Publications

(xx) Original Papers (English); (Rxx) Reviews; (Pxx) Proceedings; (Bxx) Books; (Oxx) Others

(211) Probing the substrate binding modes and catalytic mechanisms of BLEG-1, a promiscuous B3 metallo-β-lactamase with glyoxalase II properties
Shaw Xian Au, Azyyati Mohd Padzil, Noor Dina Muhd Noor, Hiroyoshi Matsumura, Raja Noor Zaliha Raja Abdul Rahman, Yahaya M. Normi
Plos One, 1-32 (2023) 2023.9 DOI:10.1371/journal.pone.0291012

(210) Structure, stability and binding properties of collagen-binding domains from Streptococcus mutans
Akari Nishi, Hikaru Matsui, Azumi Hirata, Atsushi Mukaiyama, Shun-ichi Tanaka, Takuya Yoshizawa, Hiroyoshi Matsumura, Ryota Nomura, Kazuhiko Nakano, Kazufumi Takano
Chemistry, 5(3), 1911-1920 (2023) 2023.9 DOI:10.3390/chemistry5030130

(209) The apiosyltransferase celery UGT94AX1 catalyzes the biosynthesis of the flavone glycoside apiin
Maho Yamashita, Tae Fujimori, Song An, Sho Iguchi, Yuto Takenaka, Hiroyuki Kajiura, Takuya Yoshizawa, Hiroyoshi Matsumura, Masaru Kobayashi, Eiichiro Ono, Takeshi Ishimizu
Plant Physiol., 193, 1758-1771 (2023) 2023.7 DOI:10.1093/plphys/kiad402

(208) Structures of a FtsZ single protofilament and a double-helical tube in complex with a monobody
Junso Fujita, Hiroshi Amesaka, Takuya Yoshizawa, Kota Hibino, Natsuki Kamimura, Natsuko Kuroda, Takamoto Konishi, Yuki Kato, Mizuho Hara, Tsuyoshi Inoue, Keiichi Namba, Shun-ichi Tanaka* and Hiroyoshi Matsumura*
Nat. Commun., 14, 4073 (2023) 2023.7 DOI:10.1038/s41467-023-39807-5

(207) Structural and antibacterial characterization of a new benzamide FtsZ inhibitor with superior bactericidal activity and in vivo efficacy against multidrug-resistant Staphylococcus aureus
Eric Bryan, Edgar Ferrer-González, Hye Yeon Sagong, Junso Fujita, Lilly Mark, Malvika Kaul, Edmond J. LaVoie, Hiroyoshi Matsumura, Daniel S. Pilch
ACS Chem. Biol., 18, 629-642 (2023) 2023.3 DOI:10.1021/acschembio.2c00934

(206) Real-time monitoring of polyacrylamide gel electrophoresis by the shadowgraph technique
Satoshi Murakami, Hiroaki Adachi, Hiroyoshi Matsumura, Kazufumi Takano, Tsuyoshi Inoue, Yusuke Mori
J. Biochem., 173, 65-72 (2023) 2023.2 DOI:10.1093/jb/mvac087

(O11) High-resolution structure of a microtubule-like tube composed of FtsZ–monobody complexes
Junso Fujita, Hiroshi Amesaka, Takuya Yoshizawa, Natsuko Kuroda, Natsuki Kamimura, Mizuho Hara, Tsuyoshi Inoue, Keiichi Namba, Shun-ichi Tanaka*, Hiroyoshi Matsumura*
bioRxiv (preprint), (2022) 2022.10 DOI:10.1101/2022.10.05.510932

(205) Procedure of the overexpression, purification and crystallization of BLEG-1, a bifunctional and evolutionary divergent B3 metallo-β-lactamase, for structure-function studies
Shaw Xian Au, Noor Dina Muhd Noor, Hiroyoshi Matsumura, Raja Noor Zaliha Raja Abdul Rahman, Yahaya M Normi
MethodsX, 9, 101740 (2022) 2022.5 DOI:10.1016/j.mex.2022.101740

(204) Expression, purification and crystallization of TGW6, which limits grain weight in rice
Tatsuki Akabane, Nobuhiro Suzuki, Wataru Tsuchiya, Takuya Yoshizawa, Hiroyoshi Matsumura, Naoki Hirotsu, Etsuko Katoh
Protein Expr. Purif., 188, 105975 (2021) 2021.9 DOI:10.1016/j.pep.2021.105975

(203) C9orf72-derived arginine-rich poly-dipeptides impede phase modifiers
Hitoki Nanaura, Honoka Kawamukai, Ayano Fujiwara, Takeru Uehara, Yuichiro Aiba, Mari Nakanishi, Tomo Shiota, Masaki Hibino, Pattama Wiriyasermkul, Sotaro Kikuchi, Riko Nagata, Masaya Matsubayashi, Yoichi Shinkai, Tatsuya Niwa, Taro Mannen, Naritaka Morikawa, Naohiko Iguchi, Takao Kiriyama, Ken Morishima, Rintaro Inoue, Masaaki Sugiyama, Takashi Oda, Noriyuki Kodera, Sachiko Toma-Fukai, Mamoru Sato, Hideki Taguchi, Shushi Nagamori, Osami Shoji, Koichiro Ishimori, Hiroyoshi Matsumura, Kazuma Sugie, Tomohide Saio*, Takuya Yoshizawa*, Eiichiro Mori*
Nat. Commun., 12, 5301 (2021) 2021.9 DOI:10.1038/s41467-021-25560-0

(202) Dual activity BLEG-1 from Bacillus lehensis G1 revealed structural resemblance to B3 metallo-β-lactamase and glyoxalase II: An insight into its enzyme promiscuity and evolutionary divergence
Shaw Xian Au, Nur Syazana Dzulkifly, Noor Dina Muhd Noor, Hiroyoshi Matsumura, Raja Noor Zaliha Raja Abdul Rahman, Yahaya M. Normi
Int. J. Mol. Sci., 22, 9377 (2021) 2021.8

(201) Structure–function studies of ultrahigh molecular weight isoprenes provide key insights into their biosynthesis
Hiroyuki Kajiura#, Takuya Yoshizawa#, Yuji Tokumoto, Nobuaki Suzuki, Shinya Takeno, Kanokwan Jumtee Takeno, Takuya Yamashita, Shun-ichi Tanaka, Yoshinobu Kaneko, Kazuhito Fujiyama, Hiroyoshi Matsumura*, Yoshihisa Nakazawa* #These authors contributed equally.
Commun. Biol., 4, 215 (2021) 2021.2

(200) Mechanism of karyopherin-β binding and nuclear import of ALS variants FUS(P525L) and FUS(R495X)
Abner Gonzalez, Taro Mannen, Tolga Cagatay, Ayano Fujiwara, Hiroyoshi Matsumura, Ashley B. Niesman, Chad A. Brautigam, Yuh Min Chook, Takuya Yoshizawa*
Sci. Rep., 11, 3754 (2021) 2021.2

(199) Dynamic assembly/disassembly of Staphylococcus aureus FtsZ visualized by high-speed atomic force microscopy
Junso Fujita, Shogo Sugiyama, Haruna Terakado, Maho Miyazaki, Mayuki Ozawa, Nanami Ueda, Natsuko Kuroda, Shun-ich Tanaka, Takuya Yoshizawa, Takayuki Uchihashi*, Hiroyoshi Matsumura*
Int. J. Mol. Sci., 22, 1697 (2021) 2021.2

(198) Insertion loop-mediated folding propagation governs efficient maturation of hyperthermophilic Tk-subtilisin at high temperatures
Ryo Uehara, Nanako Dan, Hiroshi Amesaka, Takuya Yoshizawa, Yuichi Koga, Shigenori Kanaya, Kazufumi Takano, Hiroyoshi Matsumura, Shun-ichi Tanaka
FEBS Lett. 595, 452-461 (2021) 2021.2

(197) Hybrid Rubisco with complete replacement of rice Rubisco small subunits by sorghum counterparts confers C4-plant-like high catalytic activity
Hiroyoshi Matsumura*, Keita Shiomi, Akito Yamamoto, Yuri Taketani, Noriyuki Kobayashi, Takuya Yoshizawa, Shun‐ichi Tanaka, Hiroki Yoshikawa, Masaki Endo, Hiroshi Fukayama*
Mol. Plant, 13, 1570-1581 (2020) 2020.11

(198) Effects of introduction of sorghum RbcS with rice RbcS knockdown by RNAi on photosynthetic activity and dry weight in rice
Kazuma Sakoda, Akito Yamamoto, Chie Ishikawa, Yojiro Taniguchi, Hiroyoshi Matsumura, Hiroshi Fukayama
Plant Prod. Sci. https://doi.org/10.1080/1343943X.2020.1847669 (2020) 2020.10

(195) Crystal structure of a GH1 β‐glucosidase from Hamamotoa singularis
Ryo Uehara, Riki Iwamoto, Sayaka Aoki, Takuya Yoshizawa, Kazufumi Takano, Hiroyoshi Matsumura*, Shun‐ichi Tanaka*
Protein Sci., 29, 2000-2008 (2020) 2020.7

(194) Affinity shift of ATP upon glycerol binding to a glycerol kinase from the hyperthermophilic archaeon Thermococcus kodakarensis KOD1
Ryuta Hokao, Hiroyoshi Matsumura, Ryota Katsumi, Clement Angkawidjaja, Kazufumi Takano, Shigenori Kanaya, and Yuichi Koga
J. Biosci. Bioeng., 129(6), 657-663 (2020) 2020.6

(R25) Effect of nuclear import receptors on liquid-liquid phase separation
Takuya Yoshizawa*, and Hiroyoshi Matsumura
Biophys. Physicobiol., 17, 25-29 (2020) 2020.4

(193) Crystal structures of the cell division protein FtsZ from Klebsiella pneumoniae and Escherichia coli
Takuya Yoshizawa, Junso Fujita, Haruna Terakado, Mayuki Ozawa, Natsuko Kuroda, Shun-ichi Tanaka, Ryo Uehara, and Hiroyoshi Matsumura*
Acta Cryst. F76, 86-93 (2020) 2020.2

(192) Structure-guided design of a fluorescent probe for visualization of FtsZ in clinically important Gram-positive and Gram-negative bacteria pathogens
Edgar ferrer-Gonzalez, Junso Fujita, Takuya Yoshizawa, Julia M. Nelson, Allyssa J. Pilch, Elani Hillman, Mayuki Ozawa, Natsuko Kuroda, Hassan M. Al-Tameemi, Jefferey M. Boyd, Edmond J. Lavoie, Hiroyoshi Matsumura*, and Daniel S. Pilchi*
Sci. Rep., 9, 20092, (2019) 2019.12

(191) Affinity improvement of a cancer-targeted antibody through alanine-induced adjustment of antigen-antibody interface
Takefumi Yamashita, Eiichi Mizohata, Satoru Nagatoishi, Takahiro Watanabe, Makoto Nakakido, Hiroko Iwanari, Yasuhiro Mochizuki, Taisuke Nakayama, Yuji Kado, Yuki Yokota, Hiroyoshi Matsumura, Takeshi Kawamura, Tatsuhiko Kodama, Takao Hamakubo, Tsuyoshi Inoue, Hideaki Fujitani, and Kouhei Tsumoto
Structure, 27, 519-527 (2019) 2019.3

(190) Crystallization of Aspirin Form II by Femtosecond Laser Irradiation
Yuka Tsuri, Mihoko Maruyama, Riki Fujimoto, Shino Okada, Hiroaki Adachi, Hiroshi Y. Yoshikawa, Kazufumi Takano, Satoshi Murakami, Hiroyoshi Matsumura, Tsuyoshi Inoue, Katsuo Tsukamoto, Masayuki Imanishi, Masashi Yoshimura, and Yusuke Mori
Appl. Phys. Express, 12, 015507 (2019) 2018.12

(189) Growth of high-quality metastable crystal of acetaminophen using solution mediated phase transformation at low supersaturation
Riki Fujimoto, Mihoko Maruyama, Yoichiro Mori, Shino Okada, Hiroaki Adachi, Hiroshi Y. Yoshikawa, Kazufumi Takano, Satoshi Murakami, Hiroyoshi Matsumura, Tsuyoshi Inoue, Masayuki Imanishi, Katsuo Tsukamoto, Masashi Yoshimura, and Yusuke Mori
J. Cryst. Growth, 502, 76-82 (2018) 2018.11

(188) Atomic-scale imaging of surface and hydration structures of stable and metastable acetaminophen crystals by frequency modulation atomic force microscopy
Noritaka Kobayashi, Mihoko Maruyama, Yoichiro Mori, Suguru Fukukita, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Hiroyoshi Matsumura, Tsuyoshi Inoue, Masashi Yoshimura, Seiichiro Nakabayashi, Yusuke Mori, and Hiroshi Y. Yoshikawa
J. Phys. Chem. C, 122, 21983-21990 (2018) 2018.9

(187) Initial, transient, and specific interaction between G protein-coupled receptor and target G protein in parallel signal processing: a case of olfactory discrimination of cancer-induced odors
Takaaki Sato, Mitsumi Matsukawa, Yoichi Mizutani, Toshio Iijima, Hiroyoshi Matsumura
Med. Res. Arc, 6, 1-25 (2018) 2018.9

(186) Improvement of metastable crystal of acetaminophen via control of crystal growth rate
Kosuke Nii, Mihoko Maruyama, Shino Okada, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Hiroshi Y. Yoshikawa, Hiroyoshi Matsumura, Tsuyoshi Inoue, Masayuki Imanishi, Katsuo Tsukamoto, Masashi Yoshimura, and Yusuke Mori
Appl. Phys. Express, 11, 035501 (2018). 2018.3

(185) Structural basis for the Serratia marcescens lipase secretion system: Crystal structures of the membrane fusion protein and nucleotide-binding domain
Daichi Murata, Hiroyuki Okano, Clement Angkawidjaja, Masato Akutsu, Shun-ichi Tanaka, Kenyu Kitahara, Takuya Yoshizawa, Hiroyoshi Matsumura, Yuji Kado, Eiichi Mizohata, Tsuyoshi Inoue, Satoshi Sano, Yuichi Koga, Shigenori Kanaya, Kazufumi Takano
Biochemistry, 56, 6281-6291 (2017). 2017.11

(184) Structural flexibility of an inhibitor overcomes drug resistance mutations in Staphylococcus aureus FtsZ
Junso Fujita, Yoko Maeda, Eiichi Mizohata, Tsuyoshi Inoue, Malvika Kaul, Ajit K. Parhi, Edmond J. LaVoie, Daniel S. Pilch*, Hiroyoshi Matsumura*
ACS Chem. Biol., 12(7), 1947-1955 (2017). 2017.6

(183) Two Eucommia farnesyl diphosphate synthases exhibit distinct enzymatic properties leading to end product preferences
Hiroyuki Kajiura, Nobuaki Suzuki, Yuji Tokumoto, Takuya Yoshizawa, Shinya Takeno, Kazuhito Fujiyama, Yoshinobu Kaneko, Hiroyoshi Matsumura, Yoshihisa Nakazawa
Biochimie, 139, 95-106 (2017). 2017.5

(182) Identification of the key interactions in structural transition pathway of FtsZ from Staphylococcus aureus
Junso Fujita, Ryuhei Harada*, Yoko Maeda, Yuki Saito, Eiichi Mizohata, Tsuyoshi Inoue, Yasuteru Shigeta, Hiroyoshi Matsumura*
J. Struct. Biol., 198, 65-73 (2017). 2017.5

(181) Crystallization of acetaminophen form II by plastic-ball-assisted ultrasonic irradiation
Yoichiro Mori, Mihoko Maruyama, Yoshinori Takahashi, Hiroshi Y. Yoshikawa, Shino Okada, Hiroaki Adachi, Shigeru Sugiyama, Kazufumi Takano, Satoshi Murakami, Hiroyoshi Matsumura, Tsuyoshi Inoue, Masashi Yoshimura, and Yusuke Mori
Appl. Phys. Express, 10, 025501 (2017). 2017.2

(180) Metastable crystal growth of acetaminophen using solution-mediated phase transformation
Yoichiro Mori, Mihoko Maruyama, Yoshinori Takahashi, Hiroshi Y. Yoshikawa, Shino Okada, Hiroaki Adach, Shigeru Sugiyama, Kazufumi Takano, Satoshi Murakami, Hiroyoshi Matsumura, Tsuyoshi Inoue, Masashi Yoshimura & Yusuke Mori
Appl. Phys. Express 10, 015501 (2017). 2017.1

(179) A RuBisCO-mediated carbon metabolic pathway in methanogenic archaea
Takunari Kono, Sandhya Mehrotra, Chikako Endo, Natsuko Kizu, Mami Matsuda, Hiroyuki Kimura, Eiichi Mizohata, Tsuyoshi Inoue, Toshihisa Hasunuma, Akiho Yokota, Hiroyoshi Matsumura*, Hiroki Ashida*
Nat. Commun., 7(13007), 1-12 (2017). 2017.1

(178) Functional role of the C-terminal amphipathic helix 8 of olfactory receptors and other G protein-coupled receptors
Takaaki Sato, Takashi Kawasaki, Shouhei Mine, Hiroyoshi Matsumura
Int. J. Mol. Sci., 17(11), 1930 (2016). 2016.11

(177) Promotion of protein crystal growth by actively switching crystal growth mode via femtosecond laser ablation
Yusuke Tominaga, Mihoko Maruyama, Masashi Yoshimura, Haruhiko Koizumi, Masaru Tachibana, Shigeru Sugiyama, Hiroaki Adachi, Katsuo Tsukamoto, Hiroyoshi Matsumura, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Hiroshi Y. Yoshikawa and Yusuke Mori
Nat. Photonics, 10 723-726 (2016). 2016.10

(176) A crystallization technique for obtaining large protein crystals with increased mechanical stability using agarose gel combined with a stirring technique
Mihoko Maruyama, Yuki Hayashi, Hiroshi Y. Yoshikawa, Shino Okada, Haruhiko Koizumi, Masaru Tachibana, Shigeru Sugiyama, Hiroaki Adachi, Hiroyoshi Matsumura, Tsuyoshi Inoue, Kazufumi Takano, Satoshi Murakami, Masashi Yoshimura and Yusuke Mori
J. Crystal Growth., 452 172-178 (2016). 2016.10

(175) Molecular mechanism underlying promiscuous polyamine recognition by spermidine acetyltransferase
Shigeru Sugiyama*, Sae Ishikawa, Hideyuki Tomitori, Mayumi Niiyama, Mika Hirose, Yuma Miyazaki, Kyohei Higashi, Michio Murata, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, Keiko Kashiwagi, Kazuei Igarashi and Hiroyoshi Matsumura*
Int. J. Biochem. Cell Biol., 76, 87-97 (2016). 2016.7

(174) Protein crystallization with paper
Miki Matsuoka, Keisuke Kakinouchi, Hiroaki Adachi, Mihoko Maruyama, Shigeru Sugiyama, Satoshi Sano, Hiroshi Y. Yoshikawa, Yoshinori Takahashi, Masashi Yoshimura, Hiroyoshi Matsumura, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, and Kazufumi Takano
Jpn. J. Appl. Phys., 55, 050302 (2016). 2016.4

(173) Growth of high-strength protein crystals with nanofibers
Miki Matsuoka, Keisuke Kakinouchi, Hiroaki Adachi, Mihoko Maruyama, Shigeru Sugiyama, Iori Nakabayashi, Hiroshi Tsuchikura, Atsushi Kuwahara, Satoshi Sano, Hiroshi Y. Yoshikawa, Yoshinori Takahashi, Masashi Yoshimura, Hiroyoshi Matsumura, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, and Kazufumi Takano
Appl. Phys. Express, 9, 035503 (2016). 2016.2

(172) Supersensitive odor discrimination is controlled in part by initial transient interactions between the most sensitive dorsal olfactory receptors and G-proteins
Takaaki Sato, Reiko Kobayakawa, Ko Kobayakawa, Makoto Emura, Shigeyoshi Itohara, Takashi Kawasaki, Akio Tsuboi, Hiroyoshi Matsumura
Receptors Clin. Invest., 3, e1117 (2016). 2016.1

(171) Epiregulin recognition mechanisms by anti-epiregulin antibody 9E5: Structural, functional and molecular dynamics simulation analyses
Yuji Kado, Eiichi Mizohata, Satoru Nagatoishi, Mariko Iijima, Keiko Shinoda, Takamitsu Miyafusa, Taisuke Nakayama, Takuma Yoshizumi, Akira Sugiyama, Takeshi Kawamura, Young-Hun Lee, Hiroyoshi Matsumura, Hirofumi Doi, Hideaki Fujitani, Tatsuhiko Kodama, Yoshikazu Shibasaki, Kouhei Tsumoto and Tsuyoshi Inoue
J. Biol. Chem., 291(5), 2319-2330 (2016). 2016.1

(170) Redox-coupled structural changes in nitrite reductase revealed by serial femtosecond and microfocus crystallography
Yohta Fukuda, Tse Ka Man, Mamoru Susuki, Kay Diederichs, Kunio Hirata, Takanori Nakane, Michihiro Sugahara, Eriko Nango, Kensuke Tono, Yasumasa Joti, Takashi Kameshima, Changyong Song, Takaki Hatsui, Makina Yabashi, Osamu Nureki, Hiroyoshi Matsumura, Tsuyoshi Inoue, So Iwata, Eiichi Mizohata
J. Biochem., 159(5), 527-538 (2016). 2016.1

(169) Insights into unknown foreign ligand in copper nitrite reductase
Yohta Fukuda, Tse Ka Man, Yuji Kado, Eiichi Mizohata, Hiroyoshi Matsumura, Tsuyoshi Inoue
Biochem. Biophys. Res. Commun., 464(2), 622-628 (2015). 2015.8

(168) Development of protein seed crystals reinforced by high-strength hydrogels
Shigeru Sugiyama, Noriko Shimizu, Keisuke Kakinouchi, Osamu Hiraoka, Hiroyoshi Matsumura, Hiroshi Y. Yoshikawa, Yoshinori Takahashi, Mihoko Maruyama, Masashi Yoshimura, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Michio Murata, and Yusuke Mori
CrystEngComm, 17, 8064-8071 (2015). 2015.6

(167) Selective crystallization of metastable phase of acetaminophen by ultrasonic irradiation
Yoichiro Mori, Mihoko Maruyama, Yoshinori Takahashi, Kenji Ikeda, Suguru Fukukita, Hiroshi Y. Yoshikawa, Shino Okada, Hiroaki Adachi, Shigeru Sugiyama, Kazufumi Takano, Satoshi Murakami, Hiroyoshi Matsumura, Tsuyoshi Inoue, Masashi Yoshimura, and Yusuke Mori
Appl. Phys. Express, 8(6), 065501 (2015). 2015.6

(166) Structure-based design of a streptavidin mutant specific for an artificial biotin analogue
Tatsuya Kawato, Eiichi Mizohata, Yohei Shimizu, Tomohiro Meshizuka, Tomohiro Yamamoto, Noriaki Takasu, Masahiro Matsuoka, Hiroyoshi Matsumura, Tatsuhiko Kodama, Motomu Kanai, Hirofumi Doi, Tsuyoshi Inoue, and Akira Sugiyama
J. Biochem., 157(6), 467-475 (2015). 2015.6

(165) The N-terminal acidic residue of the cytosolic helix 8 of an odorant receptor is responsible for different response dynamics via G-protein
Takashi Kawasaki, Takahiro Saka, Shouhei Mine, Eiichi Mizohata, Tsuyoshi Inoue, Hiroyoshi Matsumura*, and Takaaki Sato*
FEBS Lett., 589(10), 1136-1142 (2015). 2015.4

(164) Structure-based design and synthesis of a bivalent iminobiotin analogue showing strong affinity toward a low immunogenic streptavidin mutant
Tatsuya Kawato, Eiichi Mizohata, Yohei Shimizu, Tomohiro Meshizuka, Tomohiro Yamamoto, Noriaki Takasu, Masahiro Matsuoka, Hiroyoshi Matsumura, Tatsuhiko Kodama, Motomu Kanai, Hirofumi Doi, Tsuyoshi Inoue, and Akira Sugiyama
Biosci. Biotechnol. Biochem., 79(4), 640-642 (2015). 2015.4

(163) Excimer emission properties on pyrene-labeled protein surface: Correlation between emission spectra, ring stacking modes, and flexibilities of pyrene probes
Akira Fujii, Yutaka Sekiguchi, Hiroyoshi Matsumura*, Tsuyoshi Inoue, Wen-Sheng Chung*, Shun Hirota, and Takashi Matsuo*
Bioconjugate Chem., 26(3), 537-548 (2015). 2015.3

(162) Spiral growth can enhance both the normal growth rate and quality of tetragonal lysozyme crystals grown under a forced solution flow
Yuki Hayashi, Mihoko Maruyama, Masashi Yoshimura, Shino Okada, Hiroshi Y. Yoshikawa, Shigeru Sugiyama, Hiroaki Adachi, Hiroyoshi Matsumura, Tsuyoshi Inoue, Kazufumi Takano, Satoshi Murakami, and Yusuke Mori
Cryst. Growth Des,15(5), 2137-2143 (2015). 2015.3

(161) Selective crystallization of the metastable phase of indomethacin on the interface of liquid/air bubble induced by the femtosecond laser irradiation
Kenji Ikeda, Mihoko Maruyama, Yoshinori Takahashi, Yoichiro Mori, Hiroshi Y. Yoshikawa, Shino Okada, Hiroaki Adachi, Shigeru Sugiyama, Kazufumi Takano, Satoshi Murakami, Hiroyoshi Matsumura, Tsuyoshi Inoue, Masashi Yoshimura, and Yusuke Mori
Appl. Phys. Express, 8, 045501 (2015). 2015.2

(160) Preliminary X-ray analysis of the binding domain of the soybean vacuolar sorting receptor complexed with a sorting determinant of a seed storage protein
Nobuyuki Maruyama, Tomohiro Goshi, Shigeru Sugiyama, Mayumi Niiyama, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, Hiroyoshi Matsumura, and Bunzo Mikami
Acta Cryst., F71(2), 132-135 (2015). 2015.2

(159) A comparative analysis of microgravity and earth grown thermostable T1 Lipase crystals using HDPCG apparatus
Raja Noor Zaliha Raja Abd Rahman*, Mohd. Shukuri Mohamad Ali, Shigeru Sugiyama, Adam Thean Chor Leow, Tsuyoshi Inoue, Mahiran Basri, Abu Bakar Salleh, and Hiroyoshi Matsumura*
Protein Pept. Lett., 22(2), 173-179 (2015). 2015.2

(158) Crystal structure of a streptavidin mutant with low immunogenicity
Tatsuya Kawato, Eiichi Mizohata, Tomohiro Meshizuka, Hirofumi Doi, Takeshi Kawamura, Hiroyoshi Matsumura, Kyohei Yumura, Kouhei Tsumoto, Tatsuhiko Kodama, Tsuyoshi Inoue, and Akira Sugiyama
J. Biosci. Bioeng., 119(6), 642-647 (2014). 2014.11

(157) Structural basis for the recognition-evasion arms race between Tomato mosaic virus and the resistance gene Tm-1
Kazuhiro Ishibashi, Yuichiro Kezuka, Chihoko Kobayashi, Masahiko Kato, Tsuyoshi Inoue, Takamasa Nonaka, Masayuki Ishikawa, Hiroyoshi Matsumura*, and Etsuko Katoh*
Proc. Natl. Acad. Sci. USA, 111(13), E3486-E3495 (2014). 2014.8

(156) A new practical technique for high quality protein crystallization with the solution stirring technique at the interface between high-concentrated hydrogel and solution
Yusuke Aoki, Mihoko Maruyama, Yoshinori Takahashi, Masashi Yoshimura, Hiroshi Y. Yoshikawa, Shigeru Sugiyama, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Hiroyoshi Matsumura, Tsuyoshi Inoue, and Yusuke Mori
Jpn. J. Appl. Phys., 53(6), 065502 (2014). 2014.6

(155) Crystallization and preliminary crystallographic studies of PotA, a membrane-associated ATPase of the spermidine-preferential uptake system in Thermotoga maritima
Shigeru Sugiyama, Keiko Kashiwagi, Keisuke Kakinouchi, Hideyuki Tomitori, Ken Kanai, Michio Murata, Hiroaki Adachi, Hiroyoshi Matsumura, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, and Kazuei Igarashi
Acta Cryst., F70(6), 738-741 (2014). 2014.6

(154) Crystal structure of FtsA from Staphylococcus aureus
Junso Fujita, Yoko Maeda, Chioko Nagao, Yuko Tsuchiya, Yuma Miyazaki, Mika Hirose, Eiichi Mizohata, Yoshimi Matsumoto, Tsuyoshi Inoue, Kenji Mizuguchi, and Hiroyoshi Matsumura*
FEBS Lett., 588(10), 1879-1885 (2014). 2014.5

(153) Laser ablation for protein crystal nucleation and seeding
Hiroshi Y. Yoshikawa, Ryota Murai, Hiroaki Adachi, Shigeru Sugiyama, Mihoko Maruyama, Yoshinori Takahashi, Kazufumi Takano, Hiroyoshi Matsumura, Tsuyoshi Inoue, Satoshi Murakami, Hiroshi Masuhara, and Yusuke Mori
Chem. Soc. Rev. 43, 2147-2158 (2014). 2014.4

(152) Structural insights into the function of a thermostable copper-containing nitrite reductase
Yohta Fukuda, Ka Man Tse, Eiichi Mizohata, Hiroyoshi Matsumura , Hideto Takami, Masaki Nojiri, and Tsuyoshi Inoue
J. Biochem. 155(2), 123-135 (2014) . 2014. 2

(151) Strategy for cold adaptation of the tryptophan synthase α subunit from the psychrophile Shewanella frigidimarina K14-2: Crystal structure and physicochemical properties
Daisuke Mitsuya, Shun-ichi Tanaka, Hiroyoshi Matsumura, Naoto Urano, Kazufumi Takano, Kyoko Ogasahara, Michiyo Takehira, Katsuhide Yutani, and Masami Ishida
J. Biochem. 155(2), 73-82 (2014) . 2014. 2

(R24) Structure of viral superfamily 1 helicase
Etsuko Katoh, Kazuhiro Ishibashi, Chihoko Kobayashi, Hiroyoshi Matsumura, and Masayuki Ishikawa　
Peptide Science 2013，31-32 (2013). 2013.1

(150) Expression, purification, crystallization and preliminary crystallographic study of FtsA from methicillin-resistant Staphylococcus aureus
Junso Fujita, Yuma Miyazaki, Mika Hirose, Chioko Nagao, Eiichi Mizohata, Yoshimi Matsumoto, Kenji Mizuguchi, Tsuyoshi Inoue, and Hiroyoshi Matsumura*
Acta Cryst., F69(8), 895-898 (2013). 2013.8

(149) Expression, purification, crystallization and preliminary crystallographic analysis of spermidine acetyltransferase from Escherichia coli
Mayumi Niiyama, Shigeru Sugiyama, Mika Hirose, Sae Ishikawa, hideyuki Tomitori, Kyohei Higashi, Tomoko Yamashita, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Michio Murata, Tsuyoshi Inoue, Yusuke Mori, Keiko Kashiwagi, Hiroyoshi Matsumura, and Kazuei Igarashi
Acta Cryst., F69(8), 884-887 (2013). 2013.8

(148) Structure of peroxiredoxin from anaerobic hyperthermophilic archaeon Pyrococcus horikoshii
Tsutomu Nakamura, Aika Mori, Mayumi Niiyama, Hiroyoshi Matsumura, Chisa Tokuyama, Junji Morita, Koichi Uegaki, and Tsuyoshi Inoue
Acta Cryst., F69(7), 592-596 (2013). 2013.7

(147) A novel approach for protein crystallization by a synthetic hydrogel with thermoreversible gelation polymer
Shigeru Sugiyama, Noriko Shimizu, Gen Sazaki, Mika Hirose, Yoshinori Takahashi, Mihoko Maruyama, Hiroyoshi Matsumura, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, and Yusuke Mori
Cryst. Growth Des., 13(5), 1899-1904 (2013). 2013.4

(146) Effect of gel-solution interface on femtosecond laser-induced nucleation of protein
Satoshi Nakayama, Hiroshi Y. Yoshikawa, Ryota Murai, Masateru Kurata, Mihoko Maruyama, Shigeru Sugiyama, Yusuke Aoki, Yoshinori Takahashi, Masashi Yoshimura, Seiichiro Nakabayashi, Hiroaki Adachi, Hiroyoshi Matsumura, Tsuyoshi Inoue, Kazufumi Takano, Satoshi Murakami, and Yusuke Mori
Cryst. Growth Des., 13(3), 1491-1496 (2013). 2013.3

(145) Crystal structure of rice Rubisco and implications for activation induced by positive effectors NADPH and 6-phosphogluconate
Hiroyoshi Matsumura*, Eiichi Mizohata, Hiroyuki Ishida, Ayako Kogami, Takeshi Ueno, Amane Makino, Tsuyoshi Inoue, Akiho Yokota, Tadahiko Mae, and Yasushi Kai*
J. Mol. Biol., 422(1), 75-86 (2012). 2012.9

(144) Crystal structure of the N-terminal domain of the yeast general corepressor Tup1p and its functional implications
Hiroyoshi Matsumura*, Nanoha Kusaka, Taichi Nakamura, Naoko Tanaka, Keita Sagegami, Koichi Uegaki, Tsuyoshi Inoue and Yukio Mukai
J. Biol. Chem., 287(32), 26528-26538 (2012). 2012.8

(143) The in silico screening and X-ray structure analysis of the inhibitor complex of Plasmodium falciparum orotidine 5’-monophosphate decarboxylase
Yasuhide Takashima, Eiichi Mizohata, Sudaratana R. Krungkrai, Yoshifumi Fukunishi, Takayoshi Kinoshita, Tsuneo Sakata, Hiroyoshi Matsumura, Jerapan Krungkrai, Toshihiro Horii, and Tsuyoshi Inoue
J. Biochem., 152(2), 133-138 (2012). 2012.8

(142) Spatially precise, soft microseeding of single protein crystals by femtosecond laser ablation
Hiroshi Yoshikawa, Yoichiroh Hosokawa, Ryota Murai, Gen Sazaki, Tomoya Kitatani, Hiroaki Adachi, Tsuyoshi Inoue, Hiroyoshi Matsumura, Kazufumi Takano, Satoshi Murakami, Seiichiro Nakabayashi, Yusuke Mori, and Hiroshi Masuhara
Cryst. Growth Des., 12(9), 4334-4339 (2012). 2012.7

(141) Effects of a forced solution flow on the step advancement on {110} faces of tetragonal lysozyme crystals: direct visualization of individual steps under a forced solution flow
Mihoko Maruyama, Kawahara Hisato, Gen Sazaki, Shou Maki, Yoshinori Takahashi, Hiroshi Yoshikawa, Shigeru Sugiyama, Hiroaki Adachi, Kazufumi Takano, Hiroyoshi Matsumura, Tsuyoshi Inoue, Satoshi Murakami, and Yusuke Mori
Cryst. Growth Des., 12(6), 2856-2863 (2012). 2012.6

(140) Crystal structure of the superfamily 1 helicase from Tomato mosaic virus
Masaki Nishikiori, Shigeru Sugiyama, Hongyu Xiang, Mayumi Niiyama, Kazuhiro Ishibashi, Tsuyoshi Inoue, Masayuki Ishikawa, Hiroyoshi Matsumura*, and Etsuko Katoh*
J. Virol., 86(14), 7565-7576 (2012). 2012.6

(139) Growth of protein crystals in hydrogels prevents osmotic shock
Shigeru Sugiyama*, Miho Maruyama, Gen Sazaki, Mika Hirose, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, and Hiroyoshi Matsumura*
J. Am. Chem. Soc., 134(13), 5786-5789 (2012). 2012.4

(138) Three-dimensional, non-invasive, cross-sectional imaging of protein crystals using ultrahigh resolution optical coherence tomography
Norihiko Nishizawa*, Shutaro Ishida, Mika Hirose, Shigeru Sugiyama, Tsuyoshi Inoue, Yusuke Mori, Kazuyoshi Itoh, and Hiroyoshi Matsumura*
Biomed. Opt. Express, 3(4), 735-740 (2012). 2012.4

(137) Human hematopoietic prostaglandin D synthase inhibitor complex structures
Yuji Kado, Yousuke Okano, Nobuo Okazaki, Kousuke Aritake, Nobuko Uodome, Hiroyoshi Matsumura, Yoshihiro Urade, and Tsuyoshi Inoue
J. Biochem., 151(4), 447-455 (2012). 2012.4

(136) Crystallization and preliminary X-ray diffraction analysis of orotate phosphoribosyltransferase from human malaria parasite Plasmodium falciparum
Yasuhide Takashima, Eiichi Mizohata, Keiji Tokuoka, Sudaratana R. Krungkraai, Yukiko Kusakari, Saki Konishi, Atsuko Satoh, Hiroyoshi Matsumura, Jerapan Krungkrai, Toshihiro Horii, and Tsuyoshi Inoue
Acta Cryst., F, F68(2), 244-246 (2012). 2012.2

(135) Structure of the glycosyltransferase EryCIII in complex with its activating P450 homologue EryCII
Martin C. Moncrieffe, Maria-Jose Fernandez, Dieter Spiteller, Hiroyoshi Matsumura, Nicholas J. Gay, Ben F. Luisi, and Peter F. Leadlay
J. Mol. Biol., 415(1), 92-101 (2012). 2012.1

(134) Structure basis for the regulation of glyceraldehyde-3-phosphate dehydrogenase activity via the intrinsically disordered protein CP12
Hiroyoshi Matsumura*, Akihiro Kai, Takayuki Maeda, Masahiro Tamoi, Atsuko Satoh, Haruka Tamura, Mika Hirose, Taketo Ogawa, Natsuko Kizu, Akira Wadano, Tsuyoshi Inoue, and Shigeru Shigeoka
Structure, 19(12), 1846-1854 (2011). 2011.12

(133) Crystallization and preliminary X-ray crystallographic analysis of a helicase-like domain from a tomato mosaic virus replication protein
Hongyu Xiang, Mayumi Niiyama, Shigeru Sugiyama, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, Masayuki Ishikawa, Hiroyoshi Matsumura and Etsuko Katoh
Acta Cryst., F67(12), 1649-1652 (2011). 2011.12

(132) Crystallization and preliminary X-ray diffraction analysis of mouse prostaglandin F2a synthase, AKR1B3
Yasuhide Takashima, Seika Hatanaka, Eiichi Mizohata, Nanae Nagata, Yoshifumi Fukunishi, Hiroyoshi Matsumura, Yoshihiro Urade, and Tsuyoshi Inoue
Acta Cryst., F67(12), 1630-1632 (2011). 2011.12

(131) Structural insight into the stereoselective production of PGF2α by Old Yellow Enzyme from Trypanosoma cruzi
Naoki Okamoto, Keishi Yamaguchi, Eiichi Mizohata, Keiji Tokuoka, Nahoko Uchiyama, Shigeru Sugiyama, Hiroyoshi Matsumura, Koji Inaka, Yoshihiro Urade and Tsuyoshi Inoue
J. Biochem., 150(5), 563-568 (2011). 2011.11

(130) Rational development of caged-biotin protein-labeling agents and some applications in live cells
Takuya Terai, Eri Maki, Shigeru Sugiyama, Yoshinori Takahashi, Hiroyoshi Matsumura, Yusuke Mori, and Tetsuo Nagano
Chem. Biol.,18(10), 1261-1272 (2011). 2011.10

(129) Influence of energy and wavelength on femtosecond laser-induced nucleation of protein
Ryota Murai, Hiroshi Y. Yoshikawa, Hitoshi Hasenaka, Yoshinori Takahashi, Mihoko Maruyama, Shigeru Sugiyama, Hiroaki Adachi, Kazufumi Takano, Hiroyoshi Matsumura, Satoshi Murakami, Tsuyoshi Inoue, and Yusuke Mori
Chem. Phys. Lett., 510(1-3), 139-142 (2011). 2011. 6

(128) Growth of large protein crystals by syringe-type top-seeded solution growth
Hiroyoshi Matsumura*, Keisuke Kakinouchi, Tsutomu Nakamura, Shigeru Sugiyama, Mihoko Maruyama, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, and Yusuke Mori
Cryst. Growth Des., 11(5), 1486-1492 (2011). 2011.5

(127) High-resolution structure of exo-arabinanase from Penicillium chrysogenum
Yuri Sogabe, Tomoya Kitatani, Asako Yamaguchi, Takayoshi Kinoshita, Hiroaki Adachi, Kazufumi Takano, Tsuyoshi Inoue, Yusuke Mori, Hiroyoshi Matsumura, Tatsuji Sakamoto, and Toshiji Tada
Acta Cryst., D67(5), 415-422 (2011). 2011.5

(126) Larser-induced nucleation in protein crystallization: Local increase in protein concentration induced by femtosecond laser irradiation
Natsuko Iefuji, Ryota Murai, Mihoko Maruyama, Yoshinori Takahashi, Shigeru Sugiyama, Hiroaki Adachi, Hiroyoshi Matsumura, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
J. Cryst. Growth, 318(1), 741-744 (2011). 2011.3

(125) Effect of evaporation on protein crystals grown in semi-solid agarose hydrogel
Shigeru Sugiyama, Mika Hirose, Noriko Shimizu, Mayumi Niiyama, Mihoko Maruyama, Gen Sazaki, Ryota Murai, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, and Hiroyoshi Matsumura*
Jpn. J. Appl. Phys., 50(2), 025502 (2011). 2011.2

(124) Structure of the inhibitor complex of old yellow enzyme from Trypanosoma crusi
Keishi Yamaguchi, Naoki Okamoto, Keiji Tokuoka, Shigeru Sugiyama, Nahoko Uchiyama, Hiroyoshi Matsumura, Koji Inaka, Yoshihiro Urade, and Tsuyoshi Inoue
J. Synchrotron Radiat., 18(1), 66-69 (2011). 2011.1

(123) Approach for growth of high-quality and large protein crystals
Hiroyoshi Matsumura*, Shigeru Sugiyama, Mika Hirose, Keisuke Kakinouchi, Mihoko Maruyama, Ryota Murai, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Yusuke Mori, and Tsuyoshi Inoue
J. Synchrotron Radiat., 18(1), 16-19 (2011). 2011.1

(122) Conformational plasticity of RNA for target recognition as revealed by the 2.15 Å crystal structure of a human IgG-aptamer complex
Yusuke Nomura, Shigeru Sugiyama, Taiichi Sakamoto, Shin Miyakawa, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, Yoshikazu Nakamura*, and Hiroyoshi Matsumura*
Nucleic Acids Res., 38(21), 7822-7829 (2010). 2010.11

(121) Estimated effects of silicone glue on protein crystal growth
Mihoko Maruyama, Noriko Shimizu, Shigeru Sugiyama, Yoshinori Takahashi, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Hiroyoshi Matsumura, and Yusuke Mori
J. Cryst. Growth, 312(19), 2771-2774 (2010). 2010.9

(120) Substrate-induced closing of active site revealed by crystal structure of pantothenate synthetase from Staphylococcus aureus
Atsuko Satoh, Saki Konishi, Haruka Tamura, Hannah G. Stickland, Heather M. Whitney, Alison G. Smith, Hiroyoshi Matsumura*, and Tsuyoshi Inoue
Biochemistry, 49(30), 6400-6410 (2010). 2010.8

(119) Growth of large protein crystals by a large-scale hanging drop method
Keisuke Kakinouchi, Tsutomu Nakamura, Taro Tamada, Hiroaki Adachi, Shigeru Sugiyama, Mihoko Maruyama, Yoshinori Takahashi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Ryota Kuroki, Yusuke Mori, and Hiroyoshi Matsumura*
J. Appl. Cryst., 43(4), 937-939 (2010). 2010.8

(118) Crystal growth procedure of HIV-1 protease-inhibitor KNI-272 complex for neutron structural analysis at 1.9 Å resolution
Noriko Shimizu, Shigeru Sugiyama, Mihoko Maruyama, Yoshinori Takahashi, Motoyasu Adachi, Taro Tamada, Koushi Hidaka, Tooru Kimura, Yoshiaki Kiso, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Ryota Kuroki, Yusuke Mori, and Hiroyoshi Matsumura*
Cryst. Growth Des., 10(7), 2990-2994 (2010). 2010.7

(117) X-ray crystallographic and MD simulation studies on the interfacial activation mechanism of a family I.3 lipase with two lids
Clement Angkawidjaja, Hiroyoshi Matsumura, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
J. Mol. Biol., 400(1), 82-95 (2010). 2010.7

(116) Molecular resolution investigation of tetragonal lysozyme (110) face in liquid by FM-AFM
Ken Nagashima, Masayuki Abe, Seizo Morita, Noriaki Oyabu, Kei Kobayashi, Hirofumi Yamada, Masahiro Ohta, Ryohei Kokawa, Ryota Murai, Hiroyoshi Matsumura, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, and Yusuke Mori
J. Vac. Sci. Technol. B, 28(3), C4C11-C4C14 (2010). 2010.5

(115) An evolutionally conserved Lys122 is essential for function in Rhodospirillum rubrum bona fide RuBisCO and Bacillus subtilis RuBisCO-like protein
Toshihirdo Nakano, Hiroki Ashida, Eiichi Mizohata, Hiroyoshi Matsumura, and Akiho Yokota
Biochem. Bioph. Res. Co., 392(2), 212-216 (2010). 2010.2

(114) Enhancement of femtosecond laser-induced nucleation of protein in a gel solution
Ryota Murai, Hiroshi Y. Yoshikawa, Yoshinori Takahashi, Mihoko Maruyama, Shigeru Sugiyama, Gen Sazaki, Hiroaki Adachi, Kazufumi Takano, Hiroyoshi Matsumura, Satoshi Murakami, Tsuyoshi Inoue, and Yusuke Mori
Appl. Phys. Lett., 96(4), 043702 (2010). 2010.1

(113) Crystal structure of peroxiredoxin from Aeropyrum pernix K1 complexed with its substrate hydrogen peroxide
Tsutomu Nakamura, Yuji Kado, Takafumi Yamaguchi, Hiroyoshi Matsumura, Kazuhiko Ishikawa, and Tsuyoshi Inoue
J. Biochem., 147(1), 109-115 (2010), 2010.1

(112) Femtosecond laser processing of protein crystals grown in agarose gel
Hitoshi Hasenaka, Shigeru Sugiyama, Mika Hirose, Noriko Shimizu, Tomoya Kitatani, Yoshinori Takahashi, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, and Hiroyoshi Matsumura*
J. Cryst. Growth, 312(1), 73-78 (2009). 2009.12

(111) Promotion of crystal nucleation of protein by semi-solid agarose gel
Kana Tanabe, Mika Hirose, Ryota Murai, Shigeru Sugiyama, Noriko Shimizu, Mihoko Maruyama, Yoshinori Takahashi, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Yusuke Mori, Eiichi Mizohata, Tsuyoshi Inoue, and Hiroyoshi Matsumura*
Appl. Phys. Express, 2(12), 125501 (2009). 2009.12

(110) Growth of large protein crystals by top-seeded solution growth together with floating and solution-stirring technique
Noriko Shimizu, Shigeru Sugiyama, Mihoko Maruyama, Hiroshi Y. Yoshikawa, Yoshinori Takahashi, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Hiroyoshi Matsumura*, and Yusuke Mori
Cryst. Growth Des., 9(12), 5227-5232 (2009). 2009.12

(109) Functional roles of a structural element involving Na⁺-π interactions in the catalytic site of T1 lipase revealed by molecular dynamics simulations
Yohsuke Hagiwara, Hiroyoshi Matsumura, and Masaru Tateno
J. Am. Chem. Soc., 131(46), 16697-16705 (2009). 2009.11

(108) A manipulating tool for protein microcrystals in solution using adhesive materials
Tomoya Kitatani, Hiroaki Adachi, Shigeru Sugiyama, Hiroyoshi Matsumura, Ryota Murai, Yoshinori Takahashi, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, and Kazufumi Takano
Jpn. J. Appl. Phys., 48(11), 11801 (2009). 2009.11

(107) Requirement of a unique Ca²⁺-binding loop for folding of Tk-subtilisin from a hyperthermophilic archaeon
Yuki Takeuchi, Shun-ichi Tanaka, Hiroyoshi Matsumura, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
Biochemistry, 48(44), 10637-10643 (2009). 2009.10

(106) Femtosecond laser processing of agarose gel surrounding protein crystals for the development of an automated crystal capturing system
Shigeru Sugiyama, Hitoshi Hasenaka, Mika Hirose, Tomoya Kitatani, Yoshinori Takahashi, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Yusuke Mori, Tsuyoshi Inoue, and Hiroyoshi Matsumura*
Jpn. J. Appl. Phys., 48(10), 105502 (2009). 2009.10

(105) Structure of the apo, decarbamylated form of 2,3-diketo-5-methylthiopentyl-1-phosphate enolase from Bacillus subtilis
Haruka Tamura, Yohtaro Saito, Hiroki Ashida, Yasushi Kai, Tsuyoshi Inoue, Akiho Yokota, and Hiroyoshi Matsumura*
Acta Cryst., D65(9), 942-951 (2009). 2009.8

(104) Protein crystallization in agarose gel with high strength: Developing an automated system for protein crystallographic processes
Shigeru Sugiyama, Kana Tanabe, Mika Hirose, Tomoya Kitatani, Hitoshi Hasenaka, Yoshinori Takahashi, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Yusuke Mori, Tsuyoshi Inoue, and Hiroyoshi Matsumura*
Jpn. J. Appl. Phys., 48(7), 075502-1-075502-5 (2009). 2009.7

(103) Identification of the interactions critical for propeptide-catalyzed folding of Tk-subtilisin
Shun-ichi Tanaka, Hiroyoshi Matsumura, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
J. Mol. Biol., 394(2), 306-319 (2009). 2009.5

(102) Mechanistic insights into the hydrolysis and synthesis of ceramide by neutral ceramidase
Tsuyoshi Inoue, Nozomu Okino, Yoshimitsu Kakuta, Atsushi Hijikata, Hiroyuki Okano, Hatsumi M. Goda, Motohiro Tani, Noriyuki Sueyoshi, Kouji Kambayashi, Hiroyoshi Matsumura, Yasushi Kai, and Makoto Ito
J. Biol. Chem. 284(14), 9566-9577 (2009). 2009.4

(101) Structure of HIV-1 protease in complex with potent inhibitor KNI-272 determined by high-resolution X-ray and neutron crystallography
Motoyasu Adachi, Takashi Ohhara, Kazuo Kurihara, Taro Tamada, Eijiro Honjo, Nobuo Okazaki, Shigeki Arai, Yoshinari Shoyama, Kaname Kimura, Hiroyoshi Matsumura, Shigeru Sugiyama, Hiroaki Adachi, Kazufumi Takano, Yusuke Mori, Koushi Hidaka, Tooru Kimura, Yoshio Hayashi, Yoshiaki Kiso, and Ryota Kuroki
Proc. Natl. Acad. Sci. USA, 106(12), 4641-4646 (2009). 2009.3

(100) Crystallization and preliminary X-ray analysis of 2,3-diketo-5-methylthiopentyl-1-phosphate enolase from Bacillus subtilis
Haruka Tamura, Hiroki Ashida, Yohtaro Saito, Shogo Koga, Tomonori Yadani, Yasushi Kai, Akiho Yokota, Tsuyoshi Inoue, and Hiroyoshi Matsumura*
Acta Cryst., F65(2), 147-150 (2009). 2009.2

(99) Femtosecond laser-induced nucleation of protein in agarose gel
Hiroshi Y. Yoshikawa, Ryota Murai, Shigeru Sugiyama, Gen Sazaki, Tomoya Kitatani, Yoshinori Takahashi, Hiroaki Adachi, Hiroyoshi Matsumura, Satoshi Murakami, Tsuyoshi Inoue, Kazufumi Takano, and Yusuke Mori
J. Cryst. Growth, 311(3), 956-959 (2009). 2009.1

(98) Destabilization of psychrotrophic RNase HI in a localized fashion as revealed by mutational and X-ray crystallographic analyses
Muhammad Saifur Rohman, Takashi Tadokoro, Clement Angkawidjaja, Yumi Abe, Hiroyoshi Matsumura, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
FEBS J., 276(2), 603-613 (2009). 2009.01

(R17) Protein crystallization using femtosecond laser irradiation and solution stirring
Kazufumi Takano, Hiroshi Y. Yoshikawa, Tomoya Kitatani, Shigeru Sugiyama, Yoshinori Takahashi, Ryota Murai, Syou Maki, Hiroaki Adachi, Hiroyoshi Matsumura, Tsuyoshi Inoue, Satoshi Murakami, and Yusuke Mori
Curr. Topics in Peptide & Protein Res. 9, 1-9 (2008). 2008.12

(97) Evaluation and improvement of a technique to manipulate protein crystals in solution
Tomoya Kitatani, Hiroaki Adachi, Shigeru Sugiyama, Hiroyoshi Matsumura, Ryota Murai, Yoshinori Takahashi, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, and Kazufumi Takano
Jpn. J. Appl. Phys., 47(12), 8995-8997 (2008). 2008.12

(96) Importance of the Ca²⁺-binding sites in the N-catalytic domain of a family I.3 lipase for activity and stability
Katsumasa Kuwahara, Clement Angkawidjaja, Hiroyoshi Matsumura, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
Protein Eng. Des. Sel., 21(12), 737-744 (2008). 2008.12

(95) Crystallization and preliminary X-ray crystallographic analysis of Ca²⁺-free primary Ca²⁺-sensor of Na⁺/Ca²⁺ exchanger
Masashi Mima, Chika Kawai, Kumsun Paku, Koji Tomoo, Shigeru Sugiyama, Hiroyoshi Matsumura, Tomoya Kitatani, Hiroshi Y. Yoshikawa, Sho Maki, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, Satomi Kita, and Takahiro Iwamoto
Acta Cryst., F64(12), 1125-1127 (2008). 2008.12

(94) Laser energy dependence on femtosecond laser-induced nucleation of protein
Hiroshi Y. Yoshikawa, Ryota Murai, Syou Maki, Tomoya Kitatani, Shigeru Sugiyama, Gen Sazaki, Hiroaki Adachi, Tsuyoshi Inoue, Hiroyoshi Matsumura, Kazufumi Takano Satoshi Murakami, Takatomo Sasaki, and Yusuke Mori
Appl. Phys. A, 93(4), 911-915 (2008). 2008.12

(93) Crystal structure of Tk-subtilisin folded without propeptide: requirement of propeptide for acceleration of folding
Shun-ichi Tanaka, Yuki Takeuchi, Hiroyoshi Matsumura, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
FEBS Lett., 582(28), 3875-3878 (2008). 2008.11

(92) Crystallization and preliminary neutron diffraction studies of HIV-1 protease cocrystallized with inhibitor KNI-272
Hiroyoshi Matsumura, Motoyasu Adachi, Shigeru Sugiyama, Shino Okada, Megumi Yamakami, Taro Tamada, Koushi Hidaka, Yoshio Hayashi, Tooru Kimura, Yoshiaki Kiso, Tomoya Kitatani, Sho Maki, Hiroshi Y. Yoshikawa, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Ryota Kuroki, and Yusuke Mori
Acta Cryst., F64(11), 1003-1006 (2008). 2008.11

(91) Crystallization and preliminary X-ray diffraction studies of an RNA aptamer in complex with the human IgG Fc fragment
Shigeru Sugiyama, Yusuke Nomura, Taiichi Sakamoto, Tomoya Kitatani, Asako Kobayashi, Shin Miyakawa, Yoshinori Takahashi, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, Yoshikazu Nakamura, and Hiroyoshi Matsumura*
Acta Cryst., F64(10), 942-944 (2008). 2008.10

(90) Maize C4-form phosphoenolpyruvate carboxylase engineered to be functional in C3 plants: mutations for diminished sensitivity to feedback inhibitors and for increased substrate affinity
Tatsuya Endo, Yuko Mihara, Tsuyoshi Furumoto, Hiroyoshi Matsumura, Yasushi Kai, and Katsura Izui
J. Exp. Bot., 59(7), 1811-1818 (2008). 2008.5

(89) Crystal structure of highly thermostable glycerol kinase from a hyperthermophilic archaeon in a dimeric form
Yuichi Koga, Ryota Katsumi, Dong-Ju You, Hiroyoshi Matsumura, Kazufumi Takano, and Shigenori Kanaya
FEBS Journal, 275(10), 2632-2643 (2008). 2008.5

(88) Protein crystallization in a 100 nl solution with new stirring equipment
Syou Maki, Ryota Murai, Hiroshi Y. Yoshikawa, Tomoya Kitatani, Shinya Nakata, Hisato Kawahara, Hitoshi Hasenaka, Asako Kobayashi, Shino Okada, Shigeru Sugiyama, Hiroaki Adachi, Hiroyoshi Matsumura, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Takatomo Sasaki, and Yusuke Mori
J. Synchrotron Radiat., 15(3), 269-272 (2008). 2008.5

(87) Oxidation of archaeal peroxiredoxin involves a hypervalent sulfur intermediate
Tsutomu Nakamura, Takahiko Yamamoto, Manabu Abe, Hiroyoshi Matsumura, Yoshihisa Hagihara, Tadashi Goto, Takafumi Yamaguchi, and Tsuyoshi Inoue
Proc. Natl. Acad. Sci. USA, 105(17), 6238-6242 (2008). 2008.4

(86) Effect of solution flow by rotary shaker on protein crystallization
Ryota Murai, Hideki Yoshikawa, Hisato Kawahara, Syo Maki, Shigeru Sugiyama, Tomoya Kitatani, Hiroaki Adachi, Kazufumi Takano, Hiroyoshi Matsumura, Satoshi Murakami, Tsuyoshi Inoue, Takatomo Sasaki, and Yusuke Mori
J. Cryst. Growth, 310(7-9), 2168-2172 (2008). 2008.4

(85) New technique of manipulating a protein crystal using adhesive materials
Tomoya Kitatani, Shigeru Sugiyama, Hiroyoshi Matsumura, Hiroaki Adachi, Hiroshi Y. Yoshikawa, Syou Maki, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, and Kazufumi Takano
Appl. Phys. Express, 1(3), 037002 (2008). 2008.3

(P6) Crystal structure of amyloid beta fragment
Kazufumi Takano, Yoshiki Takeda, Dong-Ju You, Atsushi Mukaiyama, Hiroyoshi Matsumura, Yuichi Koga, and Shigenori Kanaya
New Trends in Alzheimer and Parkinson Related Disorders, 153-156 (2008). 2008

(84) Novel cation-pi interaction revealed by crystal structure of thermoalkalophilic lipase
Hiroyoshi Matsumura*, Takahiko Yamamoto, Thean Chor Leow, Tadashi Mori, Abu Bakar Salleh, Mahiran Basri, Tsuyoshi Inoue, Yasushi Kai, and Raja Noor Zaliha Raja Abd Rahman
Proteins, 70(2), 592-598 (2008). 2008.2

(83) Structural basis for the decarboxylation of orotidine 5'-monophosphate (OMP) by Plasmodium falciparum OMP decarboxylase
Keiji Tokuoka, Yukiko Kusakari, Sudaratana R. Krungkrai, Hiroyoshi Matsumura, Toshihiro Horii, and Tsuyoshi Inoue
J. Biochem., 143(1), 69-78 (2008). 2008.1

(82) Crystal structure of 5-methylthioribose 1-phosphate isomerase product complex from Bacillus subtilis: Implications for catalytic mechanism
Haruka Tamura, Yohtaro Saito, Hiroki Ashida, Tsuyoshi Inoue, Yasushi Kai, Akiho Yokota, and Hiroyoshi Matsumura*
Protein Sci., 17(1), 126-135 (2008). 2008.1

(81) Requirement of left-handed glycine residue for high stability of the Tk-subtilisin propeptide as revealed by mutational and crystallographic analyses
Marian Pulido, Shun-ichi Tanaka, Chutima Sringiew, Dong-ju You, Hiroyoshi Matsumura, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
J. Mol. Biol., 374(5), 1359-1373 (2007). 2007.12

(80) Crystal structure of a family I.3 lipase from Pseudomonas sp. MIS38 in a closed conformation
Clement Angkawidjaja, Dong-ju You, Hiroyoshi Matsumura, Katsumasa Kuwaara, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
FEBS Lett., 581(26), 5060-5064 (2007). 2007.10

(79) Preparation, crystallization and preliminary crystallographic analysis of old yellow enzyme from Trypanosoma cruzi
Shigeru Sugiyama, Keiji Tokuoka, Nahoko Uchiyama, Naoki Okamoto, Yousuke Okano, Hiroyoshi Matsumura, Koji Inaka, Yoshihiro Urade, and Tsuyoshi Inoue
Acta Cryst., F63(10), 896-898 (2007). 2007.10

(78) Four new crystal structures of Tk-subtilisin in unautoprocessed, autoprocessed and mature forms: insight in structural changes during maturation process
Shun-ichi Tanaka, Hiroyoshi Matsumura, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
J. Mol. Biol., 372(4), 1055-1069 (2007). 2007.9

(77) Enzymatic characterization of 5-methylthioribose 1-phosphate isomerase from Bacillus subtilis
Yohtaro Saito, Hiroki Ashida, Chojiro Kojima, Haruka Tamura, Hiroyoshi Matsumura, Yasushi Kai, and Akiho Yokota
Biosci. Biotechnol. Biochem., 71(8), 2021-2028 (2007). 2007.8

(76) Conformational contagion in a protein: Structural properties of a chameleon sequence
Kazufumi Takano, Yoshiaki Katagiri, Atsushi Mukaiyama, Hyongi Chon, Hiroyoshi Matsumura, Yuichi Koga, and Shigenori Kanaya
Proteins, 68(3), 617-625 (2007). 2007.8

(75) Structural, thermodynamic, and mutational analyses of a psychrotrophic RNase HI
Takashi Tadokoro, Dong-Ju You, Yumi Abe, Hyongi Chon, Hiroyoshi Matsumura, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
Biochemistry, 46(25), 7460-7468 (2007). 2007.6

(74) Femtosecond laser-induced cleaving of protein crystal in water solution
Masafumi Kashii, Yoichiro Hosokawa, Hiroshi Kitano, Hiroaki Adachi, Yusuke Mori, Kazufumi Takano, Hiroyoshi Matsumura, Tsuyoshi Inoue, Satoshi Murakami, Kazuomi Sugamoto, Hiroshi Yoshikawa, Takatomo Sasaki, and Hiroshi Masuhara
Appl. Sur. Sci., 253(15), 6447-6450 (2007). 2007.5

(73) Structure and function of a hexameric copper-containing nitrite reductase
Masaki Nojiri, Yong Xie, Tsuyoshi Inoue, Takahiko Yamamoto, Hiroyoshi Matsumura, Kunishige Kataoka, Deligeer, Kazuya Yamaguchi, Yasushi Kai, and Shinnichiro Suzuki
Proc. Natl. Acad. Sci. USA, 104(11), 4315-4320 (2007). 2007.3

(72) Crystal structure of unautoprocessed precursor of subtilisin from a hyperthermophilic archaeon: Evidence for Ca²⁺-induced folding
Shun-ichi Tanaka, Kenji Saito, Hyongi Chon, Hiroyoshi Matsumura, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
J. Biol. Chem., 282(11), 8246-8255 (2007). 2007.3

(71) Extracellular overproduction and preliminary crystallographic analysis of a family I.3 lipase
Clement Angkawidjaja, Dong-Ju You, Hiroyoshi Matsumura, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
Acta Cryst., F63(3), 187-189 (2007). 2007.3

(P5) Drug development value chain constructed by collaboration between the SOSHO project and the NPO BIOGRID
Tsuyoshi Inoue, Yuji Kado, Keiji Tokuoka, Hiroyoshi Matsumura, Yasushi Kai, Yusuke Mori, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Yoshifumi Fukunishi, Haruki Nakamura, Takayoshi Kinoshita, Isao Nakanishi, Yasushi Okuno, Satoshi Minakata, and Tsuneaki Sakata
AIP CONFERENCE PROCEEDINGS, 902, 85-88 (2007). 2007.3

(P4) Development of protein crystallization and processing: Femtosecond laser, all solid-state 193 nm laser, and solution stirring techniques
Yusuke Mori, Kazufumi Takano, Hiroaki Adachi, Tsuyoshi Inoue, Satoshi Murakami, Hiroyoshi Matsumura, Masafuki Kashii, Hiroshi Y. Yoshikawa, Syou Maki, Tomoya Kitatani, Shino Okada, and Takatomo Sasaki
Proceedings of SPIE, 6460, 646008-1-10 (2007). 2007.3

(70) Crystallization and preliminary X-ray diffraction study of glycerol kinase from hyperthermophilic archaeon Thermococcus kodakaraensis
Ryota Katsumi, Yuichi Koga, Dong-Ju You, Hiroyoshi Matsumura, Kazufumi Takano, and Shigenori Kanaya
Acta Cryst., F63(2), 126-129 (2007). 2007.2

(69) Application of femtosecond laser ablation for detaching grown protein crystals from a glass capillary tube
Masafumi Kashii, Ryo Fujisawa, Hiroaki Adachi, Yusuke Mori, Takatomo Sasaki, Yuichi Koga, Kazufumi Takano, Shigenori Kanaya, Hiroyoshi Matsumura, Tsuyoshi Inoue, Satoshi Murakami, Kazuomi Sugamoto, and Hideki Yoshikawa
J. Biosci. Bioeng., 102(4), 372-374 (2006). 2006.11

(68) Crystallization and preliminary X-ray diffraction study of active-site mutant of pro-Tk-subtilisin from a hyperthermophilic archaeon
Shun-ichi Tanaka, Kenji Saito, Hyongi Chon, Hiroyoshi Matsumura, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
Acta Cryst., F62(9), 902-905 (2006). 2006.9

(67) A novel mechanism of allosteric regulation of archaeal phosphoenolpyruvate carboxylase: A combined approach to structure-based alignment and model assessment
Hiroyoshi Matsumura, Katsura Izui, and Kenji Mizuguchi
Protein Eng. Des. Sel., 19(9), 409-419 (2006). 2006.9

(66) Effect of ultrasonic irradiation on protein crystallization
Keisuke Kakinouchi , Hiroaki Adachi, Hiroyoshi Matsumura, Tsuyoshi Inoue, Satoshi Murakami, Yusuke Mori, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
J. Cryst. Growth, 292(2), 437-440 (2006). 2006.7

(65) Cooling-rate screening system for determining protein crystal growth conditions
Ryota Murai, Shinya Nakata, Masafumi Kashii, Hiroaki Adachi, Ai Niino, Kazufumi Takano, Hiroyoshi Matsumura, Satoshi Murakami, Tsuyishi Inoue, Yusuke Mori, and Takatomo Sasaki
J. Cryst. Growth, 292(2), 433-436 (2006). 2006.7

(64) Crystallization and preliminary crystallographic analysis of orotidine 5'-monophosphate decarboxylase from the human malaria parasite Plasmodium falciparum
Sudaratana R. Krungkrai, Keiji Tokuoka, Yukiko Kusakari, Tsuyoshi Inoue, Hiroaki Adachi, Hiroyoshi Matsumura, Kazufumi Takano, Satoshi Murakami, Yusuke Mori, Yasushi Kai, Jerapan Krungkrai, and Toshihiro Horii
Acta Cryst., F62(6), 542-545 (2006). 2006.6

(63) Crystal structure of intein homing endonuclease II encoded in DNA polymerase gene from hyperthermophilic archaeon Thermococcus kodakaraensis strain KOD1
Hiroyoshi Matsumura, Hitomi Takahashi, Tsuyoshi Inoue, Takahiko Yamamoto, Hiroshi Hashimoto, Motomu Nishioka, Shinsuke Fujiwara, Masahiro Takagi, Tadayuki Imanaka, and Yasushi Kai
Proteins, 63(3), 711-715 (2006). 2006.5

(62) Purification, crystallization and preliminary X-ray diffraction of SecDF, a translocon-associated membrane protein, from Thermus thermophilus
Tomoya Tsukazaki, Hiroyuki Mori, Shuya Fukai, Tomoyuki Numata, Anna Perederina, Hiroaki Adachi, Hiroyoshi Matsumura, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, Takatomo Sasaki, Dmitry G. Vassylyev, Osamu Nureki, and Koreaki Ito
Acta Cryst., F62(4), 376-380 (2006). 2006.4

(61) Crystallization and preliminary X-ray analysis of the tRNA thiolation enzyme MnmA from Escherichia coli complexed with tRNA^Glu
Tomoyuki Numata, Yoshiho Ikeuchi, Shuya Fukai, Hiroaki Adachi, Hiroyoshi Matsumura, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, Takatomo Sasaki, Tsutomu Suzuki, and Osamu Nureki
Acta Cryst., F62(4), 368-371 (2006). 2006.4

(60) Crystal structure of thioredoxin peroxidase from aerobic hyperthermophilic archaeon, Aeropyrum pernix K1
Tsutomu Nakamura, Takahiko Yamamoto, Tsuyoshi Inoue, Hiroyoshi Matsumura, Atsuko Kobayashi, Yoshihisa Hagihara, Koichi Uegaki, Mitsuo Ataka, Yasushi Kai, and Kazuhiko Ishikawa
Proteins, 62(3), 822-826 (2006). 2006.3

(59) Crystal structure and structure-based mutational analyses of RNase HIII from Bacillus stearothermophilus: A new type 2 RNase H with TBP-like substrate-binding domain at the N-terminus
Hyongi Chon, Hiroyoshi Matsumura, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
J. Mol. Biol., 356(1), 165-178 (2006). 2006.2

(58) Solution-stirring method improves crystal quality of human triosephosphate isomerase
Hiroaki Adachi, Ai Niino, Takayoshi Kinoshita, Masaichi Warizaya, Riyo Maruki, Kazufumi Takano, Hiroyoshi Matsumura, Tsuyoshi Inoue, Satoshi Murakami, Yusuke Mori, and Takatomo Sasaki
J. Biosci. Bioeng., 101(1), 83-86 (2006). 2006.1

(57) Structure of amyloid β fragments in aqueous environments
Kazufumi Takano, Shuji Endo, Atsushi Mukaiyama, Hyongi Chon, Hiroyoshi Matsumura, Yuichi Koga, and Shigenori Kanaya
FEBS J., 273(1), 150-158 (2006). 2006.1

(56) Crystal structure of TBP-interacting protein (Tk-TIP26) and implications for its inhibition mechanism of the interaction between TBP and TATA-DNA
Takahiko Yamamoto, Tomoki Matsuda, Tsuyoshi Inoue, Hiroyoshi Matsumura, Masaaki Morikawa, Shigenori Kanaya, and Yasushi Kai
Protein Sci., 15(1), 152-161 (2006). 2006.1

(B2) Structural biology of membrane proteins: An introduction to detergents and their use in membrane protein studies
Fabien Walas, Hiroyoshi Matsumura and Ben Luisi
Royal Society of Chemistry (RSC) 72-95 (2006)

(55) Effect of laser irradiation on enzyme activity
Satoshi Murakami, Masafumi Kashii, Hiroshi Kitano, Hiroaki Adachi, Kazufumi Takano, Hiroyoshi Matsumura, Tsuyoshi Inoue, Yusuke Mori, Masaaki Doi, Kazuomi Sugamoto, Hideki Yoshikawa, and Takamoto Sasaki
Jpn. J. Appl. Phys., 44(11), 8216-8218 (2005). 2005.11

(54) Crystal structure of a human kynurenine aminotransferase II homologue from Pyrococcus horikoshii OT3 at 2.20 Å resolution
Hyongi Chon, Hiroyoshi Matsumura, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
Proteins, 61(3), 685-688 (2005). 2005.11

(53) Semiautomatic protein crystallization system featuring crystallization solution preparation function
Hiroaki Adachi, Hiroyoshi Matsumura, Tsuyoshi Inoue, Ai Niino, Kazufumi Takano, Satoshi Murakami, Yusuke Mori, and Takamoto Sasaki
Jpn. J. Appl. Phys., 44(8), 6302-6303 (2005). 2005.8

(52) Structural mechanism for coordination of proofreading and polymerase activities in archaeal DNA polymerases
Toshihiro Kuroita, Hiroyoshi Matsumura, Naohiko Yokota, Masao Kitabayashi, Hiroshi Hashimoto, Tsuyoshi Inoue, Tadayuki Imanaka, and Yasushi Kai
J. Mol. Biol., 351(2), 291-298 (2005). 2005.8

(51) Structural basis of compound recognition by adenosine deaminase
Takayoshi Kinoshita, Isao Nakanishi, Tadashi Terasaka, Masako Kuno, Nobuo Seki, Masaichi Warizaya, Hiroyoshi Matsumura, Tsuyoshi Inoue, Kazufumi Takano, Hiroaki Adachi, Yusuke Mori, and Takashi Fujii
Biochemistry, 44(31), 10562-10569 (2005). 2005.8

(50) Structural and mutational analysis of Trypanosoma brucei prostaglandin H₂ reductase provides insight into the catalytic mechanism of aldo-ketoreductases
Kubata Bruno Kilunga, Tsuyoshi Inoue, Yousuke Okano, Zakayi Kabututu, Samuel K. Martin, Michael Lazarus, Michael Duszenko, Yuichi Sumii, Yukiko Kusakari, Hiroyoshi Matsumura, Yasushi Kai, Shigeru Sugiyama, Kouji Inaka, Takashi Inui, and Yoshihiro Urade
J. Biol. Chem., 280(28), 26371-26382 (2005). 2005.7

(49) Processing of membrane protein crystal using ultraviolet laser irradiation
Hiroshi Kitano, Satoshi Murakami, Hiroaki Adachi, Hiroyoshi Matsumura, Kazufumi Takano, Tsuyoshi Inoue, Yusuke Mori, Masaaki Doi, and Takatomo Sasaki
J. Biosci. Bioeng., 100(1), 50-53 (2005). 2005.7

(48) Femtosecond laser processing of protein crystals in crystallization drop
Masafumi Kashii, Hiroshi Kitano, Yoichiroh Hosokawa, Hiroaki Adachi, Yusuke Mori, Takamoto Sasaki, Hiroshi Masuhara, Kazufumi Takano, Hiroyoshi Matsumura, Tsuyoshi Inoue, Satoshi Murakami, Kazuomi Sugimoto, and Hideki Yoshikawa
Jpn. J. Appl. Phys., 44(27), L873-L875 (2005). 2005.6

(47) Temperature-screening system for determining protein crystallization conditions
Hiroaki Adachi, Ai Niino, Kazufumi Takano, Hiroyoshi Matsumura, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, and Takatomo Sasaki
Jpn. J. Appl. Phys., 44(6A), 4080-4083 (2005). 2005.6

(46) Crystallization and preliminary X-ray analysis of methylthioribose-1-phosphate isomerase from Bacillus subtilis
Haruka Tamura, Hiroyoshi Matsumura, Tsuyoshi Inoue, Hiroki Ashida, Yohtaro Saito, Akiho Yokota, and Yasushi Kai
Acta Cryst., F61(6), 595-598 (2005). 2005.6

(45) Solution stirring initiates nucleation and improves the quality of adenosine deaminase crystals
Hiroaki Adachi, Kazufumi Takano, Ai Niino, Hiroyoshi Matsumura, Takayoshi Kinoshita, Masaichi Warizaya, Tsuyoshi Inoue, Yusuke Mori, and Takatomo Sasaki
Acta Cryst., D61(6), 759-762 (2005). 2005.4

(44) Protein crystal growth using laser-processed seed crystals
Kengo Takeuchi, Hiroshi Kitano, Hiroaki Adachi, Yusuke Mori, Takatomo Sasaki, Hiroyoshi Matsumura, Tsuyoshi Inoue, Satoshi Murakami, Masaaki Doi, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
Jpn. J. Appl. Phys., 44(5A), 3177-3179 (2005). 2005.5

(43) Structural reorganization of the copper binding site involving Thr¹⁵ of mavicyanin from Cucurbita pepo medullosa (Zucchini) upon reduction
Yong Xie, Tsuyoshi Inoue, Youichi Miyamoto, Hiroyoshi Matsumura, Kunisige Kataoka, Kazuya Yamaguchi, Masaki Nojiri, Shinnichiro Suzuki, and Yasushi Kai
J. Biochem., 137(4), 455-461 (2005). 2005.4

(42) The crystal structure of the outer membrane protein VceC from the bacterial pathogen Vibrio cholerae at 1.8 Å resolution
Luca Federici, Dijun Du, Fabien Walas, Hiroyoshi Matsumura, Juan Fernandez-Recio, Kenneth S. McKeegan, M. Ines Borges-Walmsley, Ben F. Luisi, and Adrian R. Walmsley
J. Biol. Chem., 280(15), 15307-15314 (2005). 2005.4

(41) Crystallization and preliminary X-ray diffraction analysis of thioredoxin peroxidase from the aerobic hyperthermophilic archaeon Aeropyrum pernix K1
Tsutomu Nakamura, Hiroyoshi Matsumura, Tsuyoshi Inoue, Yasushi Kai, Koichi Uegaki, Yoshihisa Hagihara, Mitsuo Ataka, and Kazuhiko Ishikawa
Acta Cryst., F61(3), 323-325 (2005). 2005.4

(40) Overproduction and preliminary crystallographic study of a human kynurenine aminotransferase II homologue from Pyrococcus horikoshii OT3
Hyongi Chon, Hiroyoshi Matsumura, Shoko Shimizu, Nao Maeda, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
Acta Cryst., F61(3), 319-322 (2005). 2005.4

(39) Crystallization and preliminary X-ray diffraction study of thermostable RNase HIII from Bacillus stearothermophilus
Hyongi Chon, Hiroyoshi Matsumura, Yuichi Koga, Kazufumi Takano, and Shigenori Kanaya
Acta Cryst., F61(3). 293-295 (2005). 2005.4

(38) Protein crystallization by combining laser irradiation and solution-stirring techniques
Hiroaki Adachi, Ai Niino, Satoshi Murakami, Kazufumi Takano, Hiroyoshi Matsumura, Takayoshi Kinoshita, Masaichi Warizaya, Tsuyoshi Inoue, Yusuke Mori, and Takatomo Sasaki
Jpn. J. Appl. Phys., 4(3)4, 1365-1366 (2005). 2005.3

(37) Maize phosphoenolpyruvate carboxylase: Mutations at the putative binding site for glucose 6-phosphate caused desensitization and abolished responsiveness to regulatory phosphorylation
Akiko Takahashi-Terada, Masaaki Kotera, Kenta Ohshima, Tsuyoshi Furumoto, Hiroyoshi Matsumura, Yasushi Kai, and Katsura Izui
J. Biol. Chem. 280(12), 11798-11806 (2005). 2005.3

(36) Identification of single Mn²⁺ binding sites required for activation of the mutant proteins of E. coli RNase HI at Glu48 and/or Asp134 by X-ray crystallography
Yasuo Tsunaka, Kazufumi Takano, Hiroyoshi Matsumura, Yuriko Yamagata, and Shigenori Kanaya
J. Mol. Biol., 345(5), 1171-1183 (2005). 2005.2

(35) Protein cryocrystallography using laser-processed crystal
Hiroshi Kitano, Hiroyoshi Matsumura, Hiroaki Adachi, Satoshi Murakami, Kazufumi Takano, Tsuyoshi Inoue, Yusuke Mori, Masaaki Doi, and Takatomo Sasaki
Jpn. J. Appl. Phys., 44(2), L54-L56 (2005). 2004.12

(34) Crystallization and preliminary X-ray crystallographic studies of dissimilatory nitrite reductase isolated from Hyphomicrobium denitrificans A3151
Yong Xie, Tsuyoshi Inoue, Nozomu Seike, Hiroyoshi Matsumura, Koji Kanbayashi, Deligeer, Koushi Itoh, Kunisige Kataoka, Kazuya Yamaguchi, Shinnichiro Suzuki, and Yasushi Kai
Acta Cryst., D60(12-2), 2383-2386 (2004). 2004.12

(P3) Novel approach to process protein crystals using deep-UV laser
Hiroshi Kitano, Atsushi Sato, Atsutoshi Murakami, Hiroaki Adachi, Hiroyoshi Matsumura, Kazufumi Takano, Tsuyoshi Inoue, Yusuke Mori, Masaaki Doi, and Takatomo Sasaki
Proceedings of SPIE, 5662, p.280-284 (2004). 2004.10

(33) Control of protein crystal nucleation and growth using stirring solution
Ai Niino, Hiroaki Adachi, Kazufumi Takano, Hiroyoshi Matsumura, Takayoshi Kinoshita, Masaichi Warizaya, Tsuyoshi Inoue, Yusuke Mori, and Takatomo Sasaki
Jpn. J. Appl. Phys., 43(11A), L1442-L1444 (2004). 2004.10

(32) Membrane protein crystallization using laser irradiation
Hiroaki Adachi, Satoshi Murakami, Ai Niino, Hiroyoshi Matsumura, Kazufumi Takano, Tsuyoshi Inoue, Yusuke Mori, Akihito Yamaguchi, and Takatomo Sasaki
Jpn. J. Appl. Phys., 43(10B), L1376-L1378 (2004). 2004.10

(31) Effect of stirring method on protein crystallization
Mari Yaoi, Hiroaki Adachi, Kazufumi Takano, Hiroyoshi Matsumura, Tsuyoshi Inoue, Yusuke Mori, and Takatomo Sasaki
Jpn. J. Appl. Phys., 43(10A), L1318-L1319 (2004). 2004.9

(30) Application of UV-laser ablation to detaching protein crystal from growth vessel
Hiroshi Kitano, Hiroaki Adachi, Atsushi Sato, Atsutoshi Murakami, Hiroyoshi Matsumura, Kazufumi Takano, Tsuyoshi Inoue, Yusuke Mori, Masaaki Doi, and Takatomo Sasaki
Jpn. J. Appl. Phys., 43(10A), L1271-L1274 (2004). 2004.9

(29) Novel and simple screening methods for protein crystallization by vapor diffusion rate control
Hiroaki Adachi, Ai Niino, Hiroyoshi Matsumura, Kazufumi Takano, Tsuyoshi Inoue, Yusuke Mori, and Takatomo Sasaki
Jpn. J. Appl. Phys., 43(9A), 6264-6267 (2004). 2004.9

(28) Universal processing technique for protein crystals using pulsed UV laser
Atsutoshi Murakami, Hiroshi Kitano, Hiroaki Adachi, Hiroyoshi Matsumura, Kazufumi Takano, Tsuyoshi Inoue, Yusuke Mori, Masaaki Doi, and Takatomo Sasaki
Jpn. J. Appl. Phys., 43(7A), L873-L876 (2004). 2004.6

(27) Phosphoenolpyruvate carboxylase: a new era of structural biology
Katsura Izui, Hiroyoshi. Matsumura, Tsuyoshi Furumoto, and Yasushi Kai
Annu. Rev. Plant Biol., 55, 69-84 (2004). 2004.6

(26) Generation of protein crystals using a solution-stirring technique
Hiroaki Adachi, Ai Niino, Hiroyoshi Matsumura, Kazufumi Takano, Takayoshi Kinoshita, Masaichi Warizaya, Tsuyoshi Inoue, Yusuke Mori, and Takatomo Sasaki
Jpn. J. Appl. Phys., 43(6B), L762-L764 (2004). 2004.5

(25) Effects of solution stirring on protein crystal growth
Mari Yaoi, Hiroaki Adachi, Kazufumi Takano, Hiroyoshi Matsumura, Tsuyoshi Inoue, Yusuke Mori, and Takatomo Sasaki
Jpn. J. Appl. Phys., 43(5B), L686-L688 (2004). 2004.4

(24) First determination of the inhibitor complex structure of human hematopoietic prostaglandin D synthase
Tsuyoshi Inoue, Yousuke Okano, Yuji Kado, Kousuke Aritake, Daisuke Irikura, Nobuko Uodome, Nobuo Okazaki, Shigehiro Kinugasa, Hideyuki Shishitani, Hiroyoshi Matsumura, Yasushi Kai, and Yoshihiro Urade
J. Biochem., 135(3), 279-283 (2004). 2004.3

(23) Improving the quality of protein crystals using stirring crystallization
Hiroaki Adachi, Hiroyoshi Matsumura, Ai Niino, Kazufumi Takano, Takayoshi Kinoshita, Masaichi Warizaya, Tsuyoshi Inoue, Yusuke Mori, and Takatomo Sasaki
Jpn. J. Appl. Phys., 43(4B), L522-L525 (2004). 2004.3

(22) New approach to improve X-ray diffraction pattern of protein crystal using UV-laser ablative processing
Hiroshi Kitano, Hiroaki Adachi, Atsushi Murakami, Hiroyoshi Matsumura, Kazufumi Takano, Tsuyoshi Inoue, Yusuke Mori, Soichi Owa, and Takatomo Sasaki
Jpn. J. Appl. Phys., 43(2B), L297-L299 (2004). 2004.2

(21) Pre-stirring promotes nucleation of protein crystals
Hiroaki Adachi, Ai Niino, Hiroyoshi Matsumura, Kazufumi Takano, Tsuyoshi Inoue, Yusuke Mori, and Takatomo Sasaki
Jpn. J. Appl. Phys., 43(2B), L243-L246 (2004). 2004.1

(20) Protein crystal growth with a two-liquid system and stirring solution
Hiroaki Adachi, Kazufumi Takano, Hiroyoshi. Matsumura, Tsuyoshi Inoue, Yusuke Mori, and Takatomo Sasaki
J. Synchrotron Radiat., 11(1), 121-124 (2004). 2004.1

(19) Two-liquid hanging-drop vapor-diffusion technique of protein crystallization
Hiroaki Adachi, Hiroyoshi Matsumura, Kazufumi Takano, Ai Niino, Tsuyoshi Inoue, Yusuke Mori, and Takatomo Sasaki
Jpn. J. Appl. Phys., 43(1A/B), L79-L81 (2004). 2004.1

(18) A semiautomatic protein crystallization system with preventing evaporation of drops and surface sensor of solution
Hiroaki Adachi, Kazufumi Takano, Hiroyoshi Matsumura, Ai Niino, Takeshi Ishizu, Tsuyoshi Inoue, Yusuke Mori, and Takatomo Sasaki
Jpn. J. Appl. Phys., 43(1A/B), L76-L78 (2004). 2004.1

(17) Protein crystal processing using a deep-UV laser
Hiroshi Kitano, Hiroaki Adachi, Atsutoshi Murakami, Hiroyoshi Matsumura, Kazufumi Takano, Tsuyoshi Inoue, Yusuke Mori, Soichi Owa, and Takatomo Sasaki
Jpn. J. Appl. Phys., 43(1A/B), L73-L75 (2004). 2004.1

(16) The significance of the flexible loop in the azurin (Az-iso2) from the obligate methylotroph Methylomonas sp. strain J
Tsuyoshi Inoue, Shinnichiro Suzuki, Nobuya Nishio, Kazuya Yamaguchi, Kunishige Kataoka, Jiro Tobari, Yong Xie, Sawako Hamanaka, Hiroyoshi Matsumura, and Yasushi Kai
J. Mol. Biol., 333(1), 117-124 (2003). 2003.10

(15) New practical technique for protein crystallization with floating and stirring methods
Hiroaki Adachi, Hiroyoshi Matsumura, Kazufumi Takano, Ai Niino, Tsuyoshi Inoue, Masashi Yoshimura, Yusuke Mori, and Takatomo Sasaki
Jpn. J. Appl. Phys., 42(2,10A), L1161-L1163 (2003). 2003.10

(14) Crystallization and preliminary X-ray crystallographic studies of mavicyanin from Cucurbita pepo medullosa
Yong Xie, Tsuyoshi Inoue, Youichi Miyamoto, Hiroyoshi Matsumura, Kunishige Kataoka, Kazuya Yamaguchi, Shinnichiro Suzuki, and Yasushi Kai
Acta Cryst., D59(8), 1474-1476 (2003). 2003.8

(13) Laser irradiated growth of protein crystal
Hiroaki Adachi, Kazufumi Takano, Youichiroh Hosokawa, Tsuyoshi Inoue, Yusuke Mori, Hiroyoshi Matsumura, Masashi Yoshimura, Yasuo Tsunaka, Masaaki Morikawa, Shigenori Kanaya, Hiroshi Masuhara, Yasushi Kai, and Takamoto Sasaki
Jpn. J. Appl. Phys., 42(2,7B), L798-L800 (2003). 2003.7

(12) Phosphoenolpyruvate carboxylase: three-dimensional structure and molecular mechanisms
Yasushi Kai, Hiroyoshi Matsumura, and Katsura Izui
Arch. Biochem. Biophys., 414(2), 170-179 (2003). 2003.6

(11) Mechanism of metal activation of human hematopoietic prostaglandin D synthase
Tsuyoshi Inoue, Daisuke Irikura, Nobuo Okazaki, Shigehiro Kinugasa, Hiroyoshi Matsumura, Nobuko Uodome, Masaki Yamamoto, Takashi Kumasaka, Masashi Miyano, Yasushi Kai, and Yoshihiro Urade
Nat. Struct. Biol., 10(4), 291-296 (2003). 2003.4

(10) Crystallization and preliminary X-ray analysis of TBP-interacting protein from the hyperthermophilic archaeon Thermococcus kodakaraensis strain KOD1
Takahiko Yamamoto, Tomoki Matsuda, Nami Sakamoto, Hiroyoshi Matsumura, Tsuyoshi Inoue, Masaaki Morikawa, Shigenori Kanaya, and Yasushi Kai
Acta Cryst., D59(2), 372-374 (2002). 2003.2

(P2) Structual difference between holo- and apo-forms of metal-binding protein of hematopoietic prostaglandin D synthetase
Tsuyoshi inoue, Yuji Kado, Tomoyuki Doi, Yousuke Okano, Daisuke Irikura, Hiroyoshi Matsumura, Yasushi Kai, and Yoshihiro Urade
ISBC2003 (2003)

(P1) Anti-allergic drug discovery based on the structure of human hematopoietic prostaglandin D synthetase with the metal activation mechanism
Tsuyoshi Inoue, Kousuke Aritake, Hiroyoshi Matsumura, Yasushi Kai, and Yoshihiro Urade
ISBC2003 (2003)

(9) Crystallization and preliminary X-ray crystallographic studies of Trypanosoma brucei prostaglandin F(2 alpha) synthase
Yousuke, Okano, Tsuyoshi Inoue, Bruno Kilunga Kubata, Zakayi Kabututu, Yoshihiro Urade, Hiroyoshi Matsumura, and Yasushi Kai
J. Biochem., 132(6), 859-861 (2002). 2002.12

(8) Crystal structures of C₄ form maize and quaternary complex of E. coli phosphoenolpyruvate carboxylases
Hiroyoshi Matsumura, Yong Xie, Shunsuke Shirakata, Tsuyoshi Inoue, Takeo Yoshinaga, Yoshihisa Ueno, Katsura Izui, and Yasushi Kai
Structure, 10(12), 1721-1730 (2002). 2002.12

(7) X-ray structure of Galdieria Rubisco complexed with one sulfate ion per active site
Yousuke Okano, Eiichi Mizohata, Yong Xie, Hiroyoshi Matsumura, Hajime Sugawara, Tsuyoshi Inoue, Akiho Yokota, and Yasushi Kai
FEBS Lett., 527(1-3), 33-36 (2002). 2002.9

(6) Crystal structure of activated ribulose-1,5-biphosphate carboxylase/oxygenase from green alga Chlamydomonas reinhardtii complexed with 2-carboxyarabinitol-1,5-bisphosphate
Eiichi Mizohata, Hiroyoshi Matsumura, Yousuke Okano, Maki Kumei, Hiroki Takuma, Jun Onodera, Ko Kato, Naoki Shibata, Tsuyoshi Inoue, Akiho Yokota, and Yasushi Kai
J. Mol. Biol., 316(3), 679-691 (2002). 2002.2

(5) Crystallization and preliminary X-ray diffraction analysis of glutathione-dependent dehydroascorbate reductase from spinach chloroplasts
Eiichi Mizohata, Maki Kumei, Hiroyoshi Matsumura, Taise Shimaoka, Chikahiro Miyake, Tsuyoshi Inoue, Akiho Yokota, and Yasushi Kai
Acta Cryst., D57(11), 1726-1728 (2001). 2001.11

(4) Crystallization and preliminary X-ray diffraction studies of C₄-form phosphoenolpyruvate carboxylase from maize
Hiroyoshi Matsumura, Takahiro Nagata, Mika Terada, Shunsuke Shirakata, Tsuyoshi Inoue, Takeo Yoshinaga, Yoshihisa Ueno, Hideki Saze, Katsura Izui, and Yasushi Kai
Acta Cryst., D55(11), 1937-1938 (1999). 1999.11

(3) Plausible phosphoenolpyruvate binding site revealed by 2.6 Å structure of Mn²⁺-bound phosphoenolpyruvate carboxylase from Escherichia coli
Hiroyoshi Matsumura, Mika Terada, Shunsuke Shirakata, Tsuyoshi Inoue, Takeo Yoshinaga, Katsura Izui, and Yasushi Kai
FEBS Lett., 458(2), 93-96 (1999). 1999.9

(2) Three-dimensional structure of phosphoenolpyruvate carboxylase: A proposed mechanism for allosteric inhibition
Yasushi Kai, Hiroyoshi Matsumura, Tsuyoshi Inoue, Kazutoyo Terada, Yoshitaka Nagara, Takeo Yoshinaga, Akio Kihara, Kenji Tsumura, and Katsura Izui
Proc. Natl. Acad. Sci. USA, 96(3), 823-828 (1999). 1999.2

(1) A novel mode of target recognition suggested by the 2.0 Å structure of holo S100B from bovine brain
Hiroyoshi Matsumura, Tomoo Shiba, Tsuyoshi Inoue, Shigeharu Harada, and Yasushi Kai
Structure, 6(2), 233-241 (1998). 1998.2