• 621 Citations
  • 16 h-Index
20052020

Research output per year

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Research Output

  • 621 Citations
  • 16 h-Index
  • 38 Article
  • 1 Chapter
  • 1 Comment/debate
  • 1 Review article
2020

Energy landscape of domain motion in glutamate dehydrogenase deduced from cryo-electron microscopy

Oide, M., Kato, T., Oroguchi, T. & Nakasako, M., 2020 Aug 1, In : FEBS Journal. 287, 16, p. 3472-3493 22 p.

Research output: Contribution to journalArticle

2 Citations (Scopus)

Methods and application of coherent X-ray diffraction imaging of noncrystalline particles

Nakasako, M., Kobayashi, A., Takayama, Y., Asakura, K., Oide, M., Okajima, K., Oroguchi, T. & Yamamoto, M., 2020 Apr 1, In : Biophysical Reviews. 12, 2, p. 541-567 27 p.

Research output: Contribution to journalReview article

1 Citation (Scopus)

Molecular shape under far-red light and red light-induced association of Arabidopsis phytochrome B

Oide, M., Hikima, T., Oroguchi, T., Kato, T., Yamaguchi, Y., Yoshihara, S., Yamamoto, M., Nakasako, M. & Okajima, K., 2020 Apr 1, In : FEBS Journal. 287, 8, p. 1612-1625 14 p.

Research output: Contribution to journalArticle

1 Citation (Scopus)
2018

Blue light– excited LOV1 and LOV2 domains cooperatively regulate the kinase activity of full-length phototropin2 from arabidopsis

Oide, M., Okajima, K., Nakagami, H., Kato, T., Sekiguchi, Y., Oroguchi, T., Hikima, T., Yamamoto, M. & Nakasako, M., 2018 Jan 19, In : Journal of Biological Chemistry. 293, 3, p. 963-972 10 p.

Research output: Contribution to journalArticle

8 Citations (Scopus)

Classification of ab initio models of proteins restored from small-angle X-ray scattering

Oide, M., Sekiguchi, Y., Fukuda, A., Okajima, K., Oroguchi, T. & Nakasako, M., 2018 Sep 1, In : Journal of Synchrotron Radiation. 25, 5, p. 1379-1388 10 p.

Research output: Contribution to journalArticle

3 Citations (Scopus)

Coherent X-ray DIFFRACTION IMAGINg of Cyanidioschyzon merolae

Sekiguchi, Y., Kobayashi, A., Takayama, Y., Oide, M., Fukuda, A., Yamamoto, T., Okajima, K., Oroguchi, T., Hirakawa, T., Inui, Y., Matsunaga, S., Yamamoto, M. & Nakasako, M., 2018 Mar 8, Cyanidioschyzon merolae: A New Model Eukaryote for Cell and Organelle Biology. Springer Singapore, p. 153-173 21 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Diffraction apparatus and procedure in tomography X-ray diffraction imaging for biological cells at cryogenic temperature using synchrotron X-ray radiation

Kobayashi, A., Takayama, Y., Okajima, K., Oide, M., Yamamoto, T., Sekiguchi, Y., Oroguchi, T., Nakasako, M., Kohmura, Y., Yamamoto, M., Hoshi, T. & Torizuka, Y., 2018 Jan 1, (Accepted/In press) In : Journal of Synchrotron Radiation.

Research output: Contribution to journalArticle

1 Citation (Scopus)

Growth of cuprous oxide particles in liquid-phase synthesis investigated by X-ray laser diffraction

Oroguchi, T., Yoshidome, T., Yamamoto, T. & Nakasako, M., 2018 May 28, (Accepted/In press) In : Nano Letters.

Research output: Contribution to journalArticle

5 Citations (Scopus)

Shot-by-shot characterization of focused X-ray free electron laser pulses

Kobayashi, A., Sekiguchi, Y., Oroguchi, T., Yamamoto, M. & Nakasako, M., 2018 Dec 1, In : Scientific reports. 8, 1, 831.

Research output: Contribution to journalArticle

10 Citations (Scopus)
2017
4 Citations (Scopus)

Common structural features of toxic intermediates from α-synuclein and GroES fibrillogenesis detected using cryogenic coherent X-ray diffraction imaging

Kameda, H., Usugi, S., Kobayashi, M., Fukui, N., Lee, S., Hongo, K., Mizobata, T., Sekiguchi, Y., Masaki, Y., Kobayashi, A., Oroguchi, T., Nakasako, M., Takayama, Y., Yamamoto, M. & Kawata, Y., 2017 Jan 1, In : Journal of biochemistry. 161, 1, p. 55-65 11 p.

Research output: Contribution to journalArticle

4 Citations (Scopus)
7 Citations (Scopus)
2016

Blue light-excited light-oxygen-voltage-sensing domain 2 (LOV2) triggers a rearrangement of the kinase domain to induce phosphorylation activity in arabidopsis phototropin

Oide, M., Okajima, K., Kashojiya, S., Takayama, Y., Oroguchi, T., Hikima, T., Yamamoto, M. & Nakasako, M., 2016 Sep 16, In : Journal of Biological Chemistry. 291, 38, p. 19975-19984 10 p.

Research output: Contribution to journalArticle

7 Citations (Scopus)
23 Citations (Scopus)
20 Citations (Scopus)

Specimen preparation for cryogenic coherent X-ray diffraction imaging of biological cells and cellular organelles by using the X-ray free-electron laser at SACLA

Kobayashi, A., Sekiguchi, Y., Oroguchi, T., Okajima, K., Fukuda, A., Oide, M., Yamamoto, M. & Nakasako, M., 2016 Jul 1, In : Journal of Synchrotron Radiation. 23, 4, p. 975-989 15 p.

Research output: Contribution to journalArticle

15 Citations (Scopus)

TAKASAGO-6 apparatus for cryogenic coherent X-ray diffraction imaging of biological non-crystalline particles using X-ray free electron laser at SACLA

Kobayashi, A., Sekiguchi, Y., Takayama, Y., Oroguchi, T., Shirahama, K., Torizuka, Y., Manoda, M., Nakasako, M. & Yamamoto, M., 2016 May 1, In : Review of Scientific Instruments. 87, 5, 053109.

Research output: Contribution to journalArticle

16 Citations (Scopus)
2015
8 Citations (Scopus)

Coherent X-ray diffraction imaging of chloroplasts from Cyanidioschyzon merolae by using X-ray free electron laser

Takayama, Y., Inui, Y., Sekiguchi, Y., Kobayashi, A., Oroguchi, T., Yamamoto, M., Matsunaga, S. & Nakasako, M., 2015, In : Plant and Cell Physiology. 56, 7, p. 1272-1286 15 p.

Research output: Contribution to journalArticle

25 Citations (Scopus)

Cryogenic coherent x-ray diffraction imaging for biological non-crystalline particles using the KOTOBUKI-1 diffraction apparatus at SACLA

Oroguchi, T., Sekiguchi, Y., Kobayashi, A., Masaki, Y., Fukuda, A., Hashimoto, S., Nakasako, M., Ichikawa, Y., Kurumizaka, H., Shimizu, M., Inui, Y., Matsunaga, S., Kato, T., Namba, K., Yamaguchi, K., Kuwata, K., Kameda, H., Fukui, N., Kawata, Y., Kameshima, T. & 3 others, Takayama, Y., Yonekura, K. & Yamamoto, M., 2015 Jul 29, In : Journal of Physics B: Atomic, Molecular and Optical Physics. 48, 18

Research output: Contribution to journalArticle

7 Citations (Scopus)

Signal enhancement and Patterson-search phasing for high-spatial-resolution coherent X-ray diffraction imaging of biological objects

Takayama, Y., Maki-Yonekura, S., Oroguchi, T., Nakasako, M. & Yonekura, K., 2015 Jan 28, In : Scientific reports. 5, 8074.

Research output: Contribution to journalArticle

16 Citations (Scopus)
2014

Dark-field phase retrieval under the constraint of the Friedel symmetry in coherent X-ray diffraction imaging

Kobayashi, A., Sekiguchi, Y., Takayama, Y., Oroguchi, T. & Nakasako, M., 2014 Nov 17, In : Optics Express. 22, 23, p. 27892-27909 18 p.

Research output: Contribution to journalArticle

12 Citations (Scopus)

Data processing software suite SITENNO for coherent X-ray diffraction imaging using the X-ray free-electron laser SACLA

Sekiguchi, Y., Oroguchi, T., Takayama, Y. & Nakasako, M., 2014 May, In : Journal of Synchrotron Radiation. 21, 3, p. 600-612 13 p.

Research output: Contribution to journalArticle

25 Citations (Scopus)

Erratum: Coherent diffraction imaging analysis of shape-controlled nanoparticles with focused hard X-ray free-electron laser pulses (Nano Letters (2013) 13:12 (6028-6032) DOI: 10.1021/nl403247x)

Takahashi, Y., Suzuki, A., Zettsu, N., Oroguchi, T., Takayama, Y., Sekiguchi, Y., Kobayashi, A., Yamamoto, M. & Nakasako, M., 2014 Apr 9, In : Nano Letters. 14, 4, 1 p.

Research output: Contribution to journalComment/debate

IDATEN and G-SITENNO: GUI-assisted software for coherent X-ray diffraction imaging experiments and data analyses at SACLA

Sekiguchi, Y., Yamamoto, M., Oroguchi, T., Takayama, Y., Suzuki, S. & Nakasako, M., 2014 Nov 1, In : Journal of Synchrotron Radiation. 21, 6, p. 1378-1383 6 p.

Research output: Contribution to journalArticle

16 Citations (Scopus)

Light-induced conformational changes of LOV1 (light oxygen voltage-sensing domain 1) and LOV2 relative to the kinase domain and regulation of kinase activity in Chlamydomonas phototropin

Okajima, K., Aihara, Y., Takayama, Y., Nakajima, M., Kashojiya, S., Hikima, T., Oroguchi, T., Kobayashi, A., Sekiguchi, Y., Yamamoto, M., Suzuki, T., Nagatani, A., Nakasako, M. & Tokutomi, S., 2014 Jan 3, In : Journal of Biological Chemistry. 289, 1, p. 413-422 10 p.

Research output: Contribution to journalArticle

29 Citations (Scopus)

Single-shot three-dimensional structure determination of nanocrystals with femtosecond X-ray free-electron laser pulses

Xu, R., Jiang, H., Song, C., Rodriguez, J. A., Huang, Z., Chen, C. C., Nam, D., Park, J., Gallagher-Jones, M., Kim, S., Kim, S., Suzuki, A., Takayama, Y., Oroguchi, T., Takahashi, Y., Fan, J., Zou, Y., Hatsui, T., Inubushi, Y., Kameshima, T. & 9 others, Yonekura, K., Tono, K., Togashi, T., Sato, T., Yamamoto, M., Nakasako, M., Yabashi, M., Ishikawa, T. & Miao, J., 2014 Jun 5, In : Nature communications. 5, 4061.

Research output: Contribution to journalArticle

68 Citations (Scopus)
2013

Coherent diffraction imaging analysis of shape-controlled nanoparticles with focused hard X-ray free-electron laser pulses

Takahashi, Y., Suzuki, A., Zettsu, N., Oroguchi, T., Takayama, Y., Sekiguchi, Y., Kobayashi, A., Yamamoto, M. & Nakasako, M., 2013 Dec 11, In : Nano Letters. 13, 12, p. 6028-6032 5 p.

Research output: Contribution to journalArticle

46 Citations (Scopus)

KOTOBUKI-1 apparatus for cryogenic coherent X-ray diffraction imaging

Nakasako, M., Takayama, Y., Oroguchi, T., Sekiguchi, Y., Kobayashi, A., Shirahama, K., Yamamoto, M., Hikima, T., Yonekura, K., Maki-Yonekura, S., Kohmura, Y., Inubushi, Y., Takahashi, Y., Suzuki, A., Matsunaga, S., Inui, Y., Tono, K., Kameshima, T., Joti, Y. & Hoshi, T., 2013 Sep 1, In : Review of Scientific Instruments. 84, 9, 093705.

Research output: Contribution to journalArticle

33 Citations (Scopus)
30 Citations (Scopus)
2012

MD-SAXS method with nonspherical boundaries

Oroguchi, T. & Ikeguchi, M., 2012 Jul 10, In : Chemical Physics Letters. 541, p. 117-121 5 p.

Research output: Contribution to journalArticle

8 Citations (Scopus)
2011

Effects of ionic strength on SAXS data for proteins revealed by molecular dynamics simulations

Oroguchi, T. & Ikeguchia, M., 2011 Jan 14, In : Journal of Chemical Physics. 134, 2, 025102.

Research output: Contribution to journalArticle

21 Citations (Scopus)

Fission yeast Swi5-Sfr1 protein complex, an activator of Rad51 recombinase, forms an extremely elongated dogleg-shaped structure

Kokabu, Y., Murayama, Y., Kuwabara, N., Oroguchi, T., Hashimoto, H., Tsutsui, Y., Nozaki, N., Akashi, S., Unzai, S., Shimizu, T., Iwasaki, H., Sato, M. & Ikeguchi, M., 2011 Dec 16, In : Journal of Biological Chemistry. 286, 50, p. 43569-43576 8 p.

Research output: Contribution to journalArticle

18 Citations (Scopus)

Mechanism of the conformational change of the F1-ATPase β subunit revealed by free energy simulations

Ito, Y., Oroguchi, T. & Ikeguchi, M., 2011 Mar 16, In : Journal of the American Chemical Society. 133, 10, p. 3372-3380 9 p.

Research output: Contribution to journalArticle

20 Citations (Scopus)

Towards the structural characterization of intrinsically disordered proteins by saxs and MD simulation

Oroguchi, T., Ikeguchi, M. & Sato, M., 2011 Jan 1, In : Journal of Physics: Conference Series. 272, 1, 012005.

Research output: Contribution to journalArticle

9 Citations (Scopus)
2010

Structural and functional analysis of the intrinsic inhibitor subunit ε of F1-ATPase from photosynthetic organisms

Yagi, H., Konno, H., Murakami-Fuse, T., Isu, A., Oroguchi, T., Akutsu, H., Ikeguchi, M. & Hisabori, T., 2010 Jan 1, In : Biochemical Journal. 425, 1, p. 85-94 10 p.

Research output: Contribution to journalArticle

21 Citations (Scopus)
2009

Intrinsic dynamics of restriction endonuclease EcoO109I studied by molecular dynamics simulations and X-ray scattering data analysis

Oroguchi, T., Hashimoto, H., Shimizu, T., Sato, M. & Ikeguchi, M., 2009, In : Biophysical Journal. 96, 7, p. 2808-2822 15 p.

Research output: Contribution to journalArticle

35 Citations (Scopus)
2007

Unfolding Pathways of Goat α-Lactalbumin as Revealed in Multiple Alignment of Molecular Dynamics Trajectories

Oroguchi, T., Ikeguchi, M., Ota, M., Kuwajima, K. & Kidera, A., 2007 Aug 31, In : Journal of Molecular Biology. 371, 5, p. 1354-1364 11 p.

Research output: Contribution to journalArticle

4 Citations (Scopus)
2006

The Equilibrium Unfolding Intermediate Observed at pH 4 and its Relationship with the Kinetic Folding Intermediates in Green Fluorescent Protein

Enoki, S., Maki, K., Inobe, T., Takahashi, K., Kamagata, K., Oroguchi, T., Nakatani, H., Tomoyori, K. & Kuwajima, K., 2006 Sep 1, In : Journal of Molecular Biology. 361, 5, p. 969-982 14 p.

Research output: Contribution to journalArticle

36 Citations (Scopus)
2005

Atomically detailed description of the unfolding of α-lactalbumin by the combined use of experiments and simulations

Oroguchi, T., Ikeguchi, M., Saeki, K., Kamagata, K., Sawano, Y., Tanokura, M., Kidera, A. & Kuwajima, K., 2005 Nov 18, In : Journal of Molecular Biology. 354, 1, p. 164-172 9 p.

Research output: Contribution to journalArticle

7 Citations (Scopus)