Susumu Uchiyama


189) Gambe-Gilbuena A, Shibano Y, Krayukhina E, Torisu T, Uchiyama S.
Automatic Identification of the Stress Sources of Protein Aggregates Using Flow Imaging Microscopy Images.
J Pharm Sci. in press
pii: S0022-3549(19)30671-9.

188) Oyama H, Koga H, Tadokoro T, Maenaka K, Shiota A, Yokoyama M, Noda M, Torisu T, Uchiyama S.
Relation of colloidal and conformational stabilities to aggregate formation in a monoclonal antibody.
J Pharm Sci. in press.
doi: 10.1016/j.xphs.2019.10.038.

187) Krayukhina E, Fukuhara A, Uchiyama S.
Assessment of the injection performance of a tapered needle for use in pre-filled biopharmaceutical products.
J Pharm Sci. in press. pii: S0022-3549(19)30670-7.
doi: 10.1016/j.xphs.2019.10.033.

186) Muraki N, Ishii K, Uchiyama S, Itoh SG, Okumura H, Aono S.
Structural characterization of HypX responsible for CO biosynthesis in the maturation of NiFe-hydrogenase.
Commun Biol. 2:385 (2019).
doi: 10.1038/s42003-019-0631-z. eCollection 2019.

185) Fujikawa A, Sugawara H, Tanga N, Ishii K, Kuboyama K, Uchiyama S, Suzuki R, Noda M.
A head-to-toe dimerization has physiological relevance for ligand-induced inactivation of protein tyrosine receptor type Z.
J Biol Chem. 294(41):14953-14965 (2019).
doi: 10.1074/jbc.RA119.007878.

185) Murakami R, Yunoki Y, Ishii K, Terauchi K, Uchiyama S, Yagi H, Kato K.
Cooperative Binding of KaiB to the KaiC Hexamer Ensures Accurate Circadian Clock Oscillation in Cyanobacteria.
Int J Mol Sci. 20(18). pii: E4550 (2019).

184) Yogo R, Yamaguchi Y, Watanabe H, Yagi H, Satoh T, Nakanishi M, Onitsuka M, Omasa T, Shimada M, Maruno T, Torisu T, Watanabe S, Higo D, Uchihashi T, Yanaka S, Uchiyama S, Kato K.
The Fab portion of immunoglobulin G contributes to its binding to Fcγ receptor III.
Sci Rep. 9(1):11957 (2019).
doi: 10.1038/s41598-019-48323-w.

183) Yunoki Y, Ishii K, Yagi-Utsumi M, Murakami R, Uchiyama S, Yagi H, Kato K.
ATP hydrolysis by KaiC promotes its KaiA binding in the cyanobacterial circadian clock system.
Life Sci Alliance. 2(3). pii: e201900368 (2019). doi:10.26508/lsa.201900368.

182) Sekiguchi T, Satoh T, Kurimoto E, Song C, Kozai T, Watanabe H, Ishii K, Yagi H, Yanaka S, Uchiyama S, Uchihashi T, Murata K, Kato K.
Mutational and Combinatorial Control of Self-Assembling and Disassembling of Human Proteasome α. Subunits.
Int J Mol Sci. 20(9) pii: E2308 (2019).
doi: 10.3390/ijms20092308.

181) Zhan, Y.-Y., Kojima, T., Ishii, K., Takahashi, S., Haketa, Y., Maeda, H., Uchiyama, S., and Hiraoka, S.
SpectrometryTemperature-Controlled Repeatable Scrambling and Induced-fit Self-Sorting of Building Blocks Between Cubic Assemblies.
Nature Communications 2019; 10: 1440.
doi: 10.1038/s41467-019-09495-1

180) Noda, M., Ishii, K., Yamauchi, M., Oyama, H., Tadokoro, T., Maenaka, K., Torisu, T., Uchiyama, S.
Identification of IgG1 Aggregation Initiation Region by Hydrogen/Deuterium Mass Spectrometry.
J. Pharm. Sci. 108, 2323-2333 (2019).

179) Krayukhina, E., Yokoyama, M., Kakuhou Hayashihara, K., Maruno, T., Noda M., Watanabe, H., Uchihashi, T., and Uchiyama, S.
An assessment of the ability of submicron- and micron-size silicone oil droplets in dropped pre-fillable syringes to invoke early- and late-stage immune responses.
J. Pharm. Sci. 108, 2278-2287 (2019). OPEN ACCESS

178) Harazono, A., Shibata, H., Kiyoshi, M., Muto, T., Fukuda, J., Torisu, T., Saitoh, S., Nishimura, H., Uchiyama, S., Ishii-Watabe, A.
Interlaboratory comparison about feasibility of insoluble particulate matter test for injections with reduced test volume in light obscuration method.
Biologicals 57, 46-48 (2019)
doi: 10.1016/j.biologicals.2018.12.003.

177) Yoneda, S., Niederleitner, B., Wiggenhorn, M., Koga, H., Totoki, S., Krayukhina, E., Friess, W., Uchiyama, S.,
Quantitative laser diffraction (qLD) for a quantification of protein aggregates – comparison with resonant mass measurement, nano-particle tracking, flow imaging and light obscuration.
J. Pharm. Sci.  108, 755-762 (2019) OPEN ACCESS
doi: 10.1016/j.xphs.2018.09.004.

176) Matsui T, Kamata S, Ishii K, Maruno T, Ghanem N, Uchiyama S, Kato K, Suzuki A, Oda-Ueda N, Ogawa T, Tanaka Y.
SDS-induced oligomerization of Lys49-phospholipase A2 from snake venom.
Sci Rep. 9(1):2330 (2019).
doi: 10.1038/s41598-019-38861-8.

175) Yamamoto K, Ishibashi O, Sugiura K, Ubatani M, Sakaguchi M, Nakatsuji M, Shimamoto S, Noda M, Uchiyama S, Fukutomi Y, Nishimura S, Inui T.
Crystal structure of the dog allergen Can f 6 and structure-based implications of its cross-reactivity with the cat allergen Fel d 4.
Sci Rep. 9(1):1503 (2019).
doi: 10.1038/s41598-018-38134-w.

174) Kiyoshi, M., Shibata, H., Harazono, A., Torisu, T., Maruno, T., Akimaru, M., Asano, Y., Hirokawa, M., Ikemoto, K., Itakura, Y., Iwura, T., Kikitsu, A., Kumagai, T., Mori, N., Murase, H., Nishimura, H., Oda, A., Ogawa, T., Ojima, T., Okabe, S., Saito, S., Saitoh, S., Suetomo, H., Takegami, K., Takeuchi, M., Yasukawa, H., Uchiyama, S., Ishii-Watabe, A.
Collaborative study for analysis of subvisible particles using flow imaging and light obscuration: Experiences in Japanese biopharmaceutical consortium.
J. Pharm. Sci.  108, 832-841 (2019) OPEN ACCESS
doi: 10.1016/j.xphs.2018.08.006.


173) Takada, R., Mii, Y., Krayukhina, E., Maruyama, Y., Moriya, T., Pack, C-G, Sako, S., Sato, C., Uchiyama, S., and Takada, S.
Oligomerization-based assembly restricts Wnt protein diffusion
Communications Biology 1:165.  (2018)
doi: 10.1038/s42003-018-0172-x

172) Numoto, N., Kamiya, N., Bekker, G. J., Yamagami, Y., Inaba, S., Ishii, K., Uchiyama, S., Kawai, F., Ito, N., Oda, M.
Structural Dynamics of PET-degrading Cutinase-like Enzyme from Saccharomonospora viridis AHK190 in Substrate-bound States Elucidates Ca2+ Driven Catalytic Cycles.
Biochemistry 57(36):5289-5300. (2018)
doi: 10.1021/acs.biochem.8b00624

171) Kashida, H., Hattori, Y., Tazoe, K., Inoue, T., Nishikawa, K., Ishii, K., Uchiyama, S., Yamashita, H., Abe, M., Kamiya, Y., Asanuma, H.
Bifacial nucleobases for hexaplex formation in aqueous solution.
J. Am. Chem. Soc. 140(27): 8456-8462. (2018)
doi: 10.1021/jacs.8b02807

170) Uchihashi T, Watanabe YH, Nakazaki Y, Yamasaki T, Watanabe T, Maruno T, Ishii K, Uchiyama S, Song C, Murata K, Iino R, Ando T.
Dynamic structural states of ClpB involved in its disaggregation function.
Nature Communications 9, Article number: 2147 (2018)

169) Shinozaki, N., Hashimoto, R., Noda, M., Uchiyama, S.
Physicochemical improvement of rabbit derived single-domain antibodies by substitutions with amino acids conserved in camelid antibodies.
J. Biosci. Bioeng. 125, 654-661. (2018)
doi: 10.1016/j.jbiosc.2018.01.006

168) Maruno, T., Watanabe, H., Yoneda, S., Uchihashi, T., Adachi S., Arai, K., Sawaguchi, T., Uchiyama, S.
Sweeping of adsorbed therapeutic protein on prefillable syringes promotes micron aggregate generation.
J. Pharm. Sci 107, 1521-1529. (2018) OPEN ACCESS
Selected in Virtual Issue: Most Original and Most Significant Scientific Findings

167) Zhan, Y., Ogata, K., Kojima, T., Koide, T., Ishii, K., Mashiko, T., Tachikawa, M., Uchiyama, S., Hiraoka, S.
Hyperthermostable Cube-shaped Assembly in Water.
Communications Chemistry 1, Article number: 14 (2018).

166) Kim, R., Kanamaru, S., Mikawa, T., Prevost, C., Ishii, K., Ito, K., Uchiyama, S., Oda, M., Iwasaki, H., Kim, S. K., Takahashi, M.
RecA requires two molecules of Mg2+ ions for its optimal strand exchange activity in vitro.
Nucleic Acids Research 46, 2548-2559. (2018)

165) Kinoshita, M., Furukawa, Y., Uchiyama, S., Imada, K., Namba, K., Minamino, T.
Insight into adaptive remodeling of the rotor ring complex of the bacterial flagellar motor.
Biochem. Biophys. Res. Comm. 496, 12-17. (2018)


164) Yanaka, S., Yamazaki, T., Yogo, R., Noda, M, Uchiyama, S., Yagi, H., and Kato, K.
NMR Detection of Semi-Specific Antibody Interactions in Serum Environments
Molecules 22, E1619. (2017).

163) Wang, W., Marchetti, R., Prisic, S., Ishii, K., Arai, Y., Ohta, I., Inuki, S., Uchiyama, S., Silipo, A., Molinaro, A., Husson, RN., Fukase, K., Fujimoto, Y., A Comprehensive Study of Interaction between Peptidoglycan Fragments and Extracelluar Domain of Mycobacterium tuberculosis Ser/Thr Kinase PknB
ChemBioChem 18, 1-6 (2017).

162) Poonperm R., Takata H., Uchiyama S., Fukui K.
Interdependency and Phosphorylation of KIF4 and Condensin I are essential for Organization of Chromosome Scaffold
PLoS One, 12, e0183298 (2017).

161) Ishii-Watabe, A., Shibata, H., Harazono, A., Hyuga, M., Kiyoshi, M., Saitoh, S., Iwura, T., Torisu, T., Goda, Y., Uchiyama, S.
Recent topic in research on characterization and quality control of biopharmaceuticals in Japan.
J. Pharm. Sci. 106(12): 3431-3437 (2017). OPEN ACCESS

160) Phengchat R., Takata H., Uchiyama S., Fukui K.
Calcium depletion destabilises kinetochore fibres by the removal of CENP-F from the kinetochore.
Sci Rep. 7, 7335 (2017).

159) Shinozaki, N., Hashimoto, R., Fukui, K., Uchiyama, S.*
Efficient generation of single domain antibodies with high affinities and enhanced thermal stabilities.
Sci Rep. 7, 5794 (2017).

158) Torisu T, Maruno T, Yoneda S, Hamaji Y, Honda S, Ohkubo T, Uchiyama S. *
Friability testing as a new stress-stability assay for biopharmaceuticals.
J. Pharm. Sci. 106, 2966-2978 (2017).

157) Kagami, Y., Uchiyama, S., Kato, H., Okada, Y., Seto, M., Kinoshita, T.
Establishment of cell lines from adult T-cell leukemia cells dependent on negatively charged polymers.
J. Clin. Exp. Hematop. 57, 9-14 (2017).

156) Krayukhina, E., Noda, M., Ishii, K., Maruno, T., Wakabayashi, H., Tada, M., Suzuki, T., Ishii-Watabe, A., Kato, M., Uchiyama, S.*
Analytical ultracentrifugation with fluorescence detection 1 system reveals differences in complex formation between recombinant human TNFα and different biological TNFα antagonists in various environments.
mAbs 9, 664-679 (2017). OPEN ACCESS

155) Torisu, T., Maruno, T., Hamaji, Y., Ohkubo, T., Uchiyama, S.*
Synergistic effect of cavitation and agitation on protein aggregation.
J. Pharm. Sci. 106, 521-529 (2017).


154) Sugiyama, M., Yagi, H.,Ishii, K., Porcar, L., Martel, A, Oyama, K., Noda, M., Yunoki, Y., Murakami, R., Inoue, R., Sato, N., Oba, Y., Terauchi, K., Uchiyama, S., and Kato, K.
Structural characterization of the circadian clock protein complex composed of KaiB and KaiC by inverse contrast-matching small-angle neutron scattering.
Sci. Rep. 2016, 6, 35567.

153) Zhang, Z., Ohto, U., Shibata, T., Krayukhina, E., Taoka, M., Yamauchi, Y., Tanji, H., Isobe, T., Uchiyama, S., Miyake, K., and Shimizu, T.
Structural analysis reveals that Toll-like receptor 7 is a dual receptor for guanosine and single-stranded RNA.
Immunity 2016, 45, 737-748.

152) Satoh, T., Toshimori, T., Noda, M., Uchiyama, S., and Kato, K.
Crystal structure of ER glucosidase II heterodimeric complex consisting of catalytic subunit and its binding domain of regulatory subunit.
Protein Sci. 2016, 25, 2095-2101.

151) Inoue, R., Takata, T., Fujii, F., Ishii, K., Uchiyama, S., Sato, N., Oba, Y., Wood, K., Kato, K., Fujii, N., Sugiyama, M.
New insight into the dynamical system of αB-crystallin oligomers.
Sci. Rep. 2016, 6, 29208.

150) Ishii, K., Noda, M., Uchiyama S.*
Mass spectrometric analysis of protein–ligand interactions.
Biophysics and Physicobiology 2016, 13, 87-95.

149) Ohto, U., Ishida, H., Krayukhina, E., Uchiyama, S., Inoue, N., Shimizu, S.
Structure of IZUMO1-JUNO reveals sperm-oocyte recognition during mammalian fertilization.
Nature 2016, 534, 566-569.

148) Oda, M., Tanabe, Y., Noda, M., Inaba, S., Krayukhina, E., Fukada, H., Uchiyama, S.
Structural and binding properties of laminarin revealed by analytical ultracentrifugation and calorimetric analyses.
Carbohydrate Research 2016, 431, 33-36.

147) Nango, E., Akiyama, S., Maki-Yonekura, S., Ashikawa, Y., Kusakabe, Y., Krayukhina, E., Maruno, T., Uchiyama, S., Nuemket, N., Yonekura, K., Shimizu, M., Atsumi, N., Yasui, N., Hikima, T., Yamamoto, M., Kobayashi, Y., and Yamashita, A.
Taste substance binding elicits conformational change of taste receptor T1r heterodimer extracellular domains.
Sci. Rep. 2016, 6, 25745.

146) Kabe, Y., Nakane, T., Koike, I., Yamamoto, T., Sugiura, Y., Harada, E., Sugase, K., Shimamura, T., Ohmura, M., Muraoka, K., Yamamoto, A., Uchida, T., Iwata, S., Yamaguchi, Y., Krayukhina, E., Noda, M., Handa, H., Ishimori, K., Uchiyama, S., Kobayashi T., and Suematsu, M.
Haem-dependent dimerization of PGRMC1/sigma-2 receptor facilitates cancer proliferation and chemoresistance.
Nature Communications. 2016, 7, 11030.

145) Fukai-Toma, S. Kim, J.D., Park, K. E., Kuwabara, N., Shimizu, N., Krayukuhina, E., Uchiyama, S., Fukamizu, A., Shimizu, T.
Novel helical assembly in arginine methyltransferase 8.
J. Mol. Biol. 2016, 428, 1197-1208.

144) Fujikawa, A., Nagahira, A., Sugawara, H., Ishii, K., Imajo, S., Matsumoto, M., Kuboyama, K., Suzuki, R., Tanga, N., Noda, M., Uchiyama, S., Tomoo, T., Ogata, A., Masumura, M., and Noda, M.
Small-molecule inhibition of PTPRZ reduces tumor growth in a rat model of glioblastoma.
Sci. Rep. 2016, 6, 20473.

143) Thammaporna, R., Ishii, K., Yagi-Utsumi, M., Uchiyama, S., Hannongbua, S., and Kato, K.,
Mass spectrometric characterization of HIV-1 reverse transcriptase interactions with non-nucleoside reverse transcriptase inhibitors.
Biological and Pharmaceutical Bulletin 2016, 39, 450-454.

142) Amano, M., Fukui, K., Uchiyama, S.*
Suppression of methionine oxidation of a pharmaceutical antibody stored in a polymer-based syringe.
J. Pharm. Sci. 2016, 105, 623-629.


141) Ishii, K., Noda, M., Yagi, H., Thammaporn, R., Seetaha, S., Satoh, T., Kato, K., and Uchiyama, S*.
Disassembly of the self-assembled, double-ring structure of proteasome α7 homo-tetradecamer by α6.
Sci. Rep. 2015, 5, 18167.

140) 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 SMC and its implications for single strand DNA recognition.
J. Biol. Chem. 2015, 290, 29461-29477.

139) Yoshida, K., Tojoa ,K., Morib, M., Yamashita, K., Kitahara, S., Noda, M., Uchiyama, S.
Chemical mechanism of petal color development of Nemophila menziesii by a metalloanthocyanin, nemophilin.
Tetrahedron 2015, 71, 9123-9130.

138) Ishii, K., Enda, H., Noda, M., Kajino, M., Kim, A., Kurimoto, E., Sato, K., Nakano, A., Kobayashi, Y., Yagi., H., Uchiyama, S., Kato, K.,
pH-dependent assembly and segregation of the coiled-coil segments of yeast putative cargo receptors Emp46p and Emp47p
PLoS ONE 2015, 10, e0140287.

137) Poonperm, R., Takata, H., Hamano, T., Matsuda, A., Uchiyama, S., Hiraoka, Y., and Fukui, K.
Chromosome scaffold is a double-stranded assembly of scaffold proteins.
Sci. Rep. 2015, 5, 11916.

136) Zhao, H., …. Uchiyama, S., ….Schuck, P., A [106/120]
Multilaboratory Comparison of Calibration Accuracy and the Performance of External References in Analytical Ultracentrifugation.
PLoS ONE 2015, 10, e0126420.

135) Kita, S., Matsubara, H., Kasai, Y., Tamaoki, T., Okabe, Y., Fukuhara, H., Kamishikiryo, J., Krayukhina, E., Uchiyama, S., Ose, T., Kuroki, K., Maenaka, K.,
Crystal structure of extracellular domain of human lectin-like transcript 1 (LLT1), the ligand for natural killer receptor-P1A.
European Journal of Immunology 2015, 45, 1605-1613.

134) 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.

133) Ohto, U., Shibata, T., Tanji, H., Krayukhina, E., Uchiyama, S., Miyake, K., and Shimizu, T.
Structural basis of CpG and inhibitory DNA recognition by Toll-like receptor 9.
Nature 2015, 520, 702-705.

132) Watanabe, K., Terakura, S., Martens, A.C., van Meerten, T., Uchiyama, S., Imai, M., Sakemura, R., Goto, Hanajiri, R., Imahashi, N., Shimada, K., Tomita, A., Kiyoi, H., Nishida, T., Naoe, T., Murata, M.,
Target Antigen Density Governs the Efficacy of Anti-CD20-CD28-CD3 zeta Chimeric Antigen Receptor-Modified Effector CD8(+) T Cells
J. Immunol. 2015, 194, 911-920.

131) Han, W., Yamauchi, M., Hasegawa, U., Noda, M., Fukui, K., van der Vlies, Uchiyama, S., and Uyama, H.,
Pepsin immobilization on an aldehyde-modified polymethacrylate monolith and its application for protein analysis.
J. Biosci. Bioeng. 2015, 119, 505-510.

130) Volkin, D., Hershenson, S., Ho, R., Uchiyama, S., Winter, G., Carpenter, J.
Two Decades of Publishing Excellence in Pharmaceutical Biotechnology
J. Pharm. Sci. 2015, 104, 290-300.

129) Totoki, S., Yamamoto, G., Tsumoto, K., Uchiyama, S.*, Fukui, K.
Quantitative laser diffraction method for the assessment of protein subvisible particles.
J. Pharm. Sci. 2015, 104, 618-626.

128) Krayukhina, E., Tsumoto, K., Uchiyama, S*., Fukui, K.
Effects of syringe material and silicone oil lubrication on the stability of pharmaceutical proteins.
J. Pharm. Sci. 2015, 104, 527-535.

127) Kaneyoshi, K., Fukuda, S., Dwiranti, A., Kato, J., Otsuka, Y., Takata, H., Uchiyama, S., Ogawa, S., Fukui, K.
Effects of dehydration and drying steps on human chromosome interior revealed by focused ion beam/scanning electron microscopy (FIB/SEM).
Chromosome Science 2015, 18, 9-14.

126) Equilibrina, I., Krayukhina, E., Inoue, K., Ishikawa, Y., Kawamoto, A., Kato, T., Suetake, I., Tajima, S., Takata, H., Uchiyama, S., Fukui, K.
The role of phosphorylation of histone H3 at serine 10 in chromatin condensation in vitro.
Chromosome Science 2015, 18, 23-28.


125) Hamano, T., Dwiranti, A., Kaneyoshi, K., Fukuda, S., Kometani, R., Nakao, M., Takata, H., Uchiyama, S., Ohmido, N., Fukui, K.
Chromosome Interior Observation by Focused Ion Beam/Scanning Electron Microscopy (FIB/SEM) Using Ionic Liquid Technique.
Microsc. Microanal. 2014, 10, 1-8.

124) Amano, M., Kobayashi, N., Yabuta, M., Uchiyama, S, Fukui, K.,
Detection of Histidine Oxidation in a Monoclonal Immunoglobulin Gamma (IgG) 1 Antibody.
Anal. Chem. 2014, 86, 7536-7543.

123) Dwiranti, A., Hamano, T., Takata, H., Nagano, S., Guo, H., Onishi, K., Wako, T., Uchiyama, S., Fukui, K.
The effect of magnesium ions on chromosome structure as observed by helium ion microscopy.
Microsc. Microanal. 2014, 20, 184-183.


122) Ishii, M., Uchiyama, S., Oseki, Y., Kajiyama, S., Itoh, K., Fukui, K.
Visualization of Oil Body Distribution in Jatropha curcas L. by Four-Wave Mixing Microscopy.
Jpn. J. Appl. Phys. 2013, 52, 062403.

121) Equilibrina, I., Matsunaga, S., Morimoto, A., Hashimoto, T., Uchiyama, S., Fukui, K.
ASURA (PHB2) Interacts with Scc1 through Chromatin.
Cytogenet. Genome Res. 2013, 139, 225–233.

120) Dwiranti, A., Hamano, T., Takata, H., Nagano, S., Guo, H., Onishi, K., Wako, T., Uchiyama, S., Fukui, K.
The Effect of Magnesium Ions on Chromosome Structure as Observed by Helium Ion Microscopy.
Microsc. Microanal. 2013, 14, 1-5.

119) Takemoto, K., Matsuda, T., Sakai, N., Fu, D., Noda, M., Uchiyama, S., Kotera, I., Arai, Y., Horiuchi, M., Fukui, K., Ayabe, T., Inagaki, F., Suzuki, H., Nagai, T.
SuperNova, a monomeric photosensitizing fluorescent protein for chromophore-assisted light inactivation.
Sci. Rep. 2013, 3:2629.

118) 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, 366-379.

117) Kumoi, K., Satoh, T., Murata, K., Hiromoto, T., Mizushima, T., Kamiya, Y., Noda, M., Uchiyama, S., Yagi, H., Kato, K.
An archaeal homolog of proteasome assembly factor functions as a proteasome activator.
PLoS One. 2013, 8, e60294.

116) Saito, S., Hasegawa, J., Kobayashi, N., Tomitsuka, T., Uchiyama, S., Fukui, K.
Effects of Ionic Strength and Sugars on the Aggregation Propensity of Monoclonal Antibodies: Influence of Colloidal and Conformational Stabilities.
Pharm Res. 2013, 30, 1263-1280.

115) Bessho, T., Morii, S., Kusumoto, T., Shinohara, T., Noda, M., Uchiyama, S., Shuto, S., Nishimura, S., Djikeng, A., Duszenko, M., Martin, S.K., Inui, T., Kubata, K.B.
Characterization of the novel Trypanosoma brucei inosine 5′-monophosphate dehydrogenase.
Parasitology 2013, 140, 735-45.


114) Fujita, D., Suzuki, K., Sato, S., Yagi-Utsumi, M., Yamaguchi, Y., Mizuno, N., Kumasaka, T., Takata, M., Noda, M., Uchiyama, S., Kato, K., Fujita, M. (2012)
Protein encapsulation within synthetic molecular hosts.
Nature Comm. 2012, 3, 1093.

113) Matsunaga, S., Takata, H., Morimoto, A., Hayashihara, K., Higashi, T., Akatsuchi, K., Mizusawa, E., Yamakawa, M., Ashida, M., Matsunaga, T.M., Azuma, T., Uchiyama, S., Fukui, K.
RBMX: a regulator for maintenance and centromeric protection of sister chromatid cohesion
Cell Rep. 2012, 1, 299-308.

112) Hatoh, T., Maeda, T., Takeuchi, K., Ogikubo, O., Uchiyama, S., Otsuka, T., Ohkubo, I., Ogita, H.
Domain 5 of high molecular weight kininogen inhibits collagen-mediated cancer cell adhesion and invasion in association with α-actinin-4.
Biochem. Biophys. Res. Commun. 2012, 427, 497-502.

111) Shiga, D., Funahashi, Y., Masuda, H., Kikuchi, A., Noda, M., Uchiyama, S., Fukui, K., Kanaori, K., Tajima, K., Takano, Y., Nakamura, H., Kamei, M., Tanaka, T.
Creation of a binuclear purple copper site within a de novo coiled-coil protein.
Biochemistry 2012, 51, 901-907.

110) Krayukhina, E., Uchiyama, S., Nojima, K., Okada, Y., Hamaguchi, I., Fukui, K.
Aggregation analysis of pharmaceutical human immunoglobulin preparations using size-exclusion chromatography and analytical ultracentrifugation sedimentation velocity.
J. Biosci. Bioeng. 2012, 115, 104-110.

109) Krayukhina, E., Uchiyama, S., Fukui, K.
Effects of rotational speed on the hydrodynamic properties of pharmaceutical antibodies measured by analytical ultracentrifugation sedimentation velocity.
Eur. J. Pharm. Sci. 2012, 47, 367-374.

108) Saito, S., Hasegawa, J., Kobayashi, N., Kishi, N., Uchiyama, S., Fukui, K.,
Behavior of Monoclonal Antibodies: Relation between the Second Virial Coefficient (B2) at Low Concentrations and Aggregation Propensity and Viscosity at High Concentrations.
Pharm Res. 2012, 29, 397-410.

107) Dwiranti, A., Lin, L., Mochizuki, E., Kuwabata, S., Takaoka, A., Uchiyama, S., Fukui, K.
Chromosome observation by scanning electron microscopy using ionic liquid.
Microsc. Res. Tech. 2012, 75, 1113-1118

106) 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. 2012, 116, 6908-6915.

105) Nomura, N., Honda, T., Baba, K., Naganuma, T., Tanzawa, T., Arisaka, F., Noda, M., Uchiyama, S., Tanaka, I., Yao, M., Uchiumi, T.
The archaeal ribosomal stalk protein interacts with translation factors in a nucleotide-independent manner via its conserved C-terminus.
Proc. Natl. Acad. Sci. USA 2012, 109, 3748-3753.

104) Yagi, H., Ishimoto, K., Hiromoto, T., Fujita, H., Mizushima, T., Uekusa, Y., Yagi-Utsumi, M., Kurimoto, E., Noda, M., Uchiyama, S., Tokunaga, F., Iwai, K., and Kato, K.
Non-canonical UBA-UBL interaction mediates formation of linear ubiquitin chain assembly complex.
EMBO Rep. 2012, 13, 462-468.

103) Fukuhara, A., Nakajima, H., Miyamoto, Y., Inoue, K., Kume, S., Noda, M., Uchiyama, S., Shimamoto, S., Nishimura, S., Ohkubo, T., Goto, Y., Takeuchi, T., and Inui, T.
Drug delivery system for poorly water-soluble compounds using lipocalin-type prostaglandin D synthase.
Journal of Controlled Release 2012, 159, 143-150.

102) Motooka, D., Kawahara, K., Nakamura, S., Doi, M., Nishi, N., 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; Peptide Science. 2012, 98, 111-121.


101) Lee, MH., Lin, L., Takata, H., Morimoto, A., Uchiyama, S., Matsunaga, S., Fukui, K.
An X-chromosome RNA-binding motif protein (RBMX) is required for proper kinetochore formation.
Chromosome Sci. 2011, 14, 17-21.

100) Lee, M.H., Equilibrina, I., Uchiyama, S. Matsunaga, S. and Fukui, K.
PHB2 (ASURA) is required for kinetochore assembly and subsequent chromosome congression.
Acta Histochem. Cytochem. 2011, 44, 247-258.

99) Nishi, N., Miyajima, M., Wakiyama, N., Kubota, K., Hasegawa, J., Uchiyama, S., Fukui, K.
Fc domain mediated self-association of an IgG1 monoclonal antibody under a low ionic strength condition.
J. Biosci. Bioeng. 2011, 112, 326-332.

98) Amano, M., Hasegawa, J., Kobayashi, N., Kishi, N., Nakazawa, T., Uchiyama, S. and Fukui, K.
Specific racemization of heavy-chain cysteine-220 in the hinge region of immunoglobulin gamma 1 as a possible cause of degradation during storage.
Anal. Chem. 2011, 83, 3857-3864.

97) Noda, M., Uchiyama, S., McKay, A.R. Morimoto, A., Misawa, S., Yoshida, A., Shimahara, H., Takinowaki, H.,
Nakamura, S., Kobayashi, Y., Matsunaga, S., Ohkubo, T., Robinson, C.V., and Fukui K.
Assembly states of the nucleosome assembly protein 1 (NAP-1) revealed by sedimentation velocity and non-denaturing mass spectrometry.
Biochemical Journal 2011, 436, 101-112.

96) Ma N., Matsunaga S., Morimoto A., Sakashita G., Urano T., Uchiyama S., and Fukui K.
The nuclear scaffold protein SAF-A is required for kinetochore-microtubule attachment and contributes to the targeting of Aurora-A to mitotic spindles.
J. Cell Sci. 2011, 124, 394-404.


95) Shiga D., Nakane D., Inomata T., Funahashi Y., Masuda H., Kikuchi A., Oda M., Noda M., Uchiyama S., Fukui K., Kanaori K., Tajima K, Takano Y., Nakamura H., Tanaka T
Creation of a type 1 blue copper site within a de novo coiled-coil protein scaffold.
J. Am. Chem. Soc. 2010, 132, 18191-18198.

94) Danjo H., Hirata K., Noda M., Uchiyama S., Fukui K., Kawahata M., Azumaya I., Yamaguchi K., Miyazawa, T. Assembly Modulation by Adjusting Counter Charges of Heterobimetallic Supramolecular Polymers Composed of Tris(spiroborate) Twin Bowls.
J. Am. Chem. Soc. 2010, 132, 15556-15558.

93) Nogi T., Yasui N., Mihara E., Matsunaga Y., Noda M., Yamashita N., Toyofuku T., Uchiyama S., Goshima Y., Kumanogoh A., Takagi J.
Structural basis for semaphorin signaling through the plexin receptor.
Nature 2010, 467, 1123-1127.

92) Kawahara K., Nakamura S., Katsu Y., Motooka D., Hosokawa Y., Kojima Y., Matsukawa K., Takinowaki H., Uchiyama S., Kobayashi Y., Fukui K., and Ohkubo T.
Cloning, expression, crystallization and preliminary X-ray crystallographic analysis of a human condensin SMC2 hinge domain with short coiled coil.
Acta Cryst. F. 2010, 66 1067-1070.

91) Nishi H., Miyajima M., Nakagami H., Noda M., Uchiyama S., Fukui K.
Phase Separation of an IgG1 Antibody Solution under Low Ionic Strength Condition.
Pharm. Res. 2010, 27, 1348-1360.

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

89) Kai, T., Uchiyama, S., Nishi, Y., Kobayashi, Y., Tomiyama, T.
Thermal effects of added propanol on the helix-coil transition of (Pro-Pro-Gly)10 in D2O solution: An NMR study.
Chem. Phys. Lett. 2010, 491, 208-213.

88) Hayashihara K., Uchiyama S., Shimamoto S., Kobayashi S., Tomschik, M., Wakamatsu H, No, D, Suagahara H, Hori N, Noda M, Ohkubo T, Zlatanova J, Matsunaga S, Fukui K
The middle region of a HP1-binding protein, HP1-BP74, associates with linker DNA at the entry/exit site of nucleosomal DNA.
J. Biol. Chem. 2010, 285, 6498-507.

87) Nishio M, Kamiya Y, Mizushima T, Wakatsuki S, Sasakawa H, Yamamoto K, Uchiyama S, Noda M, McKay AR, Fukui K, Hauri H-P, and Kato K
Structural basis for the cooperative interplay between the two causative gene products of combined factor V and factor VIII deficiency.
Proc. Natl. Acad. Sci. USA 2010, 107, 4034-9.

86) Takenaka S., Wakai S., Tamegai H., Uchiyama S., Sambongi Y.
Comparative analysis of highly homologous shewanella cytochromes c5 for stability and function.
Biosci Biotechnol Biochem. 2010, 74, 1079-83.


85) Thakar, A., Gupta, P., Ishibashi, T., Finn, R., Silva-Moreno, B., Uchiyama, S., Fukui, K., Tomschik, M., Ausió, J., Zlatanova, J.
H2A.Z and H3.3 histone variants affect nucleosome structure: biochemical and biophysical studies.
Biochemistry 2009, 48, 10852-10857.

84) Uchiyama S., Suzuki, Y., Ohtake, K., Yokoyama, M., Ota, M., Aikawa, S., Komatsu, M., Sawada, T., Kagami, Y., Morishima, Y, Fukui, K
Development of Novel Humanized Anti-CD20 Antibodies Based on Affinity Constant and Epitope.
Cancer Science 2009, 101, 201-9.

83) Shiga D., Nakane D., Inomata T., Masuda H., Oda M., Noda M., Uchiyama S., Fukui K., Takano Y., Nakamura H., Mizuno T., Tanaka T.
The effect of the side chain length of Asp and Glu on coordination structure of Cu(2+) in a de novo designed protein.
Biopolymers 2009, 91, 907-916.

82) Oda M., Uchiyama S., Noda M., Nishi Y., Koga M., Mayanagi M., Robinson C. V., Fukui K., Kobayashi Y., Morikawa K., and Azuma T.
Effects of antibody affinity and antigen valence on molecular forms of immune complexes.
Mol. Immunol. 2009, 47, 352-364.

81) Gambe, A.E., Matsunaga, S., Takata, H., Ono-Maniwa, R., Baba, A., Uchiyama, S. and Fukui, K.
A nucleolar protein RRS1 contributes to chromosome congression.
FEBS Letters 2009, 583, 1951-1956.

80) Obuchi, M., Kawahara, K., Motooka, D., Nakamura, S., Yamanaka, M., Takeda, T., Uchiyama, S., Kobayashi, Y., Ohkubo, T., and Sambongi, Y.
Hyperstability and crystal structure of cytochrome c555 from hyperthermophilic Aquifex aeolicus.
Acta Crystal. D. Biol. Crystallogr. 2009, 65, 804-813.

79) Wada N., Kajiyama S., AkiyamaY., Kawakami S., No D., Uchiyama S., Otani M., Shimada T., Nose N., Suzuki G., Mukai Y. and Fukui K.
Bioactive beads-mediated transformation of rice with large DNA fragment containing Aegilops tauschii genes.
Plant Cell Reports 2009, 28, 759-768.


78) Amin MA, Matsunaga S, Uchiyama S, Fukui K.
Nucleophosmin is required for chromosome congression, proper mitotic spindle formation, and kinetochore-microtubule attachment in HeLa cells.
FEBS Lett., 2008, 582, 3839-44.

77) Hakamada S, Sonoyama T, Ichiki S, Nakamura S, Uchiyama S, Kobayashi Y, Sambongi Y.
Stabilization mechanism of cytochrome c552 from a moderately thermophilic bacterium, Hydrogenophilus thermoluteolus.
Biosci. Biotechnol. Biochem. 2008, 72, 2103-9.

76) Sonoyama, T., Hasegawa, J., Uchiyama, S., Nakamura, S., Kobayashi, Y., Sambongi, Y.
Stability enhancement of cytochrome c through heme deprotonation and mutations.
Biophys. Chem. 2008, 139, 37-41.

75) Amin MA, Matsunaga S, Uchiyama S, Fukui K.
Depletion of nucleophosmin leads to distortion of nucleolar and nuclear structures in HeLa cells.
Biochem J. 2008, 415, 345-351,

74) Kurihara, D., Matsunaga, S., Uchiyama, S., Fukui, K.
Live cell imaging reveals plant Aurora kinase has dual roles during mitosis.
Plant Cell Physiol. 2008, 49, 256-1261.

73) Fukui, K., Takata, H., and Uchiyama, S.,
Preparation Methods of Human Metaphase Chromosomes for their Proteome Analysis.
Methods Mol. Biol. 2008, 432, 149-160.

72) Cartagena, J.A., Matsunaga, S., Seki, M., Kurihara, D., Yokoyama, M., Shinozaki, K., Fujimoto, S., Azumi, Y., Uchiyama, S., Fukui, K.
The Arabidopsis SDG4 contributes to the regulation of pollen tube growth by methylation of histone H3 lysines 4 and 36 in mature pollen.
Dev. Biol. 2008, 315, 355-368.

71) Iida, T., Nishimura, S., Mochizuki, M, Uchiyama, S., Ohkubo, T., Urade, U., Tanaka, A., and Inui, T.
Thermal unfolding mechanism of lipocalin-type prostaglandin D synthase.
FEBS J. 2008, 275, 233-241.


70) Mori, Y., Urushida, Y., Nakano, M., Uchiyama, S., Kamino, K.,
Calcite-specific coupling protein in barnacle underwater cement.
FEBS J. 2007, 274, 6436-6446.

69) Nakagawa, M., Ohmido, N., Ishikawa, K., Uchiyama, S., Fukui, K., and Azuma, T.
Anti-peptide antibodies for examining the conformation, molecular assembly, and localization of an intracellular protein, ribosormal protein S6, in vivo.
J. Biochemistry 2007, 143, 325-332.

68) Takata, H., Matsunaga, S., Morimoto, A., Ma, N., Kurihara, D., Maniwa-Ono, R., Nakagawa, M., Azuma, T., Uchiyama, S., Fukui, K.
PHB2 protects sister chromatid cohesion in mitosis.
Current Biology 2007, 17, 1356-61..

67) Takata, H., Matsunaga, S., Morimoto, A., Maniwa-Ono, R., Uchiyama, S., Fukui, K.
H1.X with different properties from other linker histones is required for mitotic progression.
FEBS Lett. 2007, 581, 3783-8.

66) Ogawa, K., Sonoyama, T., Takeda, T., Ichiki, S., Nakamura, S., Kobayashi, Y., Uchiyama, S., Nakasone, K., Takayama, S. J., Mita, H., Yamamoto, Y., and Sambongi, Y.
Roles of a short connecting disulfide bond in the stability and function of psychrophilic Shewanella violacea cytochrome c5.
Extremophiles 2007, 11, 797-807.

65) Amin, M.A. Matsunaga, S., Ma, N., Takata, H., Yokoyama, M., Uchiyama, S., Fukui, K.
Fibrillarin, a nucleolar protein is required for normal nuclear morphology and cellular growth in HeLa cells. Biochem. Biophys. Res. Comm. 2007, 360, 320-6.

64) Higashi, T., Matsunaga, S., Isobe, K., Morimoto, A., Shimada, T., Kataoka, S., Watanabe, W., Uchiyama, S., Itoh, K., and Fukui. K
Histone H2A mobility is regulated by its tails and acetylation of core histone tails.
Biochem. Biophys. Res. Comm. 2007, 357, 627-632.

63) Fukui, K. and Uchiyama, S.
Chromosome protein framework from proteome analysis of isolated human metaphase chromosomes.
Chemical Rec. 2007, 7, 230-7.

62) Ma, N., Matsunaga, S., Takata, H., Ono-Maniwa, R., Uchiyama, S. and Fukui, K.
Nucleolin functions in nucleolus formation and chromosome congression.
J. Cell Sci., 2007, 120, 2091-2105.

61) Kurihara, D., Kawabe, A., Matsunaga, S., Nakagawa, K., Fujimoto, S., Uchiyama, S. and Fukui, K.
Characterization of a splicing variant of plant Aurora kinase.
Plant Cell Physiol. 2007, 48, 369-374.

60) Gambe, A.G., Maniwa,R., Matsunaga, S., Kutsuna, N., Higaki, T., Higashi, T., Hasezawa, S., Uchiyama, S. and Fukui, K.
Development of a multistage classifier for a monitoring system of cell activity based on imaging of chromosomal dynamics.
Cytometry, 2007, 71, 286-296.

59) Takata, H., Uchiyama, S., Nakamura, N., Nakashima, S., Kobayashi, S., Sone, T., Kimura S., Lahmers, S., Granzier, H., Labeit, S., Matsunaga, S., and Fukui, K.
A comparative proteome analysis of human metaphase chromosomes isolated from two different cell lines reveals a set of conserved chromosome-associated proteins.
Genes to Cells 2007, 12, 269-284.

58) Lin, L., Nakano, H., Nakamura, S., Uchiyama, S., Fujimoto, S., Matsunaga, S., Kobayashi, Y., Ohkubo, T., and Fukui, K.
Crystal Structure of Pyrococcus horikoshii PPC Protein at 1.60 Å Resolution.
Proteins: Structure, Function and Bioinfomatics 2007, 67, 505-507.

57) Engelhardt, P., Meriläinen1, J., Zhao, F., Uchiyama, S., Fukui, K., and Lehto, V.-P.,
Whole-Mount Immuno-Electron Tomography (IET) of Chromosomes and Cells.
Methods in Molecular Biology 2007, 369, 387-405.


56) Kurihara, D., Matsunaga, S., Kawabe, A., Fujimoto, S., Noda, M., Uchiyama, S., and Fukui, K.
Aurora kinase is required for chromosome segregation in tobacco BY-2 cells.
Plant journal 2006, 48, 572-580.

55) Nakamura, S., Oda, M., Kataoka, S., Ueda, S., Uchiyama, S., Yoshida T., Kobayashi, Y., and Ohkubo, T.,
Apo and holo structures OF 3α-hydroxysteroid dehydrogenase from Pseudomonas sp. B-0831: LOOP-HELIX TRANSITION INDUCED BY COENZYME BINDING.
J. Biol. Chem. 2006, 281, 31876-31884.

54) Kataoka, S., Nakamura, S., Ohkubo, T., Ueda, S., Uchiyama, S., Kobayashi, Y., and Oda, M.,
Crystallization and preliminary X-ray analysis of the complex of NADH and 3alpha-hydroxysteroid dehydrogenase fromPseudomonas sp.B-0831.
Acta Cryst. F. 2006, 62, 569-572.

53) Kobayashi, S., Uchiyama, S., Sone, T., Noda, M., Lin, L., Mizuno, H., Matsunaga, S., and Fukui, K.
Calreticulin as a new histone binding protein in mitotic chromosomes.
Cytogenet. Genome. Res. 2006, 115, 10-15.

52) Nakamura , S., Ichiki, S., Takashima, H., Uchiyama, S., Hasegawa, J., Kobayashi, Y., Sambongi, Y., and Ohkubo, T. Structure of Cytochrome c552 from a Moderate Thermophilic Bacterium, Hydrogenophilus thermoluteolus: Comparative Study on the Thermostability of Cytochrome c
Biochemistry 2006, 45, 6115-6123.

51) Oda M., Uchiyama, S., Robinson, C.V., Fukui, K., Kobayashi, Y., and Azuma A.
Regional and segmental flexibility of antibodies in interaction with antigens of different size.
FEBS. J. 2006, 273, 1476-1487.


50) Matsunaga, S., Kurihara, D., Kawabe, A., Nakagawa, K., Yoneda, A., Hasezawa, S., Uchiyama, S. and Fukui, K. Dynamics of the plant Aurora kinase AtAUR3 during mitosis and spindle abnormality induced by AtAUR3 overexpression.
Cytologia, 2005, 70, 1-2.

49) Higashi, T., Miyakawa, S., Uchiyama, S., Matsunaga, M., Takata, H., Fujimoto, S., Noda, N., Terauchi, A., Shimizu, S., Oda, O., Azuma, T., and Fukui, K.
Generation of monoclonal antibodies against chromosomal antigens that have a high sequence similarity between humans and mice.
J. Biotech. 2005, 120, 262-72.

48) Fujimoto, S., Yonemura, M., Matsunaga, S., Nakagawa, T., Uchiyama, S. and Fukui, K.
Characterization and localization analysis of Arabidopsis condensin subunits, AtCAP-H and AtCAP-H2. Planta 2005, 222, 293-300.

47) Lin, L., Nakano, H., Uchiyama, S., Fujimoto, S., Matsunaga, S., Nakamura, S., Kobayashi, Y., Ohkubo, T. and Fukui, K.
Crystallization and preliminary X-ray crystallographic analysis of a conserved domain in plants and prokaryotes from Pyrococcus horikoshii OT3.
Acta Cryst. F. 2005, 61, 414-416.

46) Kawabe, A., Matsunaga, S., Nakagawa, K., Kurihara D., Yoneda, A., Hasezawa, S., Uchiyama, S. and Fukui, K. Characterization of plant Aurora kinases during mitosis.
Plant Mol Biol. 2005, 58, 1-13.

45) 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

44) Ichiki, S., Nakamura, S., Ohkubo, T., Kobayashi, Y., Hasegawa, J., Uchiyama, S., Nishihara, H., Mizuta, K. and Sambongi, Y.
Cloning, expression, crystallization, and preliminary X-ray characterization of cytochrome c552 from a moderate thermophilic bacterium, Hydrogenophilus thermoluteolus.
Acta Cryst. F. 2005, 61, 395-398.

43) Nishi, Y., Uchiyama, S., Doi, M., Nishiuchi, Y., Nakazawa, T., Ohkubo, T. and Kobayashi, Y.
Different Effects of 4-Hydroxyproline and 4-Fluoroproline on the Stability of Collagen Triple Helix.
Biochemistry 2005, 44, 6034-6042.

42) Uchiyama, S., Kobayashi, S., Takata, H., Ishihara, T., Hori, N., Higashi, T., Hayashihara, K., Sone, T., Higo, D., Nirasawa, T., Takao, T., Matsunaga, S. and Fukui, K.
Proteome analysis of human metaphase chromosomes.
J. Biol. Chem. 2005, 280, 16994-17004.

41) Ma, Y. Z. Lee, J. H. Li, L. C. Uchiyama, S. Ohmido, N. and Fukui, K.
Fluorescent Labeling of Plant Chromosomes in Suspension by FISH.
Genes & Genetic Systems 2005, 80, 35-39.

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


39) Fujimoto S, Matsunaga S, Yonemura M, Uchiyama S, Azuma T, Fukui K.
Identification of a novel plant MAR DNA binding protein localized on chromosomal surfaces.
Plant Mol Biol. 2004, 56, 225-39.

38) Oikawa K, Nakamura S, Sonoyama T, Ohshima A, Kobayashi Y, Takayama SI, Yamamoto Y, Uchiyama S, Hasegawa J, Sambongi Y.
Five amino acid residues responsible for the high stability of hydrogenobacter thermophilus cytochrome c552: RECIPROCAL MUTATION ANALYSIS.
J Biol Chem. 2004, 280, 5527-32

37) Tanaka S, Taniguchi M, Uchiyama S, Fukui K, Kawai T.
Synthesis of long Poly(dG)[middle dot]Poly(dC) DNA using enzymatic reaction.
Chem. Commun. (Camb) 2004, 7, 2388-9.

36) Takashima, H., Tamaoki, H., Teno, N., Nishi, Y., Uchiyama, S., Fukui, K., and Kobayashi, Y.
Hydrophobic Core around Tyrosine for Human Endothelin-1 Investigated by Photochemically Induced Dynamic Nuclear Polarization Nuclear Magnetic Resonance and Matrix-Assisted Laser Desorption Ionization Time-of-Flight Mass Spectrometry.
Biochemistry 2004, 43, 13932-13936.

35) Uchiyama, S., Ohshima, A., Nakamura, S., Hasegawa, J., Terui, N., Takayama, SJ., Yamamoto, Y., Sambongi, Y. and Kobayashi, Y.
Complete Thermal-Unfolding Profiles of Oxidized and Reduced Cytochromes c.
J. Am. Chem. Soc. 2004, 126, 14684-14685.

34) Matsunaga, S., Ohshio, K., Harada, E., Fujiwara, S., Uchiyama, S. and Fukui, K.
Development of new dosimetry using extended DNA fibers.
J. Biosci. Bioeng. 2004, 98, 384-386.

33) Uchiyama, S., Kobayashi, S., Takata, H., Ishihara, T., Sone, T., Matsunaga, S. and Fukui, K.,
Protein composition of human metaphase chromosomes analyzed by two-dimensional electrophoreses.
Cytogenet. Genome Res., 2004, 107, 49-54.

32) Liu, H., Kawabe, A.,Matsunaga, S., Kobayashi, A., Harashima, S.,Uchiyama, S., Ohmido, N. and Fukui, K.
Application of the bio-active beads method in rice transformation.
Plant Biotechnology. 2004, 21, 303-306.

31) Liu, H., Kawabe, A., Matsunaga, S., Kim, Y. H., Higashi, T., Uchiyama, S., Harashima, S., Kobayashi, A. and Fukui K.
An Arabidopsis thaliana gene on the yeast artificial chromosome can be transcribed in tobacco cells.
Cytologia. 2004, 69, 235-240.

30) Doi, T., Matsunaga, S., Maeno, E., Tsuchiya, T., Higashi, T., Misawa, S., Uchiyama, S., Ooi, T., Nakao, M. and Fukui, K.
Cell culture in a closed nano-space.
J. Biosci. Bioeng. 2004, 98, 304-305.

29) Kai T, Uchiyama S, Nishi Y, Kobayashi Y, Tomiyama T.
Two States of the triple helix in the thermal transition of the collagen model Peptide (pro-pro-gly)10.
J Biomol Struct Dyn. 2004, 22, 51-8.

28) Lee, J. H., Ma, Y., Wako, T., Li, L.C., Kim, K.Y., Park, S.W., Uchiyama, S., and Fukui, K.
Flow karyotypes and chromosomal DNA contents of genus Triticum species and rye (Secale cereale).
Chromosome Res. 2004, 12, 93-102.


27) Nishi, Y., Doi, M., Uchiyama, S., Nishiuchi, Y., Nakazawa, T., Ohkubo, T., and Kobayashi, Y.
Stabilization mechanism of triple helical structure of collagen molecules.
Lett. in Pept. Sci. 2003, 10, 533-537.

26) Ohshima, A., Uchiyama, S., Nakano, H., Yoshida, T., Ohkubo, T., and Kobayashi, Y.
CD Measurement of Aqueous Protein Solution at High Temperature Up to 180°C-Thermodynamic Analysis of Thermophilic Protein by Pressure-proof Cell Compartment.
Lett. in Pept. Sci. 2003, 10, 539-543.

25) Doi, M., Nishi, Y., Uchiyama, S., Nishiuchi, Y., Nakazawa, T., Ohkubo, T., and Kobayashi, Y.,
Characterization of Collagen Model Peptides Containing 4-Fluoroproline; (4(S)-fluoroproline-Pro-Gly)10 Forms Triple Helix but (4(R)-fluoroproline-Pro-Gly)10 Doesn’t.
J. Am. Chem. Soc. 2003, 125, 9922-9923.

24) Terui, N., Tachiiri, N., Matsuo, H., Hasegawa, J., Uchiyama, S., Kobayashi, Y., Igarashi, Y., Sambongi, Y., and Yamamoto, Y.
Relationship between redox function and protein stability of cytochromes c.
J. Am. Chem. Soc. 2003, 125, 13650-13651.

23) Yoshida, T., Oka, S., Uchiyama, S., Nakano, H., Ohkubo, T., and Kobayashi, Y., A
Characteristic Domain Motion in the Ribosome Recycling Factor Revealed by 15N NMR Relaxation Experiments and Molecular Dynamics Simulations.
Biochemistry 2003, 42, 4101-7.

22) Nakano, H., Yoshida, T., Uchiyama, S., Kawachi, M., Matsuo, H., Kato, T., Ohshima, A., Yamaichi, Y., Honda, T., Kato, H., Yamagata, Y., Ohkubo, T., Kobayashi, Y.
Structure and binding mode of a ribosome recycling factor (RRF) from mesophilic bacterium.
J. Biol. Chem. 2003, 278, 3427-3436.

21) Yamamoto, Y., Terui, N., Mita, H., Sambongi, Y., Hemmi, H., Uchiyama, S., Kobayashi, Y., Igarashi, Y., Tachiiri, N., and Takayama, S.J.
Redox function and thermostability of various P. aeruginosa cytochrome c551 mutants.
J. Inorg. Biochem. 2003, 96, 254.


20) Sone, T., Iwano, M., Kobayashi, S., Ishihara, T., Hori, N., Takata, H., Ushiki, T., Uchiyama, S., and Fukui, K.
Changes in Chromosome Structure by Different Isolation Conditions.
Arch. Histol. Cytol. 2002, 65, 445-455.

19) Yamamoto, Y., Terui, N., Tachiiri, N., Minakawa, K., Matsuo, H., Kameda, T., Hasegawa, J., Sambongi, Y., Uchiyama, S., Kobayashi, Y., and Y Igarashi, Y.
Influence of Amino Acid Side-Chain Packing on Fe-Methionine Coordination in Thermostable Cytochrome c.
J. Am. Chem. Soc. 2002, 124, 11574-11575.

18) Doi, M., Nishi, Y., Kiritoshi, N., Iwata, T., Nago, M., Nakano, H., Uchiyama, S., Nakazawa, T., Wakamiya, T., and Kobayashi, Y.
Simple and efficient syntheses of Boc- and Fmoc-protected 4(R)- and 4(S)-fluoroproline solely from 4(R)-hydroxyproline.
Tetrahedron 2002, 58, 8453-8459.

17) Otaka A, Nakamura M, Nameki D, Kodama E, Uchiyama S, Nakamura S, Nakano H, Tamamura H, Kobayashi Y, Matsuoka M, Fujii N
Remodeling of gp41-C34 Peptide Leads to Highly Effective Inhibitors of the Fusion of HIV-1 with Target Cells.
Angew Chem Int Ed Engl 2002, 41, 2937-2940.

16) Okajima T., Kitaguchi, D., Fujii K., Matsuoka H., Goto S., Uchiyama S., Kobayashi Y., and Tanizawa K.
Novel Trimeric Adenylate Kinase from an Extremely Thermoacidophilic Archaeron, Sulfolobus solfataricus: molecular cloning, nucleotide sequencing, expression in Escherichia coli, and characterization of the recombinant enzyme.
Biosci. Biotechnol. Biochem. 2002, 66, 2112-2124.

15) Uchiyama, S., Hasegawa, J., Tanimoto, Y., Mizutani, M., Igarashi, Y., Sambongi, Y., Kobayashi, Y.
Thermodynamic Characterization for Variants of Mesophilic Cytochrome c and its Thermophilic Counterpart. Protein Eng. 2002, 15, 455-461.

14) Yoshida T., Kijima H., Oka S., Uchiyama S., Nakano H., Ohkubo T., and Kobayashi Y.
Backbone NMR assignments of Ribosome Recycling Factors (RRFs) from Escherichia coli and Thermotoga maritima.
Journal of Biomolecular NMR 2002, 22, 195-196.

13) Nakano H., Uchiyama S., Yoshida T., Ohkubo T., Kato H., Yamagata Y., and Kobayashi Y
Crystallization and preliminary X-ray crystallographic studies on of a mutant of ribosome recycling factor from Escherichia coli, Arg132Gly.
Acta Crystal. D. 2002, 58, 124-126.


12) Shen X, Tomoo K, Uchiyama S, Kobayashi Y, and Ishida T
Structural and thermodynamic behavior of eukaryotic initiation factor 4E in supramolecular formation with 4E-binding protein 1 and mRNA cap analogue, studied by spectroscopic methods.
Chem. Pharm. Bull. 2001, 49, 1299-303.

11) Yoshida, T., Uchiyama, S., Nakano, H., Kashimori, H., Kijima, H., Ohshima, T., Saihara, Y., Ishino, T., Shimahara, H., Yoshida, T., Yokose, K., Ohkubo, T., Kaji, A. and Kobayashi, Y.
Solution structure of the ribosome recycling factor from Aquifex aeolicus.
Biochemistry 2001, 40, 2387-2396.


10) Ishino, T., Atarashi, K., Uchiyama, S., Yamami, T., Yoshida, T., Hara, H., Yokose, K., Kobayashi, Y., and Nakamura, Y.
Interaction of ribosome recycling factor and elongation factor EF-G with E.coli ribosomes by the surface plasmon resonance technique.
Genes Cells 2000, 5, 953-963.

9) Hasegawa, J. *, Uchiyama, S. *, Tanimoto, Y., Mizutani, M., Kobayashi, Y., Sambongi, Y., Igarashi, Y.
Selected mutations in a mesophilic cytochrome c confer the stability of a thermophilic counterpart.
J. Biol. Chem. 2000, 275, 37824. * These authors equally contributed to this work.

8) Kato, K., Sautes-Fridman, C., Yamada, W., Kobayashi, K., Uchiyama, S., Kim, H., Enokizono, J., Galinha, A., Kobayashi, Y., Fridman, W.-H., Arata, Y., Shimada, I.
Structural basis of the interaction between IgG and Fcg-receptors.
J. Mol. Biol. 2000, 295, 213-24.


7) Kashimori, H., Yoshida, T., Kijima, H., Shimahara, H., Uchiyama, S., Ishino, T., Shuda, M., Nakano H., Shibata, Y., Saihara, Y., Ohkubo, T., Yoshida, T., Kaji, A., Kobayashi, Y.
Backbone NMR assignment and secondary structure of ribosome recycling factor (RRF) from Pseudomonas aeruginosa.
J. Biomol. NMR 1999, 15, 341-2.

6) Hasegawa, J., Shimahara, H., Mizutani, M., Uchiyama, S., Arai, H., Ishii, M., Kobayashi, Y., Ferguson, S. J., Sambongi, Y., Igarashi, Y.
Stabilization of Pseudomonas aeruginosa cytochrome c551 by systematic amino acid substitutions based on the structure of thermophilic Hydrogenobacter thermophilus cytochrome c552.
J. Biol. Chem. 1999, 274, 37533-7.


5) Ogawa K., Nishimura S., Uchiyama, S., Kobayashi K., Kyogoku Y., Hayashi M., Kobayashi Y.
Conformation analysis of eel calcitonin comparison with the conformation of elcatonin.
Eur. J. Biochem. 1998, 257, 331-6


4) Tomiyama, T., Uchiyama, S., and Shinohara, H.
Solubility and partial specific volume of C60 and C70.
Chem. Phys. Lett. 1997, 264, 143-148

3) Uchiyama, S., Kai, T., Kajiyama, K. Kobayashi, Y. and Tomiyama, T.
Measurement of thermodynamic quantities in the heating-rate dependent thermal transitions of sequenced polytripeptides.
Chem. Phys. Lett. 1997, 281, 92-96

2) Kai, T., Uchiyama, S., Kajiyama, K. Kobayashi, Y. and Tomiyama, T.
NMR observations of two states of triple helix in the thermal transition of (Pro-Pro-Gly)10
Chem. Phys. Lett. 1997, 281, 86-91


1) Kajiyama, K. Tomiyama, T., Uchiyama, S., and Kobayashi, Y.
Phase transitions of sequenced polytripeptides observed by microcalorimetry.
Chem. Phys. Lett. 1995, 247, 299-303.