure of mango fucosyltransferase 13 | | Descriptor: | 2-acetamido-2-deoxy-beta-D-glucopyranose, ACETIC ACID, Fucosyltransferase, ... | | Authors: | Okada, T, Teramoto, T, Ihara, H, Ikeda, Y, Kakuta, Y. | | Deposit date: | 2022-08-10 | | Release date: | 2023-08-16 | | Last modified: | 2024-10-23 | | Method: | X-RAY DIFFRACTION (2.42 Å) | | Cite: | Crystal structure of mango alpha 1,3/ alpha 1,4-fucosyltransferase elucidates unique elements that regulate Lewis A-dominant oligosaccharide assembly.
Glycobiology, 34, 2024
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