Publications & Activities from 2008 to 2012
Present-2013
2012 2011 2010 2009 2008
Comparative analysis of two glyceraldehyde-3-phosphate dehydrogenases from a thermoacidophilic archaeon, Sulfolobus tokodaii
F. Ito, H. Chishiki, S. Fushinobu, and T. Wakagi
FEBS Lett. 586 (19), 3097-3103 (2012)1,3-1,4-α-L-Fucosynthase that specifically introduces Lewis a/x antigens into type-1/2 chains
H. Sakurama, S. Fushinobu, M. Hidaka, E. Yoshida, Y. Honda, H. Ashida, M. Kitaoka, H. Kumagai, K. Yamamoto, and T. Katayama
J. Biol. Chem. 287 (20), 16709-16719 (2012)Survival of the aerobic denitrifier Pseudomonas stutzeri Strain TR2 during co-culture with activated sludge under denitrifying conditions
M. Miyahara, S.-W. Kim, S. Zhou, S. Fushinobu, T. Yamada, W. Ikeda-Ohtsubo, A. Watanabe, K. Miyauchi, G. Endo, T. Wakagi, and H. Shoun
Biosci. Biotechnol. Biochem. 76 (3), 495-500 (2012)Crystal structures of glycoside hydrolase family 51 α-L-arabinofuranosidase from Thermotoga maritima
D.-H. Im, K. Kimura, F. Hayasaka, T. Tanaka, M. Noguchi, A. Kobayashi, S. Shoda, K. Miyazaki, T. Wakagi, and S. Fushinobu
Biosci. Biotechnol. Biochem. 76 (2), 423-428 (2012)Advenella faeciporci sp. nov., a nitrite-denitrifying bacterium isolated from nitrifying-denitrifying activated sludge collected from a laboratory-scale bioreactor treating piggery wastewater
M. Matsuoka, S. Park, S.-Y. An, M. Miyahara, S.-W. Kim, K. Kamino, S. Fushinobu, A. Yokota, T. Wakagi, and H. Shoun
Int. J. Syst. Evol. Microbiol. 62 (12), 2986-2990 (2012)Identification of the catalytic residues of sequence-specific and histidine-free ribonuclease colicin E5
S. Inoue-Ito, S. Yajima, S. Fushinobu, S. Nakamura, T. Ogawa, M. Hidaka, and H. Masaki
J. Biochem. 152 (4), 365-372 (2012)A novel enzymatic system against oxidative stress in the thermophilic hydrogen-oxidizing bacterium Hydrogenobacter thermophilus
Y. Sato, M. Kameya, S. Fushinobu, T. Wakagi, H. Arai, M. Ishii, and Y. Igarashi
PLoS One 7 (4), e34825 (2012)An α-N-acetylgalactosaminidase from infant-associated bifidobacteria belonging to a novel glycoside hydrolase family 129 is implicated in an alternative mucin degradation pathway
M. Kiyohara, T. Nakatomi, S. Kurihara, S. Fushinobu, H. Suzuki, T. Tanaka, S.-I. Shoda, M. Kitaoka, T. Katayama, K. Yamamoto, and H. Ashida
J. Biol. Chem. 287 (1), 693-700 (2012)Identification of amino acid residues that determine the substrate preference of 1,3-β-galactosyl-N-acetylhexosamine phosphorylase
M. Nishimoto, M. Hidaka, M. Nakajima, S. Fushinobu, and M. Kitaoka
J. Mol. Catal. B: Enzymatic 74 (1-2), 97-102 (2012)
B Vitamins and Folate: Chemistry, Analysis, Function and Effects (Editor: Victor R Preedy)
2012, RSC Publishing, Cambridge; ISBN: 978-1-84973-471-4
CHAPTER 4: The Importance of Vitamins in Biochemistry and Disease as Illustrated by Thiamine Diphosphate (ThDP) Dependent Enzymes
S. Fushinobu and R. Suzuki
pp. 55-68「真の」二機能性酵素の発見とその「変身」のメカニズム
伏信進矢、西増弘志、若木高善
化学と生物 50 (2), 868-875 (2012)
Discovery of a "true" biofunctional enzyme and its mechanism of metamorphosis: Archaeal fructose 1,6-bisphosphate aldolase/phosphatase
S. Fushinobu, H. Nishimasu, and T. Wakagi
Kagaku to Seibutsu 50 (2), 868-875 (2012)1つの酵素が2つの反応を触媒するしくみ
西増弘志、伏信進矢、若木高善
日本結晶学会誌 54 (2), 113-118 (2012)
Molecular mechanism by which one enzyme catalyzes two reactions
H. Nishimasu, S. Fushinobu, and T. Wakagi
J. Cryst. Soc. Jpn. 54 (2), 113-118 (2012)原始生命の代謝系で働く特異な酵素 一酵素二反応の発見
若木高善
月刊化学 67(2), 72-73 (2012)Fungal denitrification and nitric oxide reductase cytochrome P450nor
H. Shoun, S. Fushinobu, L. Jiang, S.-W. Kim, and T. Wakagi
Phil. Trans. R. Soc. B 367 (1593), 1186-1194 (2012)新規な糖質関連酵素の構造・機能解析
伏信進矢
応用糖質科学 2 (1), 44-50 (2012)
（総説 受賞論文）
Structural and functional study of novel Carbohydrate-Active enZymes
S. Fushinobu
Bull. App. Glycosci. 2 (1), 44-50 (2012)Structural Basis for the Single Active Site to Catalyze Two Distinct Reactions in a Primitive Enzyme FBPA/P
T. Wakagi, H. Nishimasu, and S. Fushinobu
Photon Factory Activity Report #29 2011 Part A, Highlights and Facility Report [Chemical and Environmental Science], pp. 36-37麹菌由来のフェルラ酸エステラーゼについて
小関卓也、堀茜、見原好治、河本かずさ、伏信進矢、小宮大、鈴木健太郎、祥雲弘文、若木高善、村山哲也、塩野義人
応用糖質科学 2 (2), 111-116 (2012)
（平成23年度糖質関連酵素化学シンポジウム）
Ferulic acid esterase of Aspergillus origin
T. Koseki, A. Hori, K. Mihara, K. Kawamoto, S. Fushinobu, D. Komiya, K. Suzuki, H. Shoun, T. Wakagi, T. Murayama, Y. Shiono
Bull. App. Glycosci. 2 (2), 111-116 (2012)
(Proceedings of the Symposium on Amylases and Related Enzymes, 2011)
平成２３年度日本応用糖質科学会奨励賞
新規な糖質関連酵素の構造・機能解析
伏信 進矢
Distinguished Young Scientist Award of the 2011's, the Japanese Society of Applied Glycoscience
Structural and Functional Study of Novel Carbohydrate-Active enZymes
Shinya Fushinobu第4回「Merck Award for Young Biochemistry Researcher」最優秀賞
鈴木 龍一郎
「Crystal Structures of Phosphoketolase: thiamine diphosphate-dependent dehydration mechanism」
J. Biol. Chem., 285. 34279 - 34287 (2010).
（当研究室在籍当時の業績に関しての受賞です）
Structural basis for the bifunctionality of fructose-1,6-bisphosphate aldolase/phosphatase
S. Fushinobu, H. Nishimasu, D. Hattori, H.-J. Song, and T. Wakagi
Nature 478 (7370), 538-541 (2011)Conserved residues in membrane-bound acid pyrophosphatase from Sulfolobus tokodaii, a thermoacidophilic archaeon
F. Manabe, H. Shoun, and T. Wakagi
Extremophiles 15 (3), 359-364 (2011)Mutational analysis of fungal family 11 xylanases on pH optimum determination
S. Fushinobu, T. Uno, M. Kitaoka, K. Hayashi, H. Matsuzawa, and T. Wakagi
J. Appl. Glycosci. 58 (3), 107-114 (2011)Interactions between glycoside hydrolase family 94 cellobiose phosphorylase and glucosidase inhibitors
S. Fushinobu, M. Hidaka, A. M. Hayashi, T. Wakagi, H. Shoun and M. Kitaoka
J. Appl. Glycosci. 58 (3), 91-97 (2011)A molecular design that stabilizes active state in bacterial allosteric L-lactate dehydrogenases
K. Arai, J. Ichikawa, S. Nonaka, A. Miyanaga, H. Uchikoba, S. Fushinobu, and H. Taguchi
J. Biochem. 150 (5), 579-591 (2011)Pentalenic acid is a shunt metabolite in the biosynthesis of the pentalenolactone family of metabolites: Hydroxylation of 1-deoxypentalenic acid mediated by CYP105D7 of Streptomyces avermitilis
S. Takamatsu, L.-H. Xu, S. Fushinobu, H. Shoun, M. Komatsu, D. Cane, and H. Ikeda
J. Antibiot. 64 (1), 65-71 (2011)Functional analysis and subcellular location of two flavohemoglobins from Aspergillus oryzae
S. Zhou, S. Fushinobu, S.-W. Kim, Y. Nakanishi, J.-I. Maruyama, K. Kitamoto, T. Wakagi, and H. Shoun
Fungal Genet. Biol. 48 (2), 200-207 (2011)
Snapshot Structures of Thiamine-Dependent Dehydration Reaction by Phosphoketolase from Bifidobacterium breve
S. Fushinobu and R. Suzuki
Photon Factory Activity Report #28 2010 Part A, Highlights and Facility Report [Life Science], pp. 58-59
セルラーゼ研究会第24回大会 ポスター賞 （１位）
鈴木 健太郎、若木 高善、炭谷 順一、川口 剛司、伏信 進矢
Aspergillus aculeatus由来β-グルコシダーゼ１のＸ線結晶構造解析第９回日本農学進歩賞
糖質関連酵素と産業上有用酵素の構造と機能に関する研究
伏信 進矢
Japan Prize in Agricultural Sciences, Achievement Award for Young Scientists, 2010 (9th)
Shinya Fushinobu
The possible involvement of copper-containing nitrite reductase (NirK) and flavohemoglobin in denitrification by the fungus Cylindrocarpon tonkinense
S.-W. Kim, S. Fushinobu, S. Zhou, T. Wakagi, and H. Shoun
Biosci. Biotechnol. Biochem. 74 (7), 1403-1407 (2010)Potential of aerobic denitrification by Pseudomonas stutzeri TR2 to reduce nitrous oxide emissions from wastewater treatment plants
M. Miyahara, S.-W. Kim, S. Fushinobu, K. Takaki, T. Yamada, A. Watanabe, K. Miyauchi, G. Endo, T. Wakagi, and H. Shoun
Appl. Environ. Microbiol. 76 (14), 4619-4625 (2010)Regio- and stereospecificity of filipin hydroxylation sites revealed by crystal structures of cytochrome P450 105P1 and 105D6 from Streptomyces avermitilis
L.-H. Xu, S. Fushinobu, S. Takamatsu, T. Wakagi, H. Ikeda, and H. Shoun
J. Biol. Chem. 285 (22), 16844-16853 (2010)Aspergillus oryzae flavohemoglobins promote oxidative damage by hydrogen peroxide
S. Zhou, S. Fushinobu, S.-W. Kim, Y. Nakanishi, T. Wakagi, and H. Shoun
Biochem. Biophys. Res. Comm. 394 (3), 558-561 (2010)A eukaryotic copper-containing nitrite reductase derived from a NirK homolog gene of Aspergillus oryzae
Y. Nakanishi, S. Zhou, S.-W. Kim, S. Fushinobu, J. Maruyama, K. Kitamoto, T. Wakagi, and H. Shoun
Biosci. Biotechnol. Biochem. 74 (5), 984-991 (2010)Nitrous oxide emission from nitrifying activated sludge dependent on denitrification by ammonia-oxidizing bacteria
S.-W. Kim, M. Miyahara, S. Fushinobu, T. Wakagi, and H. Shoun
Bioresour. Technol. 101 (11), 3958-3963 (2010)Crystal Structures of phosphoketolase: thiamine diphosphate-dependent dehydration mechanism
R. Suzuki, T. Katayama, B.-J. Kim, T. Wakagi, H. Shoun, H. Ashida, K. Yamamoto, and S. Fushinobu
J. Biol. Chem. 285 (44), 34279-34287 (2010)Overexpression, crystallization and preliminary X-ray analysis of xylulose-5-phosphate/fructose-6-phosphate phosphoketolase from Bifidobacterium breve
R. Suzuki, B.-J. Kim, T. Shibata, Y. Iwamoto, T. Katayama, H. Ashida, T. Wakagi, H. Shoun, S. Fushinobu, and K. Yamamoto
Acta Cryst. F66 (8), 941-943 (2010)Role of a PA14 domain in determining substrate specificity of a glycoside hydrolase family 3 β-glucosidase from Kluyveromyces marxianus
E. Yoshida, M. Hidaka, S. Fushinobu, T. Koyanagi, H. Minami, H. Tamaki, M. Kitaoka, T. Katayama, and H. Kumagai
Biochem. J. 431 (1), 39-49 (2010)Recognition of cellooligosaccharides by a family 28 carbohydrate-binding module
K. Tsukimoto, R. Takada, Y. Araki, K. Suzuki, S. Karita, T. Wakagi, H. Shoun, T. Watanabe, and S. Fushinobu
FEBS Lett. 584 (6), 1205-1211 (2010)Structural explanation for the acquisition of glycosynthase activity
M. Hidaka, S. Fushinobu, Y. Honda, T. Wakagi, H. Shoun, and M. Kitaoka
J. Biochem. 147 (2), 237-244 (2010)Active and inactive state structures of unliganded Lactobacillus casei allosteric L-lactate dehydrogenase
K. Arai, T. Ishimitsu, S. Fushinobu, H. Uchikoba, H. Matsuzawa, and H. Taguchi
Proteins: Struct. Funct. Bioinform. 78 (3), 681-694 (2010)Characterization of a chimeric enzyme comprising feruloyl esterase and family 42 carbohydrate-binding module
T. Koseki, K. Mochizuki, H. Kisara, A. Miyanaga, S. Fushinobu, T. Murayama, Y. Shiono
Appl. Microbiol. Biotechnol. 86 (1), 155-161 (2010)
Unique Sugar Metabolic Pathways of Bifidobacteria
S. Fushinobu
Biosci. Biotechnol. Biochem. 74 (12), 2374-2384 (2010)Analyses of Bifidobacterial Glycosidases Involved in the Metabolism of Oligosaccharides
K. Yamamoto, T. Katayama, M. Kitaoka, and S. Fushinobu
Biosci. Microflora 29 (1), 23-30 (2010)
B.B.B.論文賞 (2008年 Vol. 72)
高木恒輝、伏信進矢、金尚完、宮原盛雄、若木高善、祥雲弘文
Award for Excellence to Authors Publishing in Bioscience, Biotechnology, and Biochemistry in 2008
K. Takaki, S. Fushinobu, S.-W. Kim, M. Miyahara, T. Wakagi, and H. Shoun
Streptomyces griseus enhances denitrification by Ralstonia pickettii K50, which is possibly mediated by histidine produced during co-culture
Biosci. Biotechnol. Biochem. 72 (1), 163-170 (2008)
Eukaryotic nirK genes encoding copper-containing nitrite reductase: originating from the protomitochondrion?
S.-W. Kim, S. Fushinobu, S. Zhou, T. Wakagi, and H. Shoun
Appl. Environ. Microbiol. 75 (9), 2652-2658 (2009)Cloning and characterization of two flavohemoglobins from Aspergillus oryzae
S. Zhou, S. Fushinobu, Y. Nakanishi, S.-W. Kim, T. Wakagi, and H. Shoun
Biochem. Biophys. Res. Comm. 381 (1), 7-11 (2009)Crystal structures of cytochrome P450 105P1 from Streptomyces avermitilis: Conformational flexibility and histidine ligation state
L.-H. Xu, S. Fushinobu, H. Ikeda, T. Wakagi, and H. Shoun
J. Bacteriol. 191 (4), 1211-1219 (2009)Characterization of phytochelatin synthase produced by the primitive red alga Cyanidioschyzon merolae.
Y. Osaki, T. Shirabe, H. Nakanishi, T. Wakagi, and E. Yoshimura
Metallomics 1 (4) 353-358 (2009)Membrane-bound acid pyrophosphatase from Sulfolobus tokodaii, a thermoacidophilic archaeon: heterologous expression of the gene and characterization of the product
F. Manabe, Y. H. Itoh, H. Shoun, and T. Wakagi
Extremophiles 13 (6) 859-865 (2009)Identification of the lysine residue responsible for coenzyme A binding in the heterodimeric 2-oxoacid:ferredoxin oxidoreductase from Sulfolobus tokodaii, a thermoacidophilic archaeon, using 4-fluoro-7-nitrobenzofurazan as an affinity label
J. Luo, E. Fukuda, H. Takase, S. Fushinobu, H. Shoun, and T. Wakagi
Biochim. Biophys. Acta - Proteins Proteomics 1794 (2), 335-340 (2009)Crystallographic and mutational analyses of substrate recognition of endo-α-N-acetylgalactosaminidase from Bifidobacterium longum
R. Suzuki, T. Katayama, M. Kitaoka, H. Kumagai, T. Wakagi, H. Shoun, H. Ashida, K. Yamamoto, and S. Fushinobu
J. Biochem. 146 (3), 389-398 (2009)The crystal structure of galacto-N-biose/lacto-N-biose I phosphorylase: A large deformation of a tim barrel scaffold
M. Hidaka, M. Nishimoto, M. Kitaoka, T. Wakagi, H. Shoun, and S. Fushinobu
J. Biol. Chem. 284 (11), 7273-7283 (2009)Crystal structure of polysaccharide lyase family 20 endo-β-1,4-glucuronan lyase from the filamentous fungus Trichoderma reesei
N. Konno, T. Ishida, K. Igarashi, S. Fushinobu, N. Habu, M. Samejima, and A. Isogai
FEBS Lett. 583 (8), 1323-1326 (2009)Crystal structure of glycoside hydrolase family 55 β-1,3-glucanase from the basidiomycete Phanerochaete chrysosporium
T. Ishida, S. Fushinobu, R. Kawai, M. Kitaoka, K. Igarashi, and M. Samejima
J. Biol. Chem. 284 (15), 10100-10109 (2009)Purification, crystallization and preliminary X-ray analysis of β-glucosidase from Kluyveromyces marxianus NBRC1777
E. Yoshida, M. Hidaka, S. Fushinobu, T. Koyanagi, H. Minami, H. Tamaki, M. Kitaoka, T. Katayama, and H. Kumagai
Acta Cryst. F65 (11), 1190-1192 (2009)Crystal structures of the regulatory subunit of Thr-sensitive aspartate kinase from Thermus thermophilus
A. Yoshida, T. Tomita, H. Kono, S. Fushinobu, T. Kuzuyama, M. Nishiyama
FEBS J. 276 (11) 3124-3136 (2009)Mechanism for multiple-substrates recognition of alpha-aminoadipate aminotransferase from Thermus thermophilus
T. Tomita, T. Miyagawa, T. Miyazaki, S. Fushinobu, T. Kuzuyama, and M. Nishiyama
Proteins: Struct. Funct. Bioinform. 75 (2), 348-359 (2009)
ビフィズス菌のヒトミルクオリゴ糖分解に関わるホスホリラーゼの結晶構造
日高將文、伏信進矢
Photon Factory News 27 (2), 18-21 (2009)（この号の表紙に採用して頂きました）
Crystal structures of a phosphorylase involved in degradation of human milk oligosaccharide by Bifidobacteria
M. Hidaka and S. Fushinobu
Photon Factory News 27 (2), 18-21 (2009) [Japanese]Crystal structure of GH101 endo-α-N-acetylgalactosaminidase from Bifidobacterium longum
R. Suzuki, T. Katayama, S. Fushinobu, M. Kitaoka, H. Kumagai, T. Wakagi, H. Shoun, H. Ashida, and K. Yamamoto
(Proceedings of the Symposium on Amylases and Related Enzymes, 2008)
J. Appl. Glycosci. 56 (2), 105-110 (2009)Occurrence, properties, and applications of feruloyl esterases
T. Koseki, S. Fushinobu, Ardiansyah, H. Shirakawa, and M Komai
Appl. Micobiol. Biotechnol. 84 (5), 803-810 (2009)Conversion of an inverting glycoside hydrolase into glycosynthase
Y. Honda, S. Fushinobu, M. Hidaka, T. Wakagi, H. Shoun, H. Taniguchi, and M. Kitaoka
(Proceedings of the Symposium on Amylases and Related Enzymes, 2008)
J. Appl. Glycosci. 56 (2), 119-125 (2009)Conversion of inverting glycoside hydrolases into catalysis for synthesizing glycosidases employing a glycosynthase strategy
（グライコシンターゼ化による反転型加水分解酵素のグリコシド合成触媒への変換）
M. Kitaoka, H. Yuji, S. Fushinobu, M. Hidaka, T. Katayama, and K. Yamamoto
Trends Glycosci. Glycotechnol. 21 (117), 23-39 (2009)
2008年度農芸化学奨励賞
糖質分解酵素と特殊環境で働く酵素の構造生物学的研究
伏信 進矢
The Japan Bioscience, Biotechnology and Agrochemistry Society Award for the Encouragement of Young Scientists, 2008
Dr. Shinya Fushinobu
Streptomyces griseus enhances denitrification by Ralstonia pickettii K50, which is possibly mediated by histidine produced during co-culture
K. Takaki, S. Fushinobu, S.-W. Kim, M. Miyahara, T. Wakagi, and H. Shoun
Biosci. Biotechnol. Biochem. 72 (1), 163-170 (2008)Structural and thermodynamic analyses of solute-binding protein from Bifidobacterium longum specific for core 1 disaccharide and lacto-N-biose I
R. Suzuki, J. Wada, T. Katayama, S. Fushinobu, T. Wakagi, H. Shoun, H. Sugimoto, A. Tanaka, H. Kumagai, H. Ashida, M. Kitaoka, and K. Yamamoto
J. Biol. Chem. 238 (19), 13165-13173 (2008)Production of hydroxy-fatty acid derivatives from waste oil by Escherichia coli cells producing fungal cytochrome P450foxy
T. Kitazume, Y. Yamazaki, S. Matsuyama, H. Shoun, and N. Takaya
Appl. Microbiol. Biotechnol. 79 (6), 981-988 (2008)Computational analyses of the conformational itinerary along the reaction pathway of GH94 cellobiose phosphorylase
S. Fushinobu, B. Mertz, A. D. Hill, M. Hidaka, M. Kitaoka, and P. J. Reilly
Carbohydr. Res. 343 (6), 1023-1033 (2008)Alternative strategy for converting an inverting glycoside hydrolase into a glycosynthase
Y. Honda, S. Fushinobu, M. Hidaka, T. Wakagi, H. Shoun, H. Taniguchi, and M. Kitaoka
Glycobiology 18 (4), 325-330 (2008)Role of subsite +1 residues in pH dependence and catalytic activity of the glycoside hydrolase family 1 beta-glucosidase BGL1A from the basidiomycete Phanerochaete chrysosporium
T. Tsukada, K. Igarashi, S. Fushinobu, M. Samejima
Biotechnol. Bioeng. 99 (6), 1295-1302 (2008)Biochemical characterization of a glycoside hydrolase family 61 endoglucanase from Aspergillus kawachii
T. Koseki, Y. Mese, S. Fushinobu, K. Masaki, T. Fujii, K. Ito, Y. Shiono, T. Murayama, and H. Iefuji
Appl. Microbiol. Biotechnol. 77 (6), 1279-1285 (2008)
Purification and functional analysis of fungal nitric oxide reductase cytochrome P450nor
L. Zhang and H. Shoun
Methods Enzymol.: Globins and Other Nitric Oxide-Reactive Proteins, Part B 437, Chapter 7, 117-133 (2008)Nitric oxide reductase (P450nor) from Fusarium oxysporum
A. Daiber, H. Shoun, and V. Ullrich
In The Smallest Biomolecules, Diatomics and Their Interactions With Heme Proteins (A. Ghosh, ed.), Chapter 14, Elsevier Science, Amsterdam, Netherlands (2008)シトクロムP450の生理機能・反応機構・構造
祥雲弘文、伏信進矢
生化学 80 (6), 560-568 (2008)
Physiological function, reaction mechanism, and structure of cytochrone P450nor
Seikagaku 80 (6), 560-568 (2008)糖質ホスホリラーゼの立体構造からわかる加水分解酵素との進化的関連（一筋縄ではいかないグリコシダーゼの反応機構と分類）
伏信進矢、日高將文、北岡本光
化学と生物 46(5), 308-309 (2008)M. Kitaoka, Y. Honda, M. Hidaka, and S. Fushinobu
Strategy for converting an inverting hydrolase into a glycosynthase
In Carbohydrate-active enzymes: Structure, function and applications (Proceedings of 2008 Agricultural Biotechnology Symposium; Park K.-H., ed), pp. 193-205 (2008), Woodhead Publishing Ltd., Cambridge, England