計５１件　うち査読付論文　計５１件[＊]

1. *Daigo K, Kawamura T, Ohta Y, Ohashi R, Katayose S, Tanaka T, Aburatani H, Naito M, Kodama T, Ihara S, Hamakubo T.
   Proteomic Analysis of Native Hepatocyte Nuclear Factor-4a (HNF4a) Isoforms, Phosphorylation Status, and Interactive Cofactors.
   J Biol Chem. 286(1),674-86 2011; Epub 2010 Nov 3.
2. *Tsumoto K, Arakawa T, Chen L.
   Step-Wise Refolding of Recombinant Proteins.
   Curr Pharm Biotechnol. 11(3) , 285-288 (2010)
3. *Tsumoto K, Abe R, Ejima D, Arakawa T.
   Non-Denaturing Solubilization of Inclusion Bodies.
   Curr Pharm Biotechnol. 11(3) , 309-312 (2010)
4. *Ryota Abe, Jose M. M. Caaveiro, Motonori Kudou and Kouhei Tsumoto
   Solubilization of Membrane Proteins with Novel N-Acylamino Acid Detergents.
   Mol. BioSyst. 6 , 677-679 (2010)
5. *Saeko Yanaka, Motonori Kudou, Yoshikazu Tanaka, Takumi Sasaki, Sumiyo Takemoto, Atsuko Sakata Yukio Hattori, Tomoyuki Koshi, Shiro Futaki, Kouhei Tsumoto, and Toshihiro Nakashima
   Contribution of the flexible loop region to the function of Staphylococcal enterotoxin B (SEB)
   Protein Eng. Des. Select. 23(5) , 415-421(2010)
6. *Yoshino A, Ogino A, Yachi K, Ohta T, Fukushima T, Watanabe T, Katayama Y, Okamoto Y, Naruse N, Sano E, Tsumoto K.
   Gene expression profiling predicts response to temozolomide in malignant gliomas.
   Int J Oncol.36(6) ,1367-1377 (2010)
7. *Aikawa C, Nozawa T, Maruyama F, Tsumoto K, Hamada S, Nakagawa I.
   Reactive oxygen species induced by Streptococcus pyogenes invasion trigger apoptotic cell death in infected epithelial cells.
   Cell Microbiol. 12(6) , 814-830 (2010)
8. *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
   Growth of large protein crystals by a large-scale hanging drop method.
   J. Appl. Crystallogr., , 43(4), 937-939 (2010).
9. * Rahul S. Rajan, Kouhei Tsumoto, Masao Tokunaga, Hiroko Tokunaga, Yoshiko Kita and Tsutomu Arakawa
   Chemical and Pharmacological Chaperones: Application for Recombinant Protein Production and Protein Folding Diseases.
   Current Medicinal Chemistry 18(1), 1-15 (2011)
10. *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, Yusuke Mori
    Molecular resolution investigation of tetragonal lysozyme (110) face in liquid by FM-AFM.
    J. Vac. Sci. Technol. B,, C4C11-C4C14, (2010).
11. *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
    Crystal growth procedure of HIV-1 protease-inhibitor KNI-272 complex for neutron structural analysis at 1.9 A resolution.
    Cryst. Growth Des., , 10(7), 2990-2994 (2010).
12. *Atsuko Satoh, Saki Konishi, Haruka Tamura, Hannah G. Stickland, Heather M. Whitney, Alison G. Smith, Hiroyoshi Matsumura, and Tsuyoshi Inoue
    Substrate-induced closing of active site revealed by crystal structure of pantothenate synthetase from Staphylococcus aureus.
    Biochemistry, , 49(30), 6400-6410 (2010).
13. *Mihoko Maruyama, Noriko Shimizu, Shigeru Sugiyama, Yoshinori Takahashi, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Hiroyoshi Matsumura, and Yusuke Mori
    Estimated effects of silicone glue on protein crystal growth.
    J. Cryst. Growth, , 312(19), 2771-2774 (2010).
14. *Yusuke Nomura, Shigeru Sugiyama, Taiichi Sakamoto, Shin Miyakawa, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Tsuyoshi Inoue, Yusuke Mori, Yoshikazu Nakamura, and Hiroyoshi Matsumura
    Conformational plasticity of RNA for target recognition as revealed by the 2.15 A crystal structure of a human IgG-aptamer complex.
    Nucleic Acids Res., , 38(21), 7822-7829 (2010).
15. *Hiroyoshi Matsumura, Shigeru Sugiyama, Mika Hirose, Keisuke Kakinouchi, Mihoko Maruyama, Ryota Murai, Hiroaki Adachi, Kazufumi Takano, Satoshi Murakami, Yusuke Mori, and Tsuyoshi Inoue
    Approach for growth of high-quality and large protein crystals.
    J. Synchrotron Radiat., , 18, 16-19 (2011).
16. *Keishi Yamaguchi, Naoki Okamoto, Keiji Tokuoka, Shigeru Sugiyama, Nahoko Uchiyama, Hiroyoshi Matsumura, Koji Inaka, Yoshihiro Urade, and Tsuyoshi Inoue,
    Structure of the inhibitor complex of old yellow enzyme from Trypanosoma cruzi.
    J.Syncchrotron Radiat., , 18, 66-69 (2011).
17. *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,
    Effect of evaporation on protein crystals grown in semi-solid agarose hydrogel.
    Jpn. J. Appl. Phys., , 50, 025502 (2011).
18. *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,
    Larser-induced nucleation in protein crystallization: Local increase in protein concentration induced by femtosecond laser irradiation.
    J. Cryst. Growth, , 318, 741-744 (2011).
19. *Argyris Papantonis, Joshua D. Larkin, Youichiro Wada, Yoshihiro Ohta, Sigeo Ihara, Tatsuhiko Kodama, Peter R. Cook,
    Active RNA Polymerases: Mobile or Immobile Molecular Machines?,
    PLoS Biology, Vol.8, Issue 7, e1000419, 2010
20. *Ueda K, Ichikawa M, Takahashi M, Momose T, Ohtomo K, Kurokawa M.
    FDG-PET is effective in the detection of granulocytic sarcoma in patients with myeloid malignancy.
    Leukemia Research 34: 1239-1241. 2010.
21. *Shibata K, Arai M, Matsuura M, Uno K, Yoshida T, Momose T, Ohtomo K.
    Relationship of detection rate of PET cancer screening examinees and risk factors: analysis of background of examinees.
    Ann Nucl Med. 2010. Dec. 28 ( Epub ahead of print).
22. *Kin T, Shin M, Oyama H, Kamada K, Kunimatsu A, Momose T, Saito N.
    Impact of multiorgan fusion imaging and interactive three-dimensional visualization for intraventricular neuroendoscopic surgery.
    Neurosurgery. 2011.Feb 16 (Epub ahead of print).
23. *Iwanari H, Nakada-Nakura Y, Kusano-Arai O,Suzuki N,Kodama T,Sakihama T, Hamakubo T.
    A method of generating antibodies against exogenously administered self- antigen by manipulating CD4+CD25+ regulatory T cells.
    Journal of Immunological Method. 2011 Jun 30;369(1-2). 108-14.2011.
24. *Hajicek N, Kukimoto-Niino M, Mishima-Tsumagari C, Chow CR, Shirouzu M, Terada T, Patel M, Yokoyama S, Kozasa T.
    Identification of critical residues in Galpha13 for stimulation of p115RhoGEF activity and the structure of the Galpha13- p115RhoGEF RH domain complex.
    J Biol Chem. 2011 Jun 10;286(23).20625-36. 2011.
25. *Kozasa T, Hajicek N, Chow CR, Suzuki N.
    Signalling mechanisms of RhoGTPase regulation by the heterotrimeric G proteins G12 and G13.
    J Biochem. 2011 Oct;150(4):357-69.2011
26. *Yoshihiro Ohta, Tatsuhiko Kodama, and Sigeo Ihara,
    Cellular-automaton model of the cooperative dynamics of RNA polymerase II during transcription in human cells,
    Phys. Rev. E 84, 041922., doi: 10.1103/PhysRevE.84.041922. 2011
27. *Mochizuki Y, Ohashi R, Kawamura T, Iwanari H, Kodama T, Naito M, and Hamakubo T.
    Phosphatidylinositol 3-phosphatase myotubularin-related protein 6 (MTMR6) is regulated by small GTPase Rab1B in the early secretory and autophagic pathways.
    J Biol Chem., 288(2), 1009-1021, 2013.
28. *Kusano-Arai O, Iwanari H, Mochizuki Y, Nakata H, Kodama T. Kitoh T, and Hamakubo T.
    Evaluation of the asparagine synthetase level in leukemia cells by monoclonal antibodies.
    Hybridoma (Larchmt)., 31(5), 325-332, 2012.
29. *Mitsui K, Sakihama T, Takahashi K, Masuda K, Fukuda R, Hamana H, Sato T, and Hamakubo T.
    Functional reconstitution of olfactory receptor complex on baculovirus.
    Chem Senses., 2012, 37(9), 837-847, 2012.
30. *Kudo S, Caaveiro J. M. M., Miyafusa T, Goda S, Ishii K, Matsuura T, Sudou Y, Kodama T, Hamakubo T, and Tsumoto K.
    Structural and thermodynamic characterization of the self-adhesive properties of human P-cadherin.
    Mol.Biosyst., 8, 2050-2053, 2012.
31. *Matsumura H, Kusaka N, Nakamura T, Tanaka N, Sagegami K, Uegaki K, Inoue T and Mukai Y.
    Crystal structure of the N-terminal domain of the yeast general corepressor Tup1p and its functional implications.
    J. Biol. Chem., 287(32), 26528-26538, 2012.
32. *Matsumura H, Mizohata E, Ishida H, Kogami A, Ueno T, Makino A, Inoue T, Yokota A, Mae T, and Kai Y.
    Crystal structure of rice Rubisco and implications for activation induced by positive effectors NADPH and 6-phosphogluconate.
    J. Mol. Biol., 422(1), 75- 86, 2012.
33. *Ohta Y, Nishiyama A, Wada Y, Ruan Y, Kodama T, Tsuboi T, Tokihiro T, and Ihara S.
    Path-preference cellular-automaton model for traffic flow through transit points and its application to the transcription process in human cells.
    Phys Rev E., 86, 021918, 2012.
34. *Mimura I, Nangaku M, Kanki Y, Tsutsumi S, Inoue T, Kohro T, Yamamoto S, Fujita T, Shimamura T, Suehiro J, Taguchi A, Kobayashi M, Tanimura K, Inagaki T, Tanaka T, Hamakubo T, Sakai J, Aburatani H, Kodama T, and Wada Y.
    Dynamic change of chromatin conformation in response to hypoxia enhances the expression of GLUT3 (SLC2A3) by cooperative interaction of hypoxia- inducible factor 1 and KDM3A.
    Mol Cell Biol., 32(15), 3018-3032, 2012.
35. *Rusu L, Andreeva A, Visintine DJ, Kim K, Vogel SM, Stojanovic-Terpo A, Chernaya O, Liu G, Bakhshi FR, Haberichter SL, Iwanari H, Kusano-Arai O, Suzuki N, Hamakubo T, Kozasa T, Cho J, Du X, Minshall RD.
    G protein-dependent basal and evoked endothelial cell vWF secretion.
    Blood., 16;123(3):442-50., doi: 10.1182/blood-2013-03-489351. 2014.
36. *Chow CR, Suzuki N, Kawamura T, Hamakubo T, Kozasa T.
    Modification of p115RhoGEF Ser(330) regulates its RhoGEF activity.
    Cell Signal., 25(11):2085-92., doi: 10.1016/j.cellsig.2013.06.012. 2013.
37. *Ito T. and Tsumoto K.
    Effects of subclass change on the structural stability of chimeric, humanized, and human antibodies under thermal stress.
    Protein Sci., 22. 1542-1551., doi: 10.1002/pro.2340., 2013.
38. *Fukunaga A. and Tsumoto K.
    Improving the affinity of an antibody for its antigen via long-range electrostatic interactions.
    Protein Eng Des Sel., 26, 773-780., doi: 10.1093/protein/gzt053., 2013.
39. *Tokunaga M, Mizukami M, Yamasaki K, Tokunaga H, Onishi H, Hanagata H, Ishibashi M, Miyauchi A, Tsumoto K, and Arakawa T.
    Secretory production of single-chain antibody (scFv) in Brevibacillus choshinensis using novel fusion partner.
    Appl Microbiol Biotechnol., 97. 8569-8580., doi: 10.1007/s00253-013-4695-2., 2013.
40. *Kiyoshi M, Caaveiro JM, Miura E, Nagatoishi S, Nakakido M, Soga S, Shirai H, Kawabata S, and Tsumoto K.
    Affinity improvement of a therapeutic antibody by structure-based computational design: generation of electrostatic interactions in the transition state stabilizes the antibody-antigen complex.
    PLoS One., 9. e87099., doi: 10.1371/journal.pone.0087099., 2014.
41. *Kudo S, Caaveiro JM, Goda S, Nagatoishi S, Ishii K, Matsuura T, Sudou Y, Kodama T, Hamakubo T. and Tsumoto K.
    Identification and characterization of the x-dimer of human p-cadherin: implications for homophilic cell adhesion.
    Biochemistry., 53. 1742-1752., doi: 10.1021/bi401341g., 2014.
42. *Fujita J., Miyazaki Y., Hirose M., Nagao C., Mizohata E., Matsumoto Y., Mizuguchi K., Inoue T., and Matsumura H.
    Expression, purification, crystallization and preliminary crystallographic study of FtsA from methicillin-resistant Staphylococcus aureus.
    Acta Crystal. F69, 895-898, 2013
43. *Fukuda Y., Tse K.M., Lintuluoto M., Fukunishi Y., Mizohata E., Matsumura H., Takami H., Nojiri M., and Inoue T.
    Structural insights into the function of a thermostable copper-containing nitrite reductase.
    J. Biochem. 155, 123-135, 2014
44. *H. Fujitani, K. Shinoda, T. Yamashita, and Kodama T.
    High performance computing for drug development on K computer.,
    J. Phys.: Conf. Ser., 454;012018, 2013.
45. *J. Xu, T. Yamashita, N. Agmonm, and G. A. Voth.
    On the Origin of Proton Mobility Suppression in Aqueous Solutions of Amphiphiles.,
    J. Phys. Chem.B., 117;15426–15435, 2013.
46. *Yamashita T.
    Properties of a Hydrated Excess Proton near the Cholesterol-Containing Phospholipid Bilayer.,
    JPS Conf. Proc., 1;013086, 2014.
47. *山下雄史.
    シミュレーションで見る分子認識のメカニズムと薬のデザイン.
    BioSupercomputing Newsletter, 9;5, 2013
48. *Takefumi Yamashita, Akihiko Ueda, Takashi Mitsui, Atsushi, Tomonaga, Shunji Matsumoto, Tatsuhiko Kodama and Hideaki Fujitani.
    Molecular dynamics simulation-based evaluation of the binding free enegies of computationally designed drug candidates:Importance of the dynamical effects.
    Chemical and Pharmaceutical Bulletin., 62(72), 2014
49. *T. Yamashita and Fujitani H.,
    On Accurate Calculation of the Potential of Mean Force between Antigen and Antibody: A Case of the HyHEL-10-Hen Egg White Lysozyme system.
    Chemical Physics Letters, 2014 (accepted)
50. *H. Fujitani, K. Shinoda, and Yamashita T.、
    Molecular dynamics simulations of antigen and antibody.
    BBA-PROTEINS AND PROTEOMICS, 2014(accepted)
51. *Yumura K, Ui M, Doi H, Hamakubo T, Kodama T, Tsumoto K, and Sugiyama A.
    Mutations for dereasing the immunogenicity and maintaining the function of core streptavidin.
    Protein Sci., 22(2); 213-21, 2013