Ohara, N., Kawakami, N., Arai, R., Adachi, N., Ikeda, A., Senda, T., Miyamoto, K. Fusion then fission: splitting and reassembly of an artificial fusion-protein nanocage. Chem. Commun., in press (2024). (DOI: 10.1039/d4cc00115j)
Nasu, E., Kawakami, N., Takamura, S., Hotta, A., Arai, R., Miyamoto, K. Thermally Reversible Gel-Sol Transition of Hydrogels via Dissociation and Association of an Artificial Protein Nanocage. Biomacromolecules, 25, 2358-2366 (2024). (DOI: 10.1021/acs.biomac.3c01285)
2023年
Kurihara, K., Umezawa, K., Donnelly, A. E., Sperling, B., Liao, G., Hecht, M. H.*, Arai, R.* Crystal structure and activity of a de novo enzyme, ferric enterobactin esterase Syn-F4. Proc. Natl. Acad. Sci. USA, 120, e2218281120 (2023). (DOI: 10.1073/pnas.2218281120) (PDB ID: 8H7D, 8H7E)
Ohara, N., Kawakami, N., Arai, R., Adachi, N., Moriya, T., Kawasaki, M., Miyamoto, K. Reversible Assembly of an Artificial Protein Nanocage Using Alkaline Earth Metal Ions. J. Am. Chem. Soc., 145, 216-223 (2023). (DOI: 10.1021/jacs.2c09537)
Sakono, M., Nakamura, M., Ohshima, T., Miyakoshi, A., Arai, R., Minamihata, K., Kamiya, N. One-pot synthesis of fibrillar-shaped functional nanomaterial using microbial transglutaminase. J. Biosci. Bioeng., 135, 440-446 (2023). (DOI: 10.1016/j.jbiosc.2023.03.015)
Kobayashi, N., Arai, R.* Protein Cages and Nanostructures Constructed from Protein Nanobuilding Blocks. Methods Mol. Biol., 2671, 79-94 (2023). (DOI: 10.1007/978-1-0716-3222-2_4)
Nakamura, M., Arai, R., Kamiya, N., Sakono, M. Enzymatic Fabrication of Multifunctional Amyloid-based Protein Assembly. Chem. Lett., 52, 538-541 (2023). (DOI: 10.1246/cl.230156)
Sato, H., Sonoda, N., Nakano, M., Matsuyama, Y., Shizume, A., Arai, R., Nogawa, M., Taguchi, G., Shimosaka, M. Multi-enzyme Machinery for Chitin Degradation in the Chitinolytic Bacterium Chitiniphilus shinanonensis SAY3T. Curr. Microbiol., 80, 360 (2023). (DOI: 10.1007/s00284-023-03489-5)
2022年
Irumagawa, S., Hiemori, K., Saito, S., Tateno, H., Arai, R.* Self-Assembling Lectin Nano-Block Oligomers Enhance Binding Avidity to Glycans. Int. J. Mol. Sci. 23, 676 (2022).
(DOI: 10.3390/ijms23020676 open access) SASBDB (SAXS data) Link
Sakono, M., Oshima, T., Iwakawa, T., Arai, R. Production of pentaglycine-fused proteins using Escherichia coli expression system without in vitro peptidase treatment. Protein Expr. Purif. 194, 106068 (2022). (DOI: 10.1016/j.pep.2022.106068)
2021年
Obata, J., Kawakami, N., Tsutsumi, A., Nasu, E., Miyamoto, K., Kikkawa, M., Arai, R.* Icosahedral 60-meric porous structure of designed supramolecular protein nanoparticle TIP60. Chem. Commun. 57, 10226-10229 (2021). (DOI: 10.1039/D1CC03114G) (PDB ID: 7EQ9)
Irumagawa, S., Kobayashi, K., Saito, Y., Miyata, T., Umetsu, M., Kameda, T., Arai, R.* Rational thermostabilisation of four-helix bundle dimeric de novo proteins. Sci. Rep. 11, 7526 (2021).
(DOI: 10.1038/s41598-021-86952-2 open access) SASBDB (SAXS data) Link
Arai, R.* Design of helical linkers for fusion proteins and protein-based nanostructures. Methods Enzymol. 647, 209-230 (2021). (DOI: 10.1016/bs.mie.2020.10.003)
2020年
Kimura, N., Mochizuki, K., Umezawa K., Hecht, M.H., Arai, R.* Hyperstable De Novo Protein with a Dimeric Bisecting Topology. ACS Synth. Biol. 9, 254–259 (2020).
(DOI: 10.1021/acssynbio.9b00501) Link to free e-prints (up to 50)
2019年
Hirabayashi, J., Arai, R. Lectin engineering: the possible and the actual. Interface Focus. 9, 20180068, (2019). (DOI: 10.1098/rsfs.2018.0068)
2018年
Kawakami, N., Kondo, H., Matsuzawa, Y., Hayasaka, K., Nasu, E., Sasahara, K., Arai, R., Miyamoto, K. Design of Hollow Protein Nanoparticles with Modifiable Interior and Exterior Surfaces. Angew. Chem., Int. Ed. 57, 12400–12404, (2018). (DOI: 10.1002/anie.201805565)
Kobayashi, N., Inano, K., Sasahara, K., Sato, T., Miyazawa, K., Fukuma, T., Hecht, M.H., Song, C., Murata, K., Arai, R.* Self-assembling supramolecular nanostructures constructed from de novo extender protein nanobuilding blocks. ACS Synth. Biol. 7, 1381–1394 (2018).
(DOI: 10.1021/acssynbio.8b00007) Link to free e-prints (up to 50)
Arai, R.* Design and construction of self-assembling supramolecular protein complexes using artificial and fusion proteins as nanoscale building blocks. Biophys. Rev., 10, 391-410 (2018).
(DOI: 10.1016/j.copbio.2017.01.001)
Yokoo, S., Inoue, S., Suzuki, N., Amakawa, N., Matsui, H., Nakagami, H., Takahashi, A., Arai R. and Katou, S. Comparative analysis of plant isochorismate synthases reveals structural mechanisms underlying their distinct biochemical properties. Biosci. Rep., 38, BSR20171457 (2018).
(DOI: 10.1042/BSR20171457)
2017年
Kobayashi, N., Arai, R.* Design and construction of self-assembling supramolecular protein complexes using artificial and fusion proteins as nanoscale building blocks. Curr. Opin. Biotech. 46, 57-65 (2017).
(DOI: 10.1016/j.copbio.2017.01.001)
2016年
小林直也，木村尚弥，新井亮一*，バイナリーパターン配列デザインによるデノボ蛋白質の創出と蛋白質ナノブロックによる超分子複合体の創生，生物工学会誌, 94, 485-488 (2016).
小林直也，新井亮一*，人工蛋白質で「かたち」をつくろう―ブロック遊びしようよ！―，生物工学会誌, 94, 270 (2016).
小林直也，新井亮一*, 二量体形成新規人工タンパク質を用いたタンパク質ナノブロック開発による自己組織化ナノ構造複合体の創製, 分子研レターズ, 73, 30–31 (2016).
Hirabayashi, K.*, Ikutama, E., Ohkawa, K., Arai, R., Nomura, T., Tsukada, M., and Abe, K. Flight density of the aquatic insect fauna over the water surface in the middle reaches of the Shinano River, Japan, mainly among caddisflies (Trichoptera). Zoosymposia, 10, 203–213 (2016).
Nomura, T.*, Ito, M., Kanamori, M., Shigeno, Y., Uchiumi, T., Arai, R., Tsukada, M., Hirabayashi, K., and Ohkawa, K. Characterization of silk gland ribosomes from a bivoltine caddisfly, Stenopsyche marmorata: translational suppression of a silk protein in cold conditions. Biochem. Biophys. Res. Commun., 469, 210-215 (2016).
2015年
Ueda, M., Shimosaka, M., Arai, R.* Expression, purification, crystallization and X-ray diffraction analysis of ChiL, a chitinase from Chitiniphilus shinanonensis. Acta Cryst., F71, 1516-1520 (2015). (SOAR-IR)
Kobayashi, N., Yanase, K., Sato, T., Unzai, S., Hecht, M.H., Arai, R.* Self-assembling nano-architectures created from a protein nano-building block using an intermolecularly folded dimeric de novo protein. J. Am. Chem. Soc. 137, 11285-11293 (2015). (DOI: 10.1021/jacs.5b03593)
Link to free e-prints (up to 50)
人工タンパク質ナノブロックにより多様な自己組織化ナノ構造の創出に成功
～ナノテクノロジー・合成生物学研究等に貢献するナノブロック「分子技術」を開発～
米国化学会誌Journal of the American Chemical Society (JACS) 論文掲載！ 2015.9.9
特に注目の論文としてJACS Spotlights及びJACS表紙デザイン（左下図）に採用！
研究成果プレスリリース（報道機関向け説明資料カラー版PDF 923KB） 2015.9.14
信州大学先鋭領域融合研究群のWebサイトにトピックスが掲載 2015.9.14
マイナビニュースやBIGLOBEニュース等に関連記事が掲載 2015.9.14
信濃毎日新聞(9月15日付）及び信毎Webに関連記事が掲載 2015.9.15
高エネ研(KEK)物構研トピックスに関連記事が掲載 2015.9.16
小林君(D3)を中心とした長年の共同研究の成果です。
本当におめでとうございます！！
Bai, X., Sakaguchi, M., Yamaguchi, Y., Ishihara, S., Tsukada, M., Hirabayashi, K., Ohkawa, K., Nomura, T., Arai, R.* Molecular cloning, gene expression analysis, and recombinant protein expression of novel silk proteins from larvae of a retreat-maker caddisfly, Stenopsyche marmorata. Biochem. Biophys. Res. Commun., 464, 814-819 (2015). (DOI: 10.1016/j.bbrc.2015.07.041)(SOAR-IR)
水生昆虫トビケラシルクの新規タンパク質遺伝子の発見及び解析に成功！
～信州産有用生物資源“ざざむしシルク”のバイオ・医工学分野への応用が期待～
研究成果プレスリリース（報道機関向け説明資料カラー版PDF） 2015.8.31
国際学術専門誌Biochemical and Biophysical Research Communicationsに論文掲載
信濃毎日新聞(9/1朝刊）及び信毎Webに「ざざむしシルク」発見の記事が掲載 2015.9.1
信州大学繊維学部Webサイトにお知らせが掲載 2015.9.1
信州大学先鋭領域融合研究群のWebサイトにトピックスが掲載 2015.9.3
中日新聞(9/5)及び中日新聞Webにも関連記事が掲載 2015.9.5
2014年
Yanase, K., Arai R., and Sato, T., Intermolecular interactions and molecular dynamics in bovine serum albumin solutions studied by small angle X-ray scattering and dielectric relaxation spectroscopy. J. Mol. Liq. 200, A, 59-66 (2014).
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. Functional characterization of FABP3, 5 and 7 gene variants identified in schizophrenia and autism spectrum disorder and mouse behavioral studies. Hum. Mol. Genet. 23, 6495-6511 (2014).
2013年
Ohkawa, K., Miura, Y., Nomura, T., Arai, R., Abe, K., Tsukada M., and Hirabayashi, K., Long-range periodic
sequence of Stenopsyche marmorata cement/silk protein: Purification and biochemical characterization.
Biofouling, 29, 357-367 (2013).
2012年
Arai, R.*, Fukui, S., Kobayashi, N. and Sekiguchi, J.*, Solution structure of IseA, an inhibitor protein of DL-endopeptidases from Bacillus subtilis, reveals a novel fold with a characteristic inhibitory loop. J. Biol. Chem., 287, 44736-44748 (2012). (The Journal of Biological Chemistry)
細菌の細胞分離酵素を阻害するIseAタンパク質の新奇な立体構造を解明！
～ユニークな“弓のこ型”構造を世界で初めて解明～
信州大学繊維学部Webプレスリリース 2012.12.25
信濃毎日新聞(12/26朝刊）や、マイナビニュース、Yahoo!ニュースなどに記事が掲載 2012.12.26
Ohkawa, K., Miura, Y., Nomura, T., Arai, R., Abe, K., Tsukada M., and Hirabayashi, K., Isolation of silk proteins from a caddisfly larva, Stenopsyche marmorata. J. Fiber Bioeng. Informatics, 5, 125-137 (2012).
Arai, R*., Kobayashi, N., Kimura, A., Sato, T., Matsuo, K., Wang, A.F., Platt, J.M., Bradley, L.H., and Hecht, M.H.*, Domain-Swapped Dimeric Structure of a Stable and Functional De Novo 4-Helix Bundle Protein, WA20. J. Phys. Chem. B. 116, 6789-6797 (2012). (The Journal of Physical Chemistry B)
新規人工設計タンパク質WA20 の立体構造を解明！
～新奇な“クロスヌンチャク型”二量体構造を解明～
信州大学繊維学部Webプレスリリース 2012.3.26
KEK物質構造科学研究所トピックスに掲載 2012.3.28
マイナビニュース、Yahoo!ニュース、livedoorニュースに掲載 2012.3.29
2011年
Hayashi A, Hino N, Kobayashi T, Arai R, Shirouzu M, Yokoyama S, and Sakamoto K. Dissecting cell signaling pathways with genetically encoded 3-iodo-L-tyrosine. ChemBioChem. 12, 387-389 (2011).
2010年
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. Polymorphism screening of brain-expressed FABP7, 5 and 3 genes and association studies in autism and schizophrenia in Japanese subjects. J. Hum. Genet. 55, 127-130 (2010).
2009年
.Arai, R, Murayama, K., Uchikubo-Kamo, T., Nishimoto, M., Toyama, M., Kuramitsu, S., Terada, T., Shirouzu, M. and Yokoyama, S. Crystal structure of MqnD (TTHA1568), a menaquinone biosynthetic enzyme from Thermus thermophilus HB8. J. Struct. Biol. 168, 575-581 (2009).
2007年
Arai, R.,* Ito, K.,* Ohnishi, T., Ohba, H., Akasaka, R., Bessho, Y., Hanawa-Suetsugu, K., Yoshikawa, T., Shirouzu, M. and Yokoyama, S. Crystal structure of human myo-inositol monophosphatase 2, the product of the putative susceptibility gene for bipolar disorder, schizophrenia, and febrile seizures. Proteins 67, 732-742 (2007).
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. Fabp7 Maps to a Quantitative Trait Locus for a Schizophrenia Endophenotype. PLoS Biology, 5, e297 (2007).
Yoshikawa, S.,* Arai, R.,* Kinoshita, Y., Uchikubo-Kamo, T., Wakamatsu, T., Akasaka, R., Masui, R., Terada, T., Kuramitsu, S., Shirouzu, M. and Yokoyama, S. Structure of archaeal glyoxylate reductase from Pyrococcus horikoshii OT3 complexed with nicotinamide adenine dinucleotide phosphate. Acta Crystallogr. D 63, 357-365 (2007).
2006年
Ito, K.,* Arai, R.,* Fusatomi, E., Kamo-Uchikubo, T., Kawaguchi, S., Akasaka, R., Terada, T., Kuramitsu, S., Shirouzu, M. and Yokoyama, S. 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. Protein Sci. 15, 1187-1192 (2006).
Arai, R.,* Yoshikawa, S.,* Murayama, K., Imai, Y., Takahashi, R., Shirouzu, M. and Yokoyama, S. Structure of human ubiquitin-conjugating enzyme E2 G2 (UBE2G2/UBC7). Acta Crystallogr. F 62, 330-334 (2006).
Arai, R., Kukimoto-Niino, M., Kuroishi, C., Bessho, Y., Shirouzu, M. and Yokoyama, S. Crystal structure of the probable haloacid dehalogenase PH0459 from Pyrococcus horikoshii OT3. Protein Sci. 15, 373-377 (2006).
2005年以前
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. Crystal structure of an enhancer of rudimentary homolog (ERH) at 2.1 Angstroms resolution. Protein Sci. 14, 1888-1893 (2005).
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).
Ogiso, H., Kagi, N., Matsumoto, E., Nishimoto, M., Arai, R., Shirouzu, M., Mimura, J., Fujii-Kuriyama, Y. and Yokoyama, S. Phosphorylation analysis of 90 kDa heat shock protein within the cytosolic arylhydrocarbon receptor complex. Biochemistry 43, 15510-15519 (2004).
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. Establishment of Stable hFis1 Knockdown Cells with an siRNA Expression Vector. J. Biochem. 136, 421-425 (2004).
Arai, R., Wriggers, W., Nishikawa, Y., T. Nagamune, T. and Fujisawa, T. Conformations of Variably Linked Chimeric Proteins Evaluated by Synchrotron X-ray Small-Angle Scattering. Proteins 57, 829-838 (2004).
Ueda, H., Yokozeki, T., Arai, R., Tsumoto, K., Kumagai, I. and Nagamune, T. An optimized homogeneous noncompetitive immunoassay based on the antigen-driven enzymatic complementation. J. Immunol. Methods 279, 209-218 (2003).
Arai, R., Nakagawa, H., Kitayama, A., Ueda, H. and Nagamune, T. Detection of protein-protein interaction by bioluminescence resonance energy transfer from firefly luciferase to red fluorescent protein. J. Biosci. Bioeng. 94, 362-364 (2002).
Yokozeki, T., Ueda, H., Arai, R., Mahoney, W. and Nagamune, T. A homogeneous noncompetitive immunoassay for the detection of small haptens. Anal. Chem. 74, 2500-2504 (2002).
Ohiro, Y., Arai, R., Ueda, H. and Nagamune, T. A homogeneous and noncompetitive immunoassay based on the enhanced fluorescence resonance energy transfer by leucine zipper interaction. Anal. Chem. 74, 5786-5792 (2002).
Arai, R., Ueda, H., Kitayama, A., Kamiya, N. and Nagamune, T. Design of the linkers which effectively separate domains of a bifunctional fusion protein. Protein Eng. 14, 529-532 (2001).
Arai, R., Makita, Y., Oda, Y. and Nagamune, T. Construction of green fluorescent protein reporter genes for genotoxicity test (SOS/umu-Test) and improvement of mutagen-sensitivity. J. Biosci. Bioeng. 92, 301-304 (2001).
Takeda, S., Kamiya, N., Arai, R. and Nagamune, T. Design of an artificial light-harvesting unit by protein engineering: Cytochrome b(562)-green fluorescent protein chimera. Biochem. Biophys. Res. Commun. 289, 299-304 (2001).
Arai, R., Nakagawa, H., Tsumoto, K., Mahoney, W., Kumagai, I., Ueda, H. and Nagamune, T. Demonstration of a homogeneous noncompetitive immunoassay based on bioluminescence resonance energy transfer. Anal. Biochem. 289, 77-81 (2001).
Arai, R., Ueda, H., Tsumoto, K., Mahoney, W.C., Kumagai, I. and Nagamune, T. Fluorolabeling of antibody variable domains with green fluorescent protein variants: application to an energy transfer-based homogeneous immunoassay. Protein Eng. 13, 369-376 (2000).
Arai, R., Ueda, H. and Nagamune, T. Construction of chimeric proteins between protein G and fluorescence-enhanced green fluorescent protein, and their application to immunoassays. J. Ferment. Bioeng. 86, 440-445 (1998).
(*The authors
contributed equally to the work.)
