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).