研究業績

2016-

  1. "Applications of the CRISPR-Cas9 system in kidney research."
    Higashijima Y, Hirano S, Nangaku M, Nureki O,
    Kidney Int, (2017).
  2. "Cyclic GMP-AMP as an Endogenous Second Messenger in Innate Immune Signaling by Cytosolic DNA."
    Kato K, Omura H, Ishitani R, Nureki O,
    Annu Rev Biochem, (2017).
  3. "Hydroxyethyl cellulose matrix applied to serial crystallography"
    Sugahara M, Nakane T, Masuda T, Suzuki M, Inoue S, Song C, Tanaka R, Nakatsu T, Mizohata E, Yumoto F, Tono K, Joti Y, Kameshima T, Hatsui T, Yabashi M, Nureki O, Numata K, Nango E & Iwata S ,
    Sci. Rep., 7 703 (2017).
  4. "Atomic resolution structure of serine protease proteinase K"
    Masuda T, Suzuki M, Inoue S, Song C, Nakane T, Nango E, Tanaka R, Tono K, Joti Y, Kameshima T, Hatsui T, Yabashi M, Mikami B, Nureki O, Numata K, Iwata S & Sugahara M,
    Sci. Rep., 7 45604 (2017).
  5. "Structural insights into the nucleotide base specificity of P2X receptors."
    Kasuya G, Fujiwara Y, Tsukamoto H, Morinaga S, Ryu S, Touhara K, Ishitani R, Furutani Y, Hattori M, Nureki O,
    Sci Rep, 7 45208 (2017).
  6. "Crystal Structure of the Minimal Cas9 from Campylobacter jejuni Reveals the Molecular Diversity in the CRISPR-Cas9 Systems."
    Yamada M, Watanabe Y, Gootenberg JS, Hirano H, Ran FA, Nakane T, Ishitani R, Zhang F, Nishimasu H, Nureki O,
    Mol Cell, 65 1109-1121.e3 (2017).
  7. "A three-dimensional movie of structural changes in bacteriorhodopsin"
    Nango E, Royant A, Kubo M, Nakane T, Wickstrand C, Kimura T, Tanaka T, Tono K, Song C, Tanaka R, Arima T, Yamashita A, Kobayashi J, Hosaka T, Mizohata E, Nogly P, Sugahara M, Nam D, Nomura T, Shimamura T, Im D, Fujiwara T, Yamanaka Y, Jeon B, Nishizawa T, Oda K, Fukuda M, Andersson R, Båth P, Dods R, Davidsson J, Matsuoka S, Kawatake S, Murata M, Nureki O, Owada S, Kameshima T, Hatsui T, Joti Y, Schertler G, Yabashi M, Bondar AN, Standfuss J, Neutze R, Iwata S,
    Science, (2016).
  8. "Structures and mechanisms of CRISPR RNA-guided effector nucleases."
    Nishimasu H, Nureki O,
    Curr Opin Struct Biol, (2016).
  9. "Crystal structures of the TRIC trimeric intracellular cation channel orthologues."
    Kasuya G, Hiraizumi M, Maturana AD, Kumazaki K, Fujiwara Y, Liu K, Nakada-Nakura Y, Iwata S, Tsukada K, Komori T, Uemura S, Goto Y, Nakane T, Takemoto M, Kato HE, Yamashita K, Wada M, Ito K, Ishitani R, Hattori M, Nureki O,
    Cell Res, (2016).
  10. "The light-driven sodium ion pump: A new player in rhodopsin research."
    Kato HE, Inoue K, Kandori H, Nureki O,
    Bioessays, (2016).
  11. "Membrane protein structure determination by SAD, SIR, or SIRAS phasing in serial femtosecond crystallography using an iododetergent."
    Nakane T, Hanashima S, Suzuki M, Saiki H, Hayashi T, Kakinouchi K, Sugiyama S, Kawatake S, Matsuoka S, Matsumori N, Nango E, Kobayashi J, Shimamura T, Kimura K, Mori C, Kunishima N, Sugahara M, Takakyu Y, Inoue S, Masuda T, Hosaka T, Tono K, Joti Y, Kameshima T, Hatsui T, Yabashi M, Inoue T, Nureki O, Iwata S, Murata M, Mizohata E,
    Proc Natl Acad Sci U S A, (2016).
  12. "Structural and Functional Analysis of DDX41: a bispecific immune receptor for DNA and cyclic dinucleotide."
    Omura H, Oikawa D, Nakane T, Kato M, Ishii R, Ishitani R, Tokunaga F, Nureki O,
    Sci Rep, (2016).
  13. "Crystal Structure of Silkworm PIWI-Clade Argonaute Siwi Bound to piRNA."
    Matsumoto N, Nishimasu H, Sakakibara K, Nishida KM, Hirano T, Ishitani R, Siomi H, Siomi MC, Nureki O,
    Cell, (2016).
  14. "Activation mechanism of endothelin ETB receptor by endothelin-1."
    Shihoya W, Nishizawa T, Okuta A, Tani K, Dohmae N, Fujiyoshi Y, Nureki O, Doi T,
    Nature, (2016).
  15. "Structural and functional insights into IZUMO1 recognition by JUNO in mammalian fertilization"
    Kato K, Satouh Y, Nishimasu H, Kurabayashi A, Morita J, Fujihara Y, O,
    Nat Commun, 7 12198 (2016).
  16. "Crystal structure of the plant receptor-like kinase TDR in complex with the TDIF peptide."
    Morita J, Kato K, Nakane T, Kondo Y, Fukuda H, Nishimasu H, Ishitani ,
    Nat Commun, 7 12383 (2016).
  17. "LCP crystallization and X-ray diffraction analysis of VcmN, a MATE transporter from Vibrio cholerae."
    Kusakizako T, Tanaka Y, Hipolito CJ, Kuroda T, Ishitani R, Suga H, Nureki O,
    Acta Crystallogr F Struct Biol Commun, (2016).
  18. "Structural basis for amino acid export by DMT superfamily transporter YddG."
    Tsuchiya H, Doki S, Takemoto M, Ikuta T, Higuchi T, Fukui K, Usuda Y, Tabuchi E, Nagatoishi S, Tsumoto K, Nishizawa T, Ito K, Dohmae N, Ishitani R, Nureki O,
    Nature, 534 417-20 (2016).
  19. "Data processing pipeline for serial femtosecond crystallography at SACLA."
    Nakane T; Joti Y; Tono K; Yabashi M; Nango E; Iwata S; Ishitani R; Nureki O,
    J Appl Crystallogr, (2016).
  20. "Crystal Structure of Cpf1 in Complex with Guide RNA and Target DNA."
    Yamano T, Nishimasu H, Zetsche B, Hirano H, Slaymaker IM, Li Y, Fedorova I, Nakane T, Makarova KS, Koonin EV, Ishitani R, Zhang F, Nureki O,
    Cell, (2016).
  21. "Conductance of P2X4 purinergic receptor is determined by conformational equilibrium in the transmembrane region."
    Minato Y, Suzuki S, Hara T, Kofuku Y, Kasuya G, Fujiwara Y, Igarashi S, Suzuki E, Nureki O, Hattori M, Ueda T, Shimada I,
    Proc Natl Acad Sci U S A, (2016).
  22. "Structural basis for specific inhibition of Autotaxin by a DNA aptamer."
    Kato K, Ikeda H, Miyakawa S, Futakawa S, Nonaka Y, Fujiwara M, Okudaira S, Kano K, Aoki J, Morita J, Ishitani R, Nishimasu H, Nakamura Y, Nureki O,
    Nat Struct Mol Biol, (2016).
  23. "Structural Basis for the Altered PAM Specificities of Engineered CRISPR-Cas9."
    Hirano S, Nishimasu H, Ishitani R, Nureki O,
    Mol Cell, (2016).
  24. "Recent developments in CrystFEL"
    Thomas A. White, Valerio Mariani, Wolfgang Brehm, Oleksandr Yefanov, Anton Barty, Kenneth R. Beyerlein, Fedor Chervinskii, Lorenzo Galli, Cornelius Gati, Takanori Nakane, Alexandra Tolstikova, Keitaro Yamashita, Chun Hong Yoon, Kay Diederichs and Henry N. Chapman,
    Acta Cryst. D., 49 680-689 (2016).
  25. "Redox-coupled proton transfer mechanism in nitrite reductase revealed by femtosecond crystallography"
    Fukuda Y, Tse KM, Nakane T, Nakatsu T, Suzuki M, Sugahara M, Inoue S, Masuda T, Yumoto F, Matsugaki N, Nango E, Tono K, Joti Y, Kameshima T, Song C, Hatsui T, Yabashi M, Nureki O, Murphy MEP, Inoue T, Iwata S, Mizohata E,
    Proc Natl Acad Sci U S A, (2016).
  26. "Structure and biological function of ENPP6, a choline-specific glycerophosphodiester-phosphodiesterase"
    Morita J, Kano K, Kato K, Takita H, Sakagami H, Yamamoto Y, Mihara E, Ueda H, Sato T, Tokuyama H, Arai H, Asou H, Takagi J, Ishitani R, Nishimasu H, Nureki O, Aoki J,
    Sci Rep., 6 20995 (2016).
  27. "Structure and Engineering of Francisella novicida Cas9"
    Hirano H, Gootenberg JS, Horii T, Abudayyeh OO, Kimura M, Hsu PD, Nakane T, Ishitani R, Hatada I, Zhang F, Nishimasu H, Nureki O,
    Cell., 164 950-961 (2016).
  28. "Redox-coupled structural changes in nitrite reductase revealed by serial femtosecond and microfocus crystallography"
    Fukuda Y, Tse KM, Suzuki M, Diederichs K, Hirata K, Nakane T, Sugahara M, Nango E, Tono K, Joti Y, Kameshima T, Song C, Hatsui T, Yabashi M, Nureki O, Matsumura H, Inoue T, Iwata S, Mizohata E,
    J Biochem., (2016).
  29. "Structural Insights into Divalent Cation Modulations of ATP-Gated P2X Receptor Channels"
    Kasuya G, Fujiwara Y, Takemoto M, Dohmae N, Nakada-Nakura Y, Ishitani R, Hattori M, Nureki O,
    Cell Rep., 14 932-944 (2016).


2011-2015

  1. "Native sulfur/chlorine SAD phasing for serial femtosecond crystallography"
    Nakane T, Song C, Suzuki M, Nango E, Kobayashi J, Masuda T, Inoue S, Mizohata E, Nakatsu T, Tanaka T, Tanaka R, Shimamura T, Tono K, Joti Y, Kameshima T, Hatsui T, Yabashi M, Nureki O, Iwata S, Sugahara M.,
    Acta Cryst. D., 71 2519-2525 (2015).
  2. "Crystal Structures of SecYEG in Lipidic Cubic Phase Elucidate a Precise Resting and a Peptide-Bound State"
    Tanaka Y, Sugano Y, Takemoto M, Mori T, Furukawa A, Kusakizako T, Kumazaki K, Kashima A, Ishitani R, Sugita Y, Nureki O, Tsukazaki T.,
    Cell Rep., 13 1561-1568 (2015).
  3. "Outward- and inward-facing structures of a putative bacterial transition-metal transporter with homology to ferroportin"
    Taniguchi R, Kato HE, Font J, Deshpande CN, Wada M, Ito K, Ishitani R, Jormakka M, Nureki O.,
    Nat. Commun., 6 8545 (2015).
  4. "Crystal Structure of Staphylococcus aureus Cas9."
    Nishimasu H, Cong L, Yan WX, Ran FA, Zetsche B, Li Y, Kurabayashi A, Ishitani R, Zhang F, Nureki O.,
    Cell, 162 1113-1126 (2015).
  5. "Molecular Dynamics of Channelrhodopsin at the Early Stages of Channel Opening."
    Takemoto M, Kato HE, Koyama M, Ito J, Kamiya M, Hayashi S, Maturana AD, Deisseroth K, Ishitani R, Nureki O.,
    PLoS One, 10 0131094 (2015).
  6. "Atomistic design of microbial opsin-based blue-shifted optogenetics tools."
    Kato HE, Kamiya M, Sugo S, Ito J, Taniguchi R, Orito A, Hirata K, Inutsuka A, Yamanaka A, Maturana AD, Ishitani R, Sudo Y, Hayashi S, Nureki O.,
    Nat. Commun., 6 7177 (2015).
  7. "Structural basis for dynamic mechanism of nitrate/nitrite antiport by NarK."
    Fukuda M, Takeda H, Kato HE, Doki S, Ito K, Maturana AD, Ishitani R, Nureki O.,
    Nat. Commun., 6 7097 (2015).
  8. "Crystal Structure and Activity of the Endoribonuclease Domain of the piRNA Pathway Factor Maelstrom."
    Matsumoto, N., Sato, K., Nishimasu, H., Namba, Y., Miyakubi, K., Dohmae, N., Ishitani, R., Siomi, H., Siomi, M. C., Nureki, O.,
    Cell Rep, 11 366-375 (2015).
  9. "Structural Basis for the Catalytic Mechanism of DncV, Bacterial Homolog of Cyclic GMP-AMP Synthase."
    Kato, K., Ishii, R., Hirano, S., Ishitani, R., Nureki, O.,
    Structure, 23 843-50 (2015).
  10. "Hydrophilic microenvironment required for the channel-independent insertase function of YidC protein."
    Shimokawa-Chiba, N., Kumazaki, K., Tsukazaki, T., Nureki, O., Ito, K., Chiba, S.,
    Proc Natl Acad Sci U S A, 112 5063-5068 (2015).
  11. "Structural basis for Na transport mechanism by a light-driven Na pump."
    Kato, H. E., Inoue, K., Abe-Yoshizumi, R., Kato, Y., Ono, H., Konno, M., Hososhima, S., Ishizuka, T., Hoque, M. R., Kunitomo, H., Ito, J., Yoshizawa, S., Yamashita, K., Takemoto, M., Nishizawa, T., Taniguchi, R., Kogure, K., Maturana, A. D., Iino, Y., Yawo, H., Ishitani, R., Kandori, H., Nureki, O.,
    Nature, 521 48-53 (2015).
  12. "Chimeras of Channelrhodopsin-1 and -2 from Chlamydomonas reinhardtii Exhibit Distinctive Light-induced Structural Changes from Channelrhodopsin-2."
    Inaguma, A., Tsukamoto, H., Kato, H. E., Kimura, T., Ishizuka, T., Oishi, S., Yawo, H., Nureki, O., Furutani, Y.,
    J Biol Chem, (2015).
  13. "Structural basis for the facilitative diffusion mechanism by SemiSWEET transporter."
    Lee, Y., Nishizawa, T., Yamashita, K., Ishitani, R., Nureki, O.,
    Nat Commun, 6 6112 (2015).
  14. "Genome-scale transcriptional activation by an engineered CRISPR-Cas9 complex."
    Konermann S, Brigham MD, Trevino AE, Joung J, Abudayyeh OO, Barcena C, Hsu PD., Habib N, Gootenberg JS, Nishimasu H, Nureki O, Zhang F,
    Nature, 517 583-588 (2014).
  15. "Crystal structure of Escherichia coli YidC, a membrane protein chaperone and insertase."
    Kumazaki K, Kishimoto T, Furukawa A, Mori H, Tanaka Y, Dohmae N, Ishitani R, Tsukazaki T, Nureki O,
    Sci Rep, 4 7299 (2014).
  16. "Crystal structures of Entamoeba histolytica lysyl-tRNA synthetase reveal conformational changes upon lysine binding and a specific helix bundle domain."
    Bonnefond L, Castro de Moura M, Ribas de Pouplana L, Nureki O,
    FEBS Lett, 588 4478-4486 (2014).
  17. "Structural basis for ion selectivity revealed by high-resolution crystal structure of Mg(2+) channel MgtE."
    Takeda H, Hattori M, Nishizawa T, Yamashita K, Shah ST, Caffrey M, Maturana AD, Ishitani R, Nureki O.,
    Nat Commun, 5 5374 (2014).
  18. "The non-canonical hydroxylase structure of YfcM reveals a metal ion-coordination motif required for EF-P hydroxylation."
    Kobayashi K, Katz A, Rajkovic A, Ishii R, Branson OE, Freitas MA, Ishitani R, Ibba M, Nureki O.,
    Nucleic Acids Res, 42 12295-12305 (2014).
  19. "Exciton circular dichroism in channelrhodopsin."
    Pescitelli G, Kato HE, Oishi S, Ito J, Maturana AD, Nureki O, Woody RW.,
    J Phys Chem B, 118 11873-11885 (2014).
  20. "Crystallization and preliminary X-ray crystallographic analysis of YfcM: an important factor for EF-P hydroxylation."
    Kobayashi K, Suzuki T, Dohmae N, Ishitani R, Nureki O.,
    Acta Crystallogr F Struct Biol Commun, 70 1236-1239 (2014).
  21. "Is Zucchini a Phosphodiesterase or a Ribonuclease?"
    Nureki O.,
    Biomed J, (2014).
  22. "Crystallization and preliminary X-ray diffraction analysis of YidC, a membrane-protein chaperone and insertase from Bacillus halodurans."
    Kumazaki K, Tsukazaki T, Nishizawa T, Tanaka Y, Kato HE, Nakada-Nakura Y, Hirata K, Mori Y, Suga H, Dohmae N, Ishitani R, Nureki O.,
    Acta Crystallogr F Struct Biol Commun, 70 1056-1060 (2014).
  23. "Structure of Saccharomyces cerevisiae mitochondrial Qri7 in complex with AMP."
    Tominaga T, Kobayashi K, Ishii R, Ishitani R, Nureki O.,
    Acta Crystallogr F Struct Biol Commun, 70 1009-1014 (2014).
  24. "Expression, purification, crystallization and preliminary X-ray crystallographic analysis of Enpp6."
    Morita J, Kato K, Mihara E, Ishitani R, Takagi J, Nishimasu H, Aoki J, Nureki O.,
    Acta Crystallogr F Struct Biol Commun, 70 794-799 (2014).
  25. "Recurrent somatic mutations underlie corticotropin-independent Cushing's syndrome."
    Sato Y, Maekawa S, Ishii R, Sanada M, Morikawa T, Shiraishi Y, Yoshida K, Nagata Y, Sato-Otsubo A, Yoshizato T, Suzuki H, Shiozawa Y, Kataoka K, Kon A, Aoki K, Chiba K, Tanaka H, Kume H, Miyano S, Fukayama M, Nureki O, Homma Y, Ogawa S.,
    Science, 344 917-920 (2014).
  26. "Crystal structure of a claudin provides insight 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.,
    Science, 344 304-307 (2014).
  27. "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 AD, Tanaka Y, Mori H, Sugita Y, Arisaka F, Ito K, Ishitani R, Tsukazaki T, Nureki O.,
    Nature, 509 516-520 (2014).
  28. "Crystal structure of Saccharomyces cerevisiae mitochondrial GatFAB reveals a novel subunit assembly in tRNA-dependent amidotransferases."
    Araiso Y, Huot JL, Sekiguchi T, Frechin M, Fischer F, Enkler L, Senger B, Ishitani R, Becker HD, Nureki O.,
    Nucleic Acids Res, 42 6052-6063 (2014).
  29. "Crystal structure of Cas9 in complex with guide RNA and target DNA."
    Nishimasu H, Ran FA, Hsu PD, Konermann S, Shehata SI, Dohmae N, Ishitani R, Zhang F, Nureki O.,
    Cell, 156 935-949 (2014).
  30. "Somatic RHOA mutation in angioimmunoblastic T cell lymphoma."
    Sakata-Yanagimoto M, Enami T, Yoshida K, Shiraishi Y, Ishii R, Miyake Y, Muto H, Tsuyama N, Sato-Otsubo A, Okuno Y, Sakata S, Kamada Y, Nakamoto-Matsubara R, Tran NB, Izutsu K, Sato Y, Ohta Y, Furuta J, Shimizu S, Komeno T, Sato Y, Ito T, Noguchi M, Noguchi E, Sanada M, Chiba K, Tanaka H, Suzukawa K, Nanmoku T, Hasegawa Y, Nureki O, Miyano S, Nakamura N, Takeuchi K, Ogawa S, Chiba S.,
    Nat Genet, 46 171-175 (2014).
  31. "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 (2013).
  32. "Conformational variation of the translocon enhancing chaperone SecDF."
    Mio, K., Tsukazaki, T., Mori, H., Kawata, M., Moriya, T., Sasaki, Y., Ishitani, R., Ito, K., Nureki, O., Sato, C.,
    J Struct Funct Genomics, (2013).
  33. "Toll-like receptor-2 mediates adaptive cardiac hypertrophy in response to pressure overload through interleukin-1beta upregulation via nuclear factor kappaB activation."
    Higashikuni, Y., Tanaka, K., Kato, M., Nureki, O., Hirata, Y., Nagai, R., Komuro, I., Sata, M.,
    J Am Heart Assoc, 2 e000267 (2013).
  34. "Structural and Functional Analyses of DNA-Sensing and Immune Activation by Human cGAS."
    Kato, K., Ishii, R., Goto, E., Ishitani, R., Tokunaga, F., Nureki, O.,
    PLoS One, 8 e76983 (2013).
  35. "Salicylic acid induces mitochondrial injury by inhibiting ferrochelatase heme biosynthesis activity."
    Gupta, V., Liu, S., Ando, H., Ishii, R., Tateno, S., Kaneko, Y., Yugami, M., Sakamoto, S., Yamaguchi, Y., Nureki, O., Handa, H.,
    Mol Pharmacol, 84 824-833 (2013).
  36. "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).
  37. "Structural biology of ubiquitin signaling."
    Nishimasu, H., Ishitani, R., Nureki, O.,
    Seikagaku, 85 423-429 (2013).
  38. "The catalytic domain of topological knot tRNA methyltransferase (TrmH) discriminates between substrate tRNA and nonsubstrate tRNA via an induced-fit process."
    Ochi, A., Makabe, K., Yamagami, R., Hirata, A., Sakaguchi, R., Hou, Y. M., Watanabe, K., Nureki, O., Kuwajima, K., Hori, H.,
    J Biol Chem, 288 25562-25574 (2013).
  39. "Structural basis for dynamic mechanism of proton-coupled symport by the peptide transporter POT."
    Doki S, Kato HE, Solcan N, Iwaki M, Koyama M, Hattori M, Iwase N, Tsukazaki T, Sugita Y, Kandori H, Newstead S, Ishitani R, Nureki O.,
    Proc Natl Acad Sci U S A, 110 11343-8 (2013).
  40. "Structural Basis for the Counter-Transport Mechanism of a H+/Ca2+ Exchanger."
    Nishizawa T, Kita S, Maturana AD, Furuya N, Hirata K, Kasuya G, Ogasawara S, Dohmae N, Iwamoto T, Ishitani R, Nureki O.,
    Science, 341 168-72 (2013).
  41. "Screening and X-Ray Crystal Structure-based Optimization of Autotaxin (ENPP2) Inhibitors, Using a Newly Developed Fluorescence Probe."
    Kawaguchi M, Okabe T, Okudaira S, Nishimasu H, Ishitani R, Kojima H, Nureki O, Aoki J, Nagano T.,
    ACS Chem Biol, 8 1713-21 (2013).
  42. "Structural basis for the drug extrusion mechanism by a MATE multidrug transporter."
    Tanaka Y, Hipolito CJ, Maturana AD, Ito K, Kuroda T, Higuchi T, Katoh T, Kato HE, Hattori M, Kumazaki K, Tsukazaki T, Ishitani R, Suga H, Nureki O.,
    Nature, 496 247-251 (2013).
  43. "Crystal structure of Cex1p reveals the mechanism of tRNA trafficking between nucleus and cytoplasm."
    Nozawa K, Ishitani R, Yoshihisa T, Sato M, Arisaka F, Kanamaru S, Dohmae N, Mangroo D, Senger B, Becker HD, Nureki O.,
    Nucleic Acids Res, 41 3901-3914 (2013).
  44. "Expression, purification, crystallization and preliminary X-ray crystallographic analysis of Zucchini from Drosophila melanogaster."
    Fukuhara S, Nishimasu H, Bonnefond L, Matsumoto N, Ishitani R, Nureki O.,
    Acta Crystallogr Sect F Struct Biol Cryst Commun, 68 1346-1350 (2012).
  45. "The tRNA recognition mechanism of folate/FAD-dependent tRNA methyltransferase (TrmFO)."
    Yamagami R, Yamashita K, Nishimasu H, Tomikawa C, Ochi A, Iwashita C, Hirata A, Ishitani R, Nureki O, Hori H,
    J Biol Chem., (2012).
  46. "Structure and function of Zucchini endoribonuclease in piRNA biogenesis."
    Nishimasu H, Ishizu H, Saito K, Fukuhara S, Kamatani MK, Bonnefond L, Matsumoto N, Nishizawa T, Nakanaga K, Aoki J, Ishitani R, Siomi H, Siomi MC, Nureki O,
    Nature, 491 284-287 (2012).
  47. "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 U S A., 109 16876-16881 (2012).
  48. "Molecular Dynamics Simulation of Autotaxin: Roles of the Nuclease-like Domain and the Glycan Modification."
    Koyama M, Nishimasu H, Ishitani R, Nureki O,
    J Phys Chem B., 116 11798–11808 (2012).
  49. "Specific recognition of linear polyubiquitin by A20 zinc finger 7 is involved in NF-κB regulation."
    Tokunaga F, Nishimasu H, Ishitani R, Goto E, Noguchi T, Mio K, Kamei K, Ma A, Iwai K, Nureki O,
    EMBO J., 31 3856-3870 (2012).
  50. "Simplification of the genetic code: restricted diversity of genetically encoded amino acids."
    Kawahara-Kobayashi A, Masuda A, Araiso Y, Sakai Y, Kohda A, Uchiyama M, Asami S, Matsuda T, Ishitani R, Dohmae N, Yokoyama S, Kigawa T, Nureki O, Kiga D,
    Nucleic Acids Res., (2012).
  51. "Structural basis for translation termination by archaeal RF1 and GTP-bound EF1α complex."
    Kobayashi K, Saito K, Ishitani R, Ito K, Nureki O,
    Nucleic Acids Res., 40 9319-9328 (2012).
  52. "Expression, purification, crystallization and preliminary X-ray crystallographic analysis of Enpp1."
    Kato K, Nishimasu H, Mihara E, Ishitani R, Takagi J, Aoki J, Nureki O,
    Acta Crystallogr Sect F Struct Biol Cryst Commun., 68(Pt 7) 778-782 (2012).
  53. "Spatial distribution of cytoplasmic domains of the Mg(2+)-transporter MgtE, in a solution lacking Mg(2+), revealed by paramagnetic relaxation enhancement."
    Imai S, Maruyama T, Osawa M, Hattori M, Ishitani R, Nureki O, Shimada I,
    Biochim Biophys Acta., 1824 1129-1135 (2012).
  54. "Backbone resonance assignments for the cytoplasmic region of the Mg(2+) transporter MgtE in the Mg (2+)-unbound state."
    Maruyama T, Imai S, Osawa M, Hattori M, Ishitani R, Nureki O, Shimada I,
    Biomol NMR Assign., (2012).
  55. "Structure of a dominant-negative helix-loop-helix transcriptional regulator suggests mechanisms of autoinhibition."
    Ishii R, Isogaya K, Seto A, Koinuma D, Watanabe Y, Arisaka F, Yaguchi SI, Ikushima H, Dohmae N, Miyazono K, Miyazawa K, Ishitani R, Nureki O,
    EMBO J., 31 2541-2552 (2012).
  56. "A 3D view of autotaxin."
    Nishimasu H, Ishitani R, Aoki J, Nureki O,
    Trends Pharmacol Sci., 33 138-145 (2012).
  57. "Crystal structure of the channelrhodopsin light-gated cation channel."
    Kato HE, Zhang F, Yizhar O, Ramakrishnan C, Nishizawa T, Hirata K, Ito J, Aita Y, Tsukazaki T, Hayashi S, Hegemann P, Maturana AD, Ishitani R, Deisseroth K, Nureki O,
    Nature, 482 369-374 (2012).
  58. "Pyrrolysine Analogs as Substrates for Bacterial Pyrrolysyl-tRNA Synthetase in Vitro and in Vivo."
    Katayama H, Nozawa K, Nureki O, Nakahara Y, Hojo H,
    Biosci Biotechnol Biochem., 76 205-208 (2011).
  59. "Rational design of an evolutionary precursor of glutaminyl-tRNA synthetase."
    O'Donoghue P, Sheppard K, Nureki O, Söll D,
    Proc Natl Acad Sci U S A., 108 20485-20490 (2011).
  60. "Crystallization and preliminary X-ray diffraction of the first periplasmic domain of SecDF, a translocon-associated membrane protein, from Thermus thermophilus."
    Echizen Y, Tsukazaki T, Dohmae N, Ishitani R, Nureki O,
    Acta. Crystallograph. Sect. F Struct. Biol. Cryst. Commun., 67(Pt 11) 1367-1370 (2011).
  61. "Structure and function of a membrane component SecDF that enhances protein export."
    Tsukazaki T, Mori H, Echizen Y, Ishitani R, Fukai S, Tanaka T, Perederina A, Vassylyev D, Kohno T, Matsurana A, Ito K, Nureki O,
    Nature, 474 235-238 (2011).
  62. "Crystal structure of autotaxin and insight into GPCR activation by lipid mediators."
    Nishimasu H, Okudaira S, Hama K, Mihara E, Domae N, Inoue A, Ishitani R, Takagi J, Aoki J, Nureki O,
    Nat Struct Mol Biol., 18 205-212 (2011).
  63. "Structural basis for nonribosomal peptide synthesis by an aminoacyl-tRNA synthetase paralog."
    Bonnefond L, Arai T, Sakaguchi Y, Suzuki K, Ishitani R, Nureki O,
    Proc Natl Acad Sci U S A., 108 3912-3917 (2011).


2006-2010

  1. "Omnipotent role of archaeal elongation factor 1 alpha (EF1α) in translational elongation and termination, and quality control of protein synthesis."
    Saito K, Kobayashi K, Wada M, Kikuno I, Takusagawa A, Mochizuki M, Uchiumi T, Ishitani R, Nureki O, Ito K,
    Proc Natl Acad Sci U S A., 107 19242-19247 (2010).
  2. "Crystal structure of a novel JmjC-domain-containing protein, TYW5, involved in tRNA modification."
    Kato M, Araiso Y, Noma A, Nagao A, Suzuki T, Ishitani R, Nureki O,
    Nucleic Acids Res., 39 1576-85 (2010).
  3. "Structural basis for mRNA surveillance by archaeal Pelota and GTP-bound EF1α complex."
    Kobayashi K, Kikuno I, Kuroha K, Saito K, Ito K, Ishitani R, Inada T, Nureki O,
    Proc Natl Acad Sci U S A. , 107 17575-17579 (2010).
  4. "C-terminal domain of archaeal O-phosphoseryl-tRNA kinase displays large-scale motion to bind the 7-bp D-stem of archaeal tRNASec."
    Sherrer RL, Araiso Y, Aldag C, Ishitani R, Ho JM, Söll D, Nureki O,
    Nucleic Acids Res., 39 1034-41 (2010).
  5. "Expanding role of the Jumonji C domain as an RNA hydroxylase."
    Noma A, Ishitani R, Kato M, Nagao A, Nureki O, Suzuki T,
    J Biol Chem., 285 34503-7 (2010).
  6. "Structure of an archaeal non-discriminating glutamyl-tRNA synthetase: a missing link in the evolution of Gln-tRNAGln formation."
    Nureki O, O'Donoghue P, Watanabe N, Ohmori A, Oshikane H, Araiso Y, Sheppard K, S醇rll D, Ishitani R,
    Nucleic Acids Res., 38 7286-97 (2010).
  7. "Editing mechanism of aminoacyl-tRNA synthetases operates by a hybrid ribozyme/protein catalyst."
    Hagiwara Y, Field MJ, Nureki O, Tateno M,
    J Am Chem Soc. , 132 2751-2758 (2010).
  8. "Molecular mechanisms underlying the early stage of protein translocation through the Sec translocon."
    Mori T, Ishitani R, Tsukazaki T, Nureki O, Sugita Y,
    Biochemistry, 49 945-950 (2010).
  9. "Structural basis for translational fidelity ensured by transfer RNA lysidine synthetase"
    Nakanishi K, Bonnefond L, Kimura S, Suzuki T, Ishitani R, Nureki O,
    Nature, 461 1144-1148 (2009).
  10. "Structure of a tRNA-dependent kinase essential for selenocysteine decoding"
    Araiso Y, Sherrer RL, Ishitani R, Ho JM, S�ll D, Nureki O,
    Proc Natl Acad Sci U S A, 106 16215-16220 (2009).
  11. "Mg2+-dependent gating of bacterial MgtE channel underlies Mg2+ homeostasis"
    Hattori M, Iwase N, Furuya N, Tanaka Y, Tsukazaki T, Ishitani R, Maguire ME, Ito K, Maturana A, Nureki O,
    EMBO J, 28 3602-3612 (2009).
  12. "Mechanism for the definition of elongation and termination by the class II CCA-adding enzyme."
    Toh Y, Takeshita D, Numata T, Fukai S, Nureki O, Tomita K.,
    EMBO J., 28 3353-3365 (2009).
  13. "Structural Basis of Novel Interactions Between the Small-GTPase and GDI-like Domains in Prokaryotic FeoB Iron Transporter."
    Hattori M, Jin Y, Nishimasu H, Tanaka Y, Mochizuki M, Uchiumi T, Ishitani R, Ito K, Nureki O.,
    Structure., 17 1345-55 (2009).
  14. "Structural basis of AdoMet-dependent aminocarboxypropyl transfer reaction catalyzed by tRNA-wybutosine synthesizing enzyme, TYW2."
    Umitsu M, Nishimasu H, Noma A, Suzuki T, Ishitani R, Nureki O.,
    Proc Natl Acad Sci U S A., 106 15616-21 (2009).
  15. "Crystallization and preliminary X-ray diffraction analysis of the truncated cytosolic domain of the iron transporter FeoB."
    Jin Y, Hattori M, Nisimasu H, Ishitani R, Nureki O.,
    Acta Crystallogr Sect F Struct Biol Cryst Commun., 65(Pt 8) 784-7 (2009).
  16. "Structural modelling of the complex of leucyl-tRNA synthetase and mis-aminoacylated tRNA(Leu)."
    Hagiwara Y, Nureki O, Tateno M.,
    FEBS Lett., [Epub ahead of print] (2009).
  17. "The structure of alanyl-tRNA synthetase with editing domain."
    Sokabe M, Ose T, Nakamura A, Tokunaga K, Nureki O, Yao M, Tanaka I.,
    Proc Natl Acad Sci U S A , 106 11028-11033 (2009).
  18. "Tuberous sclerosis tumor suppressor complex-like complexes act as GTPase-activating proteins for Ral GTPases."
    Shirakawa R, Fukai S, Kawato M, Higashi T, Kondo H, Ikeda T, Nakayama E, Okawa K, Nureki O, Kimura T, Kita T, Horiuchi H.,
    J Biol Chem. , 284 21580-8 (2009).
  19. "Identification of the nucleophilic factors and the productive complex for the editing reaction by leucyl-tRNA synthetase."
    Hagiwara Y, Nureki O, Tateno M.,
    FEBS Lett, 583(12) 1901-8 (2009).
  20. "Conserved cysteine residues of GidA are essential for biogenesis of 5-carboxymethylaminomethyluridine at tRNA anticodon."
    Osawa T, Ito K, Inanaga H, Nureki O, Tomita K, Numata T.,
    Structure, 17(5) 713-24. (2009).
  21. "Crystal structure of the cytosolic domain of the cation diffusion facilitator family protein."
    Higuchi T, Hattori M, Tanaka Y, Ishitani R, Nureki O.,
    Proteins, 76(3) 768-71 (2009).
  22. "Atomic structure of a folate/FAD-dependent tRNA T54 methyltransferase."
    Nishimasu H, Ishitani R, Yamashita K, Iwashita C, Hirata A, Hori H, Nureki O,
    Proc Natl Acad Sci U S A, 106(20) 8180-5 (2009).
  23. "Structural basis of tRNA modification with CO2 fixation and methylation by wybutosine synthesizing enzyme TYW4."
    Suzuki Y, Noma A, Suzuki T, Ishitani R, Nureki O,
    Nucleic Acids Res., 37(9) 2910-25 (2009).
  24. "Pyrrolysyl-tRNA synthetase tRNAPyl structure reveals the molecular basis of orthogonality."
    Nozawa K, O'Donoghue P, Gundllapalli S, Araiso Y, Ishitani R, Umehara T, Soll D and Nureki O,
    Nature, 457(7233) 1163-1167 (2009).
  25. "Crystallization and preliminary X-ray diffraction analysis of GCIP/HHM transcriptional regulator."
    Seto A, Ikushima H, Suzuki T, Sato Y, Fukai S, Yuki K, Miyazawa K, Miyazono K, Ishitani R and Nureki O,
    Acta Crystallogr Sect. F Struct. Biol. Cryst. Commun., 65(Pt 1) 21-24 (2009).
  26. "Conformational transition of Sec machinery inferred from bacterial SecYE structures."
    Tsukazaki T, Mori H, Fukai S, Ishitani R, Mori T, Dohmae N, Perederina A, Sugita Y, Vassylyev D, Ito K and Nureki O,
    Nature, 455 988-991 (2008).
  27. "Mg2+-sensing mechanism of Mg2+ transporter MgtE probed by molecular dynamics study."
    Ishitani R, Sugita Y, Dohmae N, Furuya N, Hattori M and Nureki O.,
    Proc Natl Acad Sci U S A, 105(40) 15393-15398 (2008).
  28. "Structural basis for specific cleavage of Lys 63-linked polyubiquitin chains."
    Sato Y, Yoshikawa A, Yamagata A, Mimura H, Yamashita M, Ookata K, Nureki O, Iwai K, Komada M and Fukai S.,
    Nature, 455 358-362 (2008).
  29. "Molecular basis for maintenance of fidelity during the CCA-adding reaction by a CCA-adding enzyme."
    Toh Y, Numata T, Watanabe K, Takeshita D, Nureki O and Tomita K.,
    EMBO J., 27 1944-1952 (2008).
  30. "Structure, dynamics, and function of RNA modification enzymes."
    Ishitani R, Yokoyama S and Nureki O.,
    Curr Opin Struct Biol., 18(3) 330-339. (2008).
  31. "Biochemical characterization of the Rho GTPase-regulated actin assembly by diaphanous-related formins, mDia1 and Daam1, in platelets."
    Higashi T, Ikeda T, Shirakawa R, Kondo H, Kawato M, Horiguchi M, Okuda T, Okawa K, Fukai S, Nureki O, Kita T and Horiuchi H.,
    J Biol Chem., 283(13) 8746-8755. (2008).
  32. "Regulation of Platelet Dense Granule Secretion by the Ral GTPase-Exocyst Pathway."
    Kawato M, Shirakawa R, Kondo H, Higashi T, Ikeda T, Okawa K, Fukai S, Nureki O, Kita T and Horiuchi H.,
    J. Biol. Chem., 283(1) 166-174 (2008).
  33. "Structural insights into RNA-dependent eukaryal and archaeal selenocysteine formation."
    Araiso Y, Palioura S, Ishitani R, Sherrer RL, O'Donoghue P, Yuan J, Oshikane H, Domae N, Defranco J, Soll D and Nureki O.,
    Nucleic Acids Res., 36(4) 1187-1199. (2008).
  34. "Use of layer silicate for protein crystallization: Effects of Micromica and chlorite powders in hanging drops."
    Takehara M, Ino K, Takakusagi Y, Oshikane H, Nureki O, Ebina T, Mizukami F and Sakaguchi K.,
    Anal. Biochem., 373(2) 322-329 (2008).
  35. "Animated crystallography of genetic code translation."
    Tomita K, Numata T, Fukai S, Ishitani R and Nureki O.,
    Nucleic Acids Symp. Ser. (Oxf), 51 101-102 (2007).
  36. "Crystal structure of human DAAM1 formin homology 2 domain."
    Yamashita M, Higashi T, Suetsugu S, Sato Y, Ikeda T, Shirakawa R, Kita T, Takenawa T, Horiuchi H, Fukai S and Nureki O.,
    Genes Cells., 12(11) 1255-65 (2007).
  37. "Crystallization and preliminary X-ray diffraction analysis of the cytosolic domain of a cation diffusion facilitator family protein."
    Hattori M, Tanaka Y, Ishitani R and Nureki O.,
    Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun., 63(Pt 9) 771-773 (2007).
  38. "Anticodon recognition and discrimination by the alpha-helix cage domain of class I lysyl-tRNA synthetase."
    Levengood JD, Roy H, Ishitani R, Söll D, Nureki O and Ibba M.,
    Biochemistry., 46(39) 11033-11038 (2007).
  39. "Crystal Structure of the Radical SAM Enzyme Catalyzing Tricyclic Modified Base Formation in tRNA."
    Suzuki Y, Noma A, Suzuki T, Senda M, Senda T, Ishitani R and Nureki O.,
    J. Mol. Biol., 372(5) 1204-1214 (2007).
  40. "Crystal structure of the MgtE Mg2+ transporter."
    Hattori M, Tanaka Y, Fukai S, Ishitani R and Nureki O.,
    Nature, 448 1072-1075 (2007).
  41. "Crystallization and preliminary X-ray diffraction analysis of the full-length Mg2+ transporter MgtE."
    Hattori M, Tanaka Y, Fukai S, Ishitani R and Nureki O.,
    Acta Crystallograph Sect F Struct Biol Cryst Commun. , 63(Pt 8) 682-684 (2007).
  42. "Crystallization and preliminary X-ray diffraction analysis of the cytosolic domain of the Mg2+ transporter MgtE."
    Tanaka Y, Hattori M, Fukai S, Ishitania R and Nureki O.,
    Acta Crystallograph Sect F Struct Biol Cryst Commun, 63(Pt 8) 678-681 (2007).
  43. "Crystal structure of the Sec4p·Sec2p complex in the nucleotide exchanging intermediate state "
    Sato Y, Fukai S, Ishitani R and Nureki O,
    PNAS, 104 (19) 8305-8310 (2007).
  44. "Asymmetric Coiled-Coil Structure with Guanine Nucleotide Exchange Activity."
    Sato Y, Shirakawa R, Horiuchi H, Dohmae N, Fukai S and Nureki O,
    Structure, 15 245-252 (2007).
  45. "Crystal structures of leucyl/phenylalanyl-tRNA-protein transferase and its complex with an aminoacyl-tRNA analog."
    Suto K, Shimizu Y, Watanabe K, Ueda T, Fukai S, Nureki O and Tomita K.,
    EMBO J., 24 5942-5950 (2006).
  46. "Complete crystallographic analysis of the dynamics of CCA sequence addition."
    Tomita K, Ishitani R, Fukai S and Nureki O.,
    Nature, 7114 956-960 (2006).
  47. "Crystallization and preliminary X-ray crystallographic analysis of the catalytic domain of pyrrolysyl-tRNA synthetase from the methanogenic archaeon Methanosarcina mazei."
    Yanagisawa T, Ishii R, Fukunaga R, Nureki O and Yokoyama S.,
    Acta Crystallograph Sect F Struct Biol Cryst Commun., Pt 10 1031-1033 (2006).
  48. "Functional categorization of the conserved basic amino acid residues in TrmH [tRNA (Gm18) methyltansferase] enzymes."
    Watanabe K, Nureki O, Fukai S, Endo Y and Hori H,
    J. Biol. Chem., 45 34630-34639 (2006).
  49. "Structural basis of RNA-dependent recruitment of glutamine to the genetic code"
    Oshikane H, Sheppard K, Fukai S, Nakamura Y, Ishitani R, Numata T, Sherrer RL, Feng L, Schmitt E, Panvert M, Blanquet S, Mechulam Y, Soll D and Nureki O.,
    Science, 312 1950-1954 (2006).
  50. "Snapshots of tRNA sulphuration via an adenylated intermediate"
    Numata T, Ikeuchi Y, Fukai S, Suzuki T and Nureki O.,
    Nature, 442 419-424 (2006).
  51. "Purification, crystallization and preliminary X-ray diffraction of SecDF, a translocon-associated membrane protein, from Thermus thermophilus"
    Tsukazaki T, Mori H, Fukai S, Numata T, Perederina A, Adachi H, Matsumura H, Takano K, Murakami S, Inoue T, Mori Y, Sasaki T, Vassylyev DG, Nureki O and Ito K.,
    Acta Crystallographica, F., 62 376-380 (2006).
  52. "Crystallization and preliminary X-ray analysis of tRNA thiolation enzyme MnmA from Escherichia Coli complexed with tRNAGlu"
    Numata T, Ikeuchi Y, Fukai S, Adachi H, Matsumura H, Takano K, Murakami S, Inoue T, Mori Y, Sasaki T, Suzuki T and Nureki O.,
    Acta Crystallographica F., 62 368-371 (2006).
  53. "Structural basis for RNA unwinding by the DEAD-box protein Drosophila Vasa"
    Sengoku T, Nureki O, Nakamura A, Kobayashi S and Yokoyama S.,
    Cell, 125 287-300 (2006).
  54. "Structural basis for sulfur relay to RNA mediated by heterohexameric TusBCD complex"
    Numata T, Fukai S, Ikeuchi Y, Suzuki T and Nureki O.,
    Structure, 14 357-366 (2006).


2001-2005

  1. "Structural change of tRNA (Gm18) methyltransferase by binding of methyl donor analogues."
    Watanabe K, Nureki O, Fukai S, Endo Y, Hori H.,
    Nucleic Acids Symp Ser (Oxf)., 49 301-302 (2005).
  2. "Crystallization of leucyl-tRNA synthetase complexed with tRNALeu from the archaeon Pyrococcus horikoshii"
    Fukunaga R, Ishitani R, Nureki O, Yokoyama S.,
    Acta Crystallographica F., 61 30-32 (2005).
  3. "Structural basis for anticodon recognition by methionyl-tRNA synthetase"
    Nakanishi K, Ogiso Y, Nakama T, Fukai S, Nureki O.,
    Nat. Struct. Mol. Biol., 12 931-932 (2005).
  4. "Recent progress of structural biology of tRNA processing and modification"
    Nakanishi K, Nureki O.,
    Mol. Cells, 19 157-166 (2005).
  5. "Structural basis for lysidine formation by ATP pyrophosphatase accompanied with a lysine-specific loop and a tRNA-recognition domain"
    Nakanishi K, Fukai S, Ikeuchi Y, Soma A, Sekine Y, Suzuki T, Nureki O.,
    Proc. Natl. Acad.Sci. USA, 21 7487-7492 (2005).
  6. "Roles of conserved amino acid sequence motifs in the SpoU (TrmH) RNA methyltransferase family"
    Watanabe K, Nureki O, Fukai S, Ishii R, Okamoto H, Yokoyama S, Endo Y, Hori H.,
    J. Biol. Chem., 280 10368-10377 (2005).
  7. "Structural basis for template-independent RNA polymerization"
    Tomita K, Fukai S, Ishitani R, Ueda T, Takeuchi N, Vassylyev DG, Nureki O.,
    Nature, 430 700-704 (2004).
  8. "Deep knot structure for construction of active site and cofactor binding site of tRNA modification enzyme"
    Nureki O, Watanabe K, Fukai S, Ishii R, Endo Y, Hori H, Yokoyama S.,
    Structure, 12 593-602 (2004).
  9. "Crystallization and preliminary X-ray analysis of the helicase domains of Vasa complexed with RNA and an ATP analogue."
    Sengoku T, Nureki O, Dohmae N, Nakamura A, Yokoyama S.,
    Acta Crystallogr D., 60 320-322 (2004).
  10. "Crystal structures of the CP1 domain from Thermus thermophilus isoleucyl- tRNA synthetase and its complex with L-valine"
    Fukunaga R, Fukai S, Ishitani R, Nureki O, Yokoyama S.,
    J. Biol. Chem., 279 8396-8402 (2004).
  11. "Structural and biochemical analyses of hemimethylated DNA binding by the SeqA protein."
    Fujikawa N, Kurumizaka H, Nureki O, Tanaka Y, Yamazoe M, Hiraga S, Yokoyama S.,
    Nucleic Acids Res., 02;32 82-92 (2004).
  12. "A short peptide insertion crucial for angiostatic activity of human tryptophanyl-tRNA synthetase."
    Kise Y, Lee SW, Park SG, Fukai S, Sengoku T, Ishii R, Yokoyama S, Kim S, Nureki O.,
    Nat. Struct. Mol. Biol., 11 149-156 (2004).
  13. "The Activation Mechanism of the Epidermal Growth Factor Receptor"
    Saito K, Ogiso H, Ishitani R, Nureki O, Fukai S, Yamanaka M, Kim J H, Shirouzu M, Yokoyama S,
    The Japnese Peptide Society, 93-96 (2003).
  14. "The Crystal Structure of a Putative Aspartate Aminotransferase Belonging to Subgroup IV"
    Katsura Y, Shirouzu M, Yamaguchi H, Ishitani R, Nureki O, Kuramitsu S, Hayashi H, Yokoyama S.,
    Proteins, 55 487-492 (2003).
  15. "Crystal structure of the human CENP-B dimerization domain at 1.65 A resolution."
    Tawaramoto MS, Park SY, Tanaka Y, Nureki O, Kurumizaka H, Yokoyama S.,
    J. Biol. Chem., 278 51454-51461 (2003).
  16. "Crystal structure of the Pyrococcus horikoshii DNA primase-UTP complex: implications for the mechanism of primer synthesis"
    Ito N, Nureki O, Shirouzu M, Yokoyama S, Hanaoka F.,
    Genes Cells, 8 913-923 (2003).
  17. "Divergent evolutions of trinucleotide polymerization revealed by an archaeal CCA-adding enzyme structure."
    Okabe M, Tomita K, Ishitani R, Ishii R, Takeuchi N, Arisaka F, Nureki O, Yokoyama S.,
    EMBO J., 22 5918-5927 (2003).
  18. "Activation of the pyrrolysine suppressor tRNA requires formation of a ternary complex with class I and class II lysyl-tRNA synthetases."
    Polycarpo C, Ambrogelly A, Ruan B, Tumbula-Hansen D, Ataide SF, Ishitani R, Yokoyama S, Nureki O, Ibba M, Soll D.,
    Mol. Cell, 12 287-294 (2003).
  19. "Crystal structure of the tRNA processing enzyme RNase PH from Aquifex aeolicus."
    Ishii R, Nureki O, Yokoyama S.,
    J. Biol. Chem., 278 32397-32404 (2003).
  20. "Structural basis for orthogonal tRNA specificities of tyrosyl-tRNA synthetases for genetic-code expansion"
    Kobayashi T, Nureki O, Ishitani R, Yaremchuk A, Tukalo M, Cusack S, Sakamoto K, Yokoyama S.,
    Nat. Struct. Biol., 10 425-432 (2003).
  21. "Structural basis of the replication origin recognition by the DnaA protein"
    Fujikawa N, Kurumizaka H, Nureki O, Terada T, Shirouzu M, Katayama T, Yokoyama S.,
    Nucleic Acids Res., 31 2077-2086 (2003).
  22. "Alternative tertiary structure of tRNA for recognition by a posttranscriptional modification enzyme"
    Ishitani R, Nureki O, Nameki N, Okada N, Nishimura S, Yokoyama S.,
    Cell, 113 383-394 (2003).
  23. "ATP binding by glutamyl-tRNA synthetase is switched to the productive mode by tRNA binding"
    Sekine S, Nureki O, Dubois DY, Bernier S, Chenevert R, Lapointe J, Vassylyev DG, Yokoyama S.,
    EMBO J., 22 676-688 (2003).
  24. "Mechanism of molecular interactions for tRNAVal recognition by valyl-tRNA synthetase"
    Fukai S, Nureki O, Sekine S, Shimada A, Vassylyev DG, Yokoyama S.,
    RNA, 8 100-111 (2003).
  25. "Crystal structure of human epidermal growth factor in complex with the extracellular domains of the receptor"
    Ogiso H, Ishitani R, Nureki O, Fukai S, Yamanaka M, Kim JH, Saito K, Sakamoto A, Inoue M, Shirouzu M, Yokoyama S.,
    Cell, 110 775-787 (2002).
  26. "Crystal structure of the homologous-pairing domain from the human Rad52 recombinase in the undecameric form."
    Kagawa W, Kurumizaka H, Ishitani R, Fukai S, Nureki O, Shibata T, Yokoyama S.,
    Mol. Cell, 10 359-371 (2002).
  27. "An enzyme with a deep trefoil knot for the active-site architecture"
    Nureki O, Shirouzu M, Hashimoto K, Ishitani R, Terada T, Tamakoshi M, Oshima T, Chijimatsu M, Takio K, Vassylyev DG, Shibata T, Inoue Y, Kuramitsu S, Yokoyama S.,
    Acta Crystallogr. D., 58 1129-1137 (2002).
  28. "Functional convergence of two lysyl-tRNA synthetases with unrelated topologies"
    Terada T, Nureki O, Ishitani R, Ambrogelly A, Ibba M, Soll D, Yokoyama S.,
    Nat. Struct. Biol., 9 257-262 (2002).
  29. "Crystal structure of archaeosine tRNA-guanine transglycosylase"
    Ishitani R, Nureki O, Fukai S, Kijimoto T, Nameki N, Watanabe M, Kondo H, Sekine M, Okada N, Nishimura S, Yokoyama S.,
    J. Mol. Biol., 318 665-677 (2002).
  30. "Mutation Separation of two pathways for editing by a class I tRNA synthetase"
    Hendrickson TL, Nomanbhoy TK, de Crecy-Lagard V, Fukai S, Nureki O, Yokoyama S, Schimmel P.,
    Mol. Cell, 9 353-362 (2002).
  31. "DNA kink at the contact site with an arginine-rich helix of human centeromere protein B"
    Tanaka Y*, Nureki O*, Kurumizaka H*, Fukai S, Kawaguchi S, Ikuta M, Iwahara J, Okazaki T and Yokoyama S (*equal contribution),
    EMBO J, 20 6612-6618 (2001).
  32. "Structural basis for amino acid and tRNA recognition by class I aminoacyl-tRNA synthetases."
    Nureki O, Fukai S, Sekine S, Shimada A, Terada T, Nakama T, Shirouzu M, Vassylyev DG, Yokoyama S,
    Cold Spring Harb Symp Quant Biol., 66 167-173 (2001).
  33. "Crystal structure of the CENP-B protein-DNA complex: the DNA-binding domains of CENP-B induce kinks in the CENP-B box DNA."
    Tanaka Y, Nureki O, Kurumizaka H, Fukai S, Kawaguchi S, Ikuta M, Iwahara J, Okazaki T, Yokoyama S.,
    EMBO J., 20 6612-6618 (2001).
  34. "Structural basis for the recognition of isoleucyl-adenylate and an antibiotic, mupirocin, by isoleucyl-tRNA synthetase"
    Nakama T, Nureki O, Yokoyama S.,
    J. Biol. Chem., 276 47387-47393 (2001).
  35. "Structural and mutational studies of the recognition of the arginine tRNA-specific major identity element, A20, by arginyl-tRNA synthetase"
    Shimada A, Nureki O, Goto M, Takahashi S, Yokoyama S.,
    Proc. Natl. Acad.Sci. USA, 98 13537-13542 (2001).
  36. "Crystallization and preliminary X-ray analysis of a DNA primase from the hyperthermophilic archaeon, Pyrococcus horikoshii"
    Ito N, Nureki O, Shirouzu M, Yokoyama S, Hanaoka F.,
    J. Biochem., 130 727-730 (2001).
  37. "Selenomethionine incorporation into a protein by cell-free synthesis"
    Kigawa T, Yamaguchi-Nunokawa E, Kodama K, Matsuda T, Yabuki T, Matsuda N, Ishitani R, Nureki O, Yokoyama S.,
    J. Struc. Func. Gen., 2 87-104 (2001).
  38. "Crystallization and preliminary X-ray analysis of archaeosine tRNA-guanine transglycosylase from Pyrococcus horikoshii"
    Ishitani R, Nureki O, Kijimoto T, Watanabe M, Kondo H, Nameki N, Okada N, Nishimura S, Yokoyama S.,
    Acta Crystallogr. D., 57 1659-1662 (2001).
  39. "Crystal structure of human AUH protein, a single-stranded RNA-binding homologue of enoyl-CoA hydratase"
    Kurimoto K, Fukai S, Nureki O, Muto Y, Yokoyama S.,
    Structure, 9 1253-1263 (2001).
  40. "Crucial role of the HIGH-loop lysine for the catalytic activity of arginyl-tRNA synthetase"
    Sekine S, Shimada A, Nureki O, Cavarelli J, Moras D, Vassylyev DG, Yokoyama S.,
    J. Biol. Chem., 276 3723-3726 (2001).
  41. "Structural basis for anticodon recognition by discriminating glutamyl-tRNA synthetase"
    Sekine S, Nureki O, Shimada A, Vassylyev DG, Yokoyama S.,
    Nat. Struct. Biol., 8 203-206 (2001).


1996-2000

  1. "Gene cloning, expression, crystallization, and preliminary X-ray analysis of Thermus thermophilus arginyl-tRNA synthetase"
    Shimada A, Nureki O, Dohmae N, Takio K, Yokoyama S.,
    Acta Crystallogr.D., 57 272-275 (2000).
  2. "Structural basis for double-sieve discrimination of the cognate L-valine from L-isoleucine and L-threonine by the complex of tRNAVal and valyl-tRNA synthetase"
    Fukai S, Nureki O, Sekine S, Shimada A, Tao J, Vassylyev DG, Yokoyama S.,
    Cell, 103 793-803 (2000).
  3. "Crystallization and preliminary X-ray diffraction analysis of the extracellular domain of the cell surface antigen CD38 complexed with ganglioside"
    Kukimoto M, Nureki O, Shirouzu M, Katada T, Hirabayashi Y, Sugiya H, Furuyama S, Yokoyama S, Hara-Yokoyama M.,
    J. Biochem., 127 181-184 (2000).
  4. "The 2.0 A crystal structure of Thermus thermophilus methionyl-tRNA synthetase reveals two RNA-binding modules"
    Sugiura I, Nureki O, Ugaji-Yoshikawa Y, Kuwabara S, Shimada A, Tateno M, Lorber B, Giege R, Moras D, Yokoyama S, Konno M.,
    Structure, 8 197-208 (2000).
  5. "Crystal structure of Escherichia coli methionyl-tRNA synthetase highlights species-specific features"
    Mechulam Y, Schmitt E, Maveyraud L, Zelwer C, Nureki O, Yokoyama S, Konno M, Blanquet S.,
    J. Mol. Biol., 294 1287-1297 (1999).
  6. "Proofreading by isoleucyl-transfer RNA synthetase"
    O. Nureki, D. G. Vassylyev, M. Tateno, A. Shimada, T. Nakama, S. Fukai, M. Konno, T. L. Hendrickson, P. Schimmel, and S. Yokoyama,
    Science, 283 459 (1999).
  7. "The identity determinants required for the discrimination between tRNAGlu and tRNAAsp by glutamyl-tRNA synthetase from Escherichia coli"
    Sekine S, Nureki O, Tateno M, Yokoyama S.,
    Eur. J. Biochem., 261 354-360 (1999).
  8. "Structural basis for recognition of the tra mRNA precursor by the Sex-lethal protein"
    Handa N, Nureki O, Kurimoto K, Kim I, Sakamoto H, Shimura Y, Muto Y, Yokoyama S.,
    Nature, 398 579-585 (1999).
  9. "Enzyme structure with two catalytic sites for double-sieve selection of substrate"
    Nureki O, Vassylyev DG, Tateno M, Shimada A, Nakama T, Fukai S, Konno M, Hendrickson TL, Schimmel P, Yokoyama S.,
    Science, 280 578-582 (1998).
  10. "Major identity determinants in the "augmented D helix" of tRNAGlu from Escherichia coli"
    Sekine S, Nureki O, Sakamoto K, Niimi T, Tateno M, Go M, Kohno T, Brisson A, Lapointe J, Yokoyama S.,
    J. Mol. Biol., 256 685-700 (1996).


1991-1995

  1. "The zinc-binding site of Escherichia coli glutamyl-tRNA synthetase is located in the acceptor-binding domain"
    Liu J, Gagnon Y, Gauthier J, Furenlid L, L'Heureux PJ, Auger M, Nureki O, Yokoyama S, Lapointe J.,
    J. Biol. Chem., 270 15162-15169 (1995).
  2. "A three-dimensional structure model of the complex of glutamyl-tRNA synthetase and its cognate tRNA"
    Tateno M, Nureki O, Sekine S, Kaneda K, Go M, Yokoyama S.,
    FEBS Lett., 377 77-81 (1995).
  3. "Architectures of the class-defining and specific domains of glutamyl-tRNA synthetase"
    Nureki O, Vassylyev DG, Katayanagi K, Shimizu T, Sekine S, Kigawa T, Miyazawa T, Yokoyama S, Morikawa K.,
    Science, 267 1958-1965 (1995).
  4. "Recognition of the anticodon loop of tRNA1Ile by isoleucyl-tRNA synthetase from Escherichia coli"
    T. Niimi, O. Nureki, T. Yokogawa, N. Hayashi, K. Nishikawa, K. Watanabe, S. Yokoyama,
    Nucleosides and Nucleotides, 13 1231-1237 (1994).
  5. "Molecular recognition of the identity-determinant set of isoleucine transfer RNA from Escherichia coli"
    Nureki O, Niimi T, Muramatsu T, Kanno H, Kohno T, Florentz C, Giege R, Yokoyama S.,
    J. Mol. Biol., 236 710-724 (1994).
  6. "Chemical modification and mutagenesis studies on zinc binding of aminoacyl-tRNA synthetases"
    Nureki O, Kohno T, Sakamoto K, Miyazawa T, Yokoyama S.,
    J. Biol. Chem., 268 15368-15373 (1993).
  7. "Glutamyl-tRNA synthetase from Thermus thermophilus HB8"
    Nureki O, Suzuki K, Hara-Yokoyama M, Kohno T, Matsuzawa H, Ohta T, Shimizu T, Morikawa K, Miyazawa T, Yokoyama S.,
    Eur. J. Biochem., 204 465-472 (1992).
  8. "Mechanisms of molecular recognition of tRNAs by aminoacyl-tRNA synthetases."
    Nureki O, Tateno M, Niimi T, Kohno T, Muramatsu T, Kanno H, Muto Y, Giege R, Yokoyama S.,
    Nucleic Acids Symp. Ser., 25 165-166 (1991).
  9. "Methionyl-tRNA synthetase gene from an extreme thermophile, Thermus thermophilus HB8"
    Nureki O, Muramatsu T, Suzuki K, Kohda D, Matsuzawa H, Ohta T, Miyazawa T, Yokoyama S.,
    J. Biol. Chem., 266 3268-3277 (1991).


講演論文

  1. "Structural basis for amino acid and tRNA recognition by class I aminoacyl-tRNA synthetases."
    Nureki O, Fukai S, Sekine S, Shimada A, Terada T, Nakama T, Shirouzu M, Vassylyev DG, Yokoyama S.,
    Cold Spring Harbor Symposia on Quantitative Biology., LXVI 167-173 (2001).
  2. "Mechanisms of molecular recognition of tRNAs by aminoacyl-tRNA synthetases."
    Nureki O, Tateno M, Niimi T, Kohno T, Muramatsu T, Kanno H, Muto Y, Giege R, Yokoyama S.,
    Nucleic Acids Symp. Ser., 25 165-166 (1991).
  3. "Recognition of tRNA identity determinants by aminoacyl-tRNA synthetases."
    Muramatsu T, Nureki O, Kanno H, Niimi T, Tateno M, Kohno T, Kawai G, Miyazawa T, Muto Y, Yokoyama S.,
    Nucleic Acids Symp. Ser., 22 119-120 (1990).


書籍

  1. "Architectures of class I aminoacyl-tRNA synthetases"
    O. Nureki, and S. Yokoyama,
    Tracing Biology Evolution in Protein and Gene Structures, (Edited by M. Go and P. Schimmel) Elsevier Science, pp. 23-35 (1995).
  2. "Conformational change of tRNA upon interaction of the identity-determinant set with aminoacyl-tRNA synthetase8"
    O. Nureki, T. Niimi, Y. Muto, H. Kanno, T. Kohno, T. Muramatsu, G. Kawai, T. Miyazawa, R. Giege, C. Florentz, and S. Yokoyama,
    The Translational Apparatus, Plenum Press, New York pp.59-66 (1993).


総説・解説

  1. "脂質メディエーター産生酵素オートタキシンの構造機能解析"
    石谷隆一郎,西増弘志,高木淳一,青木淳賢,濡木理,
    実験医学, 増刊 42- (2012).
  2. "タンパク質を膜透過させる分子装置"
    塚崎智也,濡木理,
    化学工業, 62 471-477 (2011).
  3. "Pyrrolysyl-tRNA synthetase-tRNAPyl structure reveals the molecular basis of orthogonality."
    Nozawa K, Ishitani R, Nureki O,
    Seikagaku, 82 617-623 (2010).
  4. "[Dynamic mechanism of CCA-adding polymerization reaction]"
    Nureki O.,
    Seikagaku., 80(5) 429-34 (2008).
  5. "[Structural basis for the mechanism of Mg2 homeostasis by MgtE transporter]"
    Hattori M, Nureki O.,
    Tanpakushitsu Kakusan Koso., 53(3) 242-8. (2008).
  6. "細胞の生と死を統括するアミノアシルtRNA合成酵素複合体"
    濡木理,
    蛋白質核酸酵素, 50巻 1264-1270 (2005).
  7. "アミノアシルtRNA合成酵素"
    濡木理,
    タンパク質工学の基礎, 131-147 (2004).
  8. "タンパク質の高次構造の決定法"
    濡木理・河合剛太,
    タンパク質工学の基礎, 41-61 (2004).
  9. "tRNAプロセシング・修飾酵素の構造生物学"
    濡木理,
    細胞工学, 22巻 951-955 (2003).
  10. "転写後修飾酵素による認識のためのtRNAの新たな構造"
    石谷隆一郎・濡木理・横山茂之,
    実験医学, 8巻 1657-1660 (2003).
  11. "RNA・タンパク質相互作用"
    濡木理,
    RNAがわかる, 70-82 (2003).
  12. "アミノアシルtRNA合成酵素aaRSのtRNA認識機構"
    濡木理,
    蛋白質核酸酵素, 46巻 1651-1660 (2001).
  13. "正確な遺伝暗号の翻訳"
    濡木理,
    遺伝子産物(タンパク質)の形を観る:構造生物学とは何か, (第13回「大学と科学」 公開シンポジウム組織委員会) 51-64 (1999).
  14. "tRNAへのアミノ酸の結合 - その起源と進化 -"
    濡木理,
    化学と工業, 50巻 181-189 (1999).
  15. "立体構造から見たグルタミルtRNA合成酵素の進化"
    濡木理・横山茂之,
    生物物理, 37巻 321-325 (1997).
  16. "トランスファーRNAの構造生物学"
    濡木理・横山茂之,
    科学, 68巻 548-555 (1996).
  17. "アミノアシルtRNA合成酵素:構造的見地から見た基質認識機構と分子進化"
    濡木理・横山茂之,
    日本結晶学会誌, 38巻 60-67 (1996).
  18. "アミノアシルtRNA合成酵素によるtRNA認識のメカニズム"
    濡木理・横山茂之,
    蛋白質核酸酵素, 40巻 1609-1619 (1995).
  19. "アミノアシルtRNA合成酵素"
    濡木理・横山茂之,
    蛋白質核酸酵素, 39巻 221-231 (1994).
  20. "tRNAの機能構造とアイデンティティー決定因子"
    濡木理・横山茂之,
    遺伝, 48巻 13-19 (1994).