Yoshifumi Nishimura

Overview

Best Publications

• Solution structure of a specific DNA complex of the Myb DNA-binding domain with cooperative recognition helices.

  Kazuhiro Ogata;Souichi Morikawa;Haruki Nakamura;Ai Sekikawa

  643
  Citations

• Structural genomics projects in Japan.

  Shigeyuki Yokoyama;Hiroshi Hirota;Takanori Kigawa;Takashi Yabuki

  461
  Citations

• The cavity in the hydrophobic core of Myb DNA-binding domain is reserved for DNA recognition and trans-activation.

  Kazuhiro Ogata;Chie Kanei-Ishii;Motoko Sasaki;Hideki Hatanaka

  405
  Citations

• Solution structure of a DNA-binding unit of Myb: a helix-turn-helix-related motif with conserved tryptophans forming a hydrophobic core.

  Kazuhiro Ogata;Hironobu Hojo;Saburo Aimoto;Takahisa Nakai

  376
  Citations

• Most compact hairpin-turn structure exerted by a short DNA fragment, d(GCGAAGC) in solution: an extraordinarily stable structure resistant to nucleases and heat

  Ichiro Hirao;Gota Kawai;Satoko Yoshizawa;Yoshifumi Nishimura

  260
  Citations

• Comparison of the free and DNA-complexed forms of the DNA-binding domain from c-Myb.

  Kazuhiro Ogata;Souichi Morikawa;Haruki Nakamura;Hironobu Hojo

  230
  Citations

• The tryptophan cluster: a hypothetical structure of the DNA-binding domain of the myb protooncogene product.

  Chie Kanei-Ishii;A. Sarai;T. Sawazaki;H. Nakagoshi

  201
  Citations

• Recognition of specific DNA sequences by the c-myb protooncogene product: role of three repeat units in the DNA-binding domain

  Jun Tanikawa;Takashi Yasukawa;Masato Enari;Kazuhiro Ogata

  200
  Citations

• Comparison between TRF2 and TRF1 of their telomeric DNA-bound structures and DNA-binding activities

  Shingo Hanaoka;Aritaka Nagadoi;Yoshifumi Nishimura

  179
  Citations

• Extraordinarily stable mini-hairpins: electrophoretical and thermal properties of the various sequence variants of d(GCFAAAGC)and their effect on DNA sequencing

  Ichiro Hirao;Yoshifumi Nishimura;Yon-ichi Tagawa;Kimitsuna Watanabe

  167
  Citations

• In-plane vibrational modes in the uracil molecule from an ab initio MO calculation

  Yoshifumi Nishimura;Masamichi Tsuboi;Shigeki Kato;Keiji Morokuma

  146
  Citations

• A free-energy landscape for coupled folding and binding of an intrinsically disordered protein in explicit solvent from detailed all-atom computations.

  Junichi Higo;Yoshifumi Nishimura;Haruki Nakamura

  143
  Citations

• Structural comparison of the PhoB and OmpR DNA-binding/transactivation domains and the arrangement of PhoB molecules on the phosphate box.

  Hideyasu Okamura;Shingo Hanaoka;Aritaka Nagadoi;Kozo Makino

  137
  Citations

• Conformation-sensitive Raman lines of mononucleotides and their use in a structure analysis of polynucleotides: guanine and cytosine nucleotides

  Yoshifumi Nishimura;Masamichi Tsuboi;Tomohiro Sato;Katsuyuki Aoki

  137
  Citations

• Two types of conformers with distinct Fe-C-O configuration in the ferrous CO complex of horseradish peroxidase. Resonance Raman and infarared spectroscopic studies with native and deuteroheme-substituted enzymes.

  T Uno;Y Nishimura;M Tsuboi;R Makino

  130
  Citations

• Common TFIIH recruitment mechanism in global genome and transcription-coupled repair subpathways

  Masahiko Okuda;Yuka Nakazawa;Chaowan Guo;Tomoo Ogi

  128
  Citations

• Escherichia coli positive regulator OmpR has a large loop structure at the putative RNA polymerase interaction site.

  Hidemasa Kondo;Atsushi Nakagawa;Jun Nishihira;Yoshifumi Nishimura

  121
  Citations

• Solution structure of a telomeric DNA complex of human TRF1

  Tadateru Nishikawa;Hideyasu Okamura;Aritaka Nagadoi;Peter König

  120
  Citations

• A protein kinase Cdelta-binding protein SRBC whose expression is induced by serum starvation.

  Yasushi Izumi;Syu-ichi Hirai;Yoko Tamai;Ariko Fujise-Matsuoka

  107
  Citations

• Structural genomics projects in Japan.

  Shigeyuki Yokoyama;Yo Matsuo;Hiroshi Hirota;Takanori Kigawa

  80
  Citations