創薬等支援技術基盤プラットフォーム

解析拠点　制御拠点　情報拠点
2015　2014　2013　2012

謝辞について

年度別

2015

1. Crystal structures of the human adiponectin receptors. Tanabe, H., Fujii, Y., Okada-Iwabu, M., Iwabu, M., Nakamura, Y., Hosaka, T., Motoyama, K., Ikeda, M., Wakiyama, M., Terada, T., Ohsawa, N., Hato, M., Ogasawara, S., Hino, T., Murata, T., Iwata, S., Hirata, K., Kawano, Y., Yamamoto, M., Kimura-Someya, T., Shirouzu, M., Yamauchi, T., Kadowaki, T., Yokoyama, S. Nature, 520, 312-316, 2015. (DOI:doi:10.1038/nature14301)(PubMed:25855295)
2. Making things better. Takagi, J., Tate, C.G. Current Opin. Struct. Biol., in press, 2015.
3. Structural basis for simultaneous recognition of an O-glycan and its attached peptide of mucin family by immune receptor PILRα. Kuroki, K., Wangb, J., Ose, T., Yamaguchi, M., Tabata, S., Maita, N., Nakamura, S., Kajikawa, M., Kogure, A., Satoh, T., Arase H., Maenaka K. Proc. Natl. Acad. Sci., 111, 8877-8882, 2015. (DOI:10.1073/pnas.1324105111 )(PubMed:24889612)

2014

1. Structural basis of starvation-induced assembly of the autophagy initiation complex. Fujioka, Y., Suzuki, S.W., Yamamoto, H., Kondo-Kakuta, C., Kimura, Y., Hirano, H., Akada, R., Inagaki, F., Ohsumi, Y. and Noda, N.N. J. Phys.: Conf. Ser., 21, 513-521, 2014. (DOI:10.1038/nsmb.2822)(PubMed:24793651)
2. X-ray crystallographic structure of RNase Po1 that exhibits anti-tumor activity. Kobayashi, H., Katsutani, T., Hara, Y., Motoyoshi, N., Itagaki, T., Akita, F., Higashiura, A., Yamada, Y., Inokuchi, N., Suzuki, M. J Synchrotron Radiat., 20, 838-42, 2014. (DOI:10.1248/bpb.b13-00929)(PubMed:24882409)
3. S46 peptidases are the first exopeptidases to be members of clan PA. Sakamoto,Y., Suzuki, Y., Iizuka, I., Tateoka, C., Roppongi, S., Fujimoto, M., Inaka, K., Tanaka, H., Masaki, M., Ohta, K., Okada, H., Nonaka, T., Morikawa, Y., T. Nakamura, K., Ogasawara, W., Tanaka, N. J Synchrotron Radiat., 20, 938-42, 2014. (DOI:10.1038/srep04977)(PubMed:24827749)
4. Structural basis of Sec-independent membrane protein insertion by YidC. Kumazaki, K., Chiba, S., Takemoto, M., Furukawa, A., Nishiyama, K., Sugano, Y., Mori, T., Dohmae, N., Hirata, K., Nakada-Nakura, Y., Maturana, A.D., Tanaka, Y., Mori, H., Sugita, Y., Arisaka, F., Ito, K., Ishitani, R., Tsukazaki, T., Nureki, O. J Synchrotron Radiat., 20, 890-3, 2014. (DOI:10.1038/nature13167)(PubMed:24739968)
5. Crystal structure of a claudin provides nsight into the architecture of tight junctions. Suzuki, H., Nishizawa, T., Tani, K., Yamazaki, Y., Tamura, A., Ishitani, R., Dohmae, N., Tsukita, S., Nureki, O., Fujiyoshi, Y. Biophys. Res. Commun., 447, 32-37, 2014. (DOI:10.1126/science.1248571)(PubMed:24744376)
6. Crystal structure of Cas9 in complex with guide RNA and target DNA. Nishizawa, T., Kita, S., Maturana, A.D., Furuya, N., Hirata, K., Kasuya, G., Ogasawara, S., Dohmae, N., Iwamoto, T., Ishitani, R., Nureki, O. Science, 341, 168-72, 2014. (DOI:10.1016/j.cell.2014.02.001)(PubMed:24529477)
7. Structural basis for gating mechanisms of a eukaryotic P-glycoprotein homolog. Kodan, A., Yamaguchi, T., Nakatsu, T., Sakiyama, K., Hipolito, C.J., Fujioka, A., Hirokane, R., Ikeguchi, K., Watanabe, B., Hiratake, J., Kimura, Y., Suga, H., Ueda, K., Kato, H. Nature, 496, 247-51, 2014. (DOI:10.1073/pnas.1321562111)(PubMed:24591620)
8. Structural insights into the epimerization of beta-1,4-linked oligosaccharides catalyzed by cellobiose 2-epimerase, the sole enzyme epimerizing non-anomeric hydroxyl groups of nnmodified sugars. Fujiwara, T., Saburi, W., Matsui, H., Mori, H., Yao, M. J.Biol. Chem., 289, 3405-3415, 2014. (DOI:10.1074/jbc.M113.531251)(PubMed:24362032)
9. Structural basis of the divergent oxygenation reactions catalyzed by the rieske nonheme iron oxygenase carbazole 1,9a-dioxygenase. Inoue, K., Usami, Y., Ashikawa, Y., Noguchi, H., Umeda, T., Yamagami-Ashikawa, A., Horisaki, T., Uchimura, H., Terada, T., Nakamura, S., Shimizu, K., Habe, H., Yamane, H., Fujimoto, Z., Nojiri, H. Appl. Environ Microbiol., 80, 2821-2832, 2014. (DOI:10.1128/AEM.04000-13)(PubMed:24584240)
10. In vitro synthesis of the E. coli sec translocon from DNA. Matsubayashi, H., Kuruma, Y., Ueda, T. Angew Chem Int Ed Engl., 53, 7535-7538, 2014. (DOI:10.1002/anie.201403929)(PubMed:24894900)
11. X-ray crystallographic structure of RNase Po1 that exhibits antitumor activity. Kobayashi, H., Katsutani, T., Hara, Y., Motoyoshi, N., Itagaki, T., Akita, F., Higashiura, A., Yamada, Y., Inokuchi, N., Suzuki, M. Biol. Pharm. Bull., 37, 968-978, 2014. (DOI:10.1248/bpb.b13-00929)(PubMed:24882409)
12. The phosphorylation of HIV-1 Gag by atypical protein kinase C facilitates viral infectivity by promoting Vpr incorporation into virions. Kudoh, A., Takahama, S., Sawasaki, T., Ode, H., Yokoyama, M., Okayama, A., Ishikawa, A., Miyakawa, K., Matsunaga, S., Kimura, H., Sugiura, W., Sato, H., Hirano, H., Ohno, S., Yamamoto, N., Ryo, A. Retrovirology, 11, e9, 2014. (DOI:10.1186/1742-4690-11-9)(PubMed:24447338)
13. Suppression of LUBAC-mediated linear ubiquitination by a specific interaction between LUBAC and the deubiquitinases CYLD and OTULIN. Takiuchi, T., Nakagawa, T., Tamiya, H., Fujita, H., Sasaki, Y., Saeki, Y., Takeda, H., Sawasaki, T., Buchberger, A., Kimura, T., Iwai, K. Genes Cells, 19, 254-272, 2014. (DOI:10.1111/gtc.12128)(PubMed:24461064)
14. Involvement of Hepatitis C virus NS5A hyperphosphorylation mediated by casein kinase I-α in infectious virus production. Masaki, T., Matsunaga, S., Takahashi, H., Nakashima, K., Kimura, Y., Ito, M., Matsuda, M., Murayama, A., Kato, T., Hirano, H., Endo, Y., Lemon, S.M., Wakita, T., Sawasaki, T., Suzuki, T. J Virol., 88, 7541-7555, 2014. (DOI:10.1128/JVI.03170-13)(PubMed:24760886)
15. Retroviral vectors for homologous recombination provide efficient cloning and expression in mammalian cells. Kobayashi, E., Kishi, H., Ozawa, T., Horii, M., Hamana, H., Nagai, T., Muraguchi, A. Biochem. Bioph. Res. Co., 444, 319-324, 2014. (DOI:10.1016/j.bbrc.2014.01.049)(PubMed:24462869)
16. Structural basis for potent inhibition of SIRT2 deacetylase by a macrocyclic peptide inducing dynamic structural change. Yamagata, K., Goto, Y., Nishimasu, H., Morimoto, J., Ishitani, R., Dohmae, N., Takeda, N., Nagai, R., Komuro, I., Suga, H., Nureki, O. Structure, 22, 345-352, 2014. (DOI:10.1016/j.str.2013.12.001)(PubMed:24389023)
17. Structural basis for gating mechanisms of a eukaryotic P-glycoprotein homolog. Kodan, A., Yamaguchi, T., Nakatsu, T., Sakiyama, K., Hipolito, C.J., Fujioka, A., Hirokane, R., Ikeguchi, K., Watanabe, B., Hiratake, J., Kimura, Y., Suga, H., Ueda, K., Kato, H. Pro. Nat. Acad. Sci., 111, 4049-4054, 2014. (DOI:10.1073/pnas.1321562111)(PubMed:24591620)
18. Protein cocrystallization molecules originating from in vitro selected macrocyclic peptides. Hipolito, C.J., Bashiruddin, N.K., Suga, H. Curr Opin Struct Biol., 26, 24-31, 2014. (DOI:10.1016/j.sbi.2014.03.001)(PubMed:24681557)
19. PA tag: a versatile protein tagging system using a super high affinity antibody against a dodecapeptide derived from human podoplanin. Fujii, Y., Kaneko, M., Neyazaki, M., Nogi, T., Kato, Y., Takagi, J. Protein Exp. Pur., 95, 240-247, 2014. (DOI:10.1016/j.pep.2014.01.009)(PubMed:24480187)
20. Lysosomal sorting of amyloid-β by the SORLA receptor is impaired by a familial Alzheimer's disease mutation. Caglayan, S., Takagi-Niidome, S., Liao, F., Carlo, A-S., Schmidt, V., Burgert, T., Kitago, Y., Fuchtbauer, E-M., Fuchtbauer, A., Holtzman, D.M., Takagi, J., Wilnow, T.E. Science Transl. Med., 6, e223ra20, 2014. (DOI:10.1126/scitranslmed.3007747)(PubMed:24523320)
21. PA tag: a versatile protein tagging system using a super high affinity antibody against a dodecapeptide derived from human podoplanin. Fujii, Y., Kaneko, M., Neyazaki, M., Nogi, T., Kato, Y. and Takagi, J. Protein Exp. Pur., 95, 240-247, 2014. (DOI:10.1016/j.pep.2014.01.009)(PubMed:24480187)
22. IDH2 mutation is frequently observed in giant cell tumor of bone. Kaneko, M., Liu, X., Oki, H., Ogasawara, S., Nakamura, T., Saidoh, N., Tsujimoto, Y., Matsuyama, Y., Uruno, A., Sugawara, M., Tsuchiya, T., Yamakawa, M., Yamamoto, M., Takagi, M., Kato, Y. Cancer Sci., 105, 744-748, 2014. (DOI:10.1111/cas.12413)(PubMed:24898068)
23. PA tag: a versatile protein tagging system using a super high affinity antibody against a dodecapeptide derived from human podoplanin. Fujii, Y., Kaneko, M., Neyazaki, M., Nogi, T., Kato, Y., Takagi, J. Protein Exp. Pur., 95, 240-247, 2014. (DOI:10.1016/j.pep.2014.01.009)(PubMed:24480187)
24. Distinct Features of the Histone Core Structure in Nucleosomes Containing the Histone H2A.B Variant. Sugiyama, M., Arimura, Y., Shirayama, K., Fujita, R., Oba, Y., Sato, N., Inoue, R., Oda, T., Sato, M., Heenan, R.K., Kurumizaka, H. Biophys. J., 106, 2206-2213, 2014. (DOI:10.1016/j.bpj.2014.04.007)(PubMed:24853749)
25. Purification, crystallization and preliminary X-ray crystallographic analysis of a rice Rac/Rop GTPase, OsRac1. Kosami, K-I., Ohki, I., Hayashi, K., Tabata, R., Usugi, S., Kawasaki, T., Fujiwara, T., Nakagawa, A., Shimamoto, K., Kojima, C. Acta Cryst., F70, 113-115, 2014. (DOI:10.1107/S2053230X13033645)(PubMed:24419631)
26. Active-site structure of thermophilic Foc subunit ring in membranes elucidated by solid-state NMR. Kang, S-J., Todokoro, Y., Yumen, I., Shen, B., Iwasaki, I., Suzuki, T., Miyagi, A., Yoshida, M., Fujiwara, T., Akutsu, H. Biophysical J., 106, 390-398, 2014. (DOI:10.1016/j.bpj.2013.12.005)(PubMed:24461014)
27. 1H, 15N and 13C resonance assignments of the conserved region in the middle domain of S. pombe Sin1 protein. Kataoka, S., Furuita, K., Hattori, Y., Kobayashi, N., Ikegami, T., Shiozaki, K., Fujiwara, T., Kojima, C. Biomol. NMR Assign., 9, 89-92, 2014. (DOI:10.1007/s12104-014-9550-6)(PubMed:24610629)
28. Cell-free expression of protein complexes for structural biology. Terada, T., Murata, T., Shirouzu, M., Yokoyama, S. Methods Mol. Biol. , 1091, 151-159, 2014. (DOI:10.1007/978-1-62703-691-7_10)(PubMed:24203330)
29. Cell-free membrane protein expression. Kimura-Someya, T., Shirouzu, M., Yokoyama, S. Methods Mol. Biol., 1118 , 267-273, 2014. (DOI:10.1007/978-1-62703-782-2_18)(PubMed:24395423)
30. Dimer-dimer interaction of the bacterial selenocysteine synthase SelA promotes functional active-site formation and catalytic specificity. Itoh, Y., Brocker, M.J., Sekine, S-I., Soll, D., Yokoyama, S. J. Mol. Biol., 8, 1723-1735, 2014. (DOI:10.1016/j.jmb.2014.01.003)(PubMed:24456689)
31. Crystal structure of the eukaryotic translation initiation factor 2A from Schizosaccharomyces pombe. Kashiwagi, K., Ito, T., Yokoyama, S. J. Struct. Funct. Genomics, 15, 125-130, 2014. (DOI:10.1007/s10969-014-9177-y)(PubMed:24569939)
32. MicroRNA-mediated deadenylation in a mammalian cell-free system. Wakiyama, M., Yokoyama, S. Methods Mol. Biol., 1125 , 341-351, 2014. (DOI:10.1007/978-1-62703-971-0_27)(PubMed:24590801)
33. MicroRNA-mediated deadenylation in a mammalian cell-free system. Wakiyama, M., Yokoyama, S. Methods Mol. Biol., 1118 , 257-266, 2014. (DOI:10.1007/978-1-62703-782-2_17)(PubMed:24395422)
34. A new entropy model for RNA: part III, Is the folding free energy landscape of RNA funnel shaped?. Dawson, W., Takai, T., Ito, N., Shimizu, K., Kawai, G. J. Nucleic. Acids. Investig., 5, e2652, 2014. (DOI:10.4081/jnai.2014.2652 )
35. 生命科学の複数 LOD の統合による目的別タンパク質分子間相互作用Linked Open Dataの構築. 込山悠介, 番野雅城, 鑓水優行, 加藤文彦, 大向一輝, 武田英明, 清水謙多郞 人工知能学会誌, 29, 356-363, 2014. (DOI:10.1527/tjsai.29.356)
36. N-terminal hydrophobic amino acids of ATF5 confer IL-1β-induced stabilization. Abe, T., Kojima, M., Akanuma, S., Iwashita, H., Yamazaki, T., Okuyama, R., Ichikawa, K., Umemura, M., Nakano, H., Takahashi, S., Takahashi, Y. J. Biol. Chem., 289, 3888-3900, 2014. (DOI:10.1074/jbc)(PubMed:24379400)
37. POODLE: tools predicting intrinsically disordered regions of amino acid sequence. Shimizu, K. Methods Mol. Biol., 1137, 131-145, 2014. (DOI:10.1007/978-1-4939-0366-5_10.)(PubMed:24573479)
38. Ligand heterogeneity of the cysteine protease binding protein family in the parasitic protist Entamoeba histolytica. Marumo, K., Nakada-Tsukui, K., Tomii, K., Nozaki, T. Int. J. Parasitol., 14, 120-129, 2014. (DOI:10.1016/j.ijpara.2014.04.008)(PubMed:24907554)
39. Ubiquitin is phosphorylated by PINK1 to activate parkin. Koyano, F., Okatsu, K., Kosako, H., Tamura, Y., Go, E., Kimura, M., Kimura, Y., Tsuchiya, H., Yoshihara, H., Hirokawa, T., Endo, T., Fon, E.A., Trempe, J.F., Saeki, Y., Tanaka, K., Matsuda, N. Nature, 510, 162-166, 2014. (DOI:10.1038/nature13392)(PubMed:24784582)
40. Blockade of TLR3 protects mice from lethal radiation-induced gastrointestinal syndrome. Takemura, N., Kawasaki, T., Kunisawa, J., Sato, S., Lamichhane, A., Kobiyama, K., Aoshi, T., Ito, J., Mizuguchi, K., Karuppuchamy, T., Matsunaga, K., Miyatake, S., Mori, N., Tsujimura, T., Satoh, T., Kumagai, Y., Kawai, T., Standley, D.M., Ishii, K.J., Kiyono, H., Akira, S., Uematsu, S.. Nat. Commun., 5, e3492, 2014. (DOI:10.1038/ncomms4492)(PubMed:24637670)
41. Differential roles of epigenetic changes and Foxp3 expression in regulatory T cell-specific transcriptional regulation. Morikawa, H., Ohkura, N., Vandenbon, A., Itoh, M., Nagao-Sato, S., Kawaji, H., Lassmann, T., Carninci, P., Hayashizaki, Y., Forrest, A.R., Standley, D.M., Date, H., Sakaguchi, S., Consortium, F. Proc. Natl. Acad. Sci., 111, 5289-5294, 2014. (DOI:10.1073/pnas.1312717110)(PubMed:24706905)
42. Intrinsic Disorder Mediates Cooperative Signal Transduction in STIM1. Furukawa, Y., Teraguchi, S., Ikegami, T., Dagliyan, O., Jin, L., Hall, D., Dokholyan, N.V., Namba, K., Akira, S., Kurosaki, T., Baba, Y., Standley, D.M. J. Mol. Biol., 426, 2082-2097, 2014. (DOI:10.1016/j.jmb.2014.03.006)(PubMed:24650897)
43. High-resolution structural model building of antibodies by combination of bioinformatics, expert knowledge and molecular simulations. Shirai, H., Ikeda, K., Yamashita, K., Tsuchiya, Y., Sarmiento, J., Liang, S., Morokata, T., Mizuguchi, K., Higo, J., Standley, D.M., Nakamura, H. Proteins, 82, 1624-1635, 2014. (DOI:10.1002/prot.24591)(PubMed:24756852)
44. MAFFT: iterative refinement and additional methods. Katoh, K., Standley, D.M. Methods Mol. Biol., 1079, 131-146, 2014. (DOI:10.1007/978-1-62703-646-7_8)(PubMed:24170399)
45. LEAP: highly accurate prediction of protein loop conformations by integrating coarse-grained sampling and optimized energy scores with all-atom refinement of backbone and side chains. Liang, S., Zhang, C., Zhou, Y. J. Comput. Chem., 5, 335-341, 2014. (DOI:10.1002/jcc.23509)(PubMed:24327406)
46. Thermodynamic and structural characterization of the specific binding of Zn(II) to human protein DJ-1. Tashiro, S., Caaveiro, J.M., Wu, C.X., Hoang, Q.Q., Tsumoto, K. Biochemistry, 53, 2218-2220, 2014.
47. Selective inhibitors of a PAF biosynthetic enzyme lysophosphatidylcholine acyltransferase 2. Tarui, M., Shindou, H., Kumagai, K., Morimoto, R., Harayama, T., Hashidate, T., Kojima, H., Okabe,T., Nagano, T., Nagase, T., Shimizu, T. J. Lipid Res., 55, 1386-1396, 2014.
48. Rational Hopping of a Peptidic Scaffold into Non-Peptidic Scaffolds: Structurally Novel Potent Proteasome Inhibitors Derived from a Natural Product, Belactosin A. Kawamura, S., Unno, Y., Hirokawa, T., Asai, A., Arisawa, M., Shuto, S. Chem. Commun., 50, 2445-2447, 2014.
49. Structurally novel highly potent proteasome inhibitors created by the structure-based hybridization of nonpeptidic belactosin derivatives and peptide boronates. Kawamura, S., Unno, Y., Asa,i A., Arisawa, M., Shuto, S. J. Med. Chem., 57, 2726-2735, 2014.
50. Total synthesis of syringolin?a and improvement of its biological activity. Chiba, T., Hosono, H., Nakagawa, K., Asaka, M., Takeda, H., Matsuda, A., Ichikawa, S. Angew. Chem. Int. Ed., 53, 4836-4839, 2014.
51. Synthesis and Biological Evaluation of Quinaldopeptin. Katayama, K., Okamura, T., Sunadome, T., Nakagawa, K., Takeda, H., Shiro, M., Matsuda, A., Ichikawa, S. J. Org. Chem., 79, 2580-2590, 2014.
52. Development of Diversity-enhanced Extracts of Curcuma zedoaria and Their New Sesquiterpene-like Compounds. Kikuchi, H., Sakura, K., Oshima, Y. Org. Lett., 16, 1916-1919, 2014.
53. Total syntheses of leuconoxine, leuconodine B, and melodinine E by oxidative cyclic aminal formation and diastereoselective ring-closing metathesis. Umehara, A., Ueda, H., Tokuyama, H. Org. Lett., 16, 2526-2529, 2014.
54. The effect of podoplanin inhibition on lymphangiogenesis under pathological conditions. Maruyama, Y., Maruyama, K., Kato, Y., Kajiya, K., Moritoh, S., Yamamoto, K., Matsumoto, Y., Sawane, M., Kerjaschiki, D., Nakazawa, T., Kinoshita, S. Invest. Ophthalmol. Vis. Sci., 55, 4813-4822, 2014.
55. Synthesis of functionalized polycyclic aromatic compounds via a formal [2+2]-cycloaddition. Nagamoto, Y., Yamaoka, Y., Fujimura, S., Takemoto, Y., Takasu, K. Org. Lett., 16, 1008-1011, 2014.
56. Optimization of diaryl amine derivatives as kinesin spindle protein inhibitors. Takeuchi, T., Oishi, S., Kaneda, M., Misu, R., Ohno, H., Sawada, J., Asai, A., Nakamura, S., Nakanishi, I., Fujii, N. Bioorg. Med. Chem., 22, 3171-3179, 2014.
57. Design and synthesis of fluorescent probes for GPR54. Kaneda, M., Misu, R., Ohno, H., Hirasawa, A., Ieda, N., Uenoyama, Y., Tsukamura, H., Maeda, K., Oishi, S., Fujii, N. Bioorg. Med. Chem., 22, 3325-3330, 2014.
58. Gold-catalyzed cascade cyclization of (azido)ynamides: an efficient strategy for the construction of indoloquinolines. Tokimizu, Y., Oishi, S., Fujii, N., Ohno, H. Org. Lett., 16, 3138-3141, 2014.
59. Discovery of protein disulfide isomerase P5 inhibitors that reduce the secretion of MICA from cancer cells. Horibe, T., Torisawa, A., Okuno, Y., Kawakami, K. Chem. Bio. Chem., 15, 1599-1606, 2014.
60. Dynamic kinetic resolution of racemic allylic alcohols via hydrolaseMetal combo catalysis: An effective method for the synthesis of optically active compounds. Akai, S. Chemistry Letters, 43, 746-754, 2014.
61. Enantiospecific synthesis and cytotoxicity evaluation of ligudentatol: a programmed aromatization approach to the 2,3,4-trisubstituted phenolic motif via visible-light-mediated group transfer radical cyclization. Moustafa, G.A.I., Suizu, H., Aoyama, H., Arai, M., Akai, S., Yoshimitsu, T. Chemistry-An Asian Journal, 9, 1506 - 1510, 2014.
62. Thermodynamic and structural characterization of the specific binding of Zn(II) to human protein DJ-1. Tashiro, S., Caaveiro, J.M., Wu, C.X., Hoang, Q.Q., Tsumoto, K. Biochemistry, 53, 2218-2220, 2014. (DOI:10.1021/bi500294h)(PubMed:24697266)
63. Selective inhibitors of a PAF biosynthetic enzyme lysophosphatidylcholine acyltransferase 2. Tarui, M., Shindou, H., Kumagai, K., Morimoto, R., Harayama, T., Hashidate, T., Kojima, H., Okabe,T., Nagano, T., Nagase, T., Shimizu, T. J. Lipid Res., 55, 1386-1396, 2014. (DOI:10.1194/jlr.M049205)(PubMed:24850807)
64. Rational Hopping of a Peptidic Scaffold into Non-Peptidic Scaffolds: Structurally Novel Potent Proteasome Inhibitors Derived from a Natural Product, Belactosin A. Kawamura, S., Unno, Y., Hirokawa, T., Asai, A., Arisawa, M., Shuto, S. Chem. Commun., 50, 2445-2447, 2014. (DOI:10.1039/c3cc48818g)(PubMed:24452398)
65. Structurally novel highly potent proteasome inhibitors created by the structure-based hybridization of nonpeptidic belactosin derivatives and peptide boronates. Kawamura, S., Unno, Y., Asa,i A., Arisawa, M., Shuto, S. J. Med. Chem., 57, 2726-2735, 2014. (DOI:10.1021/jm500045x)(PubMed:24524217)
66. Total synthesis of syringolin?a and improvement of its biological activity. Chiba, T., Hosono, H., Nakagawa, K., Asaka, M., Takeda, H., Matsuda, A., Ichikawa, S. Angew. Chem. Int. Ed., 53, 4836-4839, 2014. (DOI:10.1002/anie.201402428)(PubMed:24668894)
67. Synthesis and Biological Evaluation of Quinaldopeptin. Katayama, K., Okamura, T., Sunadome, T., Nakagawa, K., Takeda, H., Shiro, M., Matsuda, A., Ichikawa, S. J. Org. Chem., 79, 2580-2590, 2014. (DOI:10.1021/jo500039d)(PubMed:24555872)
68. Development of Diversity-enhanced Extracts of Curcuma zedoaria and Their New Sesquiterpene-like Compounds. Kikuchi, H., Sakura, K., Oshima, Y. Org. Lett., 16, 1916-1919, 2014. (DOI:10.1021/ol5004324)(PubMed:24646363)
69. Total syntheses of leuconoxine, leuconodine B, and melodinine E by oxidative cyclic aminal formation and diastereoselective ring-closing metathesis. Umehara, A., Ueda, H., Tokuyama, H. Org. Lett., 16, 2526-2529, 2014. (DOI:10.1021/0l500903e)(PubMed:24754345)
70. The effect of podoplanin inhibition on lymphangiogenesis under pathological conditions. Maruyama, Y., Maruyama, K., Kato, Y., Kajiya, K., Moritoh, S., Yamamoto, K., Matsumoto, Y., Sawane, M., Kerjaschiki, D., Nakazawa, T., Kinoshita, S. Invest. Ophthalmol. Vis. Sci., 55, 4813-4822, 2014. (DOI:10.1167/iovs.13-13711)(PubMed:24985477)
71. Synthesis of functionalized polycyclic aromatic compounds via a formal [2+2]-cycloaddition. Nagamoto, Y., Yamaoka, Y., Fujimura, S., Takemoto, Y., Takasu, K. Org. Lett., 16, 1008-1011, 2014. (DOI:10.1021/ol403757e)(PubMed:24437688)
72. Optimization of diaryl amine derivatives as kinesin spindle protein inhibitors. Takeuchi, T., Oishi, S., Kaneda, M., Misu, R., Ohno, H., Sawada, J., Asai, A., Nakamura, S., Nakanishi, I., Fujii, N. Bioorg. Med. Chem., 22, 3171-3179, 2014. (DOI:10.1016/j.bmc.2014.04.008)(PubMed:24794744)
73. Design and synthesis of fluorescent probes for GPR54. Kaneda, M., Misu, R., Ohno, H., Hirasawa, A., Ieda, N., Uenoyama, Y., Tsukamura, H., Maeda, K., Oishi, S., Fujii, N. Bioorg. Med. Chem., 22, 3325-3330, 2014. (DOI:10.1016/j.bmc.2014.04.052)(PubMed:24857775)
74. Gold-catalyzed cascade cyclization of (azido)ynamides: an efficient strategy for the construction of indoloquinolines. Tokimizu, Y., Oishi, S., Fujii, N., Ohno, H. Org. Lett., 16, 3138-3141, 2014. (DOI:10.1021/ol5012604)(PubMed:24874723)
75. Discovery of protein disulfide isomerase P5 inhibitors that reduce the secretion of MICA from cancer cells. Horibe, T., Torisawa, A., Okuno, Y., Kawakami, K. Chem. Bio. Chem., 15, 1599-1606, 2014. (DOI:10.1002/cbic.201400050)(PubMed:24920482)
76. Dynamic kinetic resolution of racemic allylic alcohols via hydrolaseMetal combo catalysis: An effective method for the synthesis of optically active compounds. Akai, S. Chemistry Letters, 43, 746-754, 2014. (DOI:10.1246/cl.140223)
77. Enantiospecific synthesis and cytotoxicity evaluation of ligudentatol: a programmed aromatization approach to the 2,3,4-trisubstituted phenolic motif via visible-light-mediated group transfer radical cyclization. Moustafa, G.A.I., Suizu, H., Aoyama, H., Arai, M., Akai, S., Yoshimitsu, T. Chemistry-An Asian Journal, 9, 1506 - 1510, 2014. (DOI:10.1002/asia.201400110)(PubMed:19755802)
78. Synthesis of oxygen-bridged decahydroazulene derivatives: simplified analogues of biologically active natural products. Abe, H., Tezuka, A., Kobayashi, T., Ito, H. Heterocycles, 88, 651?662, 2014. (DOI:10.3987/COM-13-S(S)19)
79. Bis(pentafluorosulfanyl)phenyl azide as an expeditious tool for click chemistry toward antitumor pharmaceuticals. Yang, Y.D., Tokunaga, E., Akiyama, H., Saito, N., Shibata, N. Chem. Med. Chem., 9, 913-917, 2014. (DOI:10.1002/cmdc.201400059)(PubMed:24591397)
80. Iodoarene-catalyzed fluorination and aminofluorination by Ar-I/HF・pyridine/mCPBA system. Suzuki, S., Kamo, T., Fukushi, K., Hiramatsu, T., Tokunaga, E., Dohi, T., Kita, Y., Shibata, N. Chemical Science, 5, 2754-2760, 2014. (DOI:10.1039/C3SC53107D)
81. Diastereoselective additive trifluoromethylation/halogenation of isoxazole triflones: synthesis of all-carbon functionalized trifluoromethyl isoxazoline triflones. Kawai, H., Sugita, Y., Tokunaga, E., Sato, H., Shiro, M., Shibata, N. ChemistryOpen., 3, 14-18, 2014. (DOI:10.1002/open.201300044)(PubMed:24688889)
82. S-((phenylsulfonyl)difluoromethyl)thiophenium salts: carbon-selective electrophilic difluoromethylation of beta-ketoesters, beta-diketones, and dicyanoalkylidenes. Wang, X., Liu, G., Xu, X.H., Shibata, N., Tokunaga, E., Shibata, N. Angew. Chem. Int. Ed. Engl., 53, 1827-1831, 2014. (DOI:10.1002/anie.201309875)(PubMed:24505003)
83. A phthalocyanine-subphthalocyanine heterodinuclear dimer: comparison of spectroscopic properties with those of homodinuclear dimers of constituting units. Shibata, N., Mori, S., Hayashi, M., Umeda, M., Tokunaga, E., Shiro, M., Sato, H., Hoshi, T., Kobayashi, N. Chem. Commun., 50, 3040-3043, 2014. (DOI:10.1039/C3CC49831J)(PubMed:24510209)
84. Asymmetric synthesis of efavirenz via organocatalyzed enantioselective trifluoromethylation. Okusu, S., Kawai, H., Yasuda, Y., Sugita, Y., Kitayama, T., Tokunaga, E., Shibata, N. Asian J. Org. Chem., 3, 449-452, 2014. (DOI:10.1002/ajoc.201402016)
85. Formal C-H-azidation based shortcut to diazido building blocks for the versatile preparation of photoaffinity labeling probes. Yoshida, S., Misawa, Y., Hosoya, T. Eur. J. Org. Chem., 2014, 3991-3995, 2014. (DOI:10.1002/ejoc.201402516)(PubMed:25855820)
86. A mixed population of antagonist and agonist binding conformers in a single crystal explains partial agonism against vitamin D receptor: Active vitamin D analogues with 22R-alkyl group. Anami, Y., Itoh, T., Egawa, D., Yoshimoto, N., Yamamoto, K. J. Med. Chem, 57, 4351-4367, 2014. (DOI:10.1021/jm500392t)(PubMed:24742174)
87. Tandem ruthenium-catalyzed transfer-hydrogenative cyclization/intramolecular diels-alder reaction of enediynes affording dihydrocoumarin-fused polycycles. Yamamoto, Y., Matsui, K., Shibuya, M. Org. Lett., 16, 1806-1809, 2014. (DOI:10.1021/ol500548x)(PubMed:24597824)
88. Synthesis of β-allylbutenolides via one-pot copper-catalyzed hydroallylation/cyclization of g-hydroxybutynoate derivatives. Yamamoto, Y., Shibano, S., Kurohara, T., Shibuya, M. J. Org. Chem., 79, 4503-4511, 2014. (DOI:10.1021/jo500536b)(PubMed:24745963)
89. Total synthesis of (-)-lepenine. Nishiyama, Y., Han-ya, Y., Yokoshima, S., T., Fukuyama, S. J. Org. Chem., 136, 6598-6601, 2014. (DOI:10.1021/ja503023h)(PubMed:24749477)
90. Total synthesis of (-)-lepistine. Kitabayashi, Y., Yokoshima, S., Fukuyama, T. Org. Lett., 16, 2862-2864, 2014. (DOI:10.1021/ol5010033)(PubMed:24814009)
91. New photocleavable linker: α-thioacetophenone-type linker. Yonezawa, H., Nishiyama, Y., Takeo, K., Iwatsubo, T., Tomita, T., Yokoshima, S., Fukuyama, T. Bioorg. Med. Chem. Lett., 24, 2831-2833, 2014. (DOI:10.1016/j.bmcl.2014.04.104)(PubMed:24841630)
92. Blind Prediction of Interfacial Water Positions in CAPRI. Lensink, M.F., Moal, I.H., Bates, P.A., Kastritis, P.L., Melquiond, A.S.J., Karaca, E., Schmitz, C., van Dijk, M., Bonvin, A. M.J.J., Eisenstein,M., Jimenez-Garcia, B., Grosdidier, S., Solernou, A., Perez-Cano, L., Pallara, C., Fernandez-Recio, J., Xu, J., Muthu, P., K., Kilambi, K. P., Gray, J.J., Grudinin, S., Derevyanko, G., Mitchell, J.C., Wieting, J., Kanamori, E., Tsuchiya, Y., Murakami, Y., Sarmiento, J., Standley, D.M., Shirota, M., Kinoshita, K., Nakamura, H., Chavent, M., Ritchie, D.W., Park, H.,Ko, J., Lee, H., Seok, C., Shen, Y., Kozakov, D., Vajda, S., Kundrotas, P.J., Vakser, I.A., Pierce, B.G., Hwang, H., Vreven, T., Weng, Z., Buch, I., Farkash, E., Wolfson, H.J., Zacharias, M., Q., S., Zhou, H.-X., Huang, S.-Y., Zou, X, Wojdyla, J.A., Kleanthous, C., Wodak,S.J. Proteins, 82, 620-634, 2014. (DOI:10.1002/prot.24439)(PubMed:24155158)
93. GIANT: pattern analysis of molecular interactions in 3D structures of protein-small ligand complexes. Kasahara, K., Kinoshita, K. BMC Bioinformatics, 15, e12, 2014. (DOI:10.1186/1471-2105-15-12)(PubMed:24423161)
94. Structural basis for high substrate-binding affinity and enantioselectivity of 3-quinuclidinone reductase AtQR. Hou, F., Miyakawa, T., Kataoka, M., Takeshita, D., Kumashiro, S., Uzura, A., Urano, N., Nagata, K., Shimizu, S., Tanokura, M. Biochem. Biophys. Res. Commun., 446, 911-915, 2014. (DOI:10.1016/j.bbrc.2014.03.030)(PubMed:24642255)
95. Human CTP:phosphoethanolamine cytidylyltransferase: Enzymatic properties and unequal catalytic roles of CTP-binding motifs in two cytidylyltransferase domains. Tian, S., Ohtsuka, J., Wang, S., Nagata, K., Tanokura, M., Ohta, A., Horiuchi, H., Fukuda, R. Biochem. Biophys. Res. Commun., 499, 26-31, 2014. (DOI:10.1016/j.bbrc.2014.04.131)(PubMed:24802409)
96. Identification of functionally important residues of the silkmoth pheromone biosynthesis-activating neuropeptide receptor, an insect ortholog of the vertebrate neuromedin U receptor. Kawai, T., Katayama, Y., Guo, L., Liu, D., Suzuki, T., Hayakawa, K., Lee, J. M., Nagamine, T., Hull, J.J., Matsumoto, S., Nagasawa, H., Tanokura, M., Nagata, K. J. Biol. Chem., 289, 19150-19163, 2014. (DOI:10.1074/jbc.M113.488999)(PubMed:24847080)
97. Structural insights of post-translational modification sites in the proteome of Thermus thermophilus. Masui, R., Takahata, Y., Inoue, M., Iio, Y., Okanishi, H., Kim, K., Nakagawa, N., Yura, K., Kuramitsu, S. Struct. Funct. Genomics., 15, 137-151, 2014. (DOI:10.1007/s10969-013-9169-3)(PubMed:24407378)

2013

1. Current status and future prospects of an automated sample exchange system PAM for protein crystallography. Hiraki, M., Yamada, Y., Chavas, L.M., Matsugaki, N., Igarashi, N., Wakatsuki, S. J. Phys.: Conf. Ser., 425, e012014, 2013. (DOI:10.1088/1742-6596/425/1/012014)
2. Data Management System at the Photon Factory Macromolecular Crystallography Beamline. Yamada, Y., Matsugaki, N., Chavas, L.M., Hiraki, M., Igarashi, N., Wakatsuki, S. J. Phys.: Conf. Ser., 425, e012017, 2013. (DOI:10.1088/1742-6596/425/1/012017)
3. New methodologies at PF AR-NW12A: the implementation of high-pressure macromolecular crystallography. Chavas, L.M., Nagae, T., Yamada, H., Watanabe, N., Yamada, Y., Hiraki, M., Matsugaki, N. J. Synchrotron Rad., 20, 838-842, 2013. (DOI:10.1107/S0909049513020797)(PubMed:24121324)
4. Improvements toward highly accurate diffraction experiments at the macromolecular micro-crystallography beamline BL-17A. Yamada, Y., Chavas, L.M., Igarashi, N., Hiraki, M., Wakatsuki, S., Matsugaki, N. Nature, 509, 516-520, 2013. (DOI:10.1107/S0909049513022875)(PubMed:24121344)
5. Improvement of an automated protein crystal exchange system PAM for high-throughput data collection. Yamada, Y., Chavas, L.M., Igarashi, N., Hiraki, M., Wakatsuki, S., Matsugaki, N. Science, 344, 304-307, 2013. (DOI:10.1107/S0909049513021067)(PubMed:24121334)
6. Crystal structure of glycoside hydrolase family 127 β-L-arabinofuranosidase from Bifidobacterium longum. Ito, T., Saikawa, K., Kim, S., Fujita, K., Ishiwata, A., Kaeothip, S., Arakawa, T., Wakagi, T., Beckham, G.T., Ito, Y., Fushinobu, S. J. Biol. Chem., 289, 3501-3509 , 2013. (DOI:10.1016/j.bbrc.2014.03.096)(PubMed:24680821)
7. Crystallization and preliminary X-ray analysis of human leukocyte cell-derived chemotaxin 2 (LECT2). Zheng, H., Miyakawa, T., Sawano, Y, Yamagoe, S, Tanokura, M. Acta Cryst., F69, 316-319, 2013. (DOI:10.1107/S1744309113003758)(PubMed:23519812)
8. Structural basis for the counter-transport mechanism of a H+/Ca2+ exchanger. Nishizawa, T., Kita, S., Maturana, A.D., Furuya, N., Hirata, K., Kasuya, G., Ogasawara, S., Dohmae, N., Iwamoto, T., Ishitani, R., Nureki, O. Science, 34, 168-172, 2013. (DOI:10.1126/science.1239002)(PubMed:23704374)
9. Structural basis for the drug extrusion mechanism by a MATE multidrug transporter. Tanaka, Y., Hipolito, C. J., Maturana, A. D., Ito, K., Kuroda, T., Higuchi, T., Katoh, T., Kato, H. E., Hattori, M., Kumazaki, K., Tsukazaki, T., Ishitani, R., Suga, H., Nureki, O. Nature, 496, 245-251, 2013. (DOI:10.1038/nature12014)(PubMed:23535598)
10. Crystal structures of an archaeal oligosaccharyltransferase provide insights into the catalytic cycle of N-linked protein glycosylation. Matsumoto, S., Shimada, A., Nyirenda, J., Igura, M., Kawano, Y., Kohda, D. Proc. Natl. Acad. Sci., 111, 17868-17873, 2013. (DOI:10.1073/pnas.1309777110.)(PubMed:24127570)
11. 3D Manipulation of protein microcrystals with optical tweezers for X-ray crystallography. Hikima, T., Hashimoto, K., Murakami, H., Ueno, G., Kawano, Y., Hirata, K., Hasegawa, K., Kumasaka, T., & Yamamoto, M. J. Phys.: Conf. Ser., 425, e012011, 2013. (DOI: 10.1088/1742-6596/425/1/012011)
12. Achievement of protein micro-crystallography at SPring-8 beamline BL32XU. Hirata, K., Kawano, Y., Ueno, G., Hashimoto, K., Murakami, H., Hasegawa, K., Hikima, T., Kumasaka, T., & Yamamoto, M. J. Phys.: Conf. Ser., 425, e012002, 2013. (DOI: 10.1088/1742-6596/425/1/012002)
13. SPring-8 BL41XU, a high-flux macromolecular crystallography beamline. Hasegawa, K., Shimizu, N., Okumura, H., Mizuno, N., Baba, S., Hirata, K., Takeuchi, T., Yamazaki, H., Senba, Y., Ohashi, H., Yamamoto, M., Kumasaka, T. J. Synchrotron Radiat., 20, 910-913, 2013. (DOI:10.1107/S0909049513022176.)(PubMed:24121338)
14. Translation enhancer improves the ribosome liberation from translation initiation. Takahashi, S., Furusawa,H., Ueda,T., Okahata, Y. J. Am. Chem. Soc., 135, 13096-13106, 2013. (DOI:10.1021/ja405967h)(PubMed:23927491)
15. A novel mode of ferric ion coordination by the periplasmic ferric ion-binding subunit FbpA of an ABC-type iron transporter from Thermus thermophilus HB8. Wang, S., Ogata, M., Horita, J., Ohtsuka, S., Nagata, K., Tanokura, M. Acta Cryst., D70, 196-202, 2013. (DOI:10.1107/S1399004713026333)(PubMed:24419392)
16. Expression, high-pressure refolding and purification of human leukocyte cell-derived chemotaxin 2 (LECT2). Zheng, H., Miyakawa, T., Sawano, Y., Yamagoe, S., Tanokura, M. Protein Expr. Purif., 88, 221-229, 2013. (DOI:10.1016/j.pep.2013.01.008)(PubMed:23337084)
17. Complex structure of the DNA-binding domain of AdpA, the global transcription factor in Streptomyces griseus, and a target duplex DNA reveals the structural basis of its tolerant DNA sequence specificity. Yao, M.D., Ohtsuka, J., Nagata, K., Miyazono, K., Zhi, Y., Ohnishi, Y., Tanokura, M. J.Biol. Chem., 288, 31019-31029, 2013. (DOI:10.1074/jbc.M113.473611)(PubMed:24019524)
18. Structural units important for activity of a novel-type phosphoserine phosphatase from Hydrogenobacter thermophilus TK-6 revealed by crystal structure analysis. Chiba, Y., Horita, S., Ohtsuka, J., Arai, H., Nagata, K., Igarashi, Y., Tanokura, M., Ishii, M. J.Biol. Chem., 288, 11448-11458, 2013. (DOI:10.1074/jbc.M112.449561)(PubMed:23479726)
19. Integrated database of information from structural genomics experiments. Asada, Y., Sugahara, M., Mizutani, H., Naitow, H., Tanaka, T., Matsuura, Y., Agari, Y., Ebihara, A., Shinkai, A., Kuramitsu, S., Yokoyama, S., Kaminuma, E., Kobayashi, N., Nishikata, K., Shimoyama, S., Toyoda, T., Ishikawa, T., Kunishima, N. Acta Cryst., D69, 914-919, 2013. (DOI:10.1107/S0907444913001728)(PubMed:23633602)
20. Structure and function of a TetR family transcriptional regulator, SbtR, from Thermus thermophilus HB8. Agari, Y., Sakamoto, K., Yutani, K., Kuramitsu, S., Shinkai, A. Proteins, 81, 1166-1178, 2013. (DOI:10.1002/prot.24266)(PubMed:23408580)
21. Loose binding of the DF axis with the A3B3 complex stimulates the initial activity of enterococcus hirae V1-ATPase. Alam, M.J., Satoshi, A., Saijo, S., Suzuki, K., Mizutani, K., Ishizuka-Katsura, Y., Ohsawa, N., Terada, T., Shirouzu, M., Yokoyama, S., Iwata, S., Kakinuma, Y., Yamato, I., Murata, T. PLoS ONE, 8, e74291, 2013. (DOI:10.1371/journal.pone.0074291)(PubMed:24058539)
22. Mutant LV476-7AA of A-subunit of Enterococcus hirae V1-ATPase: High affinity of A3B3 complex to DF axis and low ATPase activity. Alam, M.J., Yamato, I., Arai, S., Saijo, S., Mizutani, K., Ishizuka-Katsura, Y., Ohsawa, N., Terada, T., Shirouzu, M., Yokoyama, S., Iwata, S., Kakinuma, Y., Murata, T. SpringerPlus, 2, e689, 2013. (DOI:10.1186/2193-1801-2-689)(PubMed:24404436)
23. Myosin phosphatase is inactivated by caspase-3 cleavage and phosphorylation of myosin phosphatase targeting subunit 1 during apoptosis. Iwasaki, T., Katayama, T., Kohama, K., Endo, Y., Sawasaki, T. Mol. Biol. Cell, 24, 748-756, 2013. (DOI:10.1091/mbc.E11-08-0740)(PubMed:23345589)
24. Suppression of DS1 phosphatidic acid phosphatase confirms resistance to Ralstonia solanacearum in Nicotiana benthamiana. Nakano, M., Nishihara, M., Yoshioka, H., Takahashi, H., Sawasaki, T., Ohnishi, K., Hikichi, Y., Kiba, A. PLoS One, 8, e75124, 2013. (DOI:10.1371/journal.pone.0075124)(PubMed:24073238)
25. Anti-interleukin-5 and multiple autoantibodies are associated with human atherosclerotic diseases and serum interleukin-5 levels. Ishigami, T., Abe, K., Aoki, I., Minegishi, S., Ryo, A., Matsunaga, S., Matsuoka, K., Takeda, H., Sawasaki.?T., Umemura, S., Endo, Y. The FASEB Journal, 9, 3437-3445, 2013. (DOI:10.1096/fj.12-222653)(PubMed:23699176)
26. Nek5, a novel substrate for caspase-3, promotes skeletal muscle differentiation by up-regulating caspase activity. Shimizu, K., Sawasaki, T. FEBS Lett., 587, 2219-2225, 2013. (DOI:10.1016/j.febslet.2013.05.049)(PubMed:23727203)
27. Interaction between RB protein and NuMA is required for proper alignment of spindle microtubules. Uchida, C., Hattori, T., Takahashi, H., Yamamoto, N., Kitagawa, M., Taya, Y. Genes Cells, 19, 89-96, 2013. (DOI:10.1111/gtc.12119)(PubMed:24350565)
28. Ca2+ spiking activity caused by the activation of store-operated Ca2+ channels mediates TNF-α release from microglial cells under chronic purinergic stimulation. Ikeda, M., Tsuno, S., Sugiyama, T., Hashimoto, A., Yamoto, K., Takeuchi, K., Kishi, H., Mizuguchi, H., Kohsaka, S., Yoshioka, T. Biochim. Biophys. Acta., 1833, 2573-2585, 2013. (DOI:10.1016/j.bbamcr.2013.06.022)(PubMed:23830920)
29. Polymeric microfluidic devices exhibiting sufficient capture of cancer cell line for isolation of circulating tumor cells. Ohnaga, T., Shimada, Y., Moriyama, M., Kishi, H., Obata, T., Takata, K., Okumura, T., Nagata, A., Muraguchi, A., Tsukada, K. Biomed. Microdevices, 15, 611-616, 2013. (DOI:10.1007/s10544-013-9775-7)(PubMed:23666489)
30. A novel cloning and expression system yields and validates TCRs from blood lymphocytes of cancer patients within 10 days. Kobayashi, E., Mizukoshi, E., Kishi, H., Ozawa, T., Hamana, H., Nagai, T., Nakagawa, H., Jin, A., Kaneko, S., Muraguchi, A. Nat. Med., 19, 1542-1546, 2013. (DOI:10.1038/nm.3358)(PubMed:24121927)
31. Structural basis for the drug extrusion mechanism by a MATE multidrug transporter. Tanaka, Y., Hipolit, C.J., Maturana, A., Ito, K., Kuroda, T., Higuchi, Katoh, T., Kato, H.E., Hattori, M., Kumazaki, K., Tsukazaki, T., Ishitani, R., Suga, H., Nureki, O. Nature, 496, 247-251, 2013. (DOI:10.1038/nature12014)(PubMed:23535598)
32. A macrocyclic peptide that serves as a cocrystallization ligand and inhibits the function of a MATE family transporter. Hipolito, C.J., Tanaka, Y., Katoh, T., Nureki, O., Suga, H. Molecules, 18, 10514-10530, 2013. (DOI:10.3390/molecules180910514)(PubMed:23999725)
33. A multi-purpose fusion tag derived from an unstructured and hyper-acidic region of the amyloid precursor protein. Sangawa, T., Tabata, S., Suzuki, K., Saheki, Y., Tanaka, K., Takagi, J. Protein Sci., 22, 840-850, 2013. (DOI:10.1002/pro.2254)(PubMed:23526492)
34. 動物細胞発現系を用いた細胞外タンパク質の試料調製. 禾　晃和、三原　恵美子、高木　淳一 「タンパク質結晶の最前線」（シー・エム・シー出版）, 第Ⅱ編第1章, 25-31, 2013.
35. Establishment of novel monoclonal antibodies KMab-1 and MMab-1 specific for IDH2 mutations. Kaneko, M.K., Morita, S., Tsujimoto, Y., Yanagiya, R., Nasu, K., Sasaki, H., Hozumi, Y., Goto, K., Natsume, A., Watanabe, M., Kumabe, T., Takano, S., Kato, Y. Biochem. Biophys. Res. Commun., 432, 40-45, 2013. (DOI:10.1016/j.bbrc.2013.01.088)(PubMed:23376717)
36. A novel monoclonal antibody GMab-m1 specifically recognizes IDH1-R132G mutation. Kato, Y., Natsume, A., Kaneko, M.K. Biochem. Biophys. Res. Commun., 432, 564-567, 2013. (DOI:10.1016/j.bbrc.2013.02.049)(PubMed:23485467)
37. Generation of a novel monoclonal antibody WMab-1 specific for IDH2-R172W mutation. Kato, Y., Kaneko, M.K. Biochem. Biophys. Res. Commun., 433, 374-378, 2013. (DOI:10.1016/j.bbrc.2013.02.106)(PubMed:23524262)
38. A novel targeting therapy of malignant mesothelioma using anti-podoplanin antibody. Abe, S., Morita, Y., Kaneko, M.K., Hanibuchi, M., Tsujimoto, Y., Goto, H., Kakiuchi, S., Aono, Y., Huang, J., Sato, S., Kishuku, M., Taniguchi, Y., Azuma, M., Kawazoe, K., Sekido, Y., Yano, S., Akiyama, S., Sone, S., Minakuchi, K., Kato, Y., Nishioka, Y. J Immunol., 190, 6239-6249, 2013. (DOI:10.4049/jimmunol.1300448)(PubMed:23690472)
39. Novel monoclonal antibodies GMab-r1 and LMab-1 specifically recognize IDH1-R132G and IDH1-R132L mutations. Kaneko, M.K., Tsujimoto, Y., Hozumi, Y., Goto, K., Kato, Y. Monoclon Antib. Immunodiagn. Immunother., 32, 224-228, 2013. (DOI:10.1089/mab.2013.0006)(PubMed:23750482)
40. Establishment of a multi-specific monoclonal antibody MsMab-1 recognizing both IDH1 and IDH2 mutations. Kato Kaneko, M., Ogasawara, S., Kato, Y. Tohoku J Exp Med., 230, 103-109, 2013. (DOI:org/10.1620/tjem.230.103)(PubMed:23782684)
41. Multi-specific monoclonal daAntibody MsMab-2 recognizes IDH1-R132L and IDH2-R172M mutations. Ogasawara, S., Kaneko, M.K., Tsujimoto, Y., Liu, X., Kato, Y. Monoclon Antib. Immunodiagn. Immunother., 32, 377-381, 2013. (DOI:10.1089/mab.2013.0050)(PubMed:24328739)
42. Isocitrate dehydrogenase 2 mutation is a frequent event in osteosarcoma detected by a multi-specific monoclonal antibody MsMab-1. Liu, X., Kato, Y., Kaneko, M.K., Sugawara, M., Ogasawara, S., Tsujimoto, Y., Naganuma, Y., Yamakawa, M., Tsuchiya, T., Takagi, M. Cancer Med., 2, 803-814, 2013. (DOI:10.1002/cam4.149)(PubMed:24403254)
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181. Chemical library screening for WNK signalling inhibitors using fluorescence correlation spectroscopy. Mori, T., Kikuchi, E., Watanabe, Y., Fujii, S., Ishigami?Yuasa, M., Kagechika, H., Sohara, E., Rai, T., Sasaki, S., Uchida, S. Biochem. J., 455, 339-345, 2013. (DOI:10.1042/BJ20130597)(PubMed:23981180)
182. Synthesis, radical scavenging activity and structure-activity relationship of uric acid analogs. Yasuda, D., Takahashi, K., Kakinoki, T., Tanaka, Y., Ohe, T., Nakamura, S., Mashino, T. Med. Chem. Comm., 4, 527-529, 2013. (DOI:10.1039/C2MD20287E)
183. Synthesis of a new glycosphingolipid from the marine ascidian Microcosmus sulcatus using a one pot glycosylation straregy. Ohtsuka, I., Hada, N., Atsumi, T., Kakiuchi, N. Tetrahedron, 69, 1470-1475, 2013. (DOI:10.1016/j.tet.2012.12.023)
184. Antioxidant activities of 5-hydroxyoxindole and its 3-hydroxy-3-phenacyl derivatives: The suppression of lipid peroxidation and intracellular oxidative stress. Yasuda, D., Takahashi, K., Ohe, T., Nakamura, S., Mashino, T. Bioorg. Med. Chem., 21, 7709-7714, 2013. (DOI:10.1016/j.bmc.2013.10.021)
185. Optical purifications via self-disproportionation of enantiomers by achiral chromatography: case study of a series of α-CF3-containing secondary alcohols. Sorochinsky, A.E., Katagiri, T., Ono, T., Wzorek, A., Acena, J.L., Soloshonok, V.A. Chirality, 6, 365-368, 2013. (DOI:10.1002/chir.22180)(PubMed:23716267)
186. Synthesis of 1,2-bis(trimethylsilyl)-benzene derivatives from 1,2-dichlorobenzenes using a hybrid metal Mg/CuCl in the presence of LiCl in 1,3-dimethyl-2-imidazolidinone. Kitamura, T., Gondo, K., Katagiri, T. J. Org. Chem., 78, 3421-3424, 2013. (DOI:10.1021/jo4000866)(PubMed:23506000)
187. Unconventional preparation of racemic crystals of isopropyl 3,3,3-trifluoro-2-Hydroxypropanoate and their unusual crystallographic structure: the ultimate preference for homochiral intermolecular interactions. Acena, J.L., Sorochinsky, A.E., Katagiri, T., Soloshonok, V.A. Chem. Commun., 49, 373-375, 2013. (DOI:10.1039/c2cc37491a)(PubMed:23183684)
188. Structure-anti-MRSA activity relationship of macrocyclic bis(bibenzyl) derivatives. Sawada, H., Onoda, K., Morita, D., Ishitsubo, E., Matsuno, K., Tokiwa, H., Kuroda, T., Miyachi, H. Bioorg. Med. Chem. Lett., 23, 6563-6568, 2013. (DOI:10.1016/j.bmcl.2013.10.069)(PubMed:24239015)
189. Peroxisome proliferator-activated receptor delta antagonists inhibit hepatitis C virus RNA replication. Ban, S., Ueda, Y., Ohashi, M., Matsuno, K., Ikeda, M., Kato, N., Miyachi, H. Bioorg. Med. Chem. Lett., 23, 4774-4778, 2013. (DOI:10.1016/j.bmcl.2013.07.005)(PubMed:23891183)
190. Design and synthesis of a series of α-benzyl phenylpropanoic acid-type peroxisome proliferator-activated receptor (PPAR) gamma partial agonists with improved aqueous solubility. Ohashi, M., Oyama, T., Putranto, E.W., Waku, T., Nobusada, H., Kataoka, K., Matsuno, K., Yashiro, M., Morikawa, K., Huh, N.H., Miyachi, H. Bioorg. Med. Chem., 21, 2319-2332, 2013. (DOI:10.1016/j.bmc.2013.02.003)(PubMed:23490155)
191. Structure-guided design, synthesis and in vitro evaluation of a series of pyrazole-based fatty acid binding protein (FABP) 3 ligands. Beniyama, Y., Matsuno, K., Miyachi, H. Bioorg. Med. Chem. Lett., 23, 1662-1666, 2013. (DOI:10.1016/j.bmcl.2013.01.054)(PubMed:23395658)
192. γ-Mangostin from Garcinia mangostana pericarps as a dual agonist that activates Both PPARα and PPARδ. Matsuura, N., Gamo, K., Miyachi, H., Iinuma, M., Kawada, T., Takahashi, N., Akao, Y., Tosa, H. Biosci. Biotechnol. Biochem., 77, 2430-2435, 2013. (DOI:10.1271/bbb.130541)(PubMed:24317060)
193. Structural basis for vitamin D receptor agonism by novel non-secosteroidal ligands. Asano, L., Ito, I., Kuwabara, N., Waku, T., Yanagisawa, J., Miyachi, H., Shimizu, T. FEBS Lett., 587, 957-963, 2013. (DOI:10.1016/j.febslet.2013.02.028)(PubMed:23462137)
194. Regioselectivity of the intramolecular biaryl coupling reaction of 3-substituted phenyl 2-iodobenzoate using a palladium reagent. Maeda, K., Matsukihira, T., Saga, S., Takeuchi, Y., Harayama, T., Horino, Y., Abe, H. Heterocycles, 88, 621-628, 2013. (DOI:10.3987/COM-13-S(S)10)
195. Protein experimental information management system (PREIMS) based on ontology: development and applications. Sato,J., Kozaki, K., Handa, S., Ikeda, T., Saka, R., Tomizuka, K., Nishiyama, Y., Okumura, T., Hirai, S., Ohno, T., Ohta, M., Date, S., Nakamura, H. IPSJ Transactions on Bioinformatics, 6, 9-17, 2013. (DOI:10.2197/ipsjtbio.6.9)
196. Exhaustive comparison and classification of ligand-binding surfaces in proteins. Murakami, Y., Kinoshita, K., Kinjo, A. R., Nakamura, H. Protein Sci., 22, 1379-1391, 2013. (DOI:10.1002/pro.2329)(PubMed:23934772)
197. Molecular dynamics simulations of a double-stranded DNA in an explicit solvent model with zero-dipole summation method. Arakawa, T., Kamiya, N., Nakamura, H., Fukuda, I. Plos One, 8, e76606, 2013. (DOI:10.1371/journal.pone.0076606)(PubMed:24124577)
198. Community-wide evaluation of methods forpredicting the effect of mutations on protein-protein interactions. Moretti, R., Fleishman, S.J., Agius, R., Torchala, M., Bates, P.A., Kastritis, P.L., Rodrigues, J.P., Trellet, M., Bonvin, A.M., Cui, M., Rooman, M., Gillis, D., Dehouck, Y., Moal, I., Romero-Durana, M., Perez-Cano, L., Pallara, C., Jimenez, B., Fernandez-Recio, J., Flores, S., Pacella, M., Praneeth Kilambi, K., Gray, J.J., Popov, P., Grudinin, S., Esquivel-Rodriguez, J., Kihara, D., Zhao, N., Korkin, D., Zhu, X., Demerdash, O.N., Mitchell, J.C., Kanamori, E., Tsuchiya, Y., Nakamura, H., Lee, H., Park, H., Seok, C., Sarmiento, J., Liang, S., Teraguchi, S., Standley, D.M., Shimoyama, H., Terashi, G., Takeda-Shitaka, M,, Iwadate, M., Umeyama, H., Beglov, D., Hall, D.R., Kozakov, D., Vajda, S., Pierce, B.G., Hwang, H., Vreven, T., Weng, Z., Huang, Y., Li, H., Yang, X., Ji, X., Liu, S., Xiao, Y., Zacharias, M., Qin, S., Zhou, H.X., Huang, S.Y., Zou, X., Velankar, S., Janin, J., Wodak, S.J., Baker, D. Proteins, 81, 1980-1987, 2013. (DOI:10.1002/prot.24356)(PubMed:23843247)
199. ATTED-II in 2014: Evaluation of Gene Coexpression in Agriculturally Important Plants. Obayashi, T., Okamura, Y., Ito, S., Tadaka, S., Aoki, Y., Shirota, M., Kinoshita, K. Plant Cell Physiol., 55, e6, 2013. (DOI:10.1093/pcp/pct178)(PubMed:24334350)
200. Blind prediction of interfacial water positions in CAPRI. Lensink, M.F., Moal, I.H., Bates, P.A., Kastritis, P.L., Melquiond, A.S., Karaca, E., Schmitz, C., van Dijk, M., Bonvin, A.M., Eisenstein, M., Jimenez-Garcia, B., Grosdidier, S., Solernou, A., Perez-Cano, L., Pallara, C., Fernandez Recio J., Xu, J., Muthu, P., Praneeth Kilambi, K., Gray, J.J., Grudinin, S., Derevyanko, G., Mitchell, J.C., Wieting, J., Kanamori, E., Tsuchiya, Y., Murakami, Y., Sarmiento, J., Standley, D.M., Shirota, M., Kinoshita, K., Nakamura, H., Chavent, M., Ritchie, D.W., Park, H., Ko, J., Lee, H., Seok, C., Shen, Y., Kozakov, D., Vajda, S., Kundrotas, P.J., Vakser, I.A., Pierce, B.G., Hwang, H., Vreven, T., Weng, Z., Buch, I., Farkash, E., Wolfson, H.J., Zacharias, M., Qin, S., Zhou, H.X., Huang, S.Y., Zou, X., Wojdyla, J.A., Kleanthous, C., Wodak, S.J. Proteins, 82, 620-632, 2013. (DOI:10.1002/prot.24439)(PubMed:24155158)
201. Targeting BIG3-PHB2 interaction to overcome tamoxifen resistance in breast cancer cells. Yoshimaru, T., Komatsu, M., Matsuo, T., Chen, Y.A., Murakami, Y., Mizuguchi, K., Mizohata, E., Inoue, T., Akiyama, M., Yamaguchi, R., Imoto, S., Miyano, S., Miyoshi, Y., Sasa, M., Nakamura, Y., Katagiri, T. Nat. Communi., 4, e2443, 2013. (DOI:10.1038/ncomms3443)(PubMed:24051437)
202. Exhaustive comparison and classification of ligand-binding surfaces in proteins. Murakami, Y., Kinoshita, K., Kinjo, A.R., Nakamura, H. Protein Sci., 22, 1379-1391, 2013. (DOI:10.1002/pro.2329)(PubMed:23934772)
203. Accidental interaction between PDZ domains and diclofenac revealed by NMR-assisted virtual screening. Tenno, T., Goda, N., Umetsu, Y., Ota, M., Kinoshita, K., Hiroaki, H. Molecules, 18, 9567-9581, 2013. (DOI:10.3390/molecules18089567)(PubMed:23966078)
204. Analyses of the general rule on residue pair frequencies in local amino acid sequences of soluble, ordered proteins. Shirota, M., Kinoshita, K. Protein Sci., 22, 725-733, 2013. (DOI:10.1002/pro.2255)(PubMed:23526551)
205. Crystal structure and site-directed mutagenesis analyses of haloalkane dehalogenase LinB from Sphingobium sp. MI1205. Okai, M., Ohtsuka, J., Imai, F. L., Mase, T., Moriuchi, R., Tsuda, M., Nagata, K., Nagata, Y., Tanokura, M. J. Bacteriol., 195, 2642-2651, 2013. (DOI:10.1128/JB.02020-12)(PubMed:23564170)
206. Crystal structure of conjugated polyketone reductase (CPRC1) from Candida parapsilosis IFO 0708 complexed with NADPH. Qin, H.M., Yamamura, A., Miyakawa, T., Kataoka, M., Maruoka, S., Ohtsuka, J., Nagata, K., Shimizu, S., Tanokura, M. Proteins, 81, 2059-2063, 2013. (DOI:10.1002/prot.24363)(PubMed:23852710)
207. Complex structure of the DNA-binding domain of AdpA, the global transcription factor in Streptomyces griseus, and a target duplex DNA reveals the structural basis of its tolerant DNA sequence specificity. Yao, M.D., Ohtsuka, J., Nagata, K., Miyazono, K., Zhi, Y., Ohnishi, Y., Tanokura, M. J. Biol. Chem., 288, 31019-31029, 2013. (DOI:10.1074/jbc.M113.473611)(PubMed:24019524)
208. A novel mode of ferric ion-coordination of the periplasmic ferric ion-binding subunit, FbpA, of an ABC-type iron transporter from Thermus thermophiles HB8. Wang, S., Ogata, M., Horita, S., Ohtsuka, J., Nagata, K., Tanokura, M. Acta Crystallogr. D Biol. Crystallogr., 70, 196-202, 2013. (DOI:10.1107/S1399004713026333)(PubMed:24419392)
209. Distinct Conformation of ATP Molecule in Solution and on Protein. Kobayashi, E., Yura, K., Nagai, Y. Biophysics, 9, 1-12, 2013. (DOI:10.2142/biophysics.9.1)
210. CoDP: predicting the impact of unclassified genetic variants in MSH6 by the combination of different properties of the protein. Terui, H., Akagi, K., Kawame, H., Yura, K. J. Biomed. Sci., 20, e25, 2013. (DOI:10.1186/1423-0127-20-25)(PubMed:23621914)
211. Molecular and clinical characteristics of MSH6 germline variants detected in colorectal cancer patients. Terui, H., Tachikawa, T., Kakuta, M., Nishimura, Y., Yatsuoka, T., Yamaguchi, K., Yura, K., Akagi, K. Oncology Reports, 30, 2909-2916, 2013. (DOI:10.3892/or.2013.2781)(PubMed:24100870)
212. Human origin recognition complex binds preferentially to G-quadruplex-preferable RNA and single-stranded DNA. Hoshina, S., Yura, K., Teranishi, H., Kiyasu, N., Tominaga, A., Kadoma, H., Nakatsuka, A., Kunichika, T., Obuse, C., Waga, S. J. Biol. Chem., 288, 30161-30171, 2013. (DOI:10.1074/jbc.M113.492504)(PubMed:24003239)
213. Cephalopod eye evolution was modulated by the acquisition of Pax-6 splicing variants. Yoshida, M., Yura, K., Ogura, A. Sci. Rep., 4, e4256, 2013. (DOI:10.1038/srep04256)(PubMed:24594543)

2012

1. Elongation factor G is a critical target during oxidative damage to the translation system of Escherichia coli. Nagano, T., Kojima, K., Hisabori, T., Hayashi. H., Morita, E.H., Kanamori, T., Miyagi, T., Ueda, T., Nishiyama, Y. J. Biol. Chem., 287, 28697-704, 2012. (DOI:10.1074/jbc.M112.378067)(PubMed:22773838)
2. Structure and function of abscisic acid receptors. Miyakawa, T., Fujita, Y., Yamaguchi-Shinozaki, K., Tanokura, M. Trends Plant Sci., 18, 259-66, 2012. (DOI:10.1016/j.tplants.2012.11)(PubMed:23265948)
3. Calaxin drives sperm chemotaxis by Ca2+-mediated direct modulation of a dynein motor. Mizuno, K., Shiba, K., Okai, M., Takahashi, Y., Shitaka, Y., Oiwa, K., Tanokura, M., Inaba, K. Pro. Nat. Acad. Sci., 109, 20497-502, 2012. (DOI:10.1073/pnas.1217018109)(PubMed:23169663)
4. Novel approach to identifying autoantibodies in rheumatoid synovitis with a biotinylated human autoantigen library and the enzyme-labeled antigen method. Mizutani, Y., Matsuoka, K.,, Takeda, H., Shiogama, K., Inada, K., Hayakawa, K., Yamada, H., Miyazaki, T., Sawasaki, T., Endo, Y., Tsutsumi, Y. J. Immunol. Methods, 387, 57-70, 2012. (DOI:10.1016/j.jim.2012.09.011)(PubMed:23044167)
5. Interferon-induced SCYL2 limits release of HIV-1 by triggering PP2A-mediated dephosphorylation of the viral protein Vpu. Miyakawa, K., Sawasaki, T., Matsunaga, S., Tokarev, A., Quinn, G., Kimura, H., Nomaguchi, M., Adachi, A., Yamamoto, N., Guatelli, J., Ryo, A. Sci. Signal., 5, era73, 2012. (DOI:10.1126/scisignal.2003212)(PubMed:23047923)
6. A novel rabbit immunospot array assay on a chip allows for the rapid generation of rabbit monoclonal antibodies with high affinity. Ozawa, T., Piao, X., Kobayashi, E., Zhou, Y., Sakurai, H., Andoh, T., Jin, A., Kishi, H., Muraguchi, A. PLoS One, 7, e52383, 2012. (DOI:10.1371/journal.pone.0052383)(PubMed:23300658)
7. Reduced Level of the BCL11B protein is associated with adult T-cell leukemia/lymphoma. Kurosawa, N., Fujimoto, R., Ozawa, T., Itoyama, T., Sadamori, N., Isobe, M. PLoS One, 8, e55147, 2012. (DOI:10.1371/journal.pone.0055147)(PubMed:23383087)
8. Crystal structure of Enpp1, an extracellular glycoprotein involved in bone mineralization and insulin signaling. Kato, K., Nishimasu, H., Okudaira, S., Mihara, E., Ishitani, R., Takagi, J., Aoki, J., Nureki, O. Proc. Natl. Acad. Sci., 109, 16876-16881, 2012. (DOI:10.1073/pnas.1208017109)(PubMed:23027977)
9. The structure of the deacetylase domain of E. coli PgaB, an enzyme required for biofilm formation. Nishiyama, T., Noguchi, H., Yoshida, H., Park, SY, Tame, J.R.H. Acta. Cryst. D., 69, 44-51, 2012. (DOI:10.1107/S0907444912042059)(PubMed:23275162)
10. Crystal structure of penicillin-binding protein 3 (PBP3) from methicillin-resistant Staphylococcus aureus in the apo and cefotaxime-bound forms. Yoshida, H., Kawai, F., Obayashi, E., Akashi, S., Roper, D.I., Tame, J.R., Park, S.Y. J. Mol. Biol., 423, 351-64, 2012. (DOI:10.1016/j.jmb.2012.07.012)(PubMed:22846910)
11. Intrinsic nucleic acid-binding activity of Chp1 chromodomain is required for heterochromatic gene silencing. Ishida, M., Shimojo, H., Hayashi, A., Kawaguchi, R., Ohtani, Y., Uegaki, K., Nishimura, Y., Nakayama, J. Mol. Cell, 47, 228-41, 2012. (DOI: 10.1016/j.molcel.2012.05.017)(PubMed:22727667)
12. Function of homo- and hetero-oligomers of human nucleoplasmin/nucleophosmin family proteins NPM1, NPM2 and NPM3 during sperm chromatin remodeling. Okuwaki, M., Sumi, A., Hisaoka, M., Saotome-Nakamura, A., Akashi, S., Nishimura, Y., Nagata, K. Nucleic Acids Res., 40, 4861-78, 2012. (DOI:10.1093/nar/gks162.)(PubMed:22362753)
13. An automated system designed for large scale NMR data deposition and annotation: application to over 600 assigned chemical shift data entries to the BioMagResBank from the Riken Structural Genomics/Proteomics Initiative internal database. Kobayashi, N., Harano, Y., Tochio, N., Nakatani, E., Kigawa, T., Yokoyama, S., Mading, S., Ulrich, E.L., Markley, J.L., Akutsu, H., Fujiwara, T. J. Biomol. NMR, 53, 311-320, 2012. (DOI:10.1007/s10858-012-9641-6)(PubMed:22689068)
14. Helium-cooling and -spinning dynamic nuclear polarization for sensitivity-enhanced solid-state NMR at 14 T and 30 K. Matsuki, Y., Ueda, K., Idehara, T., Ikeda, R., Ogawa, I., Nakamura, S., Toda, M., Anai, T., Fujiwara, T. J. Magn. Reson., 225, 1-9, 2012. (DOI:10.1016/j.jmr.2012.09.008)(PubMed:23079589)
15. Reconstitution of eukaryotic translation initiation factor 3 by co-expression of the subunits in a human cell-derived in vitro protein synthesis system. Masutani, M., Machida, K., Kobayashi, T., Yokoyama, S., Imataka, H. Protein Expr. Purif., 87, 5-10, 2012. (DOI:10.1016/j.pep.2012.10.001)(PubMed:23063735)
16. A novel crystal form of pyrrolysyl-tRNA synthetase reveals the pre- and post-aminoacyl-tRNA synthesis conformational states of the adenylate and aminoacyl moieties and an asparagine residue in the catalytic site. Yanagisawa, T., Sumida, T., Ishii, R., Yokoyama, S. Acta Crystallogr. D Biol. Crystallogr., 69, 5-15, 2012. (DOI:10.1107/S0907444912039881)(PubMed:23275158)
17. Tetrameric interaction of the ectoenzyme CD38 on the cell surface enables its catalytic and raft-Association activities. Hara-Yokoyama, M., Kukimoto-Niino, M., Terasawa, K., Harumiya, S., Podyma-Inoue, K.A., Hino, N., Sakamoto, K., Itoh, S., Hashii, N., Hiruta, Y., Kawasaki, N., Mishima-Tsumagari, C., Kaitsu, Y., Matsumoto, T., Wakiyama, M., Shirouzu, M., Kasama, T., Takayanagi, H., Utsunomiya-Tate, N., Takatsu, T., Katada, K., Hirabayashi, Y., Yokoyama, S., Yanagishita, M. Structure, 20, 1585-1595, 2012. (DOI:10.1016/j.str.2012.06.017)(PubMed:22863568)
18. Crystallization and preliminary X-ray crystallographic analysis of Aquifex aeolicus SelA, a bacterial selenocysteine synthase. Itoh, Y., Sekine, S-I., Yokoyama, S. Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun., 68, 1128-1133, 2012. (DOI:10.1107/S1744309112033519)(PubMed:22949212)
19. Meningococcal PilV potentiates Neisseria meningitidis type IV pilus-mediated internalization into human endothelial and epithelial cells. Takahashi, H., Yanagisawa, T., Kim, K.S., Yokoyama, S., Ohnishi, M. Infect. Immun., 80, 4154-4166, 2012. (DOI:10.1128/IAI.00423-12)(PubMed:22988016)
20. Insights from Pim1 structure for anti-cancer drug design. Ogawa, N., Yuki, H., Tanaka, A. Expert Opin. Drug Discov., 7, 1177-1192, 2012. (DOI:10.1517/17460441.2012.727394)(PubMed:23004574)
21. Dimerization of DOCK2 is essential for DOCK2-mediated Rac activation and lymphocyte migration. Terasawa, M., Uruno, T., Mori, S., Kukimoto-Niino, M., Nishikimi, A., Sanematsu, F., Tanaka, Y., Yokoyama, S., Fukui, Y. PLoS ONE, 7, e46277, 2012. (DOI:10.1371/journal.pone.0046277)(PubMed:23050005)
22. UTX and UTY demonstrate histone demethylase-independent function in mouse embryonic development. Shpargel, K.B., Sengoku, T., Yokoyama, S., Magnuson, T. PLoS Genet., 8, e1002964, 2012. (DOI:10.1371/journal.pgen)(PubMed:23028370)
23. Characterization and structure of the Aquifex aeolicus protein DUF752: a bacterial tRNA-methyltransferase (MnmC2) functioning without the usually fused oxidase domain (MnmC1). Kitamura, A., Nishimoto, M., Sengoku, T., Shibata, R., Jager, G., Bjork, G.R., Grosjean, H., Yokoyama, S., Bessho, Y. J. Biol. Chem., 287, 43950-43960, 2012. (DOI:10.1074/jbc.M112.409300)(PubMed:23091054)
24. Structural biology toward rational drug development in collaboration with molecular imaging. Umehara, T., Shirouzu, M., Yokoyama, S. Curr. Med. Imaging Rev., 8, 308-313, 2012. (DOI:10.2174/157340512803759794)
25. Structure of the Rho-specific guanine nucleotide-exchange factor Xpln. Murayama, K., Kato-Murayama, M., Akasaka, R., Terada, T., Yokoyama, S., Shirouzu, M. Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun., 68, 1455-1459, 2012. (DOI:10.1107/S1744309112045265)(PubMed:23192023)
26. Molecular dynamics simulations of yeast F1-ATPase before and after 16° rotation of the γ subunit. Ito, Y., Yoshidome, T., Matubayasi, N., Kinoshita, M., Ikeguchi, M. J. Phys. Chem. B, 117, 3298-3307, 2012. (DOI:10.1021/jp312499u)(PubMed:23452086)
27. MICAN: a protein structure alignment algorithm that can handle Multiple-chains, inverse alignments, Ca only models, Alternative alignments, and Non-sequential alignments. Minami, S., Sawada, K., Chikenji, G. BMC Bioinformatics, 18,14-24, 2012. (DOI:10.1186/1471-2105-14-24)(PubMed:23331634)
28. Substrate-shielding and hydrolytic reaction in hydrolases. Kanematsu, Y., Koike, R., Amemiya, T., Ota, M. Proteins, 81, 926-932, 2012. (DOI:10.1002/prot.24253)(PubMed:23345013)
29. A new method for evaluating the specificity of indirect readout in protein-DNA recognition. Yamasaki, S., Terada, T., Shimizu, K., Kono, H., Sarai, A. Nucleic Acids Res., 40, e129, 2012. (DOI:10.1093/nar/gks462)(PubMed:22618872)
30. Blind prediction of quaternary structures of homo-oligomeric proteins from amino acid sequences based on templates. Morita, M., Kakuta, M., Shimizu, K., Nakamura, S. J. Proteome. Sci. Comput. Biol., 1, e, 2012. (DOI:10.7243/2050-2273-1-1)
31. A normalization strategy for comparing tag count data. Kadota, K., Nishiyama, T., Shimizu, K. Algorithms. Mo.l Biol., 7, e5 , 2012. (PubMed:22475125)
32. A new entropy model for RNA: part II, Persistence-related entropic contributions to RNA secondary structure free energy calculation. Dawson, W., Yamamoto,K., Shimizu, K., Kawai, G. J. Nucleic. Acids. Investig., 3, 4-18, 2012. (DOI:10.4081/jnai.2013.e2)
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