ARAI Ryoichi

Academic Assembly School of Science and Technology Institute of Textile Science and Technology

Interdisciplinary Cluster for Cutting Edge Research Institute for Biomedical Sciences 

Associate Professor 

Degree

  • Ph.D., University of Tokyo

Research Keyword

    X-ray crystallography, Protein design, Fusion/Chimeric protein, Engineered protein

Field Of Study

  • Protein engineering, Protein design, Structural biology, Biotechnology, Synthetic biology

Mail Address

    rarai★shinshu-u.ac.jp

Career

  • 2019
    Department of Biomolecular Innovation, Institute for Biomedical Sciences, ICCER, Shinshu University
  • 2017 - 2021
    Journal of Bioscience and Bioengineering, Editor
  • 2016 - 2019
    Department Head, Department of Supramolecular Complexes, Research Center for Fungal and Microbial Dynamism, Shinshu University
  • 2016
    Assistant Professor, School of Science and Technology, Academic Assembly, Shinshu University
  • 2014 - 2016
    Assistant Professor, School of Science and Technology, Academic Assembly, Shinshu University
  • 2013 - 2018
    Visiting Researcher, Division of Structural and Synthetic Biology, Center for Life Science and Technologies, RIKEN
  • 2012 - 2014
    Assistant Professor, Faculty of Textile Science and Technology, Shinshu University
  • 2007 - 2012
    Assistant Professor, International Young Researchers Empowerment Center, Shinshu University
  • 2006 - 2007
    JSPS Postdoctoral Fellow for Research Abroad (Prof. Michael H. Hecht Lab, Princeton University, NJ, USA)
  • 2004 - 2006
    Research Scientist, Genomic Sciences Center, RIKEN Yokohama Institute (Dr. Shigeyuki Yokoyama Gr.)
  • 2001 - 2004
    Research Associate, Genomic Sciences Center, RIKEN Yokohama Institute (Dr. Shigeyuki Yokoyama Gr.)
  • 1998 - 2001
    JSPS Research Fellow (DC1)

Educational Background

  • 2019 - 2019, Visiting Scholar, Institute for Protein Design, University of Washington, WA, USA (Prof. David Baker Lab.)
  • 2006 - 2007, Research fellow, Department of Chemistry, Princeton University, NJ, USA (Prof. Michael H. Hecht Lab.)
  • 2001, The University of Tokyo, Graduate School of Engineering, Department of Chemistry and Biotechnology
  • 1996, The University of Tokyo, School of Engineering, Department of Chemistry and Biotechnology
  • 1998, The University of Tokyo, Graduate School of Engineering, Department of Chemistry and Biotechnology

Award

  • 2015
    Japanese society of enzyme engineering, Encouraging prize of Japanese society of enzyme engineering
    "Study on structural analysis of a de novo protein and its application to construction of nanostructures"
  • 2013
    Merck Millipore, Leave a Nest Grant Direct Detect Award
  • 2011
    Protein Data Bank 40th Anniversary Symposium, PDB40 Travel Award
    Protein Data Bank 40th Anniversary Symposium
  • 2011
    The Protein Society, Protein Science Young Investigator Travel Grant / The Protein Society Finn Wold Travel Award
    IX European Symposium of The Protein Society
  • 2001
    財団法人総合研究奨励会, Ishii Science Promotion Award, General Research Promotion Foundation
  • 1996
    化学工学会, Award for graduate student, The Society of Chemical Engineers, Japan

Paper

  • Crystal structure and activity of a de novo enzyme, ferric enterobactin esterase Syn-F4
    Kodai Kurihara, Koji Umezawa, Ann E. Donnelly, Brendan Sperling, Guanyu Liao, Michael H. Hecht, and Ryoichi Arai
    Proc. Natl. Acad. Sci. U.S.A., 120(38), e2218281120, Sep. 2023, Refereed
    Last, Corresponding電子ジャーナル
  • Enzymatic Fabrication of Multifunctional Amyloid-based Protein Assembly
    Mitsuki Nakamura, Ryoichi Arai, Noriho Kamiya, Masafumi Sakono
    Chemistry Letters, 52(7), 538-541, Jul. 2023, Refereed
  • One-pot synthesis of fibrillar-shaped functional nanomaterial using microbial transglutaminase
    Sakono M, Nakamura M, Ohshima T, Miyakoshi A, Arai R, Minamihata K, Kamiya N.
    J. Biosci. Bioeng., 135(6), 440-446, Jun. 2023, Refereed
  • Reversible Assembly of an Artificial Protein Nanocage Using Alkaline Earth Metal Ions
    Ohara, Naoya; Kawakami, Norifumi; Arai, Ryoichi; Adachi, Naruhiko; Moriya, Toshio; Kawasaki, Masato; Miyamoto, Kenji;
    JOURNAL OF THE AMERICAN CHEMICAL SOCIETY, 145(1), 216-223, Jan. 2023, RefereedWebofScience電子ジャーナル
  • Multi-enzyme Machinery for Chitin Degradation in the Chitinolytic Bacterium Chitiniphilus shinanonensis SAY3T
    Hiroaki Sato, Norie Sonoda, Moe Nakano, Yuka Matsuyama, Arisa Shizume, Ryoichi Arai, Masahiro Nogawa, Goro Taguchi & Makoto Shimosaka
    CURRENT MICROBIOLOGY, 80, 360, 2023, Refereed電子ジャーナル
  • Production of pentaglycine-fused proteins using Escherichia coli expression system without in vitro peptidase treatment
    Sakono, Masafumi; Oshima, Tatsuki; Iwakawa, Takako; Arai, Ryoichi;
    PROTEIN EXPRESSION AND PURIFICATION, 194, 106068, Jun. 2022, RefereedWebofScience電子ジャーナル
  • Self-Assembling Lectin Nano-Block Oligomers Enhance Binding Avidity to Glycans
    Shin Irumagawa, Keiko Hiemori, Sayoko Saito, Hiroaki Tateno, Ryoichi Arai
    INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES, 23(2), 676, Jan. 2022, Refereed
    Last, Corresponding電子ジャーナル
  • Icosahedral 60-meric porous structure of designed supramolecular protein nanoparticle TIP60
    Junya Obata, Norifumi Kawakami, Akihisa Tsutsumi, Erika Nasu, Kenji Miyamoto, Masahide Kikkawa, Ryoichi Arai
    Chemical Communications, 57(79), 10226-10229, Sep. 2021, Refereed
    Last, Corresponding電子ジャーナル
  • Rational thermostabilisation of four-helix bundle dimeric de novo proteins
    Shin Irumagawa, Kaito Kobayashi, Yutaka Saito, Takeshi Miyata, Mitsuo Umetsu, Tomoshi Kameda & Ryoichi Arai
    SCIENTIFIC REPORTS, 11, 7526, 06 Apr. 2021, Refereedリポジトリ電子ジャーナル
  • Hyperstable De Novo Protein with a Dimeric Bisecting Topology
    Kimura, N., Mochizuki, K., Umezawa K., Hecht, M.H., Arai, R.
    ACS Synthetic Biology, 9(2), 254-259, 2020, Refereedリポジトリ電子ジャーナル
  • Lectin engineering: the possible and the actual
    Hirabayashi, J., Arai, R.
    Interface Focus, 9, 20180068, 2019, Refereedリポジトリ電子ジャーナル
  • Comparative analysis of plant isochorismate synthases reveals structural mechanisms underlying their distinct biochemical properties
    2. Yokoo, S., Inoue, S., Suzuki, N., Amakawa, N., Matsui, H., Nakagami, H., Takahashi, A., Arai R. and Katou, S.
    BIOSCIENCE REPORTS, 38, BSR20171457, 2018, Refereed電子ジャーナル
  • Hierarchical design of artificial proteins and complexes toward synthetic structural biology
    Arai, R.
    Biophysical Reviews, 10, 391-410, 2018, Refereed電子ジャーナル
  • Design of hollow protein nanoparticles with modifiable interior and exterior surfaces
    Norifumi Kawakami, Hiroki Kondo, Yuki Matsuzawa, Kaoru Hayasaka, Erika Nasu, Kenji Sasahara, Ryoichi Arai, Kenji Miyamoto
    Angewandte Chemie International Edition, 57, 12400-12404, 2018, Refereed電子ジャーナル
  • Self-assembling supramolecular nanostructures constructed from de novo extender protein nanobuilding blocks
    Naoya Kobayashi, Kouichi Inano, Kenji Sasahara, Takaaki Sato, Keisuke Miyazawa, Takeshi Fukuma, Michael H Hecht, Chihong Song, Kazuyoshi Murata, and Ryoichi Arai
    ACS Synthetic Biology, 7(5), 1381-1394, 2018, Refereedリポジトリ電子ジャーナル
  • Design and construction of self-assembling supramolecular protein complexes using artificial and fusion proteins as nanoscale building blocks
    Kobayashi, N. and Arai, R.
    Current Opinion in Biotechnology, 46, 57–65, 2017, Refereedリポジトリ電子ジャーナル
  • Characterization of silk gland ribosomes from a bivoltine caddisfly, Stenopsyche marmorata: translational suppression of a silk protein in cold conditions.
    Takaomi Nomura, Miho Ito, Mai Kanamori, Yuta Shigeno, Toshio Uchiumi, Ryoichi Arai, Masuhiro Tsukada, Kimio Hirabayashi, Kousaku Ohkawa
    Biochemical and biophysical research communications, 469, 210-215, 2016, Refereed
  • Flight density of the aquatic insect fauna over the water surface in the middle reaches of the Shinano River, Japan, mainly among caddisflies (Trichoptera)
    Hirabayashi, K.*, Ikutama, E., Ohkawa, K., Arai, R., Nomura, T., Tsukada, M., and Abe, K.
    Zoosymposia, 10, 203–213, 2016
  • Expression, purification, crystallization and X-ray diffraction analysis of ChiL, a chitinase from Chitiniphilus shinanonensis
    Miruku Ueda, Makoto Shimosaka and Ryoichi Arai
    Acta Cryst. F, F71(12), 1516–1520, Dec. 2015, Refereedリポジトリ電子ジャーナル
  • Crystal structure of glycine oxidase from Geobacillus kaustophilus
    Shiono, T., Nomura, T., Nishiya, Y., and Arai, R.
    Photon Factory Activity Report 2014, 32(B), 204, 2015
  • Crystal structure of Fab fragment of an anti-Osteocalcin C-Terminal peptide antibody KTM219
    Komatsu, M., Dong, J., Ueda, H., and Arai, R.
    Photon Factory Activity Report 2014, 32(B), 205, 2015
  • Crystal structure of ChiL, a chitinase from Chitiniphilus shinanonensis
    Ueda, M., Shimosaka, M., and Arai, R.
    Photon Factory Activity Report 2014, 32(B), 206, 2015
  • Molecular cloning, gene expression analysis, and recombinant protein expression of novel silk proteins from larvae of a retreat-maker caddisfly, Stenopsyche marmorata
    Xue Bai, Mayo Sakaguchi, Yuko Yamaguchi, Shiori Ishihara, Masuhiro Tsukada, Kimio Hirabayashi, Kousaku Ohkawa, Takaomi Nomura, Ryoichi Arai
    Biochem. Biophys. Res. Commun., 464(3), 814–819, 2015, RefereedWebofScienceリポジトリ電子ジャーナル
  • Self-Assembling Nano-Architectures Created from a Protein Nano-Building Block Using an Intermolecularly Folded Dimeric de Novo Protein
    Naoya Kobayashi, Keiichi Yanase, Takaaki Sato, Satoru Unzai, Michael H. Hecht, Ryoichi Arai
    J. Am. Chem. Soc., 137(35), 11285–11293, 2015, Refereedリポジトリ電子ジャーナル
  • Intermolecular interactions and molecular dynamics in bovine serum albumin solutions studied by small angle X-ray scattering and dielectric relaxation spectroscopy.
    Yanase, K., Arai R., and Sato, T.
    J. Mol. Liq., 200(A), 59-66, 2014, Refereed
  • Functional characterization of FABP3, 5 and 7 gene variants identified in schizophrenia and autism spectrum disorder and mouse behavioral studies.
    Shimamoto C, Ohnishi T, Maekawa M, Watanabe A, Ohba H, Arai R, Iwayama Y, Hisano Y, Toyota T, Toyoshima M, Suzuki K, Shirayama Y, Nakamura K, Mori N, Owada, Y, Kobayashi T, and Yoshikawa T
    Hum. Mol. Genet., 23, 6495-6511, 2014, Refereed
  • Crystal structure of glycine oxidase from Bacillus thuringiensis
    Ohishi, S., Shiono, T., Nishiya, Y., Nomura, T., and Arai, R.
    Photon Factory Activity Report 2013, 31(B), 274, 2014
  • Chain conformational study on underwater silk protein from caddisfly, Stenopsyche marmorata: Implication of a fiber-forming mechanism
    Ohkawa, K., Hachisu, M., Nomura, T., Arai, R., Hirabayashi, K., Tsukada, M., and Abe, K
    Adv. Mater. Res., 796, 41706, 2013
  • バイナリーパターンデザインによるデノボタンパク質WA20のドメインスワップ二量体構造
    小林直也,*新井亮一
    酵素工学研究会誌, 69, 19-25, 2013
  • Long-range periodic sequence of Stenopsyche marmorata cement/silk protein: Purification and biochemical characterization
    Ohkawa, K., Miura, Y., Nomura, T., Arai, R., Abe, K., Tsukada M. and Hirabayashi, K.
    Biofouling, 29(4), 357-367, 2013, Refereed電子ジャーナル
  • Isolation of silk proteins from a caddisfly larva, Stenopsyche marmorata.
    Ohkawa, K., Miura, Y., Nomura, T., Arai, R., Abe, K., Tsukada M. and Hirabayashi, K.
    J. Fiber Bioeng. Informatics, 5, 125-137, 2012
  • Domain-Swapped Dimeric Structure of a Stable and Functional De Novo 4-Helix Bundle Protein, WA20
    Arai, R., Kobayashi, N., Kimura, A., Sato, T., Matsuo, K., Wang, A.F., Platt, J.M., Bradley, L.H., Hecht, M.H.
    J. Phys. Chem. B, 116(23), 6789-6797, 2012, RefereedWebofScience電子ジャーナル
  • Solution structure of IseA, an inhibitor protein of DL-endopeptidases from Bacillus subtilis, reveals a novel fold with a characteristic inhibitory loop
    Arai, R., Fukui, S., Kobayashi, N. and Sekiguchi, J.
    J. Biol. Chem., 287(53), 44736-44748, 2012, RefereedWebofScienceリポジトリ電子ジャーナル
  • Crystal structure of a dimeric de novo 4-helix bundle protein, WA20
    Arai, R., Kobayashi, N., Kimura, A., Sato, T., Wang, A.F., Platt, J.M., Bradley, L.H. and Hecht, M.H.
    Photon Factory Activity Report 2010, 28, B256, 2011
  • Crystal structure of a menaquinone biosynthetic enzyme, TthMqnD, complexed with its product, 1,4-dihydroxy-6-naphthoate
    Matsuo, K., Dairi, T., Seto, H. and Arai, R.
    Photon Factory Activity Report 2010, 28, B298, 2011
  • Dissecting cell signaling pathways with genetically encoded 3-iodo-L-tyrosine
    Hayashi A, Hino N, Kobayashi T, Arai R, Shirouzu M, Yokoyama S, Sakamoto K.
    ChemBioChem, 12, 387-389, 2011, RefereedWebofScience電子ジャーナル
  • Polymorphism screening of brain-expressed FABP7, 5 and 3 genes and association studies in autism and schizophrenia in Japanese subjects
    Maekawa, M.,Iwayama, Y., Arai, R., Nakamura, K., Ohnishi, T., Toyota, T., Tsujii, M., Okazaki, Y., Osumi, N., Owada, Y., Mori, N., and Yoshikawa, T.
    J. Hum. Genet., 55, 127-130, 2010, RefereedWebofScience電子ジャーナル
  • Crystal structure of MqnD (TTHA1568), a menaquinone biosynthetic enzyme from Thermus thermophilus HB8
    Arai, R., Murayama, K., Uchikubo-Kamo, T., Nishimoto, M., Toyama, M., Kuramitsu, S., Terada, T., Shirouzu, M. and Yokoyama, S.
    J. Struct. Biol, 168, 575-581, 2009, RefereedWebofScience電子ジャーナル
  • Structure of archaeal glyoxylate reductase from Pyrococcus horikoshii OT3 complexed with nicotinamide adenine dinucleotide phosphate
    Yoshikawa, S.,* Arai, R.,* Kinoshita, Y., Uchikubo-Kamo, T., Wakamatsu, T., Akasaka, R., Masui, R., Terada, T., Kuramitsu, S., Shirouzu, M. and Yokoyama, S. (*The authors contributed equally to the work.)
    Acta Crystallogr. D, 63, 357-365, 2007, Refereed
  • Crystal structure of human myo-inositol monophosphatase 2, the product of the putative susceptibility gene for bipolar disorder, schizophrenia, and febrile seizures
    Arai, R.,* Ito, K.,* Ohnishi, T., Ohba, H., Akasaka, R., Bessho, Y., Hanawa-Suetsugu, K., Yoshikawa, T., Shirouzu, M. and Yokoyama, S.
    Proteins, 67, 732-742, 2007, Refereed
  • Fabp7 Maps to a Quantitative Trait Locus for a Schizophrenia Endophenotype
    Watanabe, A., Toyota, T., Owada, Y., Hayashi, T., Iwayama, Y., Matsumata, M., Ishitsuka, Y., Nakaya, A., Maekawa, M., Ohnishi, T., Arai, R., Sakurai, K., Yamada, K., Kondo, H., Hashimoto, K., Osumi, N. and Yoshikawa T.
    PLoS Biol., 5, E297, 2007, Refereed
  • Crystal structure of the probable haloacid dehalogenase PH0459 from Pyrococcus horikoshii OT3
    Arai, R., Kukimoto-Niino, M., Kuroishi, C., Bessho, Y., Shirouzu, M. and Yokoyama, S.
    Protein Sci., 15, 373-377, 2006, Refereed
  • Structure of human ubiquitin-conjugating enzyme E2 G2 (UBE2G2/UBC7)
    Arai, R.,* Yoshikawa, S.,* Murayama, K., Imai, Y., Takahashi, R., Shirouzu, M. and Yokoyama, S.
    Acta Crystallogr. F, 62, 330-334, 2006, Refereed
  • Crystal structure of the conserved protein TTHA0727 from Thermus thermophilus HB8 at 1.9 A resolution: A CMD family member distinct from carboxymuconolactone decarboxylase (CMD) and AhpD
    Ito, K.,* Arai, R.,* Fusatomi, E., Kamo-Uchikubo, T., Kawaguchi, S., Akasaka, R., Terada, T., Kuramitsu, S., Shirouzu, M. and Yokoyama, S.
    Protein Sci., 15, 1187-1192, 2006, Refereed
  • Conserved protein TTHA1554 from Thermus thermophilus HB8 binds to glutamine synthetase and cystathionine beta-lyase
    Arai, R.,* Nishimoto, M.,* Toyama, M., Terada, T., Kuramitsu, S., Shirouzu, M. and Yokoyama, S. Conserved protein TTHA1554 from Thermus thermophilus HB8 binds to glutamine synthetase and cystathionine beta-lyase
    Biochim. Biophys. Acta, 1750, 40-47, 2005, Refereed
  • Crystal structure of an enhancerof rudimentary homolog (ERH) at 2.1 Angstroms resolution
    Arai, R., Kukimoto-Niino, M., Uda-Tochio, H., Morita, S., Uchikubo-Kamo, T., Akasaka, R., Etou, Y., Hayashizaki, Y., Kigawa, T., Terada, T., Shirouzu, M. and Yokoyama, S.
    Protein Sci., 14, 1888-1893, 2005, Refereed
  • Conformations of variably linked chimeric proteins evaluated by synchrotron X-ray small-angle scattering
    Arai, R., Wriggers, W., Nishikawa, Y., Nagamune, T. and Fujisawa, T.
    Proteins, 57, 829-838, 2004, Refereed
  • Phosphorylation analysis of 90 kDa heat shock protein within the cytosolic arylhydrocarbon receptor complex
    Ogiso, H., Kagi, N., Matsumoto, E., Nishimoto, M., Arai, R., Shirouzu, M., Mimura, J., Fujii-Kuriyama, Y. and Yokoyama, S.
    Biochemistry, 43, 15510-15519, 2004, Refereed
  • Establishment of stable hFis1 knockdown cells with an siRNA expression vector
    Arai, R.,* Ito,K.,* Wakiyama, M., Matsumoto, E., Sakamoto, A., Etou, Y., Otsuki, M., Inoue, M., Hayashizaki, Y., Miyagishi, M., Taira, K., Shirouzu, M. and Yokoyama, S.
    J. Biochem., 136, 421-425, 2004, Refereed
  • An optimized homogeneous noncompetitive immunoassay based on the antigen-driven enzymatic complementation
    Ueda, H., Yokozeki, T., Arai, R., Tsumoto, K., Kumagai, I. and Nagamune, T.
    J. Immunol. Methods, 279, 209-218, 2003, Refereed
  • Detection of protein-protein interaction by bioluminescence resonance energy transfer from firefly luciferase to red fluorescent protein
    Arai, R., Nakagawa, H., Kitayama, A., Ueda, H. and Nagamune, T
    J. Biosci. Bioeng., 94, 362-364, 2002, Refereed
  • A homogeneous and noncompetitive immunoassay based on the enhanced fluorescence resonance energy transfer by leucine zipper interaction
    Ohiro, Y., Arai, R., Ueda, H. and Nagamune, T.
    Anal. Chem., 74, 5786-5792, 2002, Refereed
  • A homogeneous noncompetitive immunoassay for the detection of small haptens
    Yokozeki, T., Ueda, H., Arai, R., Mahoney, W. and Nagamune, T.
    Anal. Chem., 74, 2500-2504, 2002, Refereed
  • Design of an artificial light-harvesting unit by protein engineering: Cytochrome b(562)-green fluorescent protein chimera
    Takeda, S., Kamiya, N., Arai, R. and Nagamune, T.
    Biochem. Biophys. Res. Commun., 289, 299-304, 2001, Refereed
  • Construction of green fluorescent protein reporter genes for genotoxicity test (SOS/umu-Test) and improvement of mutagen-sensitivity
    Arai, R., Makita, Y., Oda, Y. and Nagamune, T.
    J. Biosci. Bioeng, 92, 301-304, 2001, Refereed
  • Design of the linkers which effectively separate domains of a bifunctional fusion protein
    Arai, R., Ueda, H., Kitayama, A., Kamiya, N. and Nagamune, T.
    Protein Eng., 14, 529-532, 2001, Refereed
  • Demonstration of a homogeneous noncompetitive immunoassay based on bioluminescence resonance energy transfer
    Arai, R., Nakagawa, H., Tsumoto, K., Mahoney, W., Kumagai, I., Ueda, H. and Nagamune, T.
    Anal. Biochem., 289, 77-81, 2001, Refereed
  • Fluorolabeling of antibody variable domains with green fluorescent protein variants: application to an energy transfer-based homogeneous immunoassay
    Arai, R., Ueda, H., Tsumoto, K., Mahoney, W.C., Kumagai, I. and Nagamune, T.
    Protein Eng., 13, 369-376, 2000, Refereed
  • Construction of chimeric proteins between protein G and fluorescence-enhanced green fluorescent protein, and their application to immunoassays
    Arai, R., Ueda, H. and Nagamune, T.
    J. Ferment. Bioeng., 86, 440-445, 1998, Refereed

Books and other publications

  • Protein Cages, Methods in Molecular Biology 2671
    Naoya Kobayashi and Ryoichi Arai, Contributor, Protein Cages and Nanostructures Constructed from Protein Nanobuilding Blocks
    Humana Press (Springer Nature), 79-94 Jun. 2023
  • Methods in Enzymology 647
    Ryoichi Arai, Contributor, Linkers in Biomacromolecules Chapter 8 "Design of helical linkers for fusion proteins and protein-based nanostructures"
    Elsevier, 209-230 2021, Refereed
    電子ジャーナル
  • Biotechnology of Silk: Biologically inspired systems Volume 5
    Ohkawa, K., Nomura, T., Arai, R., Hirabayashi, K., Tsukada, M., and Abe , K., Contributor, Characterization of underwater silk proteins from caddisfly larva, Stenopsyche marmorata
    Springer, New York, Ch. 6, pp. 107-122 2013

Lectures, oral presentations, etc.

  • Crystal structures of MqnD, a menaquinone biosynthetic enzyme, complexed with the product, 1,4-dihydroxy-6-naphthoate, and its analogs
    Arai, R., Matsuo, K. and Dairi, T.
    4th International Symposium on Diffraction Structural Biology 2013 (ISDSB2013), 2013
  • A De Novo Heme Protein, Dnhps1, Created from a 5-Amino Acid Alphabet
    Fukuda, S., Kurasawa, S., and Arai, R.
    27th Annual Symposium of The Protein Society, 2013
  • Solution structure of IseA, an inhibitor protein of DL-endopeptidases from Bacillus subtilis, reveals a novel fold with a characteristic inhibitory loop
    Arai, R., Fukui, S., Kobayashi, N. and Sekiguchi, J.
    International Conference on Structural Genomics 2013 (ICSG2013), 2013
  • Structural and functional analyses of binary pattern designed de novo proteins
    Arai, R. Kobayashi, N., Fukuda, S., Kurasawa, S. and Hecht, M. H.
    Enzyme Engineering XXII, 2013
  • Characterization and nanofiber fabrication of underwater silk protein from Stenopsyche marmorata
    Kousaku Ohkawa, Yumi Miura, Takaomi Nomura, Ryoichi Arai, Kimio Hirabayashi, Masuhiro Tsukada, and Koji Abe
    American Chemical Society, National Meething, 2013 Spring, 2013
  • Biochemical natures of underwater silk proteins from caddisfly, Stenopsyche marmorata
    Kousaku Ohkawa, Masakazu Hachisu, Takaomi Nomura, Ryoichi Arai, Masuhiro Tsukada and Kimio Hirabayashi
    The International Textile Conference 2013, 2013
  • Construction and characterization of tandem WA20 domain-swapped de novo proteins with various linkers.
    Naoya Kobayashi, N., Michael H. Hecht, and Ryoichi Arai
    27th Annual Symposium of The Protein Society., 2013
  • Molecular cloning of novel silk proteins from larvae of caddisfly, Stenopsyche marmorata
    X.Bai, K.Ohkawa, T.Nomura, S.Ishihara, Y.Yamaguchi, M.Tsukada, K.Abe, K.Hirabayashi, R. Arai
    Young Researcher Symposium 2013, 2013
  • Molecular cloning of novel silk proteins from larvae of caddisfly, Stenopsyche marmorata
    K. Ohkawa, M. Hachisu, T.Nomura, R.Arai, K. Hirabayashi, M. Tsukada and K. Abe
    8th Chaina International Silk Conference 2013, 2013
  • De novo proteins and interaction analysis using pattern-designed peptide libraries
    Arai, R., Kobayashi, N., Kimura, A., Teranishi, H., Sato, T., Bradley, L. H., Nishimura, Y., and Hecht, M. H.
    Gordon Research Conference, Intrinsically Disordered Proteins, 2012
  • Domain-Swapped Dimeric Structure of a Stable and Functional De Novo Four-Helix Bundle Protein WA20, and its Potential Application
    Arai, R., Kobayashi, N., Kimura, A., Sato, T., and Hecht, M. H.
    18th Symposium of Young Asian Biochemical Engineers' Community (YABEC2012), 2012
  • Underwater silk fibers–Biochemical natures for novel textile technology
    Kousaku Ohkawa, Yumi Miura, Takaomi Nomura, Ryoichi Arai, Koji Abe, Masuhiro Tsukada and Kimio Hirabayashi
    9th Asia-Pacific Marine Biotechnogy Conference, 2012
  • Isolation of silk proteins from a caddisfly larva, Stenopsyche marmorata
    Kousaku Ohkawa, Yumi Miura, Takaomi Nomura, Ryoichi Arai, Koji Abe, Masuhiro Tsukada and Kimio Hirabayashi
    Textile Bioengneering Informatics Symposium 2012, 2012
  • Repetitive Sequential Motifs of Underwater Silk Protein from Caddisfly, Stenopsyche marmorata, 
    Kousaku OHKAWA, Yumi MIURA, Takaomi NOMURA, Ryoichi ARAI, Kimio HIRABAYASHI, Masuhiro TSUKADA, and Koji ABE
    American Chemical Society, Annual Meeting Spring 2012, 2012
  • Function and Three Dimensional Structure of an Autolysin Inhibitor IseA from Bacillus subtilis
    Junichi Sekiguchi and Ryoichi Arai
    American Society for Microbiology, General Meeting (asm2012), 2012
  • Flight density of aquatic insects fauna over river water surface in the middle reaches of the Shinano River, Japan, with emphasis on Trichoptera.
    Hirabayashi K., Ohkawa K., Arai R., Nomura T., Tsukada M. and Abe K.
    14th International symposium on Trichoptera, 2012
  • Crystal structure of a dimeric de novo 4-helix bundle protein WA20
    Arai, R., Kimura, A., Kobayashi, N., Sato, T., Wang, A. F., Platt, J., Bradley, L. H. and Hecht, M. H.
    IX European Symposium of The Protein Society 13013, p.87, 2011
  • Domain-swapped dimeric structure of a de novo 4-helix bundle protein, WA20
    Arai, R., Kobayashi, N., Kimura, A., Sato, T., Wang, A. F., Platt, J., Bradley, L. H. and Hecht, M. H.
    PDB40 Symposium (A Special Symposium Celebrating the 40th Anniversary of the Protein Data Bank), 2011
  • Domain-swapped dimeric structure of a stable and functional de novo 4-helix bundle protein, WA20
    Kobayashi, N., Kimura, A., Sato, T., Matsuo T., Wang, A. F., Platt, J., Bradley, L. H. Hecht, M. H. and Arai, R.,
    6th International Conference on Advanced Fiber/Textile Materials 2011, 2011
  • Crystal structure of MqnD, a menaquinone biosynthetic enzyme from Thermus thermophilus HB8
    Arai, R., Murayama, K., Uchikubo-kamo, T., Nishimoto, M., Toyama, M., Kuramitsu, S., Terada, T., Shirouzu, M. and Yokoyama, S.
    Gordon Research Conference, Biopolymers 0, 2010
  • Crystal structure of MqnD (TTHA1568), a menaquinone biosynthetic enzyme from Thermus thermophilus HB8
    R. Arai, K. Murayama, T. Uchikubo-Kamo, M. Nishimoto, M. Toyama, S. Kuramitsu, T. Terada, M. Shirouzu, S. Yokoyama
    21st IUBMB and 12th FAOBMB International Congress of Biochemistry and Molecular Biology, 2009
  • A four-helix bundle de novo heme protein by phage display screening
    R. Arai, M. H. Hecht
    7th East Asian Symposium on Polymers for Advanced Technologies (EASPAT 2009), 2009
  • Protein Composition in Silk Grand of Caddisfly, Stenopsyche Marmorata, Larva.
    K. Ohkawa, T. Nomura, R.Arai, K. Abe, M. Tsukada, K. Hirabayashi
    14th International Symposium on River and Lake Environments, 2009
  • Design and construction of functional artificial proteins: Phage display screening of four-helix bundle de novo proteins
    R. Arai, M.H. Hecht
    4th International Conference on Advanced Fiber/Textile Materials 2007 in Ueda (ICAFTM2007), 2007

Courses

  • 情報科学・統計学演習(分担)
    Shinshu University
  • 情報科学・統計学演習(分担)
    Shinshu University
  • 情報科学・統計学演習(分担)
    Shinshu University
  • 情報科学・統計学演習(分担)
    Shinshu University
  • 情報科学・統計学演習(分担)
    Shinshu University
  • 情報科学・統計学演習(分担)
    Shinshu University
  • 情報科学・統計学演習(分担)
    Shinshu University
  • 情報科学・統計学演習(分担)
    Shinshu University
  • 情報科学・統計学演習(分担)
    Shinshu University
  • Molecular Biology II
    Shinshu University
  • Experiments in Molecular Bioengineering
    Shinshu University
  • Experiments in Molecular Bioengineering
    Shinshu University
  • Biochemistry II
    Shinshu University
  • Biochemistry II
    Shinshu University
  • Biochemistry II
    Shinshu University
  • Seminar in Scientific Presentation Writing and Presentation
    Shinshu University
  • Seminar in Scientific Presentation Writing and Presentation
    Shinshu University
  • Practical Exercises of Field Science
    Shinshu University
  • Experiments in Bioresource Application
    Shinshu University
  • Practical Exercises of Field Science
    Shinshu University
  • Experiments in Bioresource Application
    Shinshu University
  • Biochemistry II
    Shinshu University
  • Seminar in Scientific Presentation Writing and Presentation
    Shinshu University
  • Practical Exercises of Field Science
    Shinshu University
  • Experiments in Bioresource Application
    Shinshu University
  • Biochemistry II
    Shinshu University
  • Seminar in Scientific Presentation Writing and Presentation
    Shinshu University
  • Practical Exercises of Field Science
    Shinshu University
  • Experiments in Bioresource Application
    Shinshu University
  • Experiments in Basic Chemistry
    Shinshu University
  • Freshman Seminar
    Shinshu University
  • Freshman Seminar
    Shinshu University
  • Experiments in Basic Chemistry
    Shinshu University
  • Freshman Seminar
    Shinshu University
  • Experiments in Basic Chemistry
    Shinshu University
  • Freshman Seminar
    Shinshu University
  • Experiments in Basic Chemistry
    Shinshu University
  • Freshman Seminar
    Shinshu University
  • Experiments in Basic Chemistry
    Shinshu University
  • Freshman Seminar
    Shinshu University
  • Experiments in Basic Chemistry
    Shinshu University
  • Freshman Seminar
    Shinshu University
  • Experiments in Basic Chemistry
    Shinshu University
  • Freshman Seminar
    Shinshu University
  • Experiments in Basic Chemistry
    Shinshu University
  • Freshman Seminar
    Shinshu University
  • Experiments in Basic Chemistry
    Shinshu University
  • Freshman Seminar
    Shinshu University
  • Biochemistry II
    Shinshu University
  • Biochemistry II
    Shinshu University
  • Biochemistry II
    Shinshu University
  • Biochemistry II
    Shinshu University
  • Biochemistry II
    Shinshu University
  • Biochemistry II
    Shinshu University
  • Biochemistry II
    Shinshu University
  • Protein Engineering
    Shinshu University
  • Biochemistry II
    Shinshu University

Affiliated academic society

  • Protein Science Society of Japan
  • The Society for Biotechnology, Japan
  • The Molecular Biology Society of Japan
  • Japanese Society of Enzyme Engineering
  • Division of Biofunctional Chemistry, the Chemical Society of Japan
  • Japanese Society for Cell Synthesis Research

Research Themes

  • Design and construction of protein nanobuilding block complexes
  • Design and development of artificial proteins
  • Construction and application of engineered proteins and fusion/chimeric proteins
  • Protein X-ray crystallography

Thesis guidance

  • 2009, 2, 2
  • 2008, 1, 1
  • 2017, 2, 2, 3
  • 2018, 2, 2, 5, 3
  • 2010, 2, 2, 2, 1
  • 2011, 2, 1, 2, 4, 1
  • 2012, 2, 2, 4, 1, 3, 1
  • 2020, 3, 3, 2, 1, 1
  • 2019, 2, 2, 3, 2, 1
  • 2021, 3, 2, 1
  • 2013, 3, 3, 2, 1, 1, 1, 1
  • 2014, 2, 2, 4, 1, 1
  • 2015, 2, 2, 4, 3, 1
  • 2016, 2, 2, 2, 1, 1, 1

Acceptance of international students

  • 2011, 1, 1, B4
  • 2013, 1, 1, M2
  • 2012, 1, 1, M1