• Takuwa A, Yoshida T, Maruno T, Kawahara K, Mochizuki M, Nishiuchi Y, Kobayashi Y, Ohkubo T. Ordered self-assembly of the collagenous domain of adiponectin with noncovalent interactions via glycosylated lysine residues. FEBS Lett 2016; 590 :195-201.

  • Uchiyama S, Kawahara K, Hosokawa Y, Fukakusa S, Oki H, Nakamura S, Kojima Y, Noda M, Takino R, Miyahara Y, Maruno T, Kobayashi Y, Ohkubo T, Fukui K. Structural Basis for Dimer Formation of Human Condensin Structural Maintenance of Chromosome Proteins and Its Implications for Single-stranded DNA Recognition. J Biol Chem 2015; 290 :29461-77.

  • Qin S, Shimamoto S, Maruno T, Kobayashi Y, Kawahara K, Yoshida T, Ohkubo T. Thermodynamic and NMR analyses of NADPH binding to lipocalin-type prostaglandin D synthase. Biochem Biophys Res Commun 2015; 468 :234-9.

  • Nishimura M, Fujii T, Hiyoshi H, Makino F, Inoue H, Motooka D, Kodama T, Ohkubo T, Kobayashi Y, Nakamura S, Namba K, Iida T. A repeat unit of Vibrio diarrheal T3S effector subverts cytoskeletal actin homeostasis via binding to interstrand region of actin filaments. Sci Rep 2015; 5 :10870.

  • Kawahara K, Oki H, Fukakusa S, Maruno T, Kobayashi Y, Motooka D, Taniguchi T, Honda T, Iida T, Nakamura S, Ohkubo T. Cloning, expression, purification, crystallization and X-ray crystallographic analysis of CofB, the minor pilin subunit of CFA/III from human enterotoxigenic Escherichia coli. Acta Crystallogr F Struct Biol Commun 2015; 71 :663-7.

  • Harada S, Hiromori Y, Nakamura S, Kawahara K, Fukakusa S, Maruno T, Noda M, Uchiyama S, Fukui K, Nishikawa J, Nagase H, Kobayashi Y, Yoshida T, Ohkubo T, Nakanishi T. Structural basis for PPARgamma transactivation by endocrine-disrupting organotin compounds. Sci Rep 2015; 5 :8520.

  • Shimamoto S, Maruo H, Yoshida T, Ohkubo T. 1H, 13C, and 15N resonance assignments of mouse lipocalin-type prostaglandin D synthase/substrate analog complex. Biomol NMR Assign 2014; 8 :129-32.

  • Mochizuki M, Taichi M, Hibino H, Takuwa A, Yoshida T, Ohkubo T, Nishiuchi Y. Chemical synthesis of human adiponectin(19-107) bearing post-translational glycosylation. Tetrahedron Lett 2014; 55 :3073-3076.

  • Hayashi N, Kuyama H, Nakajima C, Kawahara K, Miyagi M, Nishimura O, Matsuo H, Nakazawa T. Imidazole C-2 hydrogen/deuterium exchange reaction at histidine for probing protein structure and function with matrix-assisted laser desorption ionization mass spectrometry. Biochemistry 2014; 53 :1818-26.

  • Uchiyama S, Ohshima A, Yoshida T, Ohkubo T, Kobayashi Y. Thermodynamic assessment of domain-domain interactions and in vitro activities of mesophilic and thermophilic ribosome recycling factors. Biopolymers 2013; 100 :366-79.

  • Motooka D, Kawahara K, Nakamura S, Doi M, Nishi Y, Nishiuchi Y, Kang YK, Nakazawa T, Uchiyama S, Yoshida T, Ohkubo T, Kobayashi Y. The triple helical structure and stability of collagen model peptide with 4(S)-hydroxyprolyl-Pro-Gly units. Biopolymers 2012; 98 :111-21.

  • Kawahara K, Nemoto N, Motooka D, Nishi Y, Doi M, Uchiyama S, Nakazawa T, Nishiuchi Y, Yoshida T, Ohkubo T, Kobayashi Y. Polymorphism of collagen triple helix revealed by 19F NMR of model peptide [Pro-4(R)-hydroxyprolyl-Gly]3-[Pro-4(R)-fluoroprolyl-Gly]-[Pro-4(R)-hydroxyprolyl-Gly]3. J Phys Chem B 2012; 116 :6908-15.

  • Noda M, Uchiyama S, McKay AR, Morimoto A, Misawa S, Yoshida A, Shimahara H, Takinowaki H, Nakamura S, Kobayashi Y, Matsunaga S, Ohkubo T, Robinson CV, Fukui K. Assembly states of the nucleosome assembly protein 1 (NAP-1) revealed by sedimentation velocity and non-denaturing MS. Biochem J 2011; 436 :101-12.

  • Hemmi H, Kumazaki T, Kojima S, Yoshida T, Ohkubo T, Yokosawa H, Miura K, Kobayashi Y. Increasing the hydrolysis constant of the reactive site upon introduction of an engineered Cys14-Cys39 bond into the ovomucoid third domain from silver pheasant. J Pept Sci 2011; 17 :595-600.

  • Takahashi R, Nakamura S, Nakazawa T, Minoura K, Yoshida T, Nishi Y, Kobayashi Y, Ohkubo T. Structure and reaction mechanism of human nicotinamide phosphoribosyltransferase. J Biochem 2010; 147 :95-107.

  • Taichi M, Yamazaki T, Kawahara K, Motooka D, Nakamura S, Harada S, Teshima T, Ohkubo T, Kobayashi Y, Nishiuchi Y. Structure-activity relationship of marinostatin, a serine protease inhibitor isolated from a marine organism. J Pept Sci 2010; 16 :329-36.

  • Kawahara K, Nakamura S, Katsu Y, Motooka D, Hosokawa Y, Kojima Y, Matsukawa K, Takinowaki H, Uchiyama S, Kobayashi Y, Fukui K, Ohkubo T. Cloning, expression, crystallization and preliminary X-ray crystallographic analysis of a human condensin SMC2 hinge domain with short coiled coils. Acta Crystallogr F Struct Biol Commun 2010; 66 :1067-70.

  • Izumi K, Nakamura S, Nakano H, Shimura K, Sakagami Y, Oishi S, Uchiyama S, Ohkubo T, Kobayashi Y, Fujii N, Matsuoka M, Kodama EN. Characterization of HIV-1 resistance to a fusion inhibitor, N36, derived from the gp41 amino-terminal heptad repeat. Antiviral research 2010; 87 :179-86.

  • Obuchi M, Kawahara K, Motooka D, Nakamura S, Yamanaka M, Takeda T, Uchiyama S, Kobayashi Y, Ohkubo T, Sambongi Y. Hyperstability and crystal structure of cytochrome c555 from hyperthermophilic Aquifex aeolicus. Acta crystallographica D, Biol Cryst 2009; 65 :804-13.

  • Nishikawa H, Nakamura S, Kodama E, Ito S, Kajiwara K, Izumi K, Sakagami Y, Oishi S, Ohkubo T, Kobayashi Y, Otaka A, Fujii N, Matsuoka M. Electrostatically constrained alpha-helical peptide inhibits replication of HIV-1 resistant to enfuvirtide. Int J Biochem & cell biol 2009; 41 :891-9.

  • Nishimura M, Kaminishi T, Takemoto C, Kawazoe M, Yoshida T, Tanaka A, Sugano S, Shirouzu M, Ohkubo T, Yokoyama S, Kobayashi Y. Crystal structure of human ribosomal protein L10 core domain reveals eukaryote-specific motifs in addition to the conserved fold. J Mol Biol 2008; 377 :421-30.

  • Matsumoto S, Yoshida T, Murata H, Harada S, Fujita N, Nakamura S, Yamamoto Y, Watanabe T, Yonekura H, Yamamoto H, Ohkubo T, Kobayashi Y. Solution structure of the variable-type domain of the receptor for advanced glycation end products: new insight into AGE-RAGE interaction. Biochemistry 2008; 47 :12299-311.

  • Takahashi R, Nakamura S, Yoshida T, Kobayashi Y, Ohkubo T. Crystallization of human nicotinamide phosphoribosyltransferase. Acta Crystallogr F Struct Biol Commun 2007; 63 :375-7.

  • Shimamoto S, Yoshida T, Inui T, Gohda K, Kobayashi Y, Fujimori K, Tsurumura T, Aritake K, Urade Y, Ohkubo T. NMR solution structure of lipocalin-type prostaglandin D synthase: evidence for partial overlapping of catalytic pocket and retinoic acid-binding pocket within the central cavity. J Biol Chem 2007; 282 :31373-9.

  • Shimahara H, Yoshida T, Shibata Y, Shimizu M, Kyogoku Y, Sakiyama F, Nakazawa T, Tate S, Ohki SY, Kato T, Moriyama H, Kishida K, Tano Y, Ohkubo T, Kobayashi Y. Tautomerism of histidine 64 associated with proton transfer in catalysis of carbonic anhydrase. J Biol Chem 2007; 282 :9646-56.

  • Nishimura M, Kaminishi T, Kawazoe M, Shirouzu M, Takemoto C, Yokoyama S, Tanaka A, Sugano S, Yoshida T, Ohkubo T, Kobayashi Y. Purification, crystallization and preliminary X-ray diffraction study of human ribosomal protein L10 core domain. Acta Crystallogr F Struct Biol Commun 2007; 63 :950-2.

  • Takinowaki H, Matsuda Y, Yoshida T, Kobayashi Y, Ohkubo T. The solution structure of the methylated form of the N-terminal 16-kDa domain of Escherichia coli Ada protein. Protein science 2006; 15 :487-97.

  • Ogawa K, Nishimura S, Doi M, Takashima H, Nishi Y, Yoshida T, Ohkubo T, Kobayashi Y. Conformational analysis of human calcitonin in solution. J Pept Sci 2006; 12 :51-7.

  • Nakamura S, Ichiki S, Takashima H, Uchiyama S, Hasegawa J, Kobayashi Y, Sambongi Y, Ohkubo T. Structure of cytochrome c552 from a moderate thermophilic bacterium, Hydrogenophilus thermoluteolus: comparative study on the thermostability of cytochrome c. Biochemistry 2006; 45 :6115-23.

  • Wilson DN, Schluenzen F, Harms JM, Yoshida T, Ohkubo T, Albrecht R, Buerger J, Kobayashi Y, Fucini P. X-ray crystallography study on ribosome recycling: the mechanism of binding and action of RRF on the 50S ribosomal subunit. EMBO J 2005; 24 :251-60.

  • Takashima H, Yoshida T, Ishino T, Hasuda K, Ohkubo T, Kobayashi Y. Solution NMR structure investigation for releasing mechanism of neocarzinostatin chromophore from the holoprotein. J Biol Chem 2005; 280 :11340-6.

  • Nishi Y, Uchiyama S, Doi M, Nishiuchi Y, Nakazawa T, Ohkubo T, Kobayashi Y. Different effects of 4-hydroxyproline and 4-fluoroproline on the stability of collagen triple helix. Biochemistry 2005; 44 :6034-42.

  • Lin L, Nakano H, Uchiyama S, Fujimoto S, Matsunaga S, Nakamura S, Kobayashi Y, Ohkubo T, Fukui K. Crystallization and preliminary X-ray crystallographic analysis of a conserved domain in plants and prokaryotes from Pyrococcus horikoshii OT3. Acta Crystallogr F Struct Biol Commun 2005; 61 :414-6.

  • Kawahara K, Nishi Y, Nakamura S, Uchiyama S, Nishiuchi Y, Nakazawa T, Ohkubo T, Kobayashi Y. Effect of hydration on the stability of the collagen-like triple-helical structure of [4(R)-hydroxyprolyl-4(R)-hydroxyprolylglycine]10. Biochemistry 2005; 44 :15812-22.

  • Ichiki S, Nakamura S, Ohkubo T, Kobayashi Y, Hasegawa J, Uchiyama S, Nishihara H, Mizuta K, Sambongi Y. Cloning, expression, crystallization and preliminary X-ray characterization of cytochrome c552 from a moderate thermophilic bacterium, Hydrogenophilus thermoluteolus. Acta Crystallogr F Struct Biol Commun 2005; 61 :395-8.

  • Hemmi H, Kumazaki T, Yoshizawa-Kumagaye K, Nishiuchi Y, Yoshida T, Ohkubo T, Kobayashi Y. Structural and functional study of an Anemonia elastase inhibitor, a nonclassical Kazal-type inhibitor from Anemonia sulcata. Biochemistry 2005; 44 :9626-36.

  • Doi M, Nishi Y, Uchiyama S, Nishiuchi Y, Nishio H, Nakazawa T, Ohkubo T, Kobayashi Y. Collagen-like triple helix formation of synthetic (Pro-Pro-Gly)10 analogues: (4(S)-hydroxyprolyl-4(R)-hydroxyprolyl-Gly)10, (4(R)-hydroxyprolyl-4(R)-hydroxyprolyl-Gly)10 and (4(S)-fluoroprolyl-4(R)-fluoroprolyl-Gly)10. J Pept Sci 2005; 11 :609-16.