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Research Output 1994 2017

  • 2905 Citations
  • 29 h-Index
  • 91 Article
  • 3 Review article
  • 1 Chapter
  • 1 Chapter (peer-reviewed)
2017
6 Citations (Scopus)

Structural basis for the broad substrate specificity of the human tyrosylprotein sulfotransferase-1

Tanaka, S., Nishiyori, T., Kojo, H., Otsubo, R., Tsuruta, M., Kurogi, K., Liu, M. C., Suiko, M., Sakakibara, Y. & Kakuta, Y., Dec 1 2017, In : Scientific reports. 7, 1, 8776.

Research output: Contribution to journalArticle

Substrates
Tyrosine
Proteins
Crystal structure
Protein Isoforms
2016
5 Citations (Scopus)

A rationally engineered yeast pyruvyltransferase Pvg1p introduces sialylation-like properties in neo-human-Type complex oligosaccharide

Higuchi, Y., Yoshinaga, S., Yoritsune, K. I., Tateno, H., Hirabayashi, J., Nakakita, S. I., Kanekiyo, M., Kakuta, Y. & Takegawa, K., May 19 2016, In : Scientific reports. 6, 26349.

Research output: Contribution to journalArticle

Oligosaccharides
Glycopeptides
Yeasts
Lectins
Bioengineering
4 Citations (Scopus)

Functional implication of archaeal homologues of human RNase P protein pair Pop5 and Rpp30

Hamasaki, M., Hazeyama, K., Iwasaki, F., Ueda, T., Nakashima, T., Kakuta, Y. & Kimura, M., Jan 1 2016, In : Journal of biochemistry. 159, 1, p. 31-40 10 p.

Research output: Contribution to journalArticle

Ribonuclease P
Surface Plasmon Resonance
Surface plasmon resonance
Pyrococcus horikoshii
Chemical activation
2015
1 Citation (Scopus)
Ribonuclease P
Nucleic Acid Hybridization
Nucleic Acids
DNA
Fluorescence Resonance Energy Transfer
1 Citation (Scopus)
Thermococcus
Ribonuclease P
Gene encoding
Archaea
RNA Precursors
3 Citations (Scopus)

On archaeal homologs of the human RNase P proteins Pop5 and Rpp30 in the hyperthermophilic archaeon Thermococcus kodakarensis

Suematsu, K., Ueda, T., Nakashima, T., Kakuta, Y. & Kimura, M., Jan 1 2015, In : Bioscience, Biotechnology and Biochemistry. 79, 6, p. 952-959 8 p.

Research output: Contribution to journalArticle

Pyrococcus horikoshii
Thermococcus
Ribonuclease P
Archaea
RNA Precursors
2014
3 Citations (Scopus)

Characterization of putative toxin/antitoxin systems in Vibrio parahaemolyticus

Hino, M., Zhang, J., Takagi, H., Miyoshi, T., Uchiumi, T., Nakashima, T., Kakuta, Y. & Kimura, M., Jan 1 2014, In : Journal of Applied Microbiology. 117, 1, p. 185-195 11 p.

Research output: Contribution to journalArticle

Vibrio parahaemolyticus
Antitoxins
Escherichia coli
Multigene Family
Growth
6 Citations (Scopus)

Characterization of the peripheral structures of archaeal RNase P RNA from Pyrococcus horikoshii OT3

Ueda, T., Yamaguchi, H., Miyanoshita, M., Nakashima, T., Kakuta, Y. & Kimura, M., Jan 27 2014, In : Journal of Biochemistry. 155, 1, p. 25-33 9 p.

Research output: Contribution to journalArticle

Pyrococcus horikoshii
Ribonuclease P
RNA
RNA Precursors
Proteins

Enhancement of RNA annealing and strand displacement found in archaeal ribonuclease P proteins is conserved in Escherichia coli protein C5 and yeast protein Rpr2

Furutani, T., Hazeyama, K., Ueda, T., Tomita, S., Imai, T., Nakashima, T., Kakuta, Y. & Kimura, M., Jan 1 2014, In : Bioscience, Biotechnology and Biochemistry. 78, 10, p. 1700-1702 3 p.

Research output: Contribution to journalArticle

Ribonuclease P
Fungal Proteins
Escherichia coli Proteins
RNA
Annealing
14 Citations (Scopus)
RNA Precursors
Arabidopsis
Nucleotides
Ribonuclease P
RNA, Transfer, Phe
5 Citations (Scopus)

Tamavidin 2-HOT, a highly thermostable biotin-binding protein

Takakura, Y., Suzuki, J., Oka, N. & Kakuta, Y., Jan 10 2014, In : Journal of Biotechnology. 169, 1, p. 1-8 8 p.

Research output: Contribution to journalArticle

Biotin
Streptavidin
Avidin
Reducing agents
Escherichia coli
2013
25 Citations (Scopus)

Crystal structure of human tyrosylprotein sulfotransferase-2 reveals the mechanism of protein tyrosine sulfation reaction

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., Apr 11 2013, In : Nature communications. 4, 1572.

Research output: Contribution to journalArticle

sulfation
tyrosine
Tyrosine
Crystal structure
proteins
6 Citations (Scopus)
Pyrococcus horikoshii
Ribonuclease P
Fluorescence Resonance Energy Transfer
Chemical activation
RNA Precursors
12 Citations (Scopus)

The crystal structure of novel chondroitin lyase ODV-E66, a baculovirus envelope protein

Kawaguchi, Y., Sugiura, N., Kimata, K., Kimura, M. & Kakuta, Y., Dec 11 2013, In : FEBS Letters. 587, 24, p. 3943-3948 6 p.

Research output: Contribution to journalArticle

Chondroitin Lyases
Baculoviridae
Polysaccharide-Lyases
Crystal structure
Chondroitin
2012
7 Citations (Scopus)

A distinct binding mode of archaeal ribonuclease P proteins to RNA

Ishihara, M., Nishimoto, E., Yamashita, S., Kakuta, Y. & Kimura, M., Dec 1 2012, In : Bioscience, Biotechnology and Biochemistry. 76, 12, p. 2335-2337 3 p.

Research output: Contribution to journalArticle

Pyrococcus horikoshii
Ribonuclease P
Oligoribonucleotides
RNA
Fluorescence Resonance Energy Transfer
3 Citations (Scopus)

Crystallization and X-ray diffraction analysis of chondroitin lyase from baculovirus: Envelope protein ODV-E66

Kawaguchi, Y., Sugiura, N., Onishi, M., Kimata, K., Kimura, M. & Kakuta, Y., Feb 1 2012, In : Acta Crystallographica Section F: Structural Biology and Crystallization Communications. 68, 2, p. 190-192 3 p.

Research output: Contribution to journalArticle

Chondroitin Lyases
Chondroitin
Chondroitin Sulfates
Baculoviridae
Crystallization
2 Citations (Scopus)

Crystal structure of sulfotransferase STF9 from Mycobacterium avium.

Hossain, M. M., Moriizumi, Y., Tanaka, S., Kimura, M. & Kakuta, Y., Jan 1 2012, In : Molecular and cellular biochemistry. 361, 1-2, p. 97-104 8 p.

Research output: Contribution to journalArticle

Sulfotransferases
Mycobacterium avium
Palmitic Acid
Crystal structure
Sulfates
22 Citations (Scopus)

Crystal structure of the rice branching enzyme I (BEI) in complex with maltopentaose

Chaen, K., Noguchi, J., Omori, T., Kakuta, Y. & Kimura, M., Aug 3 2012, In : Biochemical and Biophysical Research Communications. 424, 3, p. 508-511 4 p.

Research output: Contribution to journalArticle

Crystal structure
Carbohydrates
1,4-alpha-Glucan Branching Enzyme
Amylopectin
Amylases
2 Citations (Scopus)

Kinetics of iterative carbohydrate transfer to polysaccharide catalyzed by chondroitin polymerase on a highly sensitive flow-type 27 MHz quartz-crystal microbalance

Mori, T., Kodera, T., Yoshimine, H., Kakuta, Y., Sugiura, N., Kimata, K. & Okahata, Y., Jun 11 2012, In : Chemistry - A European Journal. 18, 24, p. 7389-7393 5 p.

Research output: Contribution to journalArticle

Chondroitin
Glucuronic Acid
Quartz crystal microbalances
Polysaccharides
Carbohydrates
2 Citations (Scopus)

Loss-of-function mutation in bi-functional marine bacterial sialyltransferase

Kajiwara, H., Katayama, S., Kakuta, Y., Okino, N., Ito, M., Mine, T. & Yamamoto, T., Oct 1 2012, In : Bioscience, Biotechnology and Biochemistry. 76, 9, p. 1639-1644 6 p.

Research output: Contribution to journalArticle

Sialyltransferases
Mutation
Neuraminidase
Amino Acids
Enzymes
8 Citations (Scopus)

Single-molecular enzymatic elongation of hyaluronan polymers visualized by high-speed atomic force microscopy

Mori, T., Hirose, A., Hagiwara, T., Ohtsuka, M., Kakuta, Y., Kimata, K. & Okahata, Y., Dec 19 2012, In : Journal of the American Chemical Society. 134, 50, p. 20254-20257 4 p.

Research output: Contribution to journalArticle

Atomic Force Microscopy
Hyaluronic Acid
Pasteurella multocida
Hyaluronic acid
Elongation
15 Citations (Scopus)

Structural basis for catalytic activity of a silkworm Delta-class glutathione transferase

Yamamoto, K., Usuda, K., Kakuta, Y., Kimura, M., Higashiura, A., Nakagawa, A., Aso, Y. & Suzuki, M., Oct 1 2012, In : Biochimica et Biophysica Acta - General Subjects. 1820, 10, p. 1469-1474 6 p.

Research output: Contribution to journalArticle

Bombyx
Glutathione Transferase
Glutathione
Catalyst activity
Anopheles gambiae
6 Citations (Scopus)

Structural biology of the ribonuclease p in the hyperthermophilic archaeon pyrococcus horikoshii OT3

Kimura, M. & Kakuta, Y., Oct 1 2012, Microorganisms in Sustainable Agriculture and Biotechnology. Springer Netherlands, Vol. 9789400722149. p. 487-508 22 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Pyrococcus horikoshii
Ribonuclease P
Archaea
Ribonucleases
RNA Precursors
5 Citations (Scopus)

Thermodynamic analysis of a multifunctional RNA-binding protein, PhoRpp38, in the hyperthermophilic archaeon Pyrococcus horikoshii OT3

Oshima, K., Nakashima, T., Kakuta, Y., Tsumoto, K. & Kimura, M., Jun 29 2012, In : Bioscience, Biotechnology and Biochemistry. 76, 6, p. 1252-1255 4 p.

Research output: Contribution to journalArticle

Pyrococcus horikoshii
Ribonuclease P
RNA-Binding Proteins
Archaea
Thermodynamics
12 Citations (Scopus)

The structural basis for a coordinated reaction catalyzed by a bifunctional glycosyltransferase in chondroitin biosynthesis

Sobhany, M., Kakuta, Y., Sugiura, N., Kimata, K. & Negishi, M., Oct 19 2012, In : Journal of Biological Chemistry. 287, 43, p. 36022-36028 7 p.

Research output: Contribution to journalArticle

Chondroitin
Glycosyltransferases
Biosynthesis
Acetylgalactosamine
Glucuronic Acid
2011
9 Citations (Scopus)

Crystallographic survey of active sites of an unclassified glutathione transferase from Bombyx mori

Kakuta, Y., Usuda, K., Nakashima, T., Kimura, M., Aso, Y. & Yamamoto, K., Dec 1 2011, In : Biochimica et Biophysica Acta - General Subjects. 1810, 12, p. 1355-1360 6 p.

Research output: Contribution to journalArticle

Bombyx
Insecticides
Glutathione Transferase
Catalytic Domain
Glutathione
27 Citations (Scopus)

Crystal structure of the branching enzyme i (BEI) from Oryza sativa L with implications for catalysis and substrate binding

Noguchi, J., Chaen, K., Vu, N. T., Akasaka, T., Shimada, H., Nakashima, T., Nishi, A., Satoh, H., Omori, T., Kakuta, Y. & Kimura, M., Aug 1 2011, In : Glycobiology. 21, 8, p. 1108-1116 9 p.

Research output: Contribution to journalArticle

1,4-alpha-Glucan Branching Enzyme
Catalysis
Crystal structure
Substrates
Amylases
3 Citations (Scopus)

Molecular cloning, expression, and functional analysis of a predicted sulfotransferase STF9 from Mycobacterium avium

Hossain, M. M., Moriizumi, Y., Tanaka, S., Kimura, M. & Kakuta, Y., Apr 1 2011, In : Molecular and cellular biochemistry. 350, 1-2, p. 155-162 8 p.

Research output: Contribution to journalArticle

Sulfotransferases
Mycobacterium avium
Functional analysis
Cloning
Molecular Cloning
11 Citations (Scopus)

Structural modeling of RNase P RNA of the hyperthermophilic archaeon Pyrococcus horikoshii OT3

Zwieb, C., Nakao, Y., Nakashima, T., Takagi, H., Goda, S., Andersen, E. S., Kakuta, Y. & Kimura, M., Oct 28 2011, In : Biochemical and Biophysical Research Communications. 414, 3, p. 517-522 6 p.

Research output: Contribution to journalArticle

Pyrococcus horikoshii
Ribonuclease P
Archaea
RNA
Catalytic RNA
4 Citations (Scopus)

The contribution of peripheral stem-loops to the catalytic activity of archaeal RNase P RNa from Pyrococcus horikoshii OT3

Hara, T., Terada, A., Yamaguchi, H., Nakashima, T., Kakuta, Y. & Kimura, M., May 16 2011, In : Bioscience, Biotechnology and Biochemistry. 75, 4, p. 816-819 4 p.

Research output: Contribution to journalArticle

Pyrococcus horikoshii
Ribonuclease P
Catalyst activity
RNA Precursors
Catalysis
2010
22 Citations (Scopus)

Glucuronyltransferase activity of KfiC from Escherichia coli strain K5 requires association of KfiA: KfiC and KfiA are essential enzymes for production of K5 polysaccharide, N-acetylheparosan

Sugiura, N., Baba, Y., Kawaguchi, Y., Iwatani, T., Suzuki, K., Kusakabe, T., Yamagishi, K., Kimata, K., Kakuta, Y. & Watanabe, H., Jan 15 2010, In : Journal of Biological Chemistry. 285, 3, p. 1597-1606 10 p.

Research output: Contribution to journalArticle

Glucuronosyltransferase
Heparitin Sulfate
Transferases
Escherichia coli
Association reactions
1 Citation (Scopus)

Structure of the newly found green turtle egg-white ribonuclease

Katekaew, S., Kuaprasert, B., Torikata, T., Kakuta, Y., Kimura, M., Yoneda, K. & Araki, T., Jul 15 2010, In : Acta Crystallographica Section F: Structural Biology and Crystallization Communications. 66, 7, p. 755-759 5 p.

Research output: Contribution to journalArticle

turtles
Egg White
Pancreatic Ribonuclease
Turtles
eggs
6 Citations (Scopus)

The structural mechanism of the inhibition of archaeal RelE toxin by its cognate RelB antitoxin

Shinohara, M., Guo, J. X., Mori, M., Nakashima, T., Takagi, H., Nishimoto, E., Yamashita, S., Tsumoto, K., Kakuta, Y. & Kimura, M., Sep 1 2010, In : Biochemical and Biophysical Research Communications. 400, 3, p. 346-351 6 p.

Research output: Contribution to journalArticle

Antitoxins
Escherichia coli
Pyrococcus horikoshii
Archaea
Titration
29 Citations (Scopus)

Zebrafish as a model for the study of the phase II cytosolic sulfotransferases

Liu, T. A., Bhuiyan, S., Liu, M. Y., Sugahara, T., Sakakibara, Y., Suiko, M., Yasuda, S., Kakuta, Y., Kimura, M., Williams, F. E. & Liu, M. C., Jul 1 2010, In : Current Drug Metabolism. 11, 6, p. 538-546 9 p.

Research output: Contribution to journalReview article

Sulfotransferases
Zebrafish
Detoxification
Pharmaceutical Preparations
Xenobiotics
2009
43 Citations (Scopus)

Crystal structure of chondroitin polymerase from Escherichia coli K4

Osawa, T., Sugiura, N., Shimada, H., Hirooka, R., Tsuji, A., Shirakawa, T., Fukuyama, K., Kimura, M., Kimata, K. & Kakuta, Y., Jan 2 2009, In : Biochemical and Biophysical Research Communications. 378, 1, p. 10-14 5 p.

Research output: Contribution to journalArticle

Chondroitin
Uridine Diphosphate
Escherichia coli
Crystal structure
Elongation
22 Citations (Scopus)

Crystal structure of α/β-galactoside α2,3-sialyltransferase from a luminous marine bacterium, Photobacterium phosphoreum

Iwatani, T., Okino, N., Sakakura, M., Kajiwara, H., Takakura, Y., Kimura, M., Ito, M., Yamamoto, T. & Kakuta, Y., Jun 18 2009, In : FEBS Letters. 583, 12, p. 2083-2087 5 p.

Research output: Contribution to journalArticle

Photobacterium
Sialyltransferases
Galactosides
Bacteria
Crystal structure
6 Citations (Scopus)

Expression and functional analysis of a predicted atsg arylsulphatase identified from mycobacterium tuberculosis genomic data

Hossain, M. M., Kawarabayasi, Y., Kimura, M. & Kakuta, Y., Dec 1 2009, In : Journal of biochemistry. 146, 6, p. 767-769 3 p.

Research output: Contribution to journalArticle

Arylsulfatases
Functional analysis
Pathogens
Mycobacterium tuberculosis
Sulfatases

Induced-fit type ligand binding guided by free-rotatory Leu residue present in the 7th α-helix peptide in the estrogen-related receptor γ (ERRγ)

Matsushima, A., Okada, H., Liu, X., Tokunaga, T., Teramoto, T., Kakuta, Y. & Shimohigashi, Y., 2009, Peptide Science 2008. p. 521-522

Research output: Chapter in Book/Report/Conference proceedingChapter (peer-reviewed)

22 Citations (Scopus)

Mechanistic insights into the hydrolysis and synthesis of ceramide by neutral ceramidase

Inoue, T., Okino, N., Kakuta, Y., Hijikata, A., Okano, H., Goda, H. M., Tani, M., Sueyoshi, N., Kambayashi, K., Matsumura, H., Kai, Y. & Ito, M., Apr 3 2009, In : Journal of Biological Chemistry. 284, 14, p. 9566-9577 12 p.

Research output: Contribution to journalArticle

Neutral Ceramidase
Ceramides
Exotoxins
Hydrolysis
Ceramidases
4 Citations (Scopus)

On the similar spatial arrangement of active site residues in PAPS-dependent and phenolic sulfate-utilizing sulfotransferases

Teramoto, T., Adachi, R., Sakakibara, Y., Liu, M. C., Suiko, M., Kimura, M. & Kakuta, Y., Sep 17 2009, In : FEBS Letters. 583, 18, p. 3091-3094 4 p.

Research output: Contribution to journalArticle

arylsulfate sulfotransferase
Phosphoadenosine Phosphosulfate
Sulfotransferases
Sulfates
Catalytic Domain
14 Citations (Scopus)

Snapshot of a Michaelis complex in a sulfuryl transfer reaction: Crystal structure of a mouse sulfotransferase, mSULT1D1, complexed with donor substrate and accepter substrate

Teramoto, T., Sakakibara, Y., Liu, M. C., Suiko, M., Kimura, M. & Kakuta, Y., May 22 2009, In : Biochemical and Biophysical Research Communications. 383, 1, p. 83-87 5 p.

Research output: Contribution to journalArticle

Sulfotransferases
Crystal structure
Phosphoadenosine Phosphosulfate
Substrates
4-nitrophenol
2 Citations (Scopus)

Structural basis for the broad range substrate specificity of a novel mouse cytosolic sulfotransferase-mSULT1D1

Teramoto, T., Sakakibara, Y., Liu, M. C., Suiko, M., Kimura, M. & Kakuta, Y., Jan 30 2009, In : Biochemical and Biophysical Research Communications. 379, 1, p. 76-80 5 p.

Research output: Contribution to journalArticle

Sulfotransferases
Naphthols
Substrate Specificity
Binding Sites
Sulfonation
34 Citations (Scopus)

Tamavidins - Novel avidin-like biotin-binding proteins from the Tamogitake mushroom

Takakura, Y., Tsunashima, M., Suzuki, J., Usami, S., Kakuta, Y., Okino, N., Ito, M. & Yamamoto, T., Mar 1 2009, In : FEBS Journal. 276, 5, p. 1383-1397 15 p.

Research output: Contribution to journalArticle

Avidin
Agaricales
Streptavidin
Biotin
Escherichia coli
2008

[Novel catabolic pathway of glycosphingolipids that includes a cytosolic glucocerebrosidase, klotho-related protein (KLrP)].

Hayashi, Y., Okino, N., Kakuta, Y. & Ito, M., Sep 1 2008, In : Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme. 53, 12 Suppl, p. 1462-1467 6 p.

Research output: Contribution to journalReview article

Signal Transducing Adaptor Proteins
Biological Transport
Glucosylceramidase
Glucosylceramides
Gaucher Disease
16 Citations (Scopus)

Biochemical and crystallographic characterization of the starch branching enzyme I (BEI) from Oryza sativa L

Vu, N. T., Shimada, H., Kakuta, Y., Nakashima, T., Ida, H., Omori, T., Nishi, A., Satoh, H. & Kimura, M., Dec 1 2008, In : Bioscience, Biotechnology and Biochemistry. 72, 11, p. 2858-2866 9 p.

Research output: Contribution to journalArticle

1,4-alpha-Glucan Branching Enzyme
Amylopectin
Amylases
Enzymes
Amylose
15 Citations (Scopus)

Crystal structure and functional analysis of an archaeal chromatin protein alba from the hyperthermophilic archaeon Pyrococcus horikoshii OT3

Hada, K., Nakashima, T., Osawa, T., Shimada, H., Kakuta, Y. & Kimura, M., Apr 7 2008, In : Bioscience, Biotechnology and Biochemistry. 72, 3, p. 749-758 10 p.

Research output: Contribution to journalArticle

Pyrococcus horikoshii
Archaeal Proteins
Functional analysis
Archaea
Ribonuclease P
6 Citations (Scopus)

Crystal structure of an archaeal Ski2p-like protein from Pyrococcus horikoshii OT3

Zhang, X., Nakashima, T., Kakuta, Y., Yao, M., Tanaka, I. & Kimura, M., Jan 1 2008, In : Protein Science. 17, 1, p. 136-145 10 p.

Research output: Contribution to journalArticle

Pyrococcus horikoshii
RNA Helicases
Archaea
RNA Stability
Escherichia coli
3 Citations (Scopus)

Crystal structure of mSULT1D1, a mouse catecholamine sulfotransferase

Teramoto, T., Sakakibara, Y., Inada, K., Kurogi, K., Liu, M. C., Suiko, M., Kimura, M. & Kakuta, Y., Nov 26 2008, In : FEBS Letters. 582, 28, p. 3909-3914 6 p.

Research output: Contribution to journalArticle

Sulfotransferases
Catecholamines
Dopamine
Arylsulfotransferase
Crystal structure
18 Citations (Scopus)

Crystal structure of the covalent intermediate of human cytosolic β-glucosidase

Noguchi, J., Hayashi, Y., Baba, Y., Okino, N., Kimura, M., Ito, M. & Kakuta, Y., Sep 26 2008, In : Biochemical and Biophysical Research Communications. 374, 3, p. 549-552 4 p.

Research output: Contribution to journalArticle

Glucosidases
Lactase-Phlorizin Hydrolase
Crystal structure
Glucosylceramides
Glucose
51 Citations (Scopus)
Vibrionaceae
Photobacterium
Sialyltransferases
Cytidine Monophosphate
Lactose