Ryuichiro Ishitani

Dr. Ryuichiro Ishitani

Education

1996-1998
Student of Faculty of Science, the University of Tokyo
1998-2003
Master and PhD student of Department of Biophysics and Biochemistry, Graduate School of Science, the University of Tokyo under Prof. S. Yokoyama
2003
Graduation from Department of Biophysics and Biochemistry, Graduate School of Science, the University of Tokyo (Doctor of Science)

Academic degree

Ph.D. (Science), 2003
Title of the thesis: "Alternative tertiary structure of tRNA for recognition by a posttranscriptional modification enzyme".

Employment

2003-2004
Research Associate at Department of Biophysics and Biochemistry, Graduate School of Science, The University of Tokyo
2004-2005
Post Doctor at Graduate School of Agricultural and Life Science, The University of Tokyo.
2005-2006
Assistant Professor at Graduate School of Agricultural and Life Science, The University of Tokyo.
2006
Consultant of A-Cube, Inc.
2006-2008
Assistant Professor at Department of Biological Information,Graduate School of Biosciences and Biotechnology,Tokyo Institute of Technology
2008-2010
Associate Professor at Department of Basic Medical Sciences,Institute of Medical Science, University of Tokyo
2011-
Associate Professor at Department of Biophysics and Biochemistry, Graduate School of Science, the University of Tokyo

Publications

  1. "Complete crystallographic analysis of the dynamics of CCA sequence addition."
    Tomita K, Ishitani R, Fukai S, Nureki O.,
    Nature, 7114 956-960 (2006).
  2. "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, Nureki O.,
    Science, 312 1950-1954 (2006).
  3. "Evaluation of efficiency of reference potential spatial warping algorithm in conformational sampling of peptides"
    Ishitani R, Shimizu K, Terada T.,
    J. Chem. Phys., 124 214902 (2006).
  4. "Crystallization of leucyl-tRNA synthetase complexed with tRNALeu from the archaeon Pyrococcus horikoshii"
    Fukunaga R, Ishitani R, Nureki O, Yokoyama S.,
    Acta Crystallogr., F61 30-32 (2005).
  5. "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).
  6. "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).
  7. "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).
  8. "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).
  9. "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).
  10. "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).
  11. "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).
  12. "Crystal structure of human epidermal growth factor in complex with the extracellular domains of the receptor"
    H. Ogiso, R. Ishitani, O. Nureki, S. Fukai, M. Yamanaka, J.-H. Kim, K. Saito, M., Shirouzu, and S. Yokoyama,
    Cell, 110 775-787 (2002).
  13. "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).
  14. "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., D58 1129-1137 (2002).
  15. "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).
  16. "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).
  17. "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).
  18. "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., D57 1659-1662 (2001).